Correlation between macrobenthic structure (biotic) and water-sediment characteristics (abiotic) adjacent aquaculture areas at Tembelas Island, indonesia

NASA Astrophysics Data System (ADS)

Sharani, Jeanny; Hidayat, Jafron W.; Putro, Sapto P.

2018-05-01

Macrobenthic community play important role in sedimentary habitats as a part of food chain. Their structure may be influenced by environmental characteristic spatially and temporally. The purpose of this study is to access the correlation between macrobenthic structure (biotic) and water-sediment characteristics (abiotic) adjacent aquaculture areas at Tembelas Island, Indonesia. Water and sediments samples were taken twice, where the first and second sampling time were taken in June and October 2016, respectively. Samples were taken in the area of fish farming at coastal area of policulture/IMTA (as Location I), site of 1 km away from fish farming area as a reference site (as Location II), and monoculture sites (as Location III), with three stations for each location. Data of abiotic parameters included the composition of sediment substrate and DO, pH, salinity, temperature, and. Sediment samples were taken using Ekman grab. The organisms were 1 mm -size sieved and fixed using 10% formalin for further analysis, i.e. sorting, preserving, enumerating, identifying, and grouping. The relationship between biotics (macrobentos) and abiotics (physical-chemical factors) was assessed using a non-parametric multivariate procedure (BIOENV). This study found 61 species consisting of 46 families and 5 classes of macrobenthos. The most common classes were member of Mollusca and Polychaeta. Total nitrogen, silt, and clay were the abiotic factors most influencing macrobenthic structure (BIO-ENV; r = 0.46; R2 = 21.16%).

Structure and spatial patterns of macrobenthic community in Tai Lake, a large shallow lake, China

USGS Publications Warehouse

Di Li,; Erickson, Richard A.; Song Tang,; Xuwen Li,; Niu, Zhichun; Xia Wang,; Hongling Liu,; Hongxia Yu,

2016-01-01

Tai Lake (Chinese: Taihu), the third-largest freshwater lake in China, suffers from harmful cyanobacteria blooms that are caused by economic development and population growth near the lake. Several studies have focused on phytoplankton in Tai Lake after a drinking water crisis in 2007; however, these studies primarily focused on microcystin bioaccumulation and toxicity to individual species without examining the effects of microcystin on macrobenthic community diversity. In this study, we conducted a survey of the lake to examine the effects of microcystine and other pollutants on marcobenthic community diversity. A totally of forty-nine species of macroinvertebrates were found in Tai Lake. Limnodrilus hoffmeisteri and Corbicula fluminea were the most abundant species. Cluster-analysis and one-way analysis of similarity (ANOSIM) identified three significantly different macrobenthic communities among the sample sites. More specifically, sites in the eastern bays, where aquatic macrophytes were abundant, had the highest diversity of macrobenthic communities, which were dominated by Bellamya aeruginosa, Bellamya purificata, L. hoffmeisteri, and Alocinma longicornis. Sites in Zhushan Bay contained relatively diverse communities, mainly composed of L. hoffmeisteri, C. fluminea, L. claparederanus, R. sinicus, and Cythura sp. Sites in the western region, Meiliang Bay and Wuli Bay had the lowest diversity, mainly composed ofL. hoffmeisteri, C. fluminea, Branchiura sowerbyi, and Rhyacodrilus sinicus. In addition, the relationships between macrobenthic metrics (Shannon–Wiener, Margalef, and Pielou) and environmental variables showed that community structure and spatial patterns of macrobenthos in Tai Lake were significantly influenced by chemical oxygen demand (CODCr), biochemical oxygen demand (BOD5), lead (Pb), and microcystin-LR (L for leucine and R for arginine). Our findings provide critical information that could help managers and policymakers assess and modify ecological restoration practices.

Seasonal variations in the community structures of macrobenthic fauna and their health status in an estuarine bay, Gwangyang Bay in Korea

NASA Astrophysics Data System (ADS)

Seo, Jin-Young; An, Soon-Mo; Lim, Dhong-il; Choi, Jin-Woo

2017-09-01

Macrobenthic fauna in an estuarine Gwangyang Bay, southern Korean coast, were investigated to uncover recent variations in their community structures. In the study area, macrobenthic faunal communities were mainly composed of polychaete worms which were the most abundant faunal group with the highest values in species number and density, while mollusks accounted for the highest proportion in total biomass. There was no clear seasonal difference in species richness during the two year period of the investigation, but the mean density and biomass increased every spring and summer due to the mass recruitment of Theora fragilis. The Shannon's diversity index (H') was more than 2.0 during most sampling seasons and did not show any significant seasonal difference except for the data in August, 2011 when azoic conditions occurred. The community structures of macrobenthos in Gwangyang Bay did not show any remarkable change in the dominance of the two top dominant species, Scoletoma longifolia and Heteromastus filiformis, which abundantly occurred in all seasons, except for the abundance peaks associated with high occurrence of T. fragilis and Paraprionospio cordifolia, especially in spring and summer and in autumn, respectively. These fauna changes reflected the changes in the macrobenthic community health status in Gwangyang Bay, where stable conditions and a healthy status prevailed in winter, but a slightly disturbed status prevailed from spring to autumn.

Functional response of an adapted subtidal macrobenthic community to an oil spill: macrobenthic structure and bioturbation activity over time throughout an 18-month field experiment.

PubMed

Gilbert, Franck; Stora, Georges; Cuny, Philippe

2015-10-01

An experimental oil spill was carried out in order to assess in situ responses of a macrobenthic community of shallow subtidal sediments historically exposed to petroleum contamination. Both structural and functional (bioturbation activity) parameters of the community, subjected or not to a pulse acute contamination (25,000 ppm), were studied for 18 months. No difference in the community structure was detected between contaminated and control sediments, from 6 to 18 months of experimentation. Vertical distributions of organisms, however, were affected by the presence of oil contamination leading to a deeper burial of some polychaete species. In the same time, changes in sediment-reworking activity and more especially a deeper particle burying in sediments subjected to acute oil contamination were shown. These results highlight the need to complete the analysis of community structure by assessing functional aspects, such as bioturbation activity, a process integrating various aspects of benthic behaviour (e.g. feeding, locomotion, burrow building) in order to estimate real (structural and functional) and long-term effects of oil contamination on benthic communities.

Macrobenthic diversity and sediment-water exchanges of oxygen and ammonium: Example of two subtidal communities of the eastern English Channel

NASA Astrophysics Data System (ADS)

Tous Rius, Armonie; Denis, Lionel; Dauvin, Jean-Claude; Spilmont, Nicolas

2018-06-01

In organic-rich shallow habitats, benthic macrofauna is known to play a major role in the geochemical functioning of surficial sediments through its metabolism, as well as its bioirrigation and/or bioturbation activity. In this paper, the effects of benthic macrofauna on metabolic fluxes at the sediment-water interface were studied at four dates, from winter to late summer, on two major macrobenthic communities of the eastern English Channel (macrotidal system): the fine sand Abra alba community (2 stations) and the sandy gravel Ophiothrix fragilis community (1 station). Oxygen and ammonium fluxes showed temporal changes that could be attributed to the variation of sea water temperature. Once the effect of temperature removed (using Q10 = 2.5), the average fauna mediated fluxes (FFauna) represented respectively 77% and 76% of average total fluxes. Considering the whole dataset, species number and biomass showed a significant correlation with fauna mediated fluxes of O2 and NH4+, while the relationships with abundance were not significant. The species composition of the community might influence ecosystem functioning, but in the present study, functional groups have a very poor relationship with FFauna (O2) and FFauna (NH4+). Despite the presence of engineer species, establishing general and simple rules to link macrofaunal parameters to functional attributes remains very difficult, suggesting that communities rather followed the idiosyncrasy and rivet hypothesis.

Linking macrobenthic communities structure and zonation patterns on sandy shores: Mapping tool toward management and conservation perspectives in Northern France

NASA Astrophysics Data System (ADS)

Rolet, Céline; Spilmont, Nicolas; Dewarumez, Jean-Marie; Luczak, Christophe

2015-05-01

In a context of intensifying anthropogenic pressures on sandy shores, the mapping of benthic habitat appears as an essential first step and a fundamental baseline for marine spatial planning, ecosystem-based management and conservation efforts of soft-sediment intertidal areas. Mapping allows representing intertidal habitats that are basically characterised by abiotic (e.g sediments, exposure to waves…) and biotic factors such as macrobenthic communities. Macrobenthic communities are known to show zonation patterns across sandy beaches and many studies highlighted the existence of three biological zones. We tested this general model of a tripartite biological division of the shore at a geographical scale of policy, conservation and management decisions (i.e. Northern France coastline), using multivariate analyses combined with the Direct Field Observation (DFO) method. From the upper to the lower shores, the majority of the beaches exhibited three macrobenthic communities confirming the existence of the tripartite biological division of the shore. Nevertheless, in some cases, two or four zones were found: (1) two zones when the drying zone located on the upper shore was replaced by littoral rock or engineering constructions and (2) four zones on beaches and estuaries where a muddy-sand community occurred from the drift line to the mid shore. The correspondence between this zonation pattern of macrobenthic communities and the EUNIS habitat classification was investigated and the results were mapped to provide a reference state of intertidal soft-sediment beaches and estuaries. Our results showed evidence of the applicability of this EUNIS typology for the beaches and estuaries at a regional scale (Northern France coastline) with a macroecological approach. In order to fulfil the requirements of the European Directives (WFD and MFSD), this mapping appears as a practical tool for any functional study on these coastal ecosystems, for the monitoring of anthropogenic activities and for the implementation of management plans concerning effective conservation strategies.

Functional structure of marine benthic assemblages using Biological Traits Analysis (BTA): A study along the Emilia-Romagna coastline (Italy, North-West Adriatic Sea)

NASA Astrophysics Data System (ADS)

Paganelli, Daniele; Marchini, Agnese; Occhipinti-Ambrogi, Anna

2012-01-01

The functional diversity index has shown that the functional diversity of the macrobenthic community increased along a spatial gradient of distance from the Po river delta (Emilia-Romagna coast, Italy, North-Adriatic Sea), which suggests that riverine inputs have a detrimental effect on community functioning. This study focuses on two different depths along a southward gradient of increasing distance from the Po river delta where the Po river is the main source of freshwater and nutrient inputs in the North-Adriatic Sea. A Biological Traits Analysis (BTA) was used to examine a dataset of 156 soft-bottom macrobenthic species that were collected at eight stations in this area. Instead of comparing communities on the basis of their taxonomic composition, BTA uses a series of life history, morphological and behavioural characteristics of species to indicate aspects of their ecological functioning. The variability of the Emilia-Romagna dataset was governed by relatively few biological traits: growth form, trophic group, type of movement, habit, adult mobility and bioturbation activity. The community closer to the coastline was mainly composed of moderately mobile vermiform organisms with burrowing or tube-dwelling behaviour, and deposit feeding behaviour. However, the offshore community was mainly characterized by organisms with a laterally compressed or globose body and tube-dwelling behaviour; filter feeders and deposit feeders were dominant.

A field experimental study on recolonization and succession of subtidal macrobenthic community in sediment contaminated with industrial wastes.

PubMed

Lu, L; Wu, R S S

2007-02-01

A field experiment was carried out in Hong Kong to study the patterns of recolonization and succession of subtidal macrobenthos in defaunated sediment contaminated with industrial wastes and to determine the time required for benthic recovery in the industrial-contaminated sediment. A total of 50 species was found with an average of 172 animals/tray and 24 species/tray recorded one month after deployment. Initial colonizers were predominantly polychaetes (96 animals/tray, accounting for 55.7%) and gastropods (47 animals/tray, accounting for 27.2%). Abundance of macrobenthos increased quickly to a peak (505 animals/tray) after four months, declined afterwards, and increased again till the end of the experiment. Species number peaked (57 species/tray) in the same month as abundance did, and gradually declined thereafter. Abundance, species number and diversity were significantly lower in the industrial-contaminated sediment as compared to the controls during the early successional stages, indicating the harmful effects of industrial wastes on recolonization and succession of macrobenthos. Although no significant differences in community parameters between the industrial-contaminated and the control sediments were found after eleven months, significant difference in species composition still existed after fourteen months, showing a relatively long-term impact of industrial wastes on macrobenthic community structure.

Biomonitoring on Integrated Multi-Thropic Aquaculture (IMTA) activities using macrobenthic mollusks on Tembelas Island, Kepulauan Riau Province

NASA Astrophysics Data System (ADS)

Abyan Syuja’, M.; Putro, Sapto P.; Muhammad, Fuad

2018-05-01

Macrobenthic mollusks are considered a good aquatic bioindicator for environmental biomonitoring. This study was conducted in Tembelas Island, Karimun District, Kepulauan Riau Province, at 103°29’47’ - 103°29’90’ BT and 0.991°16’63’ - 0.989°06’37’ LS. The objective was to compare the quality of water and sediment at Integrated Multitrophic Aquaculture (IMTA) sites, monocultural sites and reference sites using the community structure of mollusks, and to assess the potential of mollusks as bioindicator. The research was conducted in June and October of 2016. Data of abiotic parameters included the composition of sediment substrate and DO, pH, salinity, temperature and turbidity. The sampling procedure was performed with the use of an Ekman Grab. The animals obtained were 1 mm size-sieved and were fixed using 10% formalin for further analysis. In total there were 49 species and 2 classes obtained (Gastropods and Bivalves). The most prevalent genus were Costoanachis sp (Fam. Collumbellidae) and Anodontia sp (Fam. Lucinidae). The values of outcomes from indices used were considered low, ranging from 1.34 to 2.54 for diversity (H’), from 0.86 to 0.96 for evenness, and from 0.11 to 0.31 for dominance (C). Further analysis consisting of a multivariate approach and graphical methods of cluster analysis and Non- Metric Multidimensional Scaling (NMDS) ordination showed differences between the assemblages in the aquacultural areas and the reference area. However, the tendency of grouping the stations between IMTA and monocultural sites did not occur, implying both sites have relatively similar structures of macrobenthic mollusks. Based on the data obtained, sediment composition at the KJABB IMTA, monocultural areas and the reference area were dominated by silt, with the highest value being 92.06% found in the KJABB IMTA area. Clay, silt and nitrogen levels were the abiotic factors influencing structure of macrobenthic mollusks (BIO-ENV-Primer 6.1.5; r = 0.571).

Oil spill effects on macrofaunal communities and bioturbation of pristine marine sediments (Caleta Valdés, Patagonia, Argentina): experimental evidence of low resistance capacities of benthic systems without history of pollution.

PubMed

Ferrando, Agustina; Gonzalez, Emilia; Franco, Marcos; Commendatore, Marta; Nievas, Marina; Militon, Cécile; Stora, Georges; Gilbert, Franck; Esteves, José Luis; Cuny, Philippe

2015-10-01

The Patagonian coast is characterized by the existence of pristine ecosystems which may be particularly sensitive to oil contamination. In this study, a simulated oil spill at acute and chronic input levels was carried out to assess the effects of contamination on the macrobenthic community structure and the bioturbation activity of sediments sampled in Caleta Valdés creek. Superficial sediments were either noncontaminated or contaminated by Escalante crude oil and incubated in the laboratory for 30 days. Oil contamination induced adverse effects on macrobenthic community at both concentrations with, for the highest concentration, a marked decrease of approximately 40 and 55 % of density and specific richness, respectively. Besides the disappearance of sensitive species, some other species like Oligochaeta sp. 1, Paranebalia sp., and Ostracoda sp. 2 species have a higher resistance to oil contamination. Sediment reworking activity was also affected by oil addition. At the highest level of contamination, nearly no activity was observed due to the high mortality of macroorganisms. The results strongly suggest that an oil spill in this protected marine area with no previous history of contamination would have a deep impact on the non-adapted macrobenthic community.

Effects of non-aqueous fluids cuttings discharge from exploratory drilling activities on the deep-sea macrobenthic communities

NASA Astrophysics Data System (ADS)

Santos, M. F. L.; Lana, P. C.; Silva, J.; Fachel, J. G.; Pulgati, F. H.

2009-01-01

This paper assesses the effects of non-aqueous fluids (NAFs-type III) cuttings discharge from exploratory drilling activities on deep-sea macrobenthic communities in the Campos Basin, off the southeastern Brazilian coast, Rio de Janeiro State. One hundred and fifty nine sediment samples were taken with a 0.25 m 2 box corer at a depth of 902 m on three monitoring cruises: first cruise—before drilling (April 2001), second cruise—after drilling (July 2001), and third cruise—one year after drilling (July 2002). The results indicated no significant changes in values of density, number of families and functional groups related to drilling activities in the reference area (2500 m distance), and biological variations may be result from the natural variability of the fauna. Evidence indicates that drilling activities led to measurable effects on the community structure related to NAF cuttings discharge but were limited to a 500 m radius from the drilling well. Such effects were much more evident at isolated sites in the impact area (WBF and WBF+NAF areas) and are characterized as localized impacts. One year after drilling, a recolonization was observed, with the probable recovery of the macrobenthic community in most of the study area; only at part of the WBF+NAF area (stations 05, 24 and 36) was the community still undergoing recovery.

NA{sup +}, K{sup +}-ATPase, histopathological, and genetic responses of Corbicula fluminea to sediment-associated copper

DOE Office of Scientific and Technical Information (OSTI.GOV)

Brown, S.

1995-12-31

Time-dependent responses to sediment-associated copper were studies at hierarchical levels of biological organization along an extreme concentration gradient (40 to 40,000 mg/kg total Cu). Laboratory and in situ estimates of molecular to tissue-level responses (Na/K-ATPase activity, DNA content, histopathology) were monitored in Corbicula fluminea (Asiatic clam), and compared with laboratory and field based survival of Corbicula and Elimia teres (an indigenous Gastropoda). Mollusc survival was, in turn, compared with effects on macrobenthic community composition along the stream/[Cu] gradient. Relationships between selected sediment characteristics and the bioavailability and toxicity of sediment associated copper were also investigated. Sediment-associated copper depressed Na/K-ATPase activitymore » and led to histopathological damage of renal and gill epithelia (vacuolization, degeneration), indicating that impaired ion regulation was an important mechanism of toxicity. Concurrent reductions in DNA content were believed to be secondary effects due to cell death, not an indication of genotoxicity. Sublethal responses were significantly correlated with survival in both species; however, while survival in situ was indicative of differences in community structure, laboratory-based survival was not. Copper levels in tissues were indicative of exposure, but were not significantly correlated with adverse effects. Copper levels in sediments, interstitial water, and overlying water varied independently of sediment characteristics except pH. Cu/AVS ratios were predictive of Corbicula and Elimia survival, but were not significantly related to differences in community structure. Instead, macrobenthic community structure was influenced by other sediment factors (grain size, Eh, pH).« less

DOE Office of Scientific and Technical Information (OSTI.GOV)

Weber, D.E.; Flemer, D.A.; Bundick, C.M.

The structure of a macrobenthic invertebrate community associated with the seagrass, Thalassia testudinum, was evaluated under laboratory and field conditions. The research focused on: (1) the effects of pollution stress from a representative drilling fluid used in offshore oil and gas operations, and (2) a comparison of responses of the seagrass-invertebrate community in the laboratory and field. The numbers of macrobenthic invertebrates were suppressed by drilling fluid at both exposure periods in the laboratory, but inhibitory effects were absent in the field. Invertebrate densities in the field were similar among control and treated plots, and were much lower than densitiesmore » occurring in the laboratory control. In most instances, species richness values were similar in the field and laboratory at the end of each 6 and 12 week period.« less

Environmental influence on population dynamics of the bivalve Anomalocardia brasiliana

NASA Astrophysics Data System (ADS)

Corte, Guilherme Nascimento; Coleman, Ross A.; Amaral, A. Cecília Z.

2017-03-01

Understanding how species respond to the environment in terms of population attributes (e.g. abundance, growth, mortality, fecundity, and productivity) is essential to protect ecologically and economically important species. Nevertheless, responses of macrobenthic populations to environmental features are overlooked due to the need of consecutive samplings and time-consuming measurements. We examined the population dynamics of the filter-feeding bivalve Anomalocardia brasiliana on a tidal flat over the course of one year to investigate the hypothesis that, as accepted for macrobenthic communities, populations inhabiting environments with low hydrodynamic conditions such as tidal flat should have higher attributes than populations inhabiting more energetic habitats (i.e. areas more influenced by wave energy such as reflective and intermediate beaches). This would be expected because the harsh conditions of more energetic habitats force organisms to divert more energy towards maintenance, resulting in lower population attributes. We found that A. brasiliana showed moderate growth and secondary production at the study area. Moreover the recruitment period was restricted to a few months. A comparison with previous studies showed that, contrary to expected, A. brasiliana populations from areas with low hydrodynamic conditions have lower abundance, growth, recruitment and turnover rate. It is likely that morphodynamic characteristics recorded in these environments, such as larger periods of air exposure and lower water circulation, may affect food conditions for filter-feeding species and increase competition. In addition, these characteristics may negatively affect macrobenthic species by enhancing eutrophication processes and anoxia. Overall, our results suggest that models accepted and applied at the macrobenthic community level might not be directly extended to A. brasiliana populations.

Large Spatial Scale Variability in Bathyal Macrobenthos Abundance, Biomass, α- and β-Diversity along the Mediterranean Continental Margin

PubMed Central

Baldrighi, Elisa; Lavaleye, Marc; Aliani, Stefano; Conversi, Alessandra; Manini, Elena

2014-01-01

The large-scale deep-sea biodiversity distribution of the benthic fauna was explored in the Mediterranean Sea, which can be seen as a miniature model of the oceans of the world. Within the framework of the BIOFUN project (“Biodiversity and Ecosystem Functioning in Contrasting Southern European Deep-sea Environments: from viruses to megafauna”), we investigated the large spatial scale variability (over >1,000 km) of the bathyal macrofauna communities that inhabit the Mediterranean basin, and their relationships with the environmental variables. The macrofauna abundance, biomass, community structure and functional diversity were analysed and the α-diversity and β-diversity were estimated across six selected slope areas at different longitudes and along three main depths. The macrobenthic standing stock and α-diversity were lower in the deep-sea sediments of the eastern Mediterranean basin, compared to the western and central basins. The macrofaunal standing stock and diversity decreased significantly from the upper bathyal to the lower bathyal slope stations. The major changes in the community composition of the higher taxa and in the trophic (functional) structure occurred at different longitudes, rather than at increasing water depth. For the β-diversity, very high dissimilarities emerged at all levels: (i) between basins; (ii) between slopes within the same basin; and (iii) between stations at different depths; this therefore demonstrates the high macrofaunal diversity of the Mediterranean basins at large spatial scales. Overall, the food sources (i.e., quantity and quality) that characterised the west, central and eastern Mediterranean basins, as well as sediment grain size, appear to influence the macrobenthic standing stock and the biodiversity along the different slope areas. PMID:25225909

Large spatial scale variability in bathyal macrobenthos abundance, biomass, α- and β-diversity along the Mediterranean continental margin.

PubMed

Baldrighi, Elisa; Lavaleye, Marc; Aliani, Stefano; Conversi, Alessandra; Manini, Elena

2014-01-01

The large-scale deep-sea biodiversity distribution of the benthic fauna was explored in the Mediterranean Sea, which can be seen as a miniature model of the oceans of the world. Within the framework of the BIOFUN project ("Biodiversity and Ecosystem Functioning in Contrasting Southern European Deep-sea Environments: from viruses to megafauna"), we investigated the large spatial scale variability (over >1,000 km) of the bathyal macrofauna communities that inhabit the Mediterranean basin, and their relationships with the environmental variables. The macrofauna abundance, biomass, community structure and functional diversity were analysed and the α-diversity and β-diversity were estimated across six selected slope areas at different longitudes and along three main depths. The macrobenthic standing stock and α-diversity were lower in the deep-sea sediments of the eastern Mediterranean basin, compared to the western and central basins. The macrofaunal standing stock and diversity decreased significantly from the upper bathyal to the lower bathyal slope stations. The major changes in the community composition of the higher taxa and in the trophic (functional) structure occurred at different longitudes, rather than at increasing water depth. For the β-diversity, very high dissimilarities emerged at all levels: (i) between basins; (ii) between slopes within the same basin; and (iii) between stations at different depths; this therefore demonstrates the high macrofaunal diversity of the Mediterranean basins at large spatial scales. Overall, the food sources (i.e., quantity and quality) that characterised the west, central and eastern Mediterranean basins, as well as sediment grain size, appear to influence the macrobenthic standing stock and the biodiversity along the different slope areas.

Interannual variability of soft-bottom macrobenthic communities of the NW Gulf of Mexico in relationship to the Deepwater Horizon oil spill.

PubMed

Salcedo, Diana L; Soto, Luis A; Estradas-Romero, Alejandro; Botello, Alfonso V

2017-01-30

A 3-year research program was undertaken to assess potential environmental disturbance caused by the Deepwater Horizon oil spill to the soft-bottom macrobenthic communities within Mexican waters of the northwestern Gulf of Mexico. Community properties and temporal/spatial variability were analyzed besides toxicant parameters such as hydrocarbons and trace-metals. Overall infaunal density increased, taxa proportion changed, and small-size opportunistic organisms prevailed throughout the study. Annual abundance-biomass comparison (ABC) curves revealed progressive stress scenarios from moderate to severe. Concentrations of vanadium, nickel, cobalt, PAHs and AHs increased gradually over time. However, low correlations between benthic density and biogeochemical variables were determined. Initially, sedimentary properties were the main drivers of benthic community structure; subsequently, nickel, vanadium and PAHs, indicative of anthropogenic effect, were highlighted. Interannual variability in the macroinfauna was attributed to the synergy of several environmental factors. Undoubtedly, compounds derived from fossil fuels had a significant disturbance role, but their source remains uncertain. Copyright © 2016 Elsevier Ltd. All rights reserved.

Immediate Ecological Impacts of the 2011 Tohoku Earthquake Tsunami on Intertidal Flat Communities

PubMed Central

Urabe, Jotaro; Suzuki, Takao; Nishita, Tatsuki; Makino, Wataru

2013-01-01

Following the Great East Japan Earthquake in 2011, a large tsunami developed and struck the Pacific coast of eastern Japan. To assess the immediate impacts of the tsunami on coastal communities, changes in taxon composition and richness of macrobenthic animals before and after the tsunami were examined at nine intertidal flats in Sendai Bay and the Sanriku Ria coast. The results showed that 30–80% of taxa indigenously inhabiting intertidal flats disappeared after the tsunami. Among animal types, endobenthic and sessile epibenthic animals were more vulnerable to the tsunami than mobile epibenthic animals like shore crabs and snails. For all the intertidal flats examined, animals that were originally dwellers in lower tidal zones and not recorded before the tsunami were also found right after the tsunami, indicating that the tsunami not only took away many benthic taxa from the intertidal flats but also brought in some taxa from elsewhere. However, overall changes in taxon community composition were greater for intertidal flats that experienced larger inundation heights. These results showed that the ecological impacts of the tsunami were proportional to the physical impacts as gauged by wave height and that mobile epibenthic animals were less vulnerable to the tsunami. PMID:23650529

Immediate ecological impacts of the 2011 Tohoku earthquake tsunami on intertidal flat communities.

PubMed

Urabe, Jotaro; Suzuki, Takao; Nishita, Tatsuki; Makino, Wataru

2013-01-01

Following the Great East Japan Earthquake in 2011, a large tsunami developed and struck the Pacific coast of eastern Japan. To assess the immediate impacts of the tsunami on coastal communities, changes in taxon composition and richness of macrobenthic animals before and after the tsunami were examined at nine intertidal flats in Sendai Bay and the Sanriku Ria coast. The results showed that 30-80% of taxa indigenously inhabiting intertidal flats disappeared after the tsunami. Among animal types, endobenthic and sessile epibenthic animals were more vulnerable to the tsunami than mobile epibenthic animals like shore crabs and snails. For all the intertidal flats examined, animals that were originally dwellers in lower tidal zones and not recorded before the tsunami were also found right after the tsunami, indicating that the tsunami not only took away many benthic taxa from the intertidal flats but also brought in some taxa from elsewhere. However, overall changes in taxon community composition were greater for intertidal flats that experienced larger inundation heights. These results showed that the ecological impacts of the tsunami were proportional to the physical impacts as gauged by wave height and that mobile epibenthic animals were less vulnerable to the tsunami.

Taxonomic and functional patterns of macrobenthic communities on a high-Arctic shelf: A case study from the Laptev Sea

NASA Astrophysics Data System (ADS)

Kokarev, V. N.; Vedenin, A. A.; Basin, A. B.; Azovsky, A. I.

2017-11-01

The studies of functional structure of high-Arctic Ecosystems are scarce. We used data on benthic macrofauna from 500-km latitudinal transect in the eastern Laptev Sea, from the Lena delta to the continental shelf break, to describe spatial patterns in species composition, taxonomic and functional structure in relation to environmental factors. Both taxonomy-based approach and Biological Trait analysis yielded similar results and showed general depth-related gradient in benthic diversity and composition. This congruence between taxonomical and functional dimensions of community organization suggests that the same environmental factors (primarily riverine input and regime of sedimentation) have similar effect on both community structure and functioning. BTA also revealed a distinct functional structure of stations situated at the Eastern Lena valley, with dominance of motile, burrowing sub-surface deposit-feeders and absence of sedentary tube-dwelling forms. The overall spatial distribution of benthic assemblages corresponds well to that described there in preceding decades, evidencing the long-term stability of bottom ecosystem. Strong linear relationship between species and traits diversity, however, indicates low functional redundancy, which potentially makes the ecosystem susceptible to a species loss or structural shifts.

Ferrous iron- and ammonium-rich diffuse vents support habitat-specific communities in a shallow hydrothermal field off the Basiluzzo Islet (Aeolian Volcanic Archipelago).

PubMed

Bortoluzzi, G; Romeo, T; La Cono, V; La Spada, G; Smedile, F; Esposito, V; Sabatino, G; Di Bella, M; Canese, S; Scotti, G; Bo, M; Giuliano, L; Jones, D; Golyshin, P N; Yakimov, M M; Andaloro, F

2017-09-01

Ammonium- and Fe(II)-rich fluid flows, known from deep-sea hydrothermal systems, have been extensively studied in the last decades and are considered as sites with high microbial diversity and activity. Their shallow-submarine counterparts, despite their easier accessibility, have so far been under-investigated, and as a consequence, much less is known about microbial communities inhabiting these ecosystems. A field of shallow expulsion of hydrothermal fluids has been discovered at depths of 170-400 meters off the base of the Basiluzzo Islet (Aeolian Volcanic Archipelago, Southern Tyrrhenian Sea). This area consists predominantly of both actively diffusing and inactive 1-3 meters-high structures in the form of vertical pinnacles, steeples and mounds covered by a thick orange to brown crust deposits hosting rich benthic fauna. Integrated morphological, mineralogical, and geochemical analyses revealed that, above all, these crusts are formed by ferrihydrite-type Fe 3+ oxyhydroxides. Two cruises in 2013 allowed us to monitor and sampled this novel ecosystem, certainly interesting in terms of shallow-water iron-rich site. The main objective of this work was to characterize the composition of extant communities of iron microbial mats in relation to the environmental setting and the observed patterns of macrofaunal colonization. We demonstrated that iron-rich deposits contain complex and stratified microbial communities with a high proportion of prokaryotes akin to ammonium- and iron-oxidizing chemoautotrophs, belonging to Thaumarchaeota, Nitrospira, and Zetaproteobacteria. Colonizers of iron-rich mounds, while composed of the common macrobenthic grazers, predators, filter-feeders, and tube-dwellers with no representatives of vent endemic fauna, differed from the surrounding populations. Thus, it is very likely that reduced electron donors (Fe 2+ and NH 4 + ) are important energy sources in supporting primary production in microbial mats, which form a habitat-specific trophic base of the whole Basiluzzo hydrothermal ecosystem, including macrobenthic fauna. © 2017 John Wiley & Sons Ltd.

Drought and flood effects on macrobenthic communities in the estuary of Australia's largest river system

NASA Astrophysics Data System (ADS)

Dittmann, Sabine; Baring, Ryan; Baggalley, Stephanie; Cantin, Agnes; Earl, Jason; Gannon, Ruan; Keuning, Justine; Mayo, Angela; Navong, Nathavong; Nelson, Matt; Noble, Warwick; Ramsdale, Tanith

2015-11-01

Estuaries are prone to drought and flood events, which can vary in frequency and intensity depending on water management and climate change. We investigated effects of two different drought and flow situations, including a four year long drought (referred to as Millennium drought) and a major flood event, on the macrobenthic community in the estuary and coastal lagoon of the Murray Mouth and Coorong, where freshwater inflows are strictly regulated. The analysis is based on ten years of annual monitoring of benthic communities and environmental conditions in sediment and water. The objectives were to identify changes in diversity, abundance, biomass and distribution, as well as community shifts and environmental drivers for the respective responses. The Millennium drought led to decreased taxonomic richness, abundance and biomass of macrobenthos as hypersaline conditions developed and water levels dropped. More taxa were found under very high salinities than predicted from the Remane diagram. When a flood event broke the Millennium drought, recovery took longer than from a shorter drought followed by small flows. A flow index was developed to assess the biological response subject to the duration of the preceding drought and flow volumes. The index showed higher taxonomic richness, abundance and biomass at intermediate and more continuous flow conditions. Abundance increased quickly after flows were restored, but the benthic community was initially composed of small bodied organisms and biomass increased only after several years once larger organisms became more abundant. Individual densities and constancy of distribution dropped during the drought for almost all macrobenthic taxa, but recoveries after the flood were taxon specific. Distinct benthic communities were detected over time before and after the drought and flood events, and spatially, as the benthic community in the hypersaline Coorong was split off with a salinity threshold of 64 identified by LINKTREE analysis. Salinity, low dissolved oxygen saturation and sediment properties accounted for further community splits in the estuarine Murray Mouth. This long term monitoring revealed ecological benefits of intermediate and continuous flow and that resilience of estuarine macrobenthos to drought and flood events was affected by flow history. The index can be applied to other flow regulated estuaries and inform environmental watering targets.

APPLICATION OF COMPUTER AIDED TOMOGRAPHY (CAT) TO THE STUDY OF MARINE BENTIC COMMUNITIES

EPA Science Inventory

Sediment cores were imaged using a Computer-Aided Tomography (CT) scanner at Massachusetts General Hospital, Boston, Massachusetts, United States. Procedures were developed, using the attenuation of X-rays, to differentiate between sediment and the water contained in macrobenthic...

Short-term impact of deep sand extraction and ecosystem-based landscaping on macrozoobenthos and sediment characteristics.

PubMed

de Jong, Maarten F; Baptist, Martin J; Lindeboom, Han J; Hoekstra, Piet

2015-08-15

We studied short-term changes in macrozoobenthos in a 20m deep borrow pit. A boxcorer was used to sample macrobenthic infauna and a bottom sledge was used to sample macrobenthic epifauna. Sediment characteristics were determined from the boxcore samples, bed shear stress and near-bed salinity were estimated with a hydrodynamic model. Two years after the cessation of sand extraction, macrozoobenthic biomass increased fivefold in the deepest areas. Species composition changed significantly and white furrow shell (Abra alba) became abundant. Several sediment characteristics also changed significantly in the deepest parts. Macrozoobenthic species composition and biomass significantly correlated with time after cessation of sand extraction, sediment and hydrographical characteristics. Ecosystem-based landscaped sand bars were found to be effective in influencing sediment characteristics and macrozoobenthic assemblage. Significant changes in epifauna occurred in deepest parts in 2012 which coincided with the highest sedimentation rate. We recommend continuing monitoring to investigate medium and long-term impacts. Copyright © 2015 Elsevier Ltd. All rights reserved.

Tropical Estuarine Macrobenthic Communities Are Structured by Turnover Rather than Nestedness

PubMed Central

Medeiros, Carlinda Raílly; Hepp, Luiz Ubiratan; Patrício, Joana; Molozzi, Joseline

2016-01-01

Turnover (i.e., species substitution) and nestedness (i.e., subsets of species from more diverse locations), the two main mechanisms used to explain the beta diversity of biological communities, have different implications for biodiversity conservation. To better understand how these mechanisms contribute to beta diversity, we tested the following hypotheses: (i) greater dissimilarity in community composition occurs between estuarine zones than other hierarchical level studied; (ii) beta diversity in these communities develops by turnover in estuaries with a lower degree of anthropogenic impact, but by nestedness in estuaries with a greater degree of anthropogenic impact; and (iii) the structuring mechanism is independent of season. We studied two tropical estuaries (dry and wet seasons) that vary in terms of land-use of the drainage basins. Subtidal benthic macroinvertebrates were sampled along the estuarine gradient in each of the two estuaries. The additive partitioning approach to species diversity was used to determine the hierarchical scale with the greatest dissimilarity in community composition. General beta diversity was measured using the Sorensen dissimilarity index, partitioning the turnover and nestedness components. The greatest dissimilarity in the composition of the communities occurred between the zones along the estuarine gradient in both seasons (dry = 58.6%; wet = 46.3%). In the estuary with a lower degree of anthropogenic influence, benthic macroinvertebrate diversity was generated by turnover regardless of the season. In the estuary with a greater degree of anthropogenic impact, beta diversity was structured by turnover during the dry season and a combination of both mechanisms during the wet season. We conclude that turnover is the principal mechanism responsible for beta diversity in benthic macroinvertebrate communities in tropical estuaries. PMID:27584726

Tropical Estuarine Macrobenthic Communities Are Structured by Turnover Rather than Nestedness.

PubMed

Medeiros, Carlinda Raílly; Hepp, Luiz Ubiratan; Patrício, Joana; Molozzi, Joseline

2016-01-01

Turnover (i.e., species substitution) and nestedness (i.e., subsets of species from more diverse locations), the two main mechanisms used to explain the beta diversity of biological communities, have different implications for biodiversity conservation. To better understand how these mechanisms contribute to beta diversity, we tested the following hypotheses: (i) greater dissimilarity in community composition occurs between estuarine zones than other hierarchical level studied; (ii) beta diversity in these communities develops by turnover in estuaries with a lower degree of anthropogenic impact, but by nestedness in estuaries with a greater degree of anthropogenic impact; and (iii) the structuring mechanism is independent of season. We studied two tropical estuaries (dry and wet seasons) that vary in terms of land-use of the drainage basins. Subtidal benthic macroinvertebrates were sampled along the estuarine gradient in each of the two estuaries. The additive partitioning approach to species diversity was used to determine the hierarchical scale with the greatest dissimilarity in community composition. General beta diversity was measured using the Sorensen dissimilarity index, partitioning the turnover and nestedness components. The greatest dissimilarity in the composition of the communities occurred between the zones along the estuarine gradient in both seasons (dry = 58.6%; wet = 46.3%). In the estuary with a lower degree of anthropogenic influence, benthic macroinvertebrate diversity was generated by turnover regardless of the season. In the estuary with a greater degree of anthropogenic impact, beta diversity was structured by turnover during the dry season and a combination of both mechanisms during the wet season. We conclude that turnover is the principal mechanism responsible for beta diversity in benthic macroinvertebrate communities in tropical estuaries.

Differences in composition of shallow-water marine benthic communities associated with two ophiolitic rock substrata

NASA Astrophysics Data System (ADS)

Bavestrello, Giorgio; Bo, Marzia; Betti, Federico; Canessa, Martina; Gaggero, Laura; Rindi, Fabio; Cattaneo-Vietti, Riccardo

2018-01-01

On marine rocky shores, several physical, chemical and biological processes operate to maintain the benthic assemblages' heterogeneity, but among the abiotic factors, the composition and texture of the rocky substrata have been only sporadically considered. However, biomineralogical studies have demonstrated an unsuspected ability of the benthic organisms to interact at different levels with rocky substrata. Therefore, the mineralogy of the substratum can affect the structure of benthic communities. To evaluate this hypothesis, the macrobenthic assemblages developed on two different ophiolitic rocks (serpentinites and metagabbros) in contact at a restricted stretch of the western Ligurian Riviera (western Mediterranean Sea), with identical environmental and climatic conditions, were analysed. Samplings were carried out at four bathymetric levels (+1m, 0m, -1m, and -3m respect to the mean sea level) and the analysis of the data evidenced differences in terms of species distribution and percent coverage. Algal communities growing on metagabbros were poorer in species richness and showed a much simpler structure when compared to the assemblages occurring on the serpentinites. The most widely distributed animal organism, the barnacle Chthamalus stellatus, was dominant on serpentinites, and virtually absent on metagabbros. Our results suggest a complex pattern of interactions between lithology and benthic organisms operating through processes of inhibition/facilitation related to the mineral properties of the substratum.

EFFECTS OF DOWICIDE (TRADE NAME) G-ST ON DEVELOPMENT OF EXPERIMENTAL ESTUARINE MACROBENTHIC COMMUNITIES

EPA Science Inventory

Aquaria containing clean sand received a continuous supply of flowing seawater from Santa Rosa Sound, Florida, mixed with known quantities of Dowicide G-ST(79% sodium pentachlorophenate) for thirteen weeks. The measured concentrations of pentachlorophenol (PCP) in the aquaria wer...

Historical macrobenthic community assemblages in the Avilés Canyon, N Iberian Shelf: Baseline biodiversity information for a marine protected area

NASA Astrophysics Data System (ADS)

Louzao, Maite; Anadón, Nuria; Arrontes, Julio; Álvarez-Claudio, Consuelo; Fuente, Dulce María; Ocharan, Francisco; Anadón, Araceli; Acuña, José Luis

2010-02-01

Deep-sea ecosystems are highly diverse, and European countries seek to protect these environments by identifying conservation targets. One of these is the Avilés Canyon, southern Bay of Biscay, NE Atlantic, Spain. We present the first analysis of historical benthic communities (1987-1988) of this canyon ecosystem, which is a valuable source of biodiversity baseline information. We found 810 taxa divided in five main macrobenthic assemblages, showing a highly diverse benthic community. Bathymetry was the major structuring agent of benthic community, separating shallow (assemblages I and II, 31 to 307 m depth) from deep stations (assemblages III, IV and V, 198 to 1400 m depth). Especially diverse was assemblage IV, located at the easternmost part of the continental slope (378-1100 m depth) where we found reef-forming corals Lophelia pertusa and Madrepora oculata. These and other communities (sea-pens [Order Pennatulacea, Phylum Cnidaria] and burrowing macrofauna) represent key habitats in NE Atlantic continental slopes, which are currently threatened. The present dataset has produced the most comprehensive assessment of diversity in this area to date, focusing on the taxonomic groups which may best reflect the health of the marine ecosystem and supporting previous studies which indicate that the continental slope of the southern Bay of Biscay hosts key benthic habitats.

Influence of near-bottom environmental conditions on the structure of bathyal macrobenthic crustacean assemblages from the Capbreton canyon (Bay of Biscay, NE Atlantic)

NASA Astrophysics Data System (ADS)

Marquiegui, Mikel A.; Sorbe, Jean Claude

1999-07-01

Sled and box-corer samplings were performed at two sites in the Capbreton canyon in order to appreciate the influence of near-bottom environmental conditions on the structure of their macrobenthic communities (crustaceans). Although located at similar depths (ca. 1 000 m), these two sites were characterised by different physicochemical conditions at the sediment-water interface, probably related with the morphology of the submarine valley (reduced environment, oxygen depletion and stagnation of bottom water at site A; normal oceanic conditions on the near-bottom environment of site B). The analysis of the collected fauna revealed a low similarity between the two sites, mainly due to the unusual dominance of three epibenthic species in sled samples from site A: the amphipod Bonnierella abyssorum, the tanaid Apseudes spinosus and the isopod Arcturopsis giardi. Due to their apparent rarity or absence in adjacent non-canyon communities, such epibenthic crustaceans may be considered as `canyon indicator species' able to exhibit abundant populations within the peculiar confinement area of this canyon.

Farming behaviour of reef fishes increases the prevalence of coral disease associated microbes and black band disease

PubMed Central

Casey, Jordan M.; Ainsworth, Tracy D.; Choat, J. Howard; Connolly, Sean R.

2014-01-01

Microbial community structure on coral reefs is strongly influenced by coral–algae interactions; however, the extent to which this influence is mediated by fishes is unknown. By excluding fleshy macroalgae, cultivating palatable filamentous algae and engaging in frequent aggression to protect resources, territorial damselfish (f. Pomacentridae), such as Stegastes, mediate macro-benthic dynamics on coral reefs and may significantly influence microbial communities. To elucidate how Stegastes apicalis and Stegastes nigricans may alter benthic microbial assemblages and coral health, we determined the benthic community composition (epilithic algal matrix and prokaryotes) and coral disease prevalence inside and outside of damselfish territories in the Great Barrier Reef, Australia. 16S rDNA sequencing revealed distinct bacterial communities associated with turf algae and a two to three times greater relative abundance of phylotypes with high sequence similarity to potential coral pathogens inside Stegastes's territories. These potentially pathogenic phylotypes (totalling 30.04% of the community) were found to have high sequence similarity to those amplified from black band disease (BBD) and disease affected corals worldwide. Disease surveys further revealed a significantly higher occurrence of BBD inside S. nigricans's territories. These findings demonstrate the first link between fish behaviour, reservoirs of potential coral disease pathogens and the prevalence of coral disease. PMID:24966320

Surrogate taxa and fossils as reliable proxies of spatial biodiversity patterns in marine benthic communities.

PubMed

Tyler, Carrie L; Kowalewski, Michał

2017-03-15

Rigorous documentation of spatial heterogeneity (β-diversity) in present-day and preindustrial ecosystems is required to assess how marine communities respond to environmental and anthropogenic drivers. However, the overwhelming majority of contemporary and palaeontological assessments have centred on single higher taxa. To evaluate the validity of single taxa as community surrogates and palaeontological proxies, we compared macrobenthic communities and sympatric death assemblages at 52 localities in Onslow Bay (NC, USA). Compositional heterogeneity did not differ significantly across datasets based on live molluscs, live non-molluscs, and all live organisms. Death assemblages were less heterogeneous spatially, likely reflecting homogenization by time-averaging. Nevertheless, live and dead datasets were greater than 80% congruent in pairwise comparisons to the literature estimates of β-diversity in other marine ecosystems, yielded concordant bathymetric gradients, and produced nearly identical ordinations consistently delineating habitats. Congruent estimates from molluscs and non-molluscs suggest that single groups can serve as reliable community proxies. High spatial fidelity of death assemblages supports the emerging paradigm of Conservation Palaeobiology. Integrated analyses of ecological and palaeontological data based on surrogate taxa can quantify anthropogenic changes in marine ecosystems and advance our understanding of spatial and temporal aspects of biodiversity. © 2017 The Author(s).

Erratum to "Taxonomic and functional patterns of macrobenthic communities on a high-Arctic shelf: A case study from the Laptev Sea" [J. Sea Res. 129 (2017) 61-69

NASA Astrophysics Data System (ADS)

Kokarev, V. N.; Vedenin, A. A.; Basin, A. B.; Azovsky, A. I.

2018-01-01

The publisher regrets to inform that the figures and captions in the original article were published in an incorrect order. The correct figures along with their captions in the correct order are as follows (Figs. 1-7):

SITE-SPECIFIC VALIDATION OF A CHRONIC TOXICITY TEST WITH THE AMPHIPOD HYALELLA AZTECA : AN INTEGRATED STUDY OF HEAVY METAL CONTAMINATED SEDIMENTS IN PEAK CREEK, VIRGINIA

EPA Science Inventory

We will measure the correspondence of endpoints from chronic toxicity tests with the amphipod, Hyalella azteca, to a series of in situ macrobenthic community endpoints, starting with those endpoints most similar to those monitored in the laboratory test, then expanding to include...

Use of a Novel Sediment Exposure to Determine the Effects of ...

EPA Pesticide Factsheets

Triclosan (5-chloro-2-(2,4-dichlorophenoxy) phenol) is a relatively new, commonly used antimicrobial compound found in many personal care products. Triclosan is toxic to marine organisms at the ug/l level, can photo-degrade to a dioxin, accumulate in humans, and has been found to be stable in marine sediments for over 30 years. To determine the effects of triclosan on marine benthic communities, we brought intact sediment cores into the laboratory and held them under flowing seawater conditions. A two cm layer of triclosan-spiked sediment was applied to the surface, and after a two-week exposure the meio- and macrofaunal communities were assessed for differences in composition relative to non-spiked core. The High Triclosan treatment (180 mg/kg dry weight) affected both the meio- and macro benthic communities. There were no discernable differences in the Low Triclosan treatment (14 mg/kg dry weight dry). This exposure method is effective for testing benthic community response to sediment contaminants, but improvements should be made as to the amount and method of applying the overlying sediment to prevent smothering of fragile benthic organisms. This paper describes the effects of triclosan on meio- and macro-benthic marine communities. It describes a novel system of whole benthic community exposure that is a promising method to evaluate effects on intact marine benthic communities. Triclosan concentrations greater than 180 mg/kg dry weight had a signif

Is benthic food web structure related to diversity of marine macrobenthic communities?

NASA Astrophysics Data System (ADS)

Sokołowski, A.; Wołowicz, M.; Asmus, H.; Asmus, R.; Carlier, A.; Gasiunaité, Z.; Grémare, A.; Hummel, H.; Lesutiené, J.; Razinkovas, A.; Renaud, P. E.; Richard, P.; Kędra, M.

2012-08-01

Numerical structure and the organisation of food webs within macrozoobenthic communities has been assessed in the European waters (Svalbard, Barents Sea, Baltic Sea, North Sea, Atlantic Ocean and the Mediterranean Sea) to address the interactions between biodiversity and ecosystem functioning. Abundance and classical species diversity indices (S, H', J) of macrofaunal communities were related to principal attributes of food webs (relative trophic level and food chain length, FCL) that were determined from carbon and nitrogen stable isotope values. Structure of marine macrobenthos varies substantially at a geographical scale; total abundance ranges from 63 ind. m-2 to 34,517 ind. m-2, species richness varies from 3 to 166 and the Shannon-Weaver diversity index from 0.26 to 3.26 while Pielou's evenness index is below 0.73. The major source of energy for macrobenthic communities is suspended particulate organic matter, consisting of phytoplankton and detrital particles, sediment particulate organic matter, and microphytobenthos in varying proportions. These food sources support the presence of suspension- and deposit-feeding communities, which dominate numerically on the sea floor. Benthic food webs include usually four to five trophic levels (FCL varies from 3.08 to 4.86). Most species are assigned to the second trophic level (primary consumers), fewer species are grouped in the third trophic level (secondary consumers), and benthic top predators are the least numerous. Most species cluster primarily at the lowest trophic level that is consistent with the typical organization of pyramidal food webs. Food chain length increases with biodiversity, highlighting a positive effect of more complex community structure on food web organisation. In more diverse benthic communities, energy is transferred through more trophic levels while species-poor communities sustain a shorter food chain.

When small changes matter: the role of cross-scale interactions between habitat and ecological connectivity in recovery.

PubMed

Thrush, Simon F; Hewitt, Judi E; Lohrer, Andrew M; Chiaroni, Luca D

2013-01-01

Interaction between the diversity of local communities and the degree of connectivity between them has the potential to influence local recovery rates and thus profoundly affect community dynamics in the face of the cumulative impacts that occur across regions. Although such complex interactions have been modeled, field experiments in natural ecosystems to investigate the importance of interactions between local and regional processes are rare, especially so in coastal marine seafloor habitats subjected to many types of disturbance. We conducted a defaunation experiment at eight subtidal sites, incorporating manipulation of habitat structure, to test the relative importance of local habitat features and colonist supply in influencing macrobenthic community recovery rate. Our sites varied in community composition, habitat characteristics, and hydrodynamic conditions, and we conducted the experiment in two phases, exposing defaunated plots to colonists during periods of either high or low larval colonist supply. In both phases of the experiment, five months after disturbance, we were able to develop models that explained a large proportion of variation in community recovery rate between sites. Our results emphasize that the connectivity to the regional species pool influences recovery rate, and although local habitat effects were important, the strength of these effects was affected by broader-scale site characteristics and connectivity. Empirical evidence that cross-scale interactions are important in disturbance-recovery dynamics emphasizes the complex dynamics underlying seafloor community responses to cumulative disturbance.

Environmental quality in sediments of Cadiz and Algeciras Bays based on a weight of evidence approach (southern Spanish coast).

PubMed

Usero, José Antonio; Rosado, Daniel; Usero, José; Morillo, José

2016-09-15

This research applies an integrated sediment quality assessment method using a weight of evidence approach to Cadiz and Algeciras Bays (southern Spain). The method is composed of several analyses (particle size profile, aqua regia extractable metals, acid labile metals, total organic carbon, toxicity bioassay with Photobacterium phosphoreum and macrobenthic community alteration). The proposed method provides a single result, the environmental degradation index (EDI). EDI defined samples as low degraded (outer areas of both bays) and moderately degraded (Inner Bay of Cadiz Bay, the surroundings of Algeciras port and the northern part of Algeciras Bay). These samples showed the highest concentration of aqua regia extractable metals, which exceeded effects range-low (ERL) for Zn (51-176mg/l), Cu (11-54mg/l), As (4.3-9.5mg/l), Hg (0.17-0.28mg/l), Ni (23-82mg/l), and. Cr (37-134mg/l). They also exceeded some quality criteria for total organic carbon (4.0-6.5%) and toxicity (120-240TU/g) and showed poor results for macrobenthic community. Copyright © 2016 Elsevier Ltd. All rights reserved.

Complex, Dynamic Combination of Physical, Chemical and Nutritional Variables Controls Spatio-Temporal Variation of Sandy Beach Community Structure

PubMed Central

Ortega Cisneros, Kelly; Smit, Albertus J.; Laudien, Jürgen; Schoeman, David S.

2011-01-01

Sandy beach ecological theory states that physical features of the beach control macrobenthic community structure on all but the most dissipative beaches. However, few studies have simultaneously evaluated the relative importance of physical, chemical and biological factors as potential explanatory variables for meso-scale spatio-temporal patterns of intertidal community structure in these systems. Here, we investigate macroinfaunal community structure of a micro-tidal sandy beach that is located on an oligotrophic subtropical coast and is influenced by seasonal estuarine input. We repeatedly sampled biological and environmental variables at a series of beach transects arranged at increasing distances from the estuary mouth. Sampling took place over a period of five months, corresponding with the transition between the dry and wet season. This allowed assessment of biological-physical relationships across chemical and nutritional gradients associated with a range of estuarine inputs. Physical, chemical, and biological response variables, as well as measures of community structure, showed significant spatio-temporal patterns. In general, bivariate relationships between biological and environmental variables were rare and weak. However, multivariate correlation approaches identified a variety of environmental variables (i.e., sampling session, the C∶N ratio of particulate organic matter, dissolved inorganic nutrient concentrations, various size fractions of photopigment concentrations, salinity and, to a lesser extent, beach width and sediment kurtosis) that either alone or combined provided significant explanatory power for spatio-temporal patterns of macroinfaunal community structure. Overall, these results showed that the macrobenthic community on Mtunzini Beach was not structured primarily by physical factors, but instead by a complex and dynamic blend of nutritional, chemical and physical drivers. This emphasises the need to recognise ocean-exposed sandy beaches as functional ecosystems in their own right. PMID:21858213

Complex, dynamic combination of physical, chemical and nutritional variables controls spatio-temporal variation of sandy beach community structure.

PubMed

Ortega Cisneros, Kelly; Smit, Albertus J; Laudien, Jürgen; Schoeman, David S

2011-01-01

Sandy beach ecological theory states that physical features of the beach control macrobenthic community structure on all but the most dissipative beaches. However, few studies have simultaneously evaluated the relative importance of physical, chemical and biological factors as potential explanatory variables for meso-scale spatio-temporal patterns of intertidal community structure in these systems. Here, we investigate macroinfaunal community structure of a micro-tidal sandy beach that is located on an oligotrophic subtropical coast and is influenced by seasonal estuarine input. We repeatedly sampled biological and environmental variables at a series of beach transects arranged at increasing distances from the estuary mouth. Sampling took place over a period of five months, corresponding with the transition between the dry and wet season. This allowed assessment of biological-physical relationships across chemical and nutritional gradients associated with a range of estuarine inputs. Physical, chemical, and biological response variables, as well as measures of community structure, showed significant spatio-temporal patterns. In general, bivariate relationships between biological and environmental variables were rare and weak. However, multivariate correlation approaches identified a variety of environmental variables (i.e., sampling session, the C∶N ratio of particulate organic matter, dissolved inorganic nutrient concentrations, various size fractions of photopigment concentrations, salinity and, to a lesser extent, beach width and sediment kurtosis) that either alone or combined provided significant explanatory power for spatio-temporal patterns of macroinfaunal community structure. Overall, these results showed that the macrobenthic community on Mtunzini Beach was not structured primarily by physical factors, but instead by a complex and dynamic blend of nutritional, chemical and physical drivers. This emphasises the need to recognise ocean-exposed sandy beaches as functional ecosystems in their own right.

Combined use of meio- and macrobenthic indices to assess complex chemical impacts on a stream ecosystem

NASA Astrophysics Data System (ADS)

McKnight, Ursula S.; Sonne, Anne T.; Rasmussen, Jes J.; Traunspurger, Walter; Höss, Sebastian; Bjerg, Poul L.

2016-04-01

Ecosystem dynamics (e.g. temperature, inorganic nutrients) and properties (e.g. resilience, robustness), and ecological functions and services depend on the structure and diversity of biological communities, and the fluxes of energy and materials occurring within and across abiotic and biotic boundaries. The close interchange, i.e. multiple feedback loops, between hydrologic and biologic controls is also becoming increasingly evident. Holistic approaches are thus necessary for a robust understanding of ecosystem functioning and subsequent implementation of effective management practices across multiple spatial scales. Groundwater and surface water resources are under pressure from increasing global exploitation and anthropogenic impacts such as contamination by chemicals, leading to a severe degradation of essential ecological functions. Many of the environmental problems we face today have existed for decades; what has changed is our understanding of the key drivers, processes and impacts. The first reporting by European Member States (MS) on the status of their water bodies found that rivers and transitional waters were often in worse condition than lakes and coastal waters. This is not surprising considering that streams integrate all of the diverse stressors found within a catchment (e.g. contaminated sites; diffuse source pollution; water abstraction). The chemical status of a water body is relatively straightforward to assess, defined partly by environmental quality standards on priority substances and partly by additional regulations imposed by individual MS. However, the biological quality elements used for the classification of ecological status are only loosely defined, leaving MS free to develop their own assessment tools. Although useful for the individual MS, it impedes methodological standardization across different ecoregions, thus contributing to inconsistencies and data gaps across Europe. Moreover, despite the unambiguous importance of benthic habitats for overall ecosystem health, many biological indices tend only to reflect the ecological quality of surface water, rather than of the sedimentary zones where the accumulation of pollutants is often highest. To address this issue, we monitored meiobenthic (i.e. nematodes) and macrobenthic invertebrate communities along a pollution gradient in order to assess the impact of multiple stressors on a groundwater-fed stream, and thus quantify the link between chemical and ecological status. The studied stressors included point source pollutants originating from contaminated groundwater and aquaculture, and diffuse source pollutants originating from conventional agriculture and urban areas. The use of macrofauna is now well-accepted for assessing ecological integrity in aquatic ecosystems, but less is known about the application of meiofaunal community indicators. High abundance and ubiquitous distribution are two potential advantages for including meiofaunal indicators, and notably - for the case of groundwater-surface water interactions - they are particularly suitable for identifying changes in environmental conditions over smaller spatial scales. The results indicate a change in community composition for both meio- and macrobenthic fauna, pointing towards the presence of a local impact resulting from the discharging contaminated groundwater, which extends downstream along a dilution gradient of the groundwater contaminants. Ecological impacts could be linked to xenobiotic compounds coming from groundwater (both chlorinated solvents and pharmaceuticals), as well as the presence of trace metals of diffuse and/or biogenic origin.

Seasonal and spatial changes of macrobenthic community structure and diversity in South Yellow Sea

NASA Astrophysics Data System (ADS)

Li, X.; Xu, Y.

2016-02-01

The seasonal and spatial characteristics of macrobenthic community in South Yellow Sea were studied based on the data from three voyages carried out in spring, summer and autumn, 2012. A total of 218 species were obtained, including 80 species of Polychaeta, 75 of Crustacea, 35 of Mollusca, 15 of Echinodermata and 13 of other groups. Mean abundance varied from 151.4 ind./m2 in spring to 188 ind./m2 in autumn showing an increasing trend with season and mean biomass ranged from 12.1 g/m2 in spring to 33.4 g/m2 in summer. Mean secondary productivity varied from 2.5 g(AFDW)/(m2·a) in spring to 5.7 g(AFDW)/(m2·a) in summer. Two-way ANOVA indicated that biomass were significantly different among seasons and number of species and Shannon-Weiner index had significant differences among stations. But abundance, Pielou's evenness index and average taxonomic distinctness were not significantly different among either seasons or stations. Non-parametric Kruskal-Wallis test showed significant differences of secondary productivity among tations. Two-way crossed ANOSIM indicated overall significant differences of community structure among both seasons and stations. The stations were divided into four groups in spring and five in summer and autumn through the CLUSTER and nMDS analysis. Depth was an important factor influencing distribution of macrobenthos in the South Yellow Sea.

Farming behaviour of reef fishes increases the prevalence of coral disease associated microbes and black band disease.

PubMed

Casey, Jordan M; Ainsworth, Tracy D; Choat, J Howard; Connolly, Sean R

2014-08-07

Microbial community structure on coral reefs is strongly influenced by coral-algae interactions; however, the extent to which this influence is mediated by fishes is unknown. By excluding fleshy macroalgae, cultivating palatable filamentous algae and engaging in frequent aggression to protect resources, territorial damselfish (f. Pomacentridae), such as Stegastes, mediate macro-benthic dynamics on coral reefs and may significantly influence microbial communities. To elucidate how Stegastes apicalis and Stegastes nigricans may alter benthic microbial assemblages and coral health, we determined the benthic community composition (epilithic algal matrix and prokaryotes) and coral disease prevalence inside and outside of damselfish territories in the Great Barrier Reef, Australia. 16S rDNA sequencing revealed distinct bacterial communities associated with turf algae and a two to three times greater relative abundance of phylotypes with high sequence similarity to potential coral pathogens inside Stegastes's territories. These potentially pathogenic phylotypes (totalling 30.04% of the community) were found to have high sequence similarity to those amplified from black band disease (BBD) and disease affected corals worldwide. Disease surveys further revealed a significantly higher occurrence of BBD inside S. nigricans's territories. These findings demonstrate the first link between fish behaviour, reservoirs of potential coral disease pathogens and the prevalence of coral disease. © 2014 The Author(s) Published by the Royal Society. All rights reserved.

Ecological evaluation of an experimental beneficial use scheme for dredged sediment disposal in shallow tidal waters.

PubMed

van der Wal, Daphne; Forster, Rodney M; Rossi, Francesca; Hummel, Herman; Ysebaert, Tom; Roose, Frederik; Herman, Peter M J

2011-01-01

An experiment was performed to test an alternative dredging strategy for the Westerschelde estuary. Clean sand dredged from the navigation channel was disposed seawards of an eroding intertidal flat in order to modify morphology and hydrodynamics, improving the multi-channel system with ecologically productive shallow water habitat. Five years of intensive monitoring revealed that part of the disposed sediment moved slowly towards the flat, increasing the very shallow subtidal and intertidal area, as planned. The sand in the impact zone became gradually finer after disposal, possibly due to reduced current velocities. Nevertheless, no changes in macrobenthic biomass, density, species richness and composition were detected in the subtidal zone, also demonstrating rapid macrobenthic recovery. In the intertidal zone, no ecological effects could be revealed superimposed on trends associated with long-term sediment fining. Thus, despite morphological success and absence of detected negative ecological impacts of the experiment, new beneficial habitat was not created. Copyright © 2010 Elsevier Ltd. All rights reserved.

The relative significance of biological and physical disturbance: an example from intertidal and subtidal sandy bottom communities

NASA Astrophysics Data System (ADS)

Brey, Thomas

1991-10-01

The effects of biological disturbance caused by the lugworm Arenicola marina (L.) on the abundance of the macrobenthic fauna were investigated at three subtidal stations (0·5 m, 12 m and 19 m water depth) in Kiel Bay (western Baltic) and on an intertidal flat in the German Wadden Sea. Different effects of biological disturbance were observed (1) between funnel and cast of the lugworm burrow, (2) among stations, (3) between seasons, and (4) among taxa and groups of different living mode of the macrofauna. The strength of the impact of A. marina on the abundance of a certain macrobenthic species depends on three factors: (1) species behaviour and living mode, (2) A. marina activity, and (3) hydrodynamic conditions. In general, the most distinct effects were observed at the intertidal station during summer, followed by the two deeper subtidal stations. At the very shallow station, only weak effects were detected.

Bioavailability of trace metals in sediments of a recovering freshwater coastal wetland in China's Yellow River Delta, and risk assessment for the macrobenthic community.

PubMed

Yang, Wei; Li, Xiaoxiao; Pei, Jun; Sun, Tao; Shao, Dongdong; Bai, Junhong; Li, Yanxia

2017-12-01

We investigated the speciation of trace metals and their ecological risks to macrobenthic communities in a recovering coastal wetland of China's Yellow River Delta during the freshwater release project. We established 16 sampling sites in three restoration areas and one intertidal reference area, and collected sediments and macrobenthos four times from 2014 to 2015. The instability index for the trace metals showed a moderate risk for Mn and a high risk for Cd. For both Mn and Cd, the carbonate and FeMn-bound fractions appear to contribute mostly to the instability and bioavailability indexes, but for Cd, the exchangeable fraction also have a much higher contribution. The bioavailability index indicated higher bioavailability of trace metals in freshwater restoration areas than that in the intertidal area. The single-factor contamination index indicated that most trace metal concentrations in the macrobenthos were in excess of the national standard. The biota-sediment accumulation factor suggested that the macrobenthos accumulated most As, Cd, and Cu. Redundancy analysis showed clear relationships between the macrobenthos and sediment metal concentrations. Our results will help wetland managers to assess the bioaccumulation risks based on metal speciation, and to improve management of these recovering freshwater wetland ecosystems. Copyright © 2017 Elsevier Ltd. All rights reserved.

Up, Down, and All Around: Scale-Dependent Spatial Variation in Rocky-Shore Communities of Fildes Peninsula, King George Island, Antarctica

PubMed Central

Valdivia, Nelson; Díaz, María J.; Holtheuer, Jorge; Garrido, Ignacio; Huovinen, Pirjo; Gómez, Iván

2014-01-01

Understanding the variation of biodiversity along environmental gradients and multiple spatial scales is relevant for theoretical and management purposes. Hereby, we analysed the spatial variability in diversity and structure of intertidal and subtidal macrobenthic Antarctic communities along vertical environmental stress gradients and across multiple horizontal spatial scales. Since biotic interactions and local topographic features are likely major factors for coastal assemblages, we tested the hypothesis that fine-scale processes influence the effects of the vertical environmental stress gradients on the macrobenthic diversity and structure. We used nested sampling designs in the intertidal and subtidal habitats, including horizontal spatial scales ranging from few centimetres to 1000s of metres along the rocky shore of Fildes Peninsula, King George Island. In both intertidal and subtidal habitats, univariate and multivariate analyses showed a marked vertical zonation in taxon richness and community structure. These patterns depended on the horizontal spatial scale of observation, as all analyses showed a significant interaction between height (or depth) and the finer spatial scale analysed. Variance and pseudo-variance components supported our prediction for taxon richness, community structure, and the abundance of dominant species such as the filamentous green alga Urospora penicilliformis (intertidal), the herbivore Nacella concinna (intertidal), the large kelp-like Himantothallus grandifolius (subtidal), and the red crustose red alga Lithothamnion spp. (subtidal). We suggest that in coastal ecosystems strongly governed by physical factors, fine-scale processes (e.g. biotic interactions and refugia availability) are still relevant for the structuring and maintenance of the local communities. The spatial patterns found in this study serve as a necessary benchmark to understand the dynamics and adaptation of natural assemblages in response to observed and predicted environmental changes in Antarctica. PMID:24956114

Ecosystem Services Transcend Boundaries: Estuaries Provide Resource Subsidies and Influence Functional Diversity in Coastal Benthic Communities

PubMed Central

Savage, Candida; Thrush, Simon F.; Lohrer, Andrew M.; Hewitt, Judi E.

2012-01-01

Background Estuaries are highly productive ecosystems that can export organic matter to coastal seas (the ‘outwelling hypothesis’). However the role of this food resource subsidy on coastal ecosystem functioning has not been examined. Methodology/Principal Findings We investigated the influence of estuarine primary production as a resource subsidy and the influence of estuaries on biodiversity and ecosystem functioning in coastal mollusk-dominated sediment communities. Stable isotope values (δ13C, δ15N) demonstrated that estuarine primary production was exported to the adjacent coast and contributed to secondary production up to 4 km from the estuary mouth. Further, isotope signatures of suspension feeding bivalves on the adjacent coast (Dosinia subrosea) closely mirrored the isotope values of the dominant bivalves inside the estuaries (Austrovenus stutchburyi), indicating utilization of similar organic matter sources. However, the food subsidies varied between estuaries; with estuarine suspended particulate organic matter (SPOM) dominant at Tairua estuary, while seagrass and fringing vegetation detritus was proportionately more important at Whangapoua estuary, with lesser contributions of estuarine SPOM. Distance from the estuary mouth and the size and density of large bivalves (Dosinia spp.) had a significant influence on the composition of biological traits in the coastal macrobenthic communities, signaling the potential influence of these spatial subsidies on ecosystem functioning. Conclusions/Significance Our study demonstrated that the locations where ecosystem services like productivity are generated are not necessarily where the services are utilized. Further, we identified indirect positive effects of the nutrient subsidies on biodiversity (the estuarine subsidies influenced the bivalves, which in turn affected the diversity and functional trait composition of the coastal sediment macrofaunal communities). These findings highlight the importance of integrative ecosystem-based management that maintains the connectivity of estuarine and coastal ecosystems. PMID:22880089

Benthic macrofauna assemblages and biochemical properties of sediments in two Antarctic regions differently affected by climate change

NASA Astrophysics Data System (ADS)

Sañé, E.; Isla, E.; Gerdes, D.; Montiel, A.; Gili, J.-M.

2012-03-01

Lipid, protein and carbohydrate concentrations have been determined in sediment cores from the continental shelf in the South Eastern Weddell Sea (SEWS), where no ice shelves have been present at least for thousands of years, and the continental shelf off the Eastern Antarctic Peninsula (EAP), in the area where two ice shelf collapses occurred in 1995 and 2002. On one hand, SEWS presents an important flux of fresh organic matter to the seabed during summer, whereas on the other hand, the presence of ice shelves in EAP hampered photosynthesis restricting the input of organic matter to advected refractory material. In the present study, biochemical variables and benthic macrofauna abundance, biomass and diversity confirmed differences between the two regions. Lipid concentrations were higher in SEWS than in EAP, whereas carbohydrate concentrations were higher in the latter region. These differences were attributed to the higher concentration of labile and refractory material, respectively. Biomass, abundance and diversity of the macrofauna were higher in SEWS than in EAP, where benthic communities started receiving a fresh organic matter input only after the recent ice shelf collapses. As regards macrofauna composition, both regions presented macrobenthic communities associated to early stages of recolonization.

Comparative study on the fauna composition of intertidal invertebrates between natural and artificial substrata in the northeastern coast of Jeju Island

NASA Astrophysics Data System (ADS)

Cha, Jae-Hoon; Kim, Kwang-Bae; Song, Ji-Na; Kim, In-Soo; Seo, Jeong-Bin; Kwoun, Chul-Hwi

2013-12-01

This study was carried out to learn about differences in the sessile macrobenthic fauna communities between the artificial and natural habitats. There were some differences in terms of species composition and dominant species and community structure between two habitat types. The dominant species include Pollicipes mitella and Granuilittorina exigua in natural rocky intertidal zones; Monodonta labio confusa, Ligia exotica, Tetraclita japonica in the artificial rocky intertidal zones. Among all the species, L. exotica and T. japonica occurred only in the artificial rocky intertidal zone. The results of cluster analysis and nMDS analysis showed a distinct difference in community structure between artificial and natural rocky intertidal zones. The fauna in the natural rocky intertidal zones were similar to each other and the fauna in the artificial rocky intertidal zones were divided depending on the slope of the substratum. In the case of a sloping tetrapod, M. labio confusa and P. mitella were dominant, but at the vertical artificial seawall, Cellana nigrolineata, L. exotica T. japonica were dominant. The analysis of the species presented in natural and artificial rocky intertidal areas showed the exclusive presence of 10 species on natural rocks and 12 species on artificial rocks. The species in the natural rocky intertidal area included mobile gastropods and cnidarians (i.e. rock anemones), and the species in the artificial rocky intertidal area mostly included non-mobile attached animals. The artificial novel structure seems to contribute to increasing the heterogeneity of habitats for marine invertebrate species and an increase the species diversity in rocky coastal areas.

Mutual Dependence Between Sedimentary Organic Carbon and Infaunal Macrobenthos Resolved by Mechanistic Modeling

NASA Astrophysics Data System (ADS)

Zhang, Wenyan; Wirtz, Kai

2017-10-01

The mutual dependence between sedimentary total organic carbon (TOC) and infaunal macrobenthos is here quantified by a mechanistic model. The model describes (i) the vertical distribution of infaunal macrobenthic biomass resulting from a trade-off between nutritional benefit (quantity and quality of TOC) and the costs of burial (respiration) and mortality, and (ii) the variable vertical distribution of TOC being in turn shaped by bioturbation of local macrobenthos. In contrast to conventional approaches, our model emphasizes variations of bioturbation both spatially and temporally depending on local food resources and macrobenthic biomass. Our implementation of the dynamic interaction between TOC and infaunal macrobenthos is able to capture a temporal benthic response to both depositional and erosional environments and provides improved estimates of the material exchange flux at the sediment-water interface. Applications to literature data for the North Sea demonstrate the robustness and accuracy of the model and its potential as an analysis tool for the status of TOC and macrobenthos in marine sediments. Results indicate that the vertical distribution of infaunal biomass is shaped by both the quantity and the quality of OC, while the community structure is determined only by the quality of OC. Bioturbation intensity may differ by 1 order of magnitude over different seasons owing to variations in the OC input, resulting in a significant modulation on the distribution of OC. Our relatively simple implementation may further improve models of early diagenesis and marine food web dynamics by mechanistically connecting the vertical distribution of both TOC and macrobenthic biomass.

Macrobenthic diversity in protected, disturbed, and newly formed intertidal wetlands of a subtropical estuary in China.

PubMed

Lv, Weiwei; Ma, Chang-An; Huang, Youhui; Yang, Yang; Yu, Ji; Zhang, Mingqing; Zhao, Yunlong

2014-12-15

In this study, intertidal macrobenthic diversity in protected, disturbed, and newly formed wetlands of Yangtze estuary was assessed using PRIMER 5.2 based on species diversity and species relatedness. We observed high diversity in nature reserves and low diversity in adjacent disturbed and newly formed wetlands. These diversity data were then integrated with historical data to detect the variation in macrobenthic diversity over the past two decades. The integrated data indicated that the intertidal macrobenthic diversity sharply decreased in heavy reclamation tidal flats whereas markedly increased in non-disturbed nature reserve and newly formed wetland. Benthic health was observed with the departure degree of average taxonomic distinctness (Δ(+)) and variation in taxonomic distinctness (Λ(+)) from the simulated 95% confidence funnel. All the habitats were subjected to different levels of human interference, except Jiuduansha and Beigangbeisha. The degradation of intertidal wetland in Yangtze estuary was mainly attributed to land reclamation, overgrazing, and overfishing. Copyright © 2014 Elsevier Ltd. All rights reserved.

Relationship between structure of macrobenthic assemblages and environmental variables in shallow sublittoral soft bottoms.

PubMed

Veiga, Puri; Redondo, Waldo; Sousa-Pinto, Isabel; Rubal, Marcos

2017-08-01

We establish baseline knowledge of abundance, diversity and multivariate structure of macrobenthos from shallow sublitoral soft bottoms in the North Portuguese coast and elucidate main environmental factors that shape their spatial patterns. In this area distribution of soft bottoms is patchy, surrounded by boulders and rocky substrates. This particular landscape and the lack of significant anthropogenic disturbances are values for the conservation of this habitat. Sediment and physicochemical properties of the water column were studied to provide models for each studied macrobenthic variable. Our models highlighted that most of variation (59%-72%) in macrobenthic spatial patterns was explained by the studied environmental variables. Sedimentary variables were more relevant that those of the water column. Therefore, disturbances affecting sedimentary environment could cause dramatic changes in macrobenthic assemblages because of the limited availability of soft bottoms in the area. In this way, results are useful to adopt right management and conservation strategies. Copyright © 2017 Elsevier Ltd. All rights reserved.

Resource utilization and trophic niche width in sandy beach macrobenthos from an oligotrophic coast

NASA Astrophysics Data System (ADS)

Ortega-Cisneros, Kelly; de Lecea, Ander M.; Smit, Albertus J.; Schoeman, David S.

2017-01-01

One of the paradigms underlying sandy beach ecology is the overriding control by physical processes; thus, biological interactions (i.e. food availability, competition and predation) are believed to play a role structuring macrofaunal communities only in benign habitats such as dissipative beaches. Moreover, sandy beaches are characterized by low in-situ productivity, so their food webs rely heavily on marine inputs. Studies have shown that estuarine organic matter plays a key role in influencing the dynamics of marine ecosystems. However, very few studies have tested the role of estuarine input on sandy beaches. Here, we aim to determine the impact of estuarine input on the food web of a sandy beach macrobenthic community. To this end, particulate organic matter (POM) samples from the marine environment and the estuary, as well as macrobenthic samples from the beach, were analysed for their stable isotope (SI) signature. Our results indicated that the POM SI signatures were not different along the beach, but differences were recorded between marine and estuarine sources. Bayesian mixing models indicated that the organisms did not make use of the estuarine POM at the beginning of the wet season, but relied more heavily on this resource towards the end of the wet season. This leads to the conclusion that changes in estuarine flow throughout the wet season can impact the trophic structure of macrobenthos communities, confirming a link between lotic and marine communities. Moreover, SI signatures suggest that the species collected here exhibit overlapping trophic niches, indicating high level of inter-specific competition. This highlights that species in low-productivity areas, such as the one studied here, can experience high levels of competition even in physically controlled environments such as sandy beaches.

Coastal Upwelling Drives Intertidal Assemblage Structure and Trophic Ecology.

PubMed

Reddin, Carl J; Docmac, Felipe; O'Connor, Nessa E; Bothwell, John H; Harrod, Chris

2015-01-01

Similar environmental driving forces can produce similarity among geographically distant ecosystems. Coastal oceanic upwelling, for example, has been associated with elevated biomass and abundance patterns of certain functional groups, e.g., corticated macroalgae. In the upwelling system of Northern Chile, we examined measures of intertidal macrobenthic composition, structure and trophic ecology across eighteen shores varying in their proximity to two coastal upwelling centres, in a hierarchical sampling design (spatial scales of >1 and >10 km). The influence of coastal upwelling on intertidal communities was confirmed by the stable isotope values (δ13C and δ15N) of consumers, including a dominant suspension feeder, grazers, and their putative resources of POM, epilithic biofilm, and macroalgae. We highlight the utility of muscle δ15N from the suspension feeding mussel, Perumytilus purpuratus, as a proxy for upwelling, supported by satellite data and previous studies. Where possible, we used corrections for broader-scale trends, spatial autocorrelation, ontogenetic dietary shifts and spatial baseline isotopic variation prior to analysis. Our results showed macroalgal assemblage composition, and benthic consumer assemblage structure, varied significantly with the intertidal influence of coastal upwelling, especially contrasting bays and coastal headlands. Coastal topography also separated differences in consumer resource use. This suggested that coastal upwelling, itself driven by coastline topography, influences intertidal communities by advecting nearshore phytoplankton populations offshore and cooling coastal water temperatures. We recommend the isotopic values of benthic organisms, specifically long-lived suspension feeders, as in situ alternatives to offshore measurements of upwelling influence.

Coastal Upwelling Drives Intertidal Assemblage Structure and Trophic Ecology

PubMed Central

Reddin, Carl J.; Docmac, Felipe; O’Connor, Nessa E.; Bothwell, John H.; Harrod, Chris

2015-01-01

Similar environmental driving forces can produce similarity among geographically distant ecosystems. Coastal oceanic upwelling, for example, has been associated with elevated biomass and abundance patterns of certain functional groups, e.g., corticated macroalgae. In the upwelling system of Northern Chile, we examined measures of intertidal macrobenthic composition, structure and trophic ecology across eighteen shores varying in their proximity to two coastal upwelling centres, in a hierarchical sampling design (spatial scales of >1 and >10 km). The influence of coastal upwelling on intertidal communities was confirmed by the stable isotope values (δ13C and δ15N) of consumers, including a dominant suspension feeder, grazers, and their putative resources of POM, epilithic biofilm, and macroalgae. We highlight the utility of muscle δ15N from the suspension feeding mussel, Perumytilus purpuratus, as a proxy for upwelling, supported by satellite data and previous studies. Where possible, we used corrections for broader-scale trends, spatial autocorrelation, ontogenetic dietary shifts and spatial baseline isotopic variation prior to analysis. Our results showed macroalgal assemblage composition, and benthic consumer assemblage structure, varied significantly with the intertidal influence of coastal upwelling, especially contrasting bays and coastal headlands. Coastal topography also separated differences in consumer resource use. This suggested that coastal upwelling, itself driven by coastline topography, influences intertidal communities by advecting nearshore phytoplankton populations offshore and cooling coastal water temperatures. We recommend the isotopic values of benthic organisms, specifically long-lived suspension feeders, as in situ alternatives to offshore measurements of upwelling influence. PMID:26214806

Estuarine Habitat Assessment for Construction of a Submarine Transmission Line

NASA Astrophysics Data System (ADS)

Hamouda, Amr Z.; Abdel-Salam, Khaled M.

2010-07-01

The present paper describes a submarine survey using the acoustic discrimination system QTC VIEW (Series V) as an exploratory tool to adjust final route alignment of a new pipeline. By using acoustic sound survey as an exploratory tool described in this paper to adjust final route alignment of a new pipeline to minimize the environmental impact caused and ultimately to avoid any mitigation measures. The transmission pipeline extended from the shore line of Abu-Qir Bay, on the Mediterranean Sea in Egypt, out to 70 nautical miles at sea (60 m water depth). Four main surface sediment types were defined in the study area, namely fine sand, silty sand, silt and clay. Results of the acoustic classification revealed four acoustic classes. The first acoustic class corresponded to fine sand, absence of shell debris and very poor habitats characteristics. The second acoustic class is predominant in the study area and corresponds to the region occupied by silt. It is also characterized by intermediate diversity of macrobenthic invertebrate community which is mainly characterized by polychaeta. The third acoustic class is characterized by silt to silty clay. It is characterized by a high diversity of macrobenthic invertebrate community which is mainly polychaeta with an intermediate diversity of gastropoda and bivalvia. The final acoustic class is characterized by clay and high occurrence of shell debris of gastropoda, bivalvia and polychaeta.

Influence of environmental properties on macrobenthos in the northwest Indian shelf.

PubMed

Jayaraj, K A; Jayalakshmi, K V; Saraladevi, K

2007-04-01

The paper deals with the standing stock of macrobenthic infauna and associated environmental factors influencing the benthic community in the shelf region of the northwest Indian coast. The data were collected onboard FORV Sagar Sampada during the winter monsoon (January-February, 2003) to understand the community structure and the factors influencing the benthic distribution. The environmental parameters, sediment characteristics and macrobenthic infauna were collected at 26 stations distributed in the depths between 30 and 200 m extending from Mormugao to Porbander. Total benthic abundance was high in lower depths (50-75 m), and low values noticed at 30 m depth contour was peculiar. Polychaetes were the dominant group and were more abundant in shallow and middle depths with moderate organic matter, clay and relatively high dissolved oxygen. On the other hand crustaceans and molluscs were more abundant in deeper areas having sandy sediment and low temperature. High richness and diversity of whole benthic groups observed in deeper depths counter balanced the opposite trend shown by polychaete species. Generally benthos preferred medium grain sized texture with low organic matter and high organic matter had an adverse effect especially on filter feeders. Deposit feeding polychaetes dominated in shallow depths while carnivore species in the middle depths. Ecologically, benthos were controlled by a combination of factors such as temperature, salinity, dissolved oxygen, sand and organic matter and no single factor could be considered as an ecological master factor.

Ecological Effects of Rubble Weir Jetty Construction at Murrells Inlet, South Carolina. Volume 2. Changes in Macrobenthic Communities of Sandy Beach and Nearshore ENvironments.

DTIC Science & Technology

1984-06-01

species were not commonly observed, and oligochaetes and nematodes were abundant in the area. Rany of these differences were attributed to normal...1977-78 (Table 3). Subtidally, amphipods and pelecypods were most abundant in 1982, while oligochaetes and nematodes largely dominated the intertidal...generally restricted to that level and the highest intertidal level (Table 10). Nematodes were also abundant in the upper intertidal zone, with greatest

Changes in the location of biodiversity-ecosystem function hot spots across the seafloor landscape with increasing sediment nutrient loading.

PubMed

Thrush, Simon F; Hewitt, Judi E; Kraan, Casper; Lohrer, A M; Pilditch, Conrad A; Douglas, Emily

2017-04-12

Declining biodiversity and loss of ecosystem function threatens the ability of habitats to contribute ecosystem services. However, the form of the relationship between biodiversity and ecosystem function (BEF) and how relationships change with environmental change is poorly understood. This limits our ability to predict the consequences of biodiversity loss on ecosystem function, particularly in real-world marine ecosystems that are species rich, and where multiple ecosystem functions are represented by multiple indicators. We investigated spatial variation in BEF relationships across a 300 000 m 2 intertidal sandflat by nesting experimental manipulations of sediment pore water nitrogen concentration into sites with contrasting macrobenthic community composition. Our results highlight the significance of many different elements of biodiversity associated with environmental characteristics, community structure, functional diversity, ecological traits or particular species (ecosystem engineers) to important functions of coastal marine sediments (benthic oxygen consumption, ammonium pore water concentrations and flux across the sediment-water interface). Using the BEF relationships developed from our experiment, we demonstrate patchiness across a landscape in functional performance and the potential for changes in the location of functional hot and cold spots with increasing nutrient loading that have important implications for mapping and predicating change in functionality and the concomitant delivery of ecosystem services. © 2017 The Author(s).

Using Sediment Profile Imagery (SPI) to Quantify ...

EPA Pesticide Factsheets

We present the results of monthly sediment and water quality surveys to evaluate the impact of intermittent, seasonal hypoxia on benthic habitat condition. This study was conducted in the Pensacola Bay (Florida) estuary across nine sites extending from the mouth of the Escambia River down-estuary to the outlet into the Gulf of Mexico. The sites span the full salinity gradient and cover a range of sediment types and dissolved oxygen statuses. Monthly sediment profile imagery (SPI) was captured from each site in conjunction with water column conductivity-temperature-depth (CTD) profiles and sediment grabs to evaluate sediment characteristics and macrobenthic community composition. The results of this study will be used to evaluate the use of SPI to determine effects of water quality on the health of benthic communities in Gulf Coast estuaries. Whereas recent water quality management efforts in Florida (e.g., numeric nutrient criteria, marine dissolved oxygen standard) assumed linkages between dissolved oxygen and aquatic life use attainment based on laboratory tests, SPI methods can potentially provide an assessment of these relationships in realistic field settings. The work presented here is in support of better indicators and endpoints and will help improve quantitative relationships between nutrient pollution and ecosystem condition. The audience that would be interested in this presentation includes scientists and managers from across the southeastern U

Macrobenthic community structure in the northern Saudi waters of the Gulf, 14 years after the 1991 oil spill.

PubMed

Joydas, T V; Qurban, Mohammad A; Al-Suwailem, Abdulaziz; Krishnakumar, P K; Nazeer, Zahid; Cali, N A

2012-02-01

The 1991 Gulf oil spill heavily impacted the coastal areas of the Saudi waters of the Arabian Gulf and recent studies have indicated that even 15 years after the incident, macrobenthos had not completely recovered in the sheltered bays in the affected region such as, Manifa Bay. This study investigates the community conditions of macrobenthos in the open waters in one of the impacted areas, Al-Khafji waters, about 14 years after the spill. Diversity measures and community structure analyses indicate a healthy status of polychaete communities. The BOPA index reveals that oil sensitive amphipods were recolonized in the study area. This confirms that the benthic communities of the oil spill impacted area had taken only <14 years to recover in the open waters of the impacted areas. The study also reveals the existence of three distinct polychaete communities along the depth and sediment gradients. Copyright © 2011 Elsevier Ltd. All rights reserved.

Macrobenthos and megabenthos responses to long-term, large-scale hypoxia on the Louisiana continental shelf.

PubMed

Briggs, Kevin B; Craig, J Kevin; Shivarudrappa, S; Richards, T M

2017-02-01

The macrobenthos and megabenthos responses to long-term, recurring hypoxia on the Louisiana continental shelf were compared at four locations with different historical (2000-2010) episodes of annual exposure to bottom-water hypoxia. Measurements of abundance, biomass, species diversity, and community composition of the two size classes of benthos suggested that the macrobenthic response is driven chiefly by tolerance to hypoxia, whereas the megabenthic response was affected by the ability to migrate and the availability/unavailability of macrobenthos prey at the sediment surface. The site exposed to the historically lowest average bottom-water dissolved oxygen (BWDO) concentration exhibited the lowest species diversity for macrobenthos and the highest species diversity for megabenthos, exemplifying the differential effects of hypoxia on different size classes. The high diversity and smaller average size of the megabenthos at the lowest DO site was due to high abundance of invertebrates and a preponderance of small, less vagile fishes that appeared to remain in the area after larger dominant sciaenids had presumably emigrated. The average size and the depth of habitation in the sediment of macrobenthos prey may have also influenced the abundance and biomass of megabenthos foragers. Published by Elsevier Ltd.

Trophic linkage of a temperate intertidal macrobenthic food web under opportunistic macroalgal blooms: A stable isotope approach.

PubMed

Park, Hyun Je; Han, Eunah; Lee, Young-Jae; Kang, Chang-Keun

2016-10-15

The effects of blooms of opportunistic green macroalgae, Ulva prolifera, on the trophic structure of the macrobenthic food web in a temperate intertidal zone on the western coast of Korea were evaluated using carbon and nitrogen stable isotopes. Biomasses of Ulva and microphytobenthos (MPB) increased significantly at the macroalgae-bloom and the non-bloom sites, respectively, from March to September 2011. The δ(13)C values of most the consumers were arrayed between those of MPB and Ulva at both sites, and differed according to feeding strategies at the macroalgae-bloom site. Seasonally increasing magnitudes in δ(13)C and δ(15)N values of consumers were much steeper at the macroalgae-bloom site than at the non-bloom site. Our findings provide evidence that blooming green macroalgae play a significant role as a basal resource supporting the intertidal macrobenthic food web and their significance varies with feeding strategies of consumers as well as the resource availability. Copyright © 2016 Elsevier Ltd. All rights reserved.

Spatial variability of macrobenthic zonation on exposed sandy beaches

NASA Astrophysics Data System (ADS)

Veiga, Puri; Rubal, Marcos; Cacabelos, Eva; Maldonado, Cristina; Sousa-Pinto, Isabel

2014-07-01

We analysed the consistence of vertical patterns of distribution (i.e. zonation) for macrofauna at different spatial scales on four intermediate exposed beaches in the North of Portugal. We tested the hypothesis that biological zonation on exposed sandy beaches would vary at the studied spatial scales. For this aim, abundance, diversity and structure of macrobenthic assemblages were examined at the scales of transect and beach. Moreover, the main environmental factors that could potentially drive zonation patterns were investigated. Univariate and multivariate analyses revealed that the number of biological zones ranged from two to three depending on the beach and from indistinct zonation to three zones at the scale of transect. Therefore, results support our working hypothesis because zonation patterns were not consistent at the studied spatial scales. The median particle size, sorting coefficient and water content were significantly correlated with zonation patterns of macrobenthic assemblages. However, a high degree of correlation was not reached when the total structure of the assemblage was considered.

Effects of reclamation on macrobenthic assemblages in the coastline of the Arabian Gulf: a microcosm experimental approach.

PubMed

Naser, Humood A

2011-03-01

Coastal reclamation and modifications are extensively carried out in Bahrain, which may physically smother the coastal and subtidal habitats resulting in changes to abundance and distribution of macrobenthic assemblages. A microcosm laboratory experiment using three common macrobenthic invertebrates from a proposed reclaimed coastal area was preformed to examine their responses to mud burial using marine sediment collected from a designated borrow area. Significant difference in numbers of survived organisms between control and experimental treatments with a survival percentage of 41.8% for all of the selected species was observed. The polychaete Perinereis nuntia showed the highest percentage of survival (57.1%) followed by the bivalve Tellinavaltonis (42.3%) and the gastropod Cerithidea cingulata (24.0%). Quantifying species responses to sediment burial resulted from dredging and reclamation will aid in predicting the expected ecological impacts associated with coastal developments and subsequently minimizing these impacts and maintaining a sustainable use of coastal and marine ecosystems in the Arabian Gulf. Copyright © 2010 Elsevier Ltd. All rights reserved.

Functional trait responses to sediment deposition reduce macrofauna-mediated ecosystem functioning in an estuarine mudflat

NASA Astrophysics Data System (ADS)

Mestdagh, Sebastiaan; Bagaço, Leila; Braeckman, Ulrike; Ysebaert, Tom; De Smet, Bart; Moens, Tom; Van Colen, Carl

2018-05-01

Human activities, among which dredging and land use change in river basins, are altering estuarine ecosystems. These activities may result in changes in sedimentary processes, affecting biodiversity of sediment macrofauna. As macrofauna controls sediment chemistry and fluxes of energy and matter between water column and sediment, changes in the structure of macrobenthic communities could affect the functioning of an entire ecosystem. We assessed the impact of sediment deposition on intertidal macrobenthic communities and on rates of an important ecosystem function, i.e. sediment community oxygen consumption (SCOC). An experiment was performed with undisturbed sediment samples from the Scheldt river estuary (SW Netherlands). The samples were subjected to four sedimentation regimes: one control and three with a deposited sediment layer of 1, 2 or 5 cm. Oxygen consumption was measured during incubation at ambient temperature. Luminophores applied at the surface, and a seawater-bromide mixture, served as tracers for bioturbation and bio-irrigation, respectively. After incubation, the macrofauna was extracted, identified, and counted and then classified into functional groups based on motility and sediment reworking capacity. Total macrofaunal densities dropped already under the thinnest deposits. The most affected fauna were surficial and low-motility animals, occurring at high densities in the control. Their mortality resulted in a drop in SCOC, which decreased steadily with increasing deposit thickness, while bio-irrigation and bioturbation activity showed increases in the lower sediment deposition regimes but decreases in the more extreme treatments. The initial increased activity likely counteracted the effects of the drop in low-motility, surficial fauna densities, resulting in a steady rather than sudden fall in oxygen consumption. We conclude that the functional identity in terms of motility and sediment reworking can be crucial in our understanding of the regulation of ecosystem functioning and the impact of habitat alterations such as sediment deposition.

Status of macrobenthic community of Manifa-Tanajib Bay System of Saudi Arabia based on a once-off sampling event.

PubMed

Joydas, T V; Krishnakumar, P K; Qurban, Mohammad A; Ali, Said M; Al-Suwailem, Abdulaziz; Al-Abdulkader, Khaled

2011-06-01

Shallow water bays located in the western Arabian Gulf experience harsh environmental conditions. Some of these bays, including Manifa-Tanajib Bay System (MTBS), were also exposed to the 1991 oil pollution event. This study investigates the status of the macrobenthos in MTBS during 2006. This bay system is characterized by very shallow inner bays with elevated salinity and temperature compared to the rest of the bay area. As a result mainly of the hyper salinity, the inner bay communities are distinct from the outer bay communities. Overall, fairly high species richness with several rare species was observed. High Shannon-Wiener diversity values and ABC plots indicated the healthy status of the polychaete communities, while BOPA index indicated slightly polluted status in 20% of the stations. The oil sensitive amphipods were not completely re-colonized in 20% of the stations, even after 15 years of recovery from the 1991 oil spill. Copyright © 2011 Elsevier Ltd. All rights reserved.

Macroinvertebrate palaeo-communities from the Jurassic succession of Gebel Maghara (Sinai, Egypt)

NASA Astrophysics Data System (ADS)

Abdelhady, Ahmed Awad; Fürsich, Franz Theodor

2014-09-01

Macrobenthic palaeo-communities of the Middle and Upper Jurassic strata of G. Maghara, Egypt, were investigated to identify relationships with environmental parameters and to trace the temporal changes of the ecosystem associated with sea-level fluctuations. The quantitative analysis of a data matrix comprising 198 macrobenthic taxa in 138 samples collected from four sections identified nine associations and three assemblages, interpreted to be representative of their original environment. Non-Metric Multidimensional Scaling (NMDS) delineated the same degree of habitat partitioning as hierarchical clusters with very little overlap. Detrended Correspondence Analysis (DCA) identified water depth as the primary environmental gradient controlling the distribution of the fauna, while Axis 2 reflects substrate consistency. Community structure is related to the various ramp environments. Based on diversities, the associations and assemblages have been divided into two major groups, low-stress polyspecific associations and high-stress paucispecific associations. The low-stress polyspecific associations were interpreted to represent two different habitats, a high-energy, firm substrate habitat, in which epifaunal bivalves and brachiopods in addition to solitary corals dominated during advanced stages of transgression, and a low-energy, soft substrate habitat dominated by infaunal bivalves during the maximum flooding. The high-stress paucispecific associations are dominated by one or few taxa and occurred (1) in an oligotrophic setting that developed during episodes of sediment starvation in restricted inner ramp environments or during early transgression, (2) in a setting characterized by high sedimentation rates which developed during advanced regression, (3) in a distal prodelta setting with soft substrate and dysoxia during sea-level lowstand, and (4) in a high-energy shoal environment during peak regression. A combined stress involving a shortage in food supply, episodic dysoxia, in addition to a soupy substrate may have developed during maximum flooding episodes. Hydrodynamic conditions were most likely the main factor controlling the benthic communities. Hydrodynamic conditions influenced the substrate type, redistributed nutrients and were responsible for stratified water masses and hypoxia. Animal-sediment relationships in addition to replacement between bivalves and brachiopods are also discussed. Middle ramp settings were found to provide the best conditions for macrobenthos.

The use of time-series data in the assessment of macrobenthic community change after the cessation of sewage-sludge disposal in Liverpool Bay (UK).

PubMed

Whomersley, P; Schratzberger, M; Huxham, M; Bates, H; Rees, H

2007-01-01

Sewage sludge was disposed of in Liverpool Bay for over 100 years. Annual amounts increased from 0.5 million tonnes per annum in 1900 to approximately 2 million tonnes per annum by 1995. Macrofauna and a suite of environmental variables were collected at a station adjacent to, and a reference station distant from, the disposal site over 13 years, spanning a pre- (1990-1998) and post- (1999-2003) cessation period. Univariate and multivariate analyses of the time-series data showed significant community differences between reference and disposal site stations and multivariate analyses revealed station-specific community development post-disposal. Temporal variability of communities collected at the disposal station post-cessation was higher than during years of disposal, when temporally stable dominance patterns of disturbance-tolerant species had established. Alterations of community structure post-disturbance reflected successional changes possibly driven by facilitation. Subtle faunistic changes at the Liverpool Bay disposal site indicate that the near-field effects of the disposal of sewage sludge were small and therefore could be considered environmentally acceptable.

River restoration and biocoenoses improvement in two streams renaturated using bioengeneering.

NASA Astrophysics Data System (ADS)

Leoni, B.; Forasacco, E.; Dobner, R.; Cotta Ramusino, M.

2003-04-01

The Bioengineering is a constructive discipline having its own technical, ecological and environmental friendly scopes, by using living materials. The aim of this study is to assess the river restoration efficiency of Bioengineering. The basic goals of many management-concepts are the integrity of the river habitat, self-regulation and self-regeneration, the preservation of intact resources, to recreate the uniqueness, diversity and beauty of natural river landscape. From an ecological point of view the richness, diversity and age composition of the populations developing after restoration as a result of habitat improvement reveal the degree to which comprehensive concepts were applied (Jungwirth et al., 1995). The following results summarised an investigation on streams Boesio and Rancina in Valcuvia, (Varese, Northern Italy). These streams are characterised by human impacts like water pollution, river engineering and river bioengineering (palificata doppia viva). The samples of macrobenthic fauna were collected between August 2000 and July 2001 in 4 stations for each stream, where the 3rd station of Boesio and Rancina streams is characterised by bioengeneering measure, using a Surber sampler (0.125 m2, mesh size 0.45 mm). The zoobenthic communities of these pre-alpine streams are characterised by low richness and diversity and few families and genera were predominant. In Rancina stream, Ephemeroptera (genus Baetis), Trichoptera (families Hydropsychidae, Limnephilidae and Rhyacophilidae) and Diptera (families Chironomidae and Simuliidae) are present throughout the year with significant densities. The faunal composition of Boesio stream is similar. It differs, only, from stream Rancina to costant presence of Plecoptera with genus Leuctra. To evaluate the restoration of environmental quality two indices were applied: Indice Biotico Esteso (I.B.E.- Ghetti, 1995); Indice di Funzionalità Fluviale (I.F.F.- Siligardi, 2000). The E.B.I. scores of Boesio stream indicate that stations 1 and 2 are in good condition (Ecological status classification: II): therefore the level of diversity and abundance of macrobenthic taxa is slightly outside the range associated with the normal conditions and the most of the sensitive taxa of the type specific communities are present. The stations 3 and 4 are in moderate condition (Ecological status classification: III): the level of diversity and abundance of invertebrate taxa is moderately outside the normal condition range, the taxa indicative of pollution are present and many of the sensitive taxa of the type specific communities are absent. In the Rancina stream in all of the 4 stations the ecological status is indicated like moderate (Ecological status classification: III): there is a predominance of taxa more resistant at pollution and at changes in other biological components of the stream. The I.F.F. show that in Boesio stream the right shore score is moderate-good and the left shore score is moderate-poor. Differently, the Rancina stream presents the right shore with a value poor and the left shore with a wide gradient between good and poor-bad. In conclusion, we can affirm the low efficiency of Bioengineering to restore the Boesio and Rancina streams, because we cannot observe the habitat and aquatic biocoenoses improvement. An explication could be that the conversions are restricted to morphological measures, which are carried out on a small way of banks. Whereas, the restoration using the Bioengineering requires taking the entire catchment area into consideration.

Sediment microbial taxonomic and functional diversity in a natural salinity gradient challenge Remane’s “species minimum” concept

PubMed Central

Kristoffersen, Jon B.; Oulas, Anastasis; De Troch, Marleen; Arvanitidis, Christos

2017-01-01

Several models have been developed for the description of diversity in estuaries and other brackish habitats, with the most recognized being Remane’s Artenminimum (“species minimum”) concept. It was developed for the Baltic Sea, one of the world’s largest semi-enclosed brackish water body with a unique permanent salinity gradient, and it argues that taxonomic diversity of macrobenthic organisms is lowest within the horohalinicum (5 to 8 psu). The aim of the present study was to investigate the relationship between salinity and sediment microbial diversity at a freshwater-marine transect in Amvrakikos Gulf (Ionian Sea, Western Greece) and assess whether species composition and community function follow a generalized concept such as Remane’s. DNA was extracted from sediment samples from six stations along the aforementioned transect and sequenced for the 16S rRNA gene using high-throughput sequencing. The metabolic functions of the OTUs were predicted and the most abundant metabolic pathways were extracted. Key abiotic variables, i.e., salinity, temperature, chlorophyll-a and oxygen concentration etc., were measured and their relation with diversity and functional patterns was explored. Microbial communities were found to differ in the three habitats examined (river, lagoon and sea) with certain taxonomic groups being more abundant in the freshwater and less in the marine environment, and vice versa. Salinity was the environmental factor with the highest correlation to the microbial community pattern, while oxygen concentration was highly correlated to the metabolic functional pattern. The total number of OTUs showed a negative relationship with increasing salinity, thus the sediment microbial OTUs in this study area do not follow Remane’s concept. PMID:29043106

Seagrass burial by dredged sediments: benthic community alteration, secondary production loss, biotic index reaction and recovery possibility.

PubMed

Tu Do, V; de Montaudouin, Xavier; Blanchet, Hugues; Lavesque, Nicolas

2012-11-01

In 2005, dredging activities in Arcachon Bay (France) led in burying 320,000 m(2) of Zostera noltii intertidal seagrass. Recovery by macrobenthos and seagrass was monitored. Six months after works, seagrass was absent and macrobenthos drastically different from surrounding vegetated stations. Rapidly and due to sediment dispersal, disposal area was divided into a sandflat with a specific benthic community which maintained its difference until the end of the survey (2010), and a mudflat where associated fauna became similar to those in adjacent seagrass. Macrobenthic community needs 3 years to recover while seagrass needs 5 years to recover in the station impacted by mud. The secondary production loss due to works was low. In this naturally carbon enriched system, univariate biotic indices did not perform well to detect seagrass destruction and recovery. Multivariate index MISS gave more relevant conclusions and a simplified version was tested with success, at this local scale. Copyright © 2012 Elsevier Ltd. All rights reserved.

Effects of submarine mine tailings on macrobenthic community structure and ecosystem processes.

PubMed

Trannum, Hilde C; Gundersen, Hege; Escudero-Oñate, Carlos; Johansen, Joachim T; Schaanning, Morten T

2018-07-15

A mesocosm experiment with intact benthic communities was conducted to evaluate the effects of mine tailings on benthic community structure and biogeochemical processes. Two types of tailings were supplied from process plants using flotation and flocculation chemicals, while a third type was absent of added chemicals. All tailings impacted the sediment community at thin layers, and through more mechanisms than merely hypersedimentation. In general, the strongest impact was observed in a very fine-grained tailings containing flotation chemicals. The second strongest occurred in tailings with no process chemicals. The tailings with flocculation chemicals initiated the weakest response. Fluxes of oxygen, nitrate and ammonium provided some indications on biodegradation of organic phases. Release of phosphate and silicate decreased with increasing layer thickness of all three tailings. A threshold level of 2cm was identified both for faunal responses and for fluxes of phosphate and silicate. The particular impact mechanisms should receive more attention in future studies in order to minimize the environmental risk associated with tailings disposal. Copyright © 2018 Elsevier B.V. All rights reserved.

Temporal changes of a macrobenthic assemblage in harsh lagoon sediments

NASA Astrophysics Data System (ADS)

Como, Serena; Magni, Paolo

2009-08-01

An opportunistic macrobenthic assemblage was studied from 2001 to 2003 in a central area of the Cabras lagoon (western Sardinia, Italy), known to be affected by environmental disturbances (i.e. organic over-enrichment of sediments, and episodic events of hypoxia/anoxia and sulphide development). We identified recurrent seasonal changes in this macrobenthic assemblage, with a general impoverishment in summer and a recovery in winter/spring. The nereids Neanthes succinea and Hediste diversicolor were found to replace the spionid Polydora ciliata as the most dominant species in the summer for 3 consecutive years. Occasional, unsynchronized appearances of small-sized deposit feeders, such as Tubificidae, Capitella cf. capitata, chironomid larvae and Hydrobia spp., were observed in winter/spring. We suggest that these changes are driven by the interplay of environmental conditions (worse in summer) with numerous biotic factors. This includes different tolerance levels of taxa to low oxygen concentrations and sulphides, variability in larval supply and post-larval transport, as well as competition for space and food between and within different functional groups, and facilitation through animal bioturbation and sediment reoxidation. A conceptual model is proposed to demonstrate how environmental conditions and biotic interactions may control the benthic assemblage in such a harsh lagoon environment.

Colonization, succession, and nutrition of macrobenthic assemblages in a restored wetland at Tijuana Estuary, California

NASA Astrophysics Data System (ADS)

Moseman, Serena M.; Levin, Lisa A.; Currin, Carolyn; Forder, Charlotte

2004-08-01

Modes of colonization, the successional trajectory, and trophic recovery of a macrofaunal community were analyzed over 19 months in the Friendship marsh, a 20-acre restored wetland in Tijuana Estuary, California. Traditional techniques for quantifying macrofaunal communities were combined with emerging stable isotopic approaches for evaluation of trophic recovery, making comparisons with a nearby natural Spartina foliosa habitat. Life history-based predictions successfully identified major colonization modes, although most taxa employed a variety of tactics for colonizing the restored marsh. The presence of S. foliosa did not seem to affect macrofaunal colonization or succession at the scale of this study. However, soil organic matter content in the restored marsh was positively correlated with insect densities, and high initial salinities may have limited the success of early colonists. Total macrofaunal densities recovered to natural marsh levels after 14 months and diversity, measured as species richness and the Shannon index ( H'), was comparable to the natural marsh by 19 months. Some compositional disparities between the natural and created communities persisted after 19 months, including lower percentages of surface-feeding polychaetes ( Polydora spp.) and higher percentages of dipteran insects and turbellarians in the Friendship marsh. As surficial structural similarity of infaunal communities between the Friendship and natural habitat was achieved, isotopic analyses revealed a simultaneous trajectory towards recovery of trophic structure. Enriched δ 13C signatures of benthic microalgae and infauna, observed in the restored marsh shortly after establishment compared to natural Spartina habitat, recovered after 19 months. However, the depletion in δ 15N signatures of macrofauna in the Friendship marsh indicated consumption of microalgae, particularly nitrogen-fixing cyanobacteria, while macroalgae and Spartina made a larger contribution to macrofaunal diets in the natural habitat. Future successional studies must continue to develop and employ novel combinations of techniques for evaluating structural and functional recovery of disturbed and created habitats.

Bored to Death: Community-Wide Effect of Predation on a Foundation Species in a Low-Disturbance Arctic Subtidal System.

PubMed

Yakovis, Eugeniy; Artemieva, Anna

2015-01-01

The strength of top-down control by consumers is predicted to decrease with latitude, but most data confirming this assumption come from latitudes <60°, while empirical studies of predation in sub-arctic and arctic marine habitats are few. A barnacle Balanus crenatus is a native foundation species in the shallow subtidal of the White Sea (65° N), hosting a diverse (250+ species) assemblage of macrobenthic organisms. On mixed sediments live barnacles share primary substrates (shells and gravel) with numerous empty barnacle tests, 7% of which had drill holes of an unidentified origin. We manipulated the densities of (i) adult muricid whelks Boreotrophon clathratus (of previously unknown feeding habits), to check if they prey on barnacles, (ii) other predators to reveal their effect on juvenile Boreotrophon, and (iii) empty tests to assess the community-wide effect of predation on barnacles. The abundance of drilled empty tests in the field correlated with that of Boreotrophon. A year-long caging experiment clearly confirmed predation, showing the highest barnacle mortality and proportion of drilled tests in whelk enclosures, and the lowest--in predator exclosure treatments. Boreotrophon preferred the barnacles attached to conspecifics to those from primary substrates. Because of its scarcity Boreotrophon had a minor direct effect on barnacle abundance in the field. Yet, initially defaunated empty tests and live barnacles developed markedly different macrobenthic assemblages, suggesting a strong indirect effect of the predation. Juvenile Boreotrophon were 5-6 times less abundant in open and partial cages than in exclosures and enclosures, which indicates that the recruitment and, consequently, the abundance of Boreotrophon and its predation on Balanus are top-down controlled by apex predators. In contrast, in tropical and temperate intertidal the predation on barnacles is stronger and primarily limited by environmental stress and prey availability.

The role of hypoxia in structuring macrobenthos community off the Louisiana shelf

NASA Astrophysics Data System (ADS)

Shivarudrappa, S. K.; Briggs, K.

2013-12-01

Core samples were collected from 24 box cores belonging to four different provinces with varying hypoxia frequency and history in the northern Gulf of Mexico. Macrobenthos from these four provinces were sampled in spring, summer and late-summer seasons. According to historical data of bottom water oxygen concentration since 1985, the control province was exposed to hypoxia <25% of the time, the province 1 was exposed to hypoxia between 50% and 75% of the time, the province 2 was exposed to hypoxia between 25% and 50% of the time, and the province 3 was exposed to hypoxia more than 75% of the time. Samples from the three cruises performed between April 2009 and August 2010 were vertically sectioned to 25 cm sediment depth and analyzed for abundance, biomass, species diversity, and feeding types. Seasonal variability within provinces and between provinces was analyzed in terms of abundance and biomass. The Bray-Curtis dissimilarity indices indicated the four provinces have similar community composition, yet showed the impact of hypoxia in assemblages making up the four communities. Diversity indices were highest for the control province and lowest for province 3 during all three seasons, whereas diversity indices for provinces 1 and 2 showed variable seasonal variations due to hypoxia. Separation of the control province from province 3 at all three samplings by principal component analysis indicated the communities of these two provinces did not change over the period of the study. This difference in assemblages was confirmed by rarefaction curves of expected species diversity. Impact of grain size and organic matter concentration on the community structure was assessed using non-metric multi-dimensional scaling. Different species dominated by their abundance or their biomass at all four provinces, but the effect was magnified in the provinces other than the control. Capitellid, cossurid and spionid polychaetes dominated by abundance, whereas maldanid and nephtyid polychaetes and Nemerteans dominated by biomass. This implies that the fauna responsible for dominance by their abundance were small, opportunistic deposit feeders, and that large carnivores contributed to dominance by their biomass. Although species and abundance changed from province to province and season to season, the functional groups were nevertheless dominated, in order, by subsurface deposit feeders, surface deposit feeders, and carnivores at all provinces in all three seasons. This study provides insight into compositional changes in the macrobenthic community due to hypoxia and subsequent recovery from hypoxia on the northern Gulf of Mexico shelf between the Mississippi and Atchafalaya Rivers.

Pelagic and benthic communities of the Antarctic ecosystem of Potter Cove: Genomics and ecological implications.

PubMed

Abele, D; Vazquez, S; Buma, A G J; Hernandez, E; Quiroga, C; Held, C; Frickenhaus, S; Harms, L; Lopez, J L; Helmke, E; Mac Cormack, W P

2017-06-01

Molecular technologies are more frequently applied in Antarctic ecosystem research and the growing amount of sequence-based information available in databases adds a new dimension to understanding the response of Antarctic organisms and communities to environmental change. We apply molecular techniques, including fingerprinting, and amplicon and metagenome sequencing, to understand biodiversity and phylogeography to resolve adaptive processes in an Antarctic coastal ecosystem from microbial to macrobenthic organisms and communities. Interpretation of the molecular data is not only achieved by their combination with classical methods (pigment analyses or microscopy), but furthermore by combining molecular with environmental data (e.g., sediment characteristics, biogeochemistry or oceanography) in space and over time. The studies form part of a long-term ecosystem investigation in Potter Cove on King-George Island, Antarctica, in which we follow the effects of rapid retreat of the local glacier on the cove ecosystem. We formulate and encourage new approaches to integrate molecular tools into Antarctic ecosystem research, environmental conservation actions, and polar ocean observatories. Copyright © 2017 Elsevier B.V. All rights reserved.

Dispersal of post-larval macrobenthos in subtidal sedimentary habitats: Roles of vertical diel migration, water column, bedload transport and biological traits' expression

NASA Astrophysics Data System (ADS)

Pacheco, Aldo S.; Uribe, Roberto A.; Thiel, Martin; Oliva, Marcelo E.; Riascos, Jose M.

2013-03-01

Post-larval dispersal along the sediment-water interface is an important process in the dynamics of macrobenthic populations and communities in marine sublittoral sediments. However, the modes of post-larval dispersal in low energy sublittoral habitats have been poorly documented. Herein we examined the specific dispersal mechanisms (diel vertical migration, water column, and bedload transport) and corresponding biological traits of the dispersing assemblage. At two sublittoral sites (sheltered and exposed) along the northern coast of Chile, we installed different trap types that capture benthic organisms with specific modes of dispersal (active emergence and passive water column drifting) and also by a combination of mechanisms (bedload transport, passive suspension and settlement from the water column). Our results show that even though there were common species in all types of traps, the post-larval macrobenthic assemblage depended on specific mechanisms of dispersal. At the sheltered site, abundant emerging taxa colonized sediments that were placed 0.5 m above the bottom and bedload-transported invertebrates appeared to be associated to the passive drifting of macroalgae. At the exposed site, assemblage dispersal was driven by specific mechanisms e.g. bedload transport and active emergence. At both sites the biological traits "small size, swimming, hard exoskeleton, free living and surface position" were associated to water column and bedload dispersal. This study highlights the importance of (i) the water-sediment interface for dispersal of post-larvae in sublittoral soft-bottom habitat, and (ii) a specific set of biological traits when dispersing either along the bottom or through the water column.

Benthic macroinfaunal community structure, resource utilisation and trophic relationships in two Canadian Arctic Archipelago polynyas

PubMed Central

Witte, Ursula; Archambault, Philippe

2017-01-01

Climate change driven alterations to patterns of Arctic marine primary production, with increasing phytoplankton- and decreasing ice algal production, have the potential to change the resource utilisation and trophic structure of the benthic communities relying on the algae for food. To predict the benthic responses to dietary changes, we studied the macroinfaunal community compositions, and used the faunal δ13C and δ15N signatures to investigate their main food sources and trophic positions in North Water (NOW) and Lancaster Sound (LS) polynyas in the Canadian Arctic Archipelago. Macroinfaunal density (10 952 ind. m-2) and biomass (3190 mg C m-2) recorded in NOW were higher than previously found in the Arctic at depths >500m, and significantly higher than in LS (8355 ind. m-2 and 2110 mg C m-2). This was attributed to higher particulate organic matter fluxes to seafloor in NOW. Polychaetes were significant taxa at both sites in terms of density and biomass, and in addition crustacean density in NOW and bivalve density in LS were high. Facultative filter and surface deposit feeders were highly prevalent at both sites, suggesting feeding plasticity is a successful strategy for accessing different food sources. The macrofaunal δ13C signatures reflected the signatures of pelagic particulate organic matter at the sites, and an isotope mixing model confirmed phytoplankton as the main food source for most taxa and feeding guilds. The food web length in LS was longer than in NOW (3.2 vs. 2.8 trophic levels). This was attributed to a larger reliance on reworked organic matter by the benthic community in LS, whereas the high export fluxes at the highly productive NOW resulted in higher rates of selective consumption of fresh algal matter. Despite studies suggesting that loss of ice algae from consumer diets in the Arctic might have a negative impact on the benthos, this study suggests that Arctic macrobenthic communities thrive using phytoplankton as their main food source and should thus be able to cope or even benefit from predicted changes to patterns of primary production. PMID:28850574

Impacts of maintenance dredged material disposal on macrobenthic structure and secondary productivity.

PubMed

Bolam, S G; Barry, J; Bolam, T; Mason, C; Rumney, H S; Thain, J E; Law, R J

2011-10-01

The results of a monitoring programme to assess the spatial impacts associated with ongoing dredged material disposal activity at a dispersive, coastal disposal site (southwest UK) are described. Benthic impacts were assessed using benthic community structure and secondary productivity estimates. Analyses of univariate indices (including secondary production) and multivariate community structure revealed differences between stations inside and those outside the disposal site were minimal. Generally, stations within and outside the disposal site were characterised by the same species. Regression models indicated that the variability in biological structure and secondary production was predominantly accounted for by natural variables (e.g., depth, sediment granulometry) with only a small amount of residual variability being due to contaminant variables. Thus, the elevated levels of certain contaminants in the vicinity of the disposal area were not sufficient to result in significant ecological or ecotoxicological changes. We ascribe such findings partly to the dispersive nature of the disposal site. Crown Copyright © 2011. Published by Elsevier Ltd. All rights reserved.

Large-scale environmental influences on the benthic macroinfauna of the southern Gulf of Mexico

NASA Astrophysics Data System (ADS)

Hernández-Arana, Hector A.; Rowden, Ashley A.; Attrill, Martin J.; Warwick, Richard M.; Gold-Bouchot, Gerardo

2003-12-01

The influence of large-scale natural disturbance from winter storms ('northers') and river runoff on the macrobenthic community structure of the southern Gulf of Mexico was investigated in both carbonate and transitional carbonate-terrigenous sedimentary environments. Samples of the infauna were obtained in three seasons from 13 stations from two 250 km transects along 80-170 and 20-50 m water depth. Samples after the northers season had the lowest total number of families and individuals, 114 and 2940, respectively, compared to the dry and rainy seasons with 129 and 132 families and 11580 and 15266 individuals, respectively. Spatial patterns of macroinfauna composition varied across and along the shelf as a response to sedimentary environments and depth. Coarser sediments from the carbonate area harboured the highest mean densities per station with 500-24,000 individuals m -2 and 108-122 families in total, compared to the transitional sediment with 500-8200 individuals m -2 and 56-74 families across the three seasons. Univariate and multivariate statistical techniques demonstrated that low densities and number of taxa were associated with winter storms, but storm influence was dependent on depth and sediment type. Multiple linear regression analysis and BIOENV analysis indicated that sediment mean grain size, percentage of clay and organic matter best explained the macroinfauna spatial patterns, although BIOENV indicated that depth has an overriding role. An increase in densities of opportunistic taxa (numerous polychaetes of small sizes) was observed four months after the 'northers' and this was more evident in the area of carbonate sediment. Additionally a combined disturbance from northers and river runoff is suspected to be responsible for a naturally impoverished macroinfauna community in the transitional sedimentary environment.

A rapid assessment survey of invasive species of macrobenthic invertebrates in Korean waters

NASA Astrophysics Data System (ADS)

Park, Chul; Kim, Sung-Tae; Hong, Jae-Sang; Choi, Keun-Hyung

2017-09-01

Introduced species are a growing and imminent threat to living marine resources in parts of the world's oceans. The present study is a rapid assessment survey of invasive macrobenthic invertebrate species in Korean ports. We surveyed over 40 ports around Korea during the period of May 2010 March 2013. Among the sampling sites were concrete walls, docks and associated floats, bumpers, tires, and ropes which might harbor non-native species. We found 15 invasive species as follows: one Sponge, two Bryozoans, three Mollusks, one Polychaete, four Cirripedes, and four Ascidians. Three morphologically similar species, namely X. atrata, M. galloprovincialis, and X. securis were further examined for distinctions in their morphology. Although they could be reasonably distinguished based on shell shapes, significant overlap was noted so that additional analysis may be required to correctly distinguish them. Although many of the introduced species have already spread to all three coastal areas, newly arrived invasive species showed a relatively restricted range, with a serpulid polychaete Ficopomatus enigmaticus and a mytilid bivalve Xenostrobus securis found only at a few sites on the East Coast. An exception is for Balanus perforatus, which has rapidly colonized the East coast of Korea following its introduction into the region. Successful management of invasive macrobenthic invertebrates should be established in order to contain the spread of these newly arrived species.

Effects of nutrient enrichment derived from fish farming activities on macroinvertebrate assemblages in a subtropical region of Hong Kong.

PubMed

Gao, Qin-Feng; Cheung, Kwok-Leung; Cheung, Siu-Gin; Shin, Paul K S

2005-01-01

To study the correlation between nutrient enrichment derived from fish farming activities and changes in macrobenthic assemblages, a one-year field study was conducted in Kau Sai Bay marine fish culture zone of Hong Kong. Bimonthly sediment samples were collected at six stations: two at the fish cages, two near the boundary of the fish culture area, and two reference sites further away from the culture area. Sediment physico-chemical characteristics in terms of silt/clay fraction, moisture content, total organic carbon (TOC), total Kjeldahl nitrogen (TKN) and total phosphorus (TP) were analyzed. The macrobenthos (>0.5 mm) present in the sediment were sorted, identified and enumerated. On average, TOC, TKN and TP levels at the fish cage stations were 82.8%, 128.5% and 1315.7% higher than those at the reference stations, respectively. As a result, the N:P molar ratio was greatly reduced from 8.75 at the reference stations to 1.83 at the fish cage stations. Univariate and multivariate analyses revealed that diversity of macrofauna was significantly reduced and community structure differed at the fish cage stations relative to the reference sites. The intermediary stations near the fish culture area showed a transitional state of disturbance. Faunal diversity was negatively correlated with nutrient level, reflecting the adverse impacts of nutrient enrichment derived from fish farming activities on the benthic assemblages. Whilst in subtropical Asia-Pacific trash fish is the major feed for fish culture resulting in a higher nutrient loading and nutrient ratio accumulated in the sediment beneath the fish rafts, the effects of nutrient enrichment on macrobenthic assemblages are comparable to that in temperate waters owing to relatively high sediment metabolism rate and smaller fish culture scale in Hong Kong.

Effects of long-term dumping of harbor-dredged material on macrozoobenthos at four disposal sites along the Emilia-Romagna coast (Northern Adriatic Sea, Italy).

PubMed

Simonini, R; Ansaloni, I; Cavallini, F; Graziosi, F; Iotti, M; Massamba N'siala, G; Mauri, M; Montanari, G; Preti, M; Prevedelli, D

2005-12-01

Sediment from harbors of the Emilia-Romagna (Northern Adriatic Sea) were dredged and dumped in four disposal areas characterized by muddy bottoms. The long-term effects of the dumping on macrozoobenthic communities were investigated before and after 6 month, 8 month, 2 years and 4 years. The disposal of dredged material did not influence the granulometry and %TOC in the sediment, and no alterations in the structure of the macrobenthic communities were observed in the four areas. The lack of impact could be ascribed to the environmental characteristics and precautionary measures taken to minimize the effects of the dumping. It appears that: (1) the communities of the dumping areas are well adapted to unstable environments; (2) the sediments were disposed gradually and homogeneously over relatively large areas; Other factors that help to reduce the impact of sediment disposal are the low concentrations of contaminants in dredged materials and the similarity of sediment in the dredged and disposal areas. Off-shore discharge appears a sustainable strategy for the management of uncontaminated dredged sediments from the Northern Adriatic Sea harbors.

Stream Community Structure: An Analysis of Riparian Forest Buffer Restoration in the Chesapeake Bay Watershed

NASA Astrophysics Data System (ADS)

Orzetti, L. L.; Jones, R. C.

2005-05-01

Forested riparian buffer zones have been proposed as an important aid in curtailing upland sources of pollution before they reach stream surface waters, and enhancing habitat for stream organisms. Our objective was to test the efficacy of restored forest riparian buffers along streams in the Chesapeake Bay watershed by examining the stream macrobenthic community structure. To test our hypothesis, we collected riffle benthic and water samples, and performed habitat evaluations at 30 stream sites in the mid-Atlantic Piedmont, ranging in buffer age from 0 to greater than 50 years of age. Results showed that habitat, water quality, and benthic macroinvertebrate metrics improved with age of restored buffer. Habitat scores were driven mostly by instream substrate availability and width and age of riparian buffer zones. Water quality parameters varied within buffer age groups depending age of surrounding forest vegetation. Benthic invertebrate taxa richness, % EPT, % Plecoptera, % Ephemeroptera, and the FBI all improved with age of buffer zone. Instream habitat quality was the greatest driver of benthic macroinvertebrate community diversity and health, and appeared to plateau within 10-15 years of restoration with noticeable improvements occurring within 5-10 years post restoration.

Long-term changes in the benthic communities of the Pomeranian Bay (Southern Baltic Sea)

NASA Astrophysics Data System (ADS)

Kube, J.; Gosselck, F.; Powilleit, M.; Warzocha, J.

1998-02-01

Long-term changes in the macrofauna of the Pomeranian Bay were studied by comparing survey data from the 1950s, 1980s, and 1990s. The study area has undergone significant eutrophication during the period of investigation. Biomass of filter-feeding bivalves increased significantly. Spatial distribution patterns of several species have changed. Strong decreases in species richness were caused by oxygen depletion at stations deeper than 15 m. Saduria entomon, Monoporeia affinis, and Pontoporeia femorata vanished entirely between 1981 and 1993. Although a causal relationship between simultaneous increases of nutrient levels and macrobenthic biomass cannot be verified, eutrophication is proposed to be the major process affecing changes in macrofauna assemblages. In addition, changes in hydrography and climate increased frequency and severity of oxygen depletion events in the Pomeranian Bay since the mid 1980s.

Infaunal macrobenthic community dynamics in a manipulated hyperhaline ecosystem: a long-term study

PubMed Central

2013-01-01

Background Understanding the responses of ecological communities to human-induced perturbations is crucial for establishing conservation goals. Ecological communities are dynamic entities undergoing fluctuations due to their intrinsic characteristics as well as anthropogenic pressures varying over time. In this respect, long-term studies, based on large spatial and temporal datasets, may provide useful information in understanding patterns and processes influencing the communities’ structure. Theoretical evidence suggests that a role of biodiversity is acting as a compensatory buffer against environmental variability by decreasing the temporal variance in ecosystem functioning and by raising the level of community response to perturbations through the selection of better performing species. Therefore, the spatial and temporal changes in the specialization of the community components may be used as an effective tool to monitor the effects of natural and anthropogenic alterations of the environment in dynamic systems. We examined the temporal dynamics of macroinvertebrate community structure in the hyperhaline habitat of Tarquinia Saltworks (central Italy). We aimed at: (i) investigating the relationships between the level of community specialization and the alterations of the environment across fourteen years; (ii) comparing the ability of aggregate community parameters such as the average abundance vs. species specialization in describing patterns of community composition. Results We arranged the data in three sub-sets according to three periods, each characterized by different environmental conditions. The mean abundance of sampled macroinvertebrates showed a significant change (p < 0.01) only in the community inhabiting the saltwork basin closely connected to the sea, characterized by the highest environmental variation (i.e. the coefficient of variation, CV, of the aggregate environmental variability over the study period, CVrange = 0.010 - 0.2). Here we found marine species like Modiolus adriaticus (Lamarck, 1819), Neanthes irrorata (Malmgren, 1867), and Amphiglena mediterranea (Leydig, 1851), which inhabited the saltworks during the halt period but disappeared during the subsequent eutrophication phase. Conversely, species specialization showed a significant decrease for each sampled community in the presence of habitat degradation and a recovery after ecological restoration. The widest fluctuations of specialization were recorded for the community inhabiting the saltwork basin with the highest long-term environmental variability. Conclusions Recent advances have shown how the increased temporal and spatial variability of species’ abundance within the communities may be a signal of habitat disturbance, even in the absence of an apparent decline. Such approach could also be used as a sensitive monitoring tool, able to detect whether or not communities are subjected to increasing biotic homogenization. Also, the increased functional similarity triggered by habitat degradation may impact on species at higher trophic levels, such as the waterbirds wintering in the area or using it as a stopover during migration. PMID:24192133

Physical structure of artificial seagrass affects macrozoobenthic community recruitment

NASA Astrophysics Data System (ADS)

Ambo-Rappe, R.; Rani, C.

2018-03-01

Seagrass ecosystems are important in supporting marine biodiversity. However, the worldwide decline in seagrass areas due to anthropogenic factors leads to a decrease in the marine biodiversity they can support. There is growing awareness of the need for concepts to conserve and/or rehabilitate seagrass ecosystems. One option is to create artificial seagrass to provide a physical structure for the marine organisms to colonize. The objective of this research was to analyze the effect of some artificial seagrasses and seagrass transplants on marine biodiversity, with a focus on the macrozoobenthic community. The experimental design compared two types of artificial seagrass (polypropylene ribbons and shrub-shaped plastic leaves), and seagrass transplants from nearby seagrass meadows. The experimental plots were 4 x 4 m2 with 3 replicates. Macrozoobenthic communities were sampled fortnightly for 3.5 months. At the end of the experiment, makrozoobenthos were also sampled from a natural seagrass bed nearby. Of 116 macrozoobenthic species in the artificial seagrass plots, 91 were gastropods. The density of the macrobenthic fauna increased from the beginning to the end of the study in all treatments, but the increase was only significant for the artificial seagrass treatment (i.e. shrub-like plastic leaves). There was a distinct separation between the macrozoobenthic community structure found in the restoration plots (artificial seagrass and transplanted seagrass) compared to natural seagrass beds.

Assessment of benthic macroinvertebrates at Nile tilapia production using artificial substrate samplers.

PubMed

Moura E Silva, M S G; Graciano, T S; Losekann, M E; Luiz, A J B

2016-05-17

Biomonitoring is a cheap and effective tool for evaluation of water quality, and infer on the balance of aquatic ecosystems. The benthic macroinvertebrates are bioindicators sensitive to environmental changes, and can assist in detecting and preventing impacts such as organic enrichment and imbalance in the food chain. We compared the structure of benthic communities on artificial substrate samplers located in places near and far from net cages for production of Nile tilapia (Oreochromis niloticus). Samplers were manufactured with nylon net, using substrates such as crushed stone, gravel, loofah and cattail leaves. Samples were collected after 30 days of colonization, rinsed and then the specimens were identified and quantified. The following metrics were calculated: richness of Operational Taxonomic Units, Margalef richness, abundance of individuals, Shannon index and evenness index. The macrobenthic community structure was strongly modified according to the proximity of the net cages. Metrics showed significant differences (p < 0.05) between near and distant sites, for both periods (dry and rainy seasons). The position of the samplers significantly affected the structure of macroinvertebrate community, as near sites showed higher values for the community metrics, such as richness and diversity. Near sites presented a larger number of individuals, observed both in the dry and rainy seasons, with a predominance of Chironomidae (Diptera) in the dry season and Tubificidae (Oligochaeta) in the rainy season.

Donor and recipient regions: The biogeography of macrobenthic invaders

EPA Science Inventory

Aquatic invaders are a major threat to ecological integrity and biodiversity of marine, estuarine, and freshwater ecosystems around the world. These invaders have been successful in passing through four discrete phases in their invasion of a new environment: (1) transport, (2) ...

Delineation of surf scoter habitat in Chesapeake Bay, Maryland: macrobenthic and sediment composition of surf scoter feeding sites

USGS Publications Warehouse

Kidwell, D.M.; Perry, M.C.

2005-01-01

Surveys of surf scoters (Melanitta perspicillata) along the Atlantic coast of the United States have shown population declines in recent decades. The Chesapeake Bay has traditionally been a key wintering area for surf scoters. Past and present research has shown that bivalves constitute a major food item for seaducks in the Chesapeake Bay, with surf scoters feeding primarily on hooked mussel (Ischadium recurvum) and dwarf surf clam (Mulinia lateralis). Degraded water quality conditions in the Chesapeake Bay have been well documented and have been shown to greatly influence the composition of benthic communities. Large concentrations of feeding surf scoters (>500 individuals) in the Bay were determined through monthly boat surveys. Locations consistently lacking surf scoters were also determined. Macrobenthos were seasonally sampled at 3 locations containing scoters and 3 locations without scoters. A 1 kilometer square grid was superimposed over each location using GIS and sampling sites within the square were randomly chosen. Benthos were sampled at each site using SCUBA and a meter square quadrat. Biomass and size class estimates were determined for all bivalves within each kilometer square. Results indicated that scoter feeding sites contained significantly greater biomass of M. lateralis, I. recurvum, and Gemma gemma than locations where no scoters were present. Substrate differences were also detected, with scoter feeding sites being composed of a sand/shell mix while non-scoter sites consisted primarily of mud. This data indicates that surf scoters in the Chesapeake Bay are selecting areas with high densities of preferred food items, potentially maximizing there foraging energetics. In addition, two scoter feeding sites also contained a patchwork of eastern oyster (Crassostrea virginica) and oyster shell, on which much of the I. recurvum was attached. This suggests the possibility that surf scoters utilize eastern oyster habitat and the dramatic depletion of oysters in the Bay could be a possible factor in surf scoter decline. More research is needed into the possible relationship between surf scoters and the eastern oyster.

Tidal-Flat Macrobenthos as Diets of the Japanese Eel Anguilla japonica in Western Japan, with a Note on the Occurrence of a Parasitic Nematode Heliconema anguillae in Eel Stomachs.

PubMed

Kan, Kotaro; Sato, Masanori; Nagasawa, Kazuya

2016-02-01

Dietary items of the Japanese eel Anguilla japonica inhabiting estuaries were examined by analyses of the gut (stomach and intestine) contents in two areas in Kyushu, western Japan. In a small estuary in Kagoshima Bay, where seven eel guts were examined, almost all of the dietary organisms consisted of Hemigrapsus crabs and Hediste polychaetes, both of which commonly occurred on tidal flats of this site during our survey on the macrobenthic fauna. In another large estuary in the innermost part of the Ariake Sea, where 14 eel guts were examined, 11 macrobenthic species (nine crustaceans, a polychaete, and a gastropod) were found in the gut contents, mostly consisting of mudflat-specific species. The dietary items are almost completely different not only between the two estuaries, but also among three neighboring sites within the large estuary in the Ariake Sea. These results show that Japanese eels feed on various macrobenthic invertebrates inhabiting estuarine tidal flats at each site. The variety of the prey species occupying different habitats indicates that their foraging areas extend to a wide range of estuarine tidal flats from the upper to lower littoral zones. The physalopterid nematode Heliconema anguillae was found parasitic in eel stomachs in both estuaries. The prevalence of the nematode was higher in the estuary in Kagoshima Bay (100%) than that in the Ariake Sea (43%), although the intensity in the former (4-94 nematodes per infected stomach) was comparable to that of the latter (2-96). The relationship between the nematode infection and the dietary items of Japanese eels is discussed.

Insights into the benthic communities response to the inflow of Black Sea mesotrophic waters in the North Aegean Sea

NASA Astrophysics Data System (ADS)

Lampadariou, Nikolaos; Sevastou, Katerina; Podaras, Dimitrios; Tselepides, Anastasios

2017-10-01

The effects of the Dardanelles inflow of buoyant, modified Black Sea waters (BSW) of low salinity and temperature, on the meio- and macrobenthic communities of the north Aegean ecosystem was investigated during two cruises in October 2013 and March 2014. Sediment samples were collected from two stations subjected to the BSW effect, one shallow and one deep north of the Dardanelles Straits, and from two stations of similar bathymetry, which were considered to be outside the influence of BSW and were located to the south of the Dardanelles Straits. Results suggest that there is an effect of the BSW on benthos, as both meiofaunal and macrofaunal standing stocks were lower at the most distant, and therefore least affected from the inflow, station, and higher at the station of similar bathymetry which was affected the most by the BSW inflow. Univariate and multivariate non-parametric analyses (nMDS, PERMANOVA) provided further support, indicating differences between the two areas (North vs. South) in the case of the deep stations, while differences between depth categories were evident in the area outside the BSW influence zone. Distance-based linear modeling (DISTLM) indicated that meiofauna correlated with proxies of food availability and sediment characteristics. Macrofauna, on the other hand, showed a rather high significant correlation with depth only. Nematode species composition was statistically significant different between depth categories only, yet the nMDS ordination clearly separated the deep southern station from the rest, with non-selective deposit feeders dominating the stations under the influence of the BSW, and epistratum feeders being important at the stations outside the influence of the BSW. It is concluded that both the meiofaunal and macrofaunal communities at the northern stations benefit from a constant input of high amounts of organic matter to the seafloor, while those at the southern area may be occasionally affected by the thermohaline BSW front, which may reach as far as the southern stations, resulting in higher but rather unpredictable organic enrichment.

Sedimentary organic matter sources, benthic consumption and burial in west Spitsbergen fjords - Signs of maturing of Arctic fjordic systems?

NASA Astrophysics Data System (ADS)

Zaborska, Agata; Włodarska-Kowalczuk, Maria; Legeżyńska, Joanna; Jankowska, Emilia; Winogradow, Aleksandra; Deja, Kajetan

2018-04-01

Mature ecosystems sequester little organic carbon (Corg) in sediments, as the complex and effective food webs consume most available organic matter within the water column and sediment, in contrast to young systems, where a large proportion of Corg is buried in deeper sediment layers. In this paper we hypothesize that "warmer" Atlantic water influenced fjord exhibits the 'mature' system features as compared to "cooler" Arctic water influenced fjord. Corg concentrations, sources and burial rates, as well as macrobenthic community standing stocks, taxonomic and functional composition and carbon demand, were compared in two west Spitsbergen fjords that are to different extents influenced by Atlantic water and can be treated as representing a cold one (Hornsund) and a warm one (Kongsfjorden). Water, sediments and macrofauna were collected at three stations in the central basin of each fjord. Corg, Ntot, δ13Corg and δ15N were measured in suspended matter, sediment cores and possible organic matter sources. The composition of sources of sedimentary organic matter was modeled by Mix-SIAR Bayesian stable isotope mixing models. The 210Pb method was used to calculate sediment accumulation rates, Corg accumulation and burial rates. The sedimentary Corg concentration and accumulation rate were larger in Hornsund than in Kongsfjorden. The contributions of pelagic sources to the Corg in sediments were similar in both fjords, macroalgal detritus had a higher importance in Kongsfjorden, while terrestrial sources were more important in Hornsund. Similar density and species richness were noted in both fjords, but higher biomass, individual biomass, production and carbon demand of benthic communities were noted in Kongsfjorden despite the lower amounts of Corg in sediments, indicating that macrobenthos responds to quality rather than quantity of available food. Subsurface tube-building conveyer belt detritus feeders (maldanids and oweniids) were responsible for higher standing stocks and carbon consumption in Kongsfjorden. As a result of the lower Corg pool and higher benthic mineralization, the burial rates in Kongsfjorden were much lower (15 g of Corg m- 2 yr- 1) than in Hornsund (38 g of Corg m- 2 yr- 1). Our study indicates that warming of the high latitude fjordic environments may reshape the relative proportions of organic carbon sources and induce maturing of the sea bottom systems, in terms of development of stable, biologically accommodated benthic communities which more efficiently mineralize organic matter and consequently lower sequestration of organic matter in deeper sediments.

Ecosystem characteristics and processes facilitating persistent macrobenthic biomass hotspots and associated benthivory in the Pacific Arctic

NASA Astrophysics Data System (ADS)

Grebmeier, Jacqueline M.; Bluhm, Bodil A.; Cooper, Lee W.; Danielson, Seth L.; Arrigo, Kevin R.; Blanchard, Arny L.; Clarke, Janet T.; Day, Robert H.; Frey, Karen E.; Gradinger, Rolf R.; Kędra, Monika; Konar, Brenda; Kuletz, Kathy J.; Lee, Sang H.; Lovvorn, James R.; Norcross, Brenda L.; Okkonen, Stephen R.

2015-08-01

The northern Bering and Chukchi Seas are areas in the Pacific Arctic characterized by high northward advection of Pacific Ocean water, with seasonal variability in sea ice cover, water mass characteristics, and benthic processes. In this review, we evaluate the biological and environmental factors that support communities of benthic prey on the continental shelves, with a focus on four macrofaunal biomass "hotspots." For the purpose of this study, we define hotspots as macrofaunal benthic communities with high biomass that support a corresponding ecological guild of benthivorous seabird and marine mammal populations. These four benthic hotspots are regions within the influence of the St. Lawrence Island Polynya (SLIP), the Chirikov Basin between St. Lawrence Island and Bering Strait (Chirikov), north of Bering Strait in the southeast Chukchi Sea (SECS), and in the northeast Chukchi Sea (NECS). Detailed benthic macrofaunal sampling indicates that these hotspot regions have been persistent over four decades of sampling due to annual reoccurrence of seasonally consistent, moderate-to-high water column production with significant export of carbon to the underlying sediments. We also evaluate the usage of the four benthic hotspot regions by benthic prey consumers to illuminate predator-prey connectivity. In the SLIP hotspot, spectacled eiders and walruses are important winter consumers of infaunal bivalves and polychaetes, along with epibenthic gastropods and crabs. In the Chirikov hotspot, gray whales have historically been the largest summer consumers of benthic macrofauna, primarily feeding on ampeliscid amphipods in the summer, but they are also foraging further northward in the SECS and NECS hotspots. Areas of concentrated walrus foraging occur in the SLIP hotspot in winter and early spring, the NECS hotspot in summer, and the SECS hotspot in fall. Bottom up forcing by hydrography and food supply to the benthos influences persistence and composition of benthic prey that then influences the distributions of benthivorous upper trophic level populations.

Does water level affect benthic macro-invertebrates of a marginal lake in a tropical river-reservoir transition zone?

PubMed

Zerlin, R A; Henry, R

2014-05-01

Benthic macro-invertebrates are important components of freshwater ecosystems which are involved in ecological processes such as energy transfer between detritus and consumers and organic matter recycling. The aim of this work was to investigate the variation in organism richness, diversity and density of benthic fauna during the annual cycle in Camargo Lake, a lake marginal to Paranapanema River, southeast Brazil. The correlation of environmental factors with community attributes of the macro-benthic fauna was assessed. Since Camargo Lake is connected to the river, we tested the hypothesis that water level variation is the main regulating factor of environmental variables and of the composition and abundance of benthic macro-invertebrates. The results indicated that lake depth varied with rainfall, being the highest at the end of the rising water period and the lowest at the beginning of this period. The sediment granulometry was more heterogeneous at the bottom of the lake by the end of the high water period. The benthic macro-invertebrate fauna was composed by 15 taxa. The Diptera order was represented by seven taxa and had greater richness in relation to other taxa. This group was responsible for 60% of the total abundance of organisms, followed by Ephemeroptera (22%) and Anellida (16%). Significant differences were observed over time in total richness and, in density of Narapa bonettoi, Chaoborus, Ablabesmyia gr. annulata, Chironomus gigas, Larsia fittkau, and Procladius sp. 2. Total taxa richness correlated negatively with water pH, transparency, conductivity, and bottom water oxygen. Higher positive correlations were found between the densities of some taxa and bottom water oxygen, conductivity and very fine sand, silt + clay of sediment, while negative correlations were recorded with organic matter, and fine, medium and coarse sand, bottom water temperature, mean temperature and rainfall. The significant temporal difference in water level was associated with changes in abiotic factors and macro-invertebrate community attributes.

A combined chemical and biological assessment of industrial contamination in an estuarine system in Kerala, India.

PubMed

Dsikowitzky, Larissa; Nordhaus, Inga; Sujatha, C H; Akhil, P S; Soman, Kunjupilai; Schwarzbauer, Jan

2014-07-01

The Cochin Backwaters in India are part of the Vembanad-Kol system, which is a protected wetland and one of the largest estuarine ecosystems in South Asia. The backwaters are a major supplier of fisheries resources and are developed as tourist destination. Periyar River discharges into the northern arm of the system and receives effluents from chemical, petrochemical and metal processing industries which release huge amounts of wastewaters after little treatment. We investigated water and sediment contamination in the industrial vicinity and at one station further away including organic and inorganic contaminants. In total 83 organic contaminants were found, e.g. well known priority pollutants such as endosulfan, hexachlorobenzene, DDT, hexachlorocyclohexane and their metabolites, which likely stem from the industrial manufacturing of organochlorine pesticides. Furthermore, several benzothiazole, dibenzylamine and dicyclohexylamine derivatives were detected, which indicated inputs from rubber producing facilities. Several of these compounds have not been reported as environmental contaminants so far. A comparison of organic contaminant and trace hazardous element concentrations in sediments with reported sediment quality guidelines revealed that adverse effects on benthic species are likely at all stations. The chemical assessment was combined with an investigation of macrobenthic diversity and community composition. Benthic organisms were completely lacking at the site with the highest trace hazardous element concentrations. Highest species numbers, diversity indices and abundances were recorded at the station with the greatest distance to the industrial area. Filter feeders were nearly completely lacking, probably leading to an impairment of the filter function in this area. This study shows that a combination of chemical and biological methods is an innovative approach to achieve a comprehensive characterization of industrial contamination, to evaluate associated risks for bottom dwelling consumers regarding sediment quality guidelines, and to observe related adverse effects on the benthic community directly in the field. Copyright © 2014 Elsevier B.V. All rights reserved.

EFFECTS OF SEASONAL AND WATER QUALITY PARAMETERS ON OYSTERS (CRASSOSTREA VIRGINICA) AND ASSOCIATED FISH POPULATIONS.

EPA Science Inventory

Influence of water quality and seasonal changes on disease prevalence and intensity of Perkinsus marinus, gonadal condition, recruitment potential, growth of caged juvenile oysters, and habitat suitability of reefs for fishes and macrobenthic invertebrates were measured in Callos...

Similar diversity-disturbance responses to different physical impacts: three cases of small-scale biodiversity increase in the Belgian part of the North Sea.

PubMed

De Backer, Annelies; Van Hoey, Gert; Coates, Delphine; Vanaverbeke, Jan; Hostens, Kris

2014-07-15

Human activities at sea are still increasing. As biodiversity is a central topic in the management of our seas, it is important to understand how diversity responds to different disturbances related with physical impacts. We investigated the effects of three impacts, i.e. sand extraction, dredge disposal and offshore wind energy exploitation, on the soft-bottom macrobenthic assemblages in the Belgian part of the North Sea. We found similar diversity-disturbance responses, mainly related to the fact that different impacts caused similar environmental changes. We observed a sediment refinement which triggered a shift towards a heterogenic, dynamic (transitional) soft-bottom macrobenthic assemblage, with several species typically associated with muddy sands. This led to a local unexpected biodiversity increase in the impacted area. On a wider regional scale, the ever increasing human impacts might lead to a homogenization of the sediment, resulting in a more uniform, yet less diverse benthic ecosystem. Copyright © 2014 Elsevier Ltd. All rights reserved.

Consistent patterns of variation in macrobenthic assemblages and environmental variables over multiple spatial scales using taxonomic and functional approaches.

PubMed

Veiga, Puri; Torres, Ana Catarina; Aneiros, Fernando; Sousa-Pinto, Isabel; Troncoso, Jesús S; Rubal, Marcos

2016-09-01

Spatial variability of environmental factors and macrobenthos, using species and functional groups, was examined over the same scales (100s of cm to >100 km) in intertidal sediments of two transitional water systems. The objectives were to test if functional groups were a good species surrogate and explore the relationship between environmental variables and macrobenthos. Environmental variables, diversity and the multivariate assemblage structure showed the highest variability at the scale of 10s of km. However, abundance was more variable at 10s of m. Consistent patterns were achieved using species and functional groups therefore, these may be a good species surrogate. Total carbon, salinity and silt/clay were the strongest correlated with macrobenthic assemblages. Results are valuable for design and interpretation of future monitoring programs including detection of anthropogenic disturbances in transitional systems and propose improvements in environmental variable sampling to refine the assessment of their relationship with biological data across spatial scales. Copyright © 2016 Elsevier Ltd. All rights reserved.

Are hotspots always hotspots? The relationship between diversity, resource and ecosystem functions in the Arctic.

PubMed

Link, Heike; Piepenburg, Dieter; Archambault, Philippe

2013-01-01

The diversity-ecosystem function relationship is an important topic in ecology but has not received much attention in Arctic environments, and has rarely been tested for its stability in time. We studied the temporal variability of benthic ecosystem functioning at hotspots (sites with high benthic boundary fluxes) and coldspots (sites with lower fluxes) across two years in the Canadian Arctic. Benthic remineralisation function was measured as fluxes of oxygen, silicic acid, phosphate, nitrate and nitrite at the sediment-water interface. In addition we determined sediment pigment concentration and taxonomic and functional macrobenthic diversity. To separate temporal from spatial variability, we sampled the same nine sites from the Mackenzie Shelf to Baffin Bay during the same season (summer or fall) in 2008 and 2009. We observed that temporal variability of benthic remineralisation function at hotspots is higher than at coldspots and that taxonomic and functional macrobenthic diversity did not change significantly between years. Temporal variability of food availability (i.e., sediment surface pigment concentration) seemed higher at coldspot than at hotspot areas. Sediment chlorophyll a (Chl a) concentration, taxonomic richness, total abundance, water depth and abundance of the largest gallery-burrowing polychaete Lumbrineristetraura together explained 42% of the total variation in fluxes. Food supply proxies (i.e., sediment Chl a and depth) split hot- from coldspot stations and explained variation on the axis of temporal variability, and macrofaunal community parameters explained variation mostly along the axis separating eastern from western sites with hot- or coldspot regimes. We conclude that variability in benthic remineralisation function, food supply and diversity will react to climate change on different time scales, and that their interactive effects may hide the detection of progressive change, particularly at hotspots. Time-series of benthic functions and its related parameters should be conducted at both hot- and coldspots to produce reliable predictive models.

Marine and Brackish Ecosystems of South Brittany (Lorient and Vilaine Bays) with Particular Reference to the Effect of the Turbidity Maxima

NASA Astrophysics Data System (ADS)

Le Bris, H.; Glémarec, M.

1996-06-01

The south Brittany coast of France offers considerable opportunities to study the transition between estuaries and the sea. The sea coast is semi-enclosed, due to the local geomorphology, with sheltered conditions. The infaunal macrobenthic communities have been identified and characterized by species richness (S), abundance (A) and biomass (B), related to environmental factors. The spatial succession of infauna along the estuarine gradient shows the presence of an area with a much reduced fauna, and an oligobiotic area with low values of S, A and B. In these strongly stratified estuaries, concentration of organic matter and sediment can result in oxygen depletion, which is not favourable for survival of the infauna. The oligobiotic area seems to be related to the presence of the turbidity maximum, the location and importance of which are functions of river discharge and hydrodynamic mixing. The turbidity maximum which causes these conditions is shown to be at a higher salinity than has previously been described for this phenomenon, and is shown to break the spatial gradient of marine to brackish communities which has been described in larger estuaries.

Structure of Infaunal Communities on the Beaufort Sea Shelf and Slope: Insights from Morphological and Environmental DNA Sequencing Approaches

NASA Astrophysics Data System (ADS)

Hardy, S. M.; Bik, H.; Walker, A.; Sharma, J.; Blanchard, A.

2016-02-01

Rapid change is occurring in the Arctic concurrently with increased human activity, yet our knowledge of the structure and function of high-Arctic sediment communities is still rudimentary. The Beaufort Sea is particularly poorly sampled, and largely unexplored at slope depths, providing little information with which to assess the impacts of petroleum exploration activities now beginning in this area. We are investigating diversity and community structure of meio- and macrobenthic infauna on the continental shelf and slope of the Beaufort Sea across a range of depths (50 to 1000 m) using traditional taxonomic and environmental DNA sequencing approaches, and comparing results to additional sites in the adjacent NE Chukchi Sea petroleum lease-sale area. The Beaufort slope is topographically complex and characterized by an east-west gradient in benthic habitat characteristics, with heavy input of terrestrial organic matter particularly in the region of the Mackenzie River delta. Warmer, saltier subsurface Atlantic water masses impact benthic communities at mid-slope depths, likely influencing turnover in community structure observed with depth. Food resources are variable across the region, with very high sediment chlorophyll concentrations at 350 m depth in some areas. Differences in nematode assemblages were detected across the Beaufort Sea shelf/slope, across depths within the Beaufort Sea, and between the Beaufort and adjacent NE Chukchi Sea. These differences were apparent in both morphological and environmental sequencing data. Macrofaunal communities showed variable community structure among transects, with high abundance and high dominance in polychaete assemblages coincident with the chlorophyll maximum. Sequencing data also revealed an abundance of protists in sediments which have been mostly ignored in studies of ecosystem dynamics in this region, and may represent an important component of the food web.

Macrobenthic patterns at the shallow marine waters in the caldera of the active volcano of Deception Island, Antarctica

NASA Astrophysics Data System (ADS)

Angulo-Preckler, Carlos; Figuerola, Blanca; Núñez-Pons, Laura; Moles, Juan; Martín-Martín, Rafael; Rull-Lluch, Jordi; Gómez-Garreta, Amelia; Avila, Conxita

2018-04-01

Deception Island is an active volcano located at the southern end of the South Shetland Archipelago, in the Antarctic Ocean. After the last eruption in 1970, benthic recolonization took place within the bay, with echinoderms being the dominant epifauna (e.g., the ophiuroid Ophionotus victoriae, the echinoid Sterechinus neumayeri and the sea star Odontaster validus), together with dense infaunal communities (mostly composed by oligochaetes, polychaetes, and bivalves). Here, we aim to describe the actual status of the marine benthic ecosystems inhabiting the shallow subtidal areas of this volcanic island. Benthic species were qualitatively scored as presence versus absence, considering the different sampling effort between localities done over the years. A total of 139 species of macroorganisms, belonging to 16 phyla were found, including fauna and flora, increasing the species richness values previously reported in all sites surveyed within the volcano caldera. Moreover, a dramatic increase in biodiversity was found towards the entrance of the bay. We suggest, however, that recolonization from external waters may not be the only reason for this pattern. In fact, sediment flux rates and substrate instability are common disturbances within the bay, probably being among the major factors determining benthic community assemblages. These processes probably favour deposit feeding communities at the innermost locations of the bay. This study provides a remarkably increased and updated species inventory from previous reports, altogether with a description of the main communities inhabiting the bay and the abiotic factors regulating this, mainly the bottom type.

Rapid change with depth in megabenthic structure-forming communities of the Makapu'u deep-sea coral bed

NASA Astrophysics Data System (ADS)

Long, Dustin J.; Baco, Amy R.

2014-01-01

Seamounts are largely unexplored undersea mountains rising abruptly from the ocean floor, which can support an increased abundance and diversity of organisms. Deep-sea corals are important benthic structure-formers on current-swept hard substrates in these habitats. While depth is emerging as a factor structuring the fauna of seamounts on a large spatial scale, most work addressing deep-sea coral and seamount community structure has not considered the role of small-scale variation in species distributions. Video from six ROV dives over a depth range of ~320-530 m were analyzed to assess the diversity and density of benthic megafaunal invertebrates across the Makapu'u deep-sea coral bed, offshore of Oahu, Hawaii. At the same time, the physical environment along the dive track was surveyed to relate biotic patterns with abiotic variables including depth, aspect, rugosity, substrate, slope and relief to test the factors structuring community assemblages. Despite the narrow range examined, depth was found to be the strongest structuring gradient, and six unique macrobenthic communities were found, with a 93% faunal dissimilarity over the depth surveyed. Relief, rugosity and slope were also factors in the final model. Alcyonacean octocorals were the dominant macrofaunal invertebrates at all but the deepest depth zone. The commercially harvested precious coral C. secundum was the dominant species at depths 370-470 m, with a distribution that is on average deeper than similar areas. This may be artificial due to the past harvesting of this species on the shallower portion of its range. Primnoid octocorals were the most abundant octocoral family overall. This work yields new insight on the spatial ecology of seamounts, pointing out that community changes can occur over narrow depth ranges and that communities can be structured by small-scale physiography.

Biogenic reefs affect multiple components of intertidal soft-bottom benthic assemblages: the Lanice conchilega case study

NASA Astrophysics Data System (ADS)

De Smet, Bart; D'Hondt, An-Sofie; Verhelst, Pieterjan; Fournier, Jérôme; Godet, Laurent; Desroy, Nicolas; Rabaut, Marijn; Vincx, Magda; Vanaverbeke, Jan

2015-01-01

Biogenic reefs composed of the tube-building polychaete Lanice conchilega are important from a conservation point of view because they noticeably increase the biodiversity in otherwise species poor environments. However, up to now, little or no attention has been paid to the intertidal epi- and hyperbenthic communities associated with the reefs. Therefore, this is the first study which focuses on the effect of L. conchilega reefs on the entire bentho-pelagic community at two different locations. Environmental variables were measured and macro-, epi- and hyperbenthic communities were sampled within a L. conchilega reef and a control area at two locations in France: the bay of the Mont Saint-Michel (BMSM) and Boulogne-sur-Mer (Boulogne). The effect of the reef presence on the benthic community was studied with a 3-factor (Reef, Location and Period) Permanova. In addition, the relationship between the benthic community and the environmental variables was investigated using Distance-based linear models (DistLM). Most collected organisms were sampled in the reef area (macrobenthos: 91%, epibenthos: 81% and hyperbenthos: 78.5%) indicating that, independent of the location, the L. conchilega reefs positively affect all three associated benthic communities. However, the extent of the effect seems to be most pronounced for the macrobenthos and less distinct in case of the hyperbenthos. The macro-, and epibenthos are mainly structured by biotic variables (L. conchilega density and macrobenthic food availability respectively), while the hyperbenthos is rather structured by environmental variables. In general, L. conchilega reefs do not only affect abundances and diversity but they substantially steer the structure of the intertidal benthic sandy beach ecosystem.

Structuring factors and recent changes in subtidal macrozoobenthic communities of a coastal lagoon, Arcachon Bay (France)

NASA Astrophysics Data System (ADS)

Blanchet, Hugues; de Montaudouin, Xavier; Chardy, Pierre; Bachelet, Guy

2005-09-01

Fourteen years after a previous investigation in Arcachon Bay (SW France), the quantitative distribution of subtidal macrozoobenthic communities was assessed in 2002 through a stratified sampling strategy involving a larger number of stations (89 vs. 18) than in 1988. A total of 226 taxa were recorded. Cluster Analysis and Correspondence Analysis identified nine station groups corresponding to benthic faunal assemblages and their characteristic species. Multiple Discriminant Analysis showed that the main environmental factors influencing the distribution of faunal assemblages were sediment parameters and distance from the ocean. Depth was a minor structuring factor. At the scale of the lagoon, biogenic structures such as Zostera marina beds, Crepidula fornicata-dominated bottoms or dead oyster shell bottoms did not display any particular assemblage of infauna. Comparison with previous quantitative data from the 1988 survey provided more precision on the distribution of benthic assemblages and revealed community changes at a 14-year scale. These modifications reflected a general increase of silt and clay content in the sediment in the internal parts of channels, inducing community change. These changes can be correlated to the recent first signs of a moderate eutrophication process which have appeared, since 1988, through the development of green macroalgae in some parts of the lagoon. This trend was enhanced in transverse channels with reduced hydrodynamics and led to muddy areas where green macroalgae tended to accumulate. Locally, the dredging of sandbanks induced stronger currents and allowed the marine influence to occur, and also induced community change. These observations confirm that surveys of macrobenthic communities are useful tools to assess coastal ecosystem change even in moderately disturbed environments.

Size structure of marine soft-bottom macrobenthic communities across natural habitat gradients: implications for productivity and ecosystem function.

PubMed

Macdonald, Tara A; Burd, Brenda J; van Roodselaar, Albert

2012-01-01

Size distributions of biotic assemblages are important modifiers of productivity and function in marine sediments. We investigated the distribution of proportional organic biomass among logarithmic size classes (2(-6)J to 2(16)J) in the soft-bottom macrofaunal communities of the Strait of Georgia, Salish Sea on the west coast of Canada. The study examines how size structure is influenced by 3 fundamental habitat descriptors: depth, sediment percent fines, and organic flux (modified by quality). These habitat variables are uncorrelated in this hydrographically diverse area, thus we examine their effects in combination and separately. Cluster analyses and cumulative biomass size spectra reveal clear and significant responses to each separate habitat variable. When combined, habitat factors result in three distinct assemblages: (1) communities with a high proportion of biomass in small organisms, typical of shallow areas (<10 m) with coarse sediments (<10% fines) and low accumulation of organic material (<3.0 gC/m(2)/yr/δ(15)N); (2) communities with high proportion of biomass in the largest organisms found in the Strait, typical of deep, fine sediments with high modified organic flux (>3 g C/m(2)/yr/δ(15)N) from the Fraser River; and (3) communities with biomass dominated by moderately large organisms, but lacking the smallest and largest size classes, typical of deep, fine sediments experiencing low modified organic flux (<3.0 gC/m(2)/yr/δ(15)N). The remaining assemblages had intermediate habitat types and size structures. Sediment percent fines and flux appear to elicit threshold responses in size structure, whereas depth has the most linear influence on community size structure. The ecological implications of size structure in the Strait of Georgia relative to environmental conditions, secondary production and sediment bioturbation are discussed.

Size Structure of Marine Soft-Bottom Macrobenthic Communities across Natural Habitat Gradients: Implications for Productivity and Ecosystem Function

PubMed Central

Macdonald, Tara A.; Burd, Brenda J.; van Roodselaar, Albert

2012-01-01

Size distributions of biotic assemblages are important modifiers of productivity and function in marine sediments. We investigated the distribution of proportional organic biomass among logarithmic size classes (2−6J to 216J) in the soft-bottom macrofaunal communities of the Strait of Georgia, Salish Sea on the west coast of Canada. The study examines how size structure is influenced by 3 fundamental habitat descriptors: depth, sediment percent fines, and organic flux (modified by quality). These habitat variables are uncorrelated in this hydrographically diverse area, thus we examine their effects in combination and separately. Cluster analyses and cumulative biomass size spectra reveal clear and significant responses to each separate habitat variable. When combined, habitat factors result in three distinct assemblages: (1) communities with a high proportion of biomass in small organisms, typical of shallow areas (<10 m) with coarse sediments (<10% fines) and low accumulation of organic material (<3.0 gC/m2/yr/δ15N); (2) communities with high proportion of biomass in the largest organisms found in the Strait, typical of deep, fine sediments with high modified organic flux (>3 g C/m2/yr/δ15N) from the Fraser River; and (3) communities with biomass dominated by moderately large organisms, but lacking the smallest and largest size classes, typical of deep, fine sediments experiencing low modified organic flux (<3.0 gC/m2/yr/δ15N). The remaining assemblages had intermediate habitat types and size structures. Sediment percent fines and flux appear to elicit threshold responses in size structure, whereas depth has the most linear influence on community size structure. The ecological implications of size structure in the Strait of Georgia relative to environmental conditions, secondary production and sediment bioturbation are discussed. PMID:22911694

Historical changes in the structure and functioning of the benthic community in the lagoon of Venice

NASA Astrophysics Data System (ADS)

Pranovi, Fabio; Da Ponte, Filippo; Torricelli, Patrizia

2008-03-01

One of the main challenges in environmental management is how to manage the dynamics of natural environments. In this context, having information about historical changes of the structure of the biological communities could represent a useful tool to improve management strategies, contributing to refine the policy objectives, since it gives reference states with which to compare the present. The Venice lagoon represents an interesting case study, since it is a highly dynamic, but sensitive, environment which requires the adoption of prudent management. In its recent history the lagoon ecosystem has been exposed to different kinds of disturbance, from the discharge of pollutants and nutrients, to the invasion of alien species and the exploitation of its biological resources by using highly impacting fishing gears. The analysis of available data about the macro-benthic community, from 1935 to 2004, allows the description of changes of the community structure over almost 70 years, showing a sharp decrease in its diversity. In order to obtain information about its functioning, it is necessary to know how these changes have affected processes at the community and system level. In shallow water ecosystems, as the control is mainly due to the benthic compartment, variations in the structure of the benthic community can induce modifications in processes at different hierarchical levels. The trophic structure analysis has revealed major changes during the period; from a well-assorted structure in 1935, to an herbivore-detritivore dominated one in the 1990s, and finally to a filter feeder dominated structure during the last decade. This has produced variations in the secondary production and it has induced modifications in the type of the ecosystem control. These changes are discussed in the light of the dynamics of the main driving forces.

Application of a new integrated sediment quality assessment method to Huelva estuary and its littoral of influence (Southwestern Spain).

PubMed

Rosado, Daniel; Usero, José; Morillo, José

2015-09-15

A new integrated sediment quality assessment method composed of several assays (particle size profile, total metal content, protease K extraction, total organic carbon, toxicity bioassay with Photobacterium phosphoreum and macrobenthic community alteration) that provides a single result, the environmental degradation index (EDI), has been developed. The new method was tested on the Huelva estuary (southwest of Spain), a highly polluted area where metals dissolved in the water of the Tinto and Odiel rivers precipitate after flowing through the Iberian Pyrite Belt, one of the largest metallogenic areas of massive sulphide deposits in the world. The proposed method satisfactorily was able to reflect different degrees of pollution on the environmental degradation index. Thus, EDI categorized littoral samples as slightly degraded and all the Tinto and some of the Odiel as very highly degraded, emphasizing the lower zone of the Tinto estuary as the most deeply degraded of the entire study area. Copyright © 2015 Elsevier Ltd. All rights reserved.

[Ecological risk assessment of sediment pollution based on triangular fuzzy number].

PubMed

Zhou, Xiao-Wei; Wang, Li-Ping; Zheng, Bing-Hui

2008-11-01

Based on the characteristics of random and fuzziness, and the shortage and imprecision of datum information of water environmental system, environment background value of sediments and concentration of pollution is calculated by means of triangle fuzzy number and fuzzy risk assessment model of the potential ecological risk index is established. Using this method heavy metal pollution and ecological risk in the Yangtze Estuary and its adjacent waters were analyzed. The result shows that the environment of the foundation of the study area is subject to varying degrees of pollution. The pollution extents are correspondingly Cu, Hg, Zn, Pb, As, Cd. RI by that method and the Hakanson ecological risk method is in similar trend. RI of the estuary, turbidity maximum zone and Hangzhou bay is greater than that at outside of the estuary and sea area nearby Zhousan, and the potential ecological risk rate increases one. The assessment result is good in the validation based on the corresponding period macrobenthic community parameters.

Patterns in benthic populations in the Milford Haven waterway following the 'Sea Empress' oil spill with special reference to amphipods.

PubMed

Nikitik, Christopher C S; Robinson, Andrew W

2003-09-01

The macrobenthic fauna of the Milford Haven Waterway was studied in detail following the 'Sea Empress' oil spill in 1996. Contamination patterns indicated heaviest contamination of sediments by oil to have occurred in the lower reaches of the waterway, although water borne hydrocarbons are likely to have penetrated throughout the Haven. Generally, the communities showed little impact of contamination by oil, although some changes were evident at the population level. A decline in the amphipod fauna was observed throughout the Haven, with the genera Ampelisca and Harpinia and the family Isaeidae particularly affected. This was accompanied by increases in both the diversity and abundance of polychaete populations as opportunist species took advantage of the decline of the amphipod fauna. However, within five years of the spill the amphipod fauna has shown clear signs of recovery. The use of the polychaete/amphipod ratio as an indicator of oil pollution is discussed.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Not Available

Seagrass communities are a major feature of shallow marine areas throughout the world. The marine spermatophyte, Thalassia testudinum Konig, is the dominant seagrass in southeast Florida and the Florida Gulf coast. The trophic interaction between the fishes and the macrobenthic and cryptic fauna found in the area was examined. Based on digestive tract analysis, the principal interaction between the primary consumers of the study area and the higher trophic level predators was via the polychaetes and peracaridean crustaceans. The mollusks which contributed significantly to the benthic biomass were not a preferred food for the animals frequenting the study site. Themore » maximum biomass in any benthic and cryptic samples was 3.35 g dry/m/sup 2/. The majority of the fishes captured were foragers over a wide area. The main residents were the syngnathids and the goldspotted killifish, Floridichthys carpio. It was felt that the predator population was limited by the small stock of polychaetes and peracaridean crustaceans which had a maximum biomass in any one sample equivalent to 1.40 g dry/m/sup 2/.« less

DOE Office of Scientific and Technical Information (OSTI.GOV)

Brook, I.M.

Seagrass communities are a major feature of shallow marine areas throughout the world. The marine spermatophyte Thalassia testudinum is the dominant seagrass in southeast Florida and the Florida Gulf coast. The trophic interaction between the fishes and the macrobenthic and cryptic fauna found in the area was examined. Based on digestive tract analysis, the principal interaction between the primary consumers of the study area and the higher trophic level predators was via the polychaetes and peracaridean crustaceans. The mollusks which contributed significantly to the benthic biomass were not a preferred food for the animals frequenting the study site. The maximummore » mollusk biomass in any benthic and cryptic sample was 2.31 g dry/m/sup 2/. It was felt that the predator population was limited by the small stock of polychaetes and peracaridean crustaceans which had a maximum biomass in any one sample equivalent to 1.74 g dry/m/sup 2/. The majority of the fishes captured were foragers over a wide area. The main residents were the syngnathids and the gold-spotted killifish, Floridichthys carpio.« less

Do Changes in Current Flow as a Result of Arrays of Tidal Turbines Have an Effect on Benthic Communities?

PubMed

Kregting, Louise; Elsaesser, Bjoern; Kennedy, Robert; Smyth, David; O'Carroll, Jack; Savidge, Graham

2016-01-01

Arrays of tidal energy converters have the potential to provide clean renewable energy for future generations. Benthic communities may, however, be affected by changes in current speeds resulting from arrays of tidal converters located in areas characterised by strong currents. Current speed, together with bottom type and depth, strongly influence benthic community distributions; however the interaction of these factors in controlling benthic dynamics in high energy environments is poorly understood. The Strangford Lough Narrows, the location of SeaGen, the world's first single full-scale, grid-compliant tidal energy extractor, is characterised by spatially heterogenous high current flows. A hydrodynamic model was used to select a range of benthic community study sites that had median flow velocities between 1.5-2.4 m/s in a depth range of 25-30 m. 25 sites were sampled for macrobenthic community structure using drop down video survey to test the sensitivity of the distribution of benthic communities to changes in the flow field. A diverse range of species were recorded which were consistent with those for high current flow environments and corresponding to very tide-swept faunal communities in the EUNIS classification. However, over the velocity range investigated, no changes in benthic communities were observed. This suggested that the high physical disturbance associated with the high current flows in the Strangford Narrows reflected the opportunistic nature of the benthic species present with individuals being continuously and randomly affected by turbulent forces and physical damage. It is concluded that during operation, the removal of energy by marine tidal energy arrays in the far-field is unlikely to have a significant effect on benthic communities in high flow environments. The results are of major significance to developers and regulators in the tidal energy industry when considering the environmental impacts for site licences.

Do Changes in Current Flow as a Result of Arrays of Tidal Turbines Have an Effect on Benthic Communities?

PubMed Central

Kregting, Louise; Elsaesser, Bjoern; Kennedy, Robert; Smyth, David; O’Carroll, Jack; Savidge, Graham

2016-01-01

Arrays of tidal energy converters have the potential to provide clean renewable energy for future generations. Benthic communities may, however, be affected by changes in current speeds resulting from arrays of tidal converters located in areas characterised by strong currents. Current speed, together with bottom type and depth, strongly influence benthic community distributions; however the interaction of these factors in controlling benthic dynamics in high energy environments is poorly understood. The Strangford Lough Narrows, the location of SeaGen, the world’s first single full-scale, grid-compliant tidal energy extractor, is characterised by spatially heterogenous high current flows. A hydrodynamic model was used to select a range of benthic community study sites that had median flow velocities between 1.5–2.4 m/s in a depth range of 25–30 m. 25 sites were sampled for macrobenthic community structure using drop down video survey to test the sensitivity of the distribution of benthic communities to changes in the flow field. A diverse range of species were recorded which were consistent with those for high current flow environments and corresponding to very tide-swept faunal communities in the EUNIS classification. However, over the velocity range investigated, no changes in benthic communities were observed. This suggested that the high physical disturbance associated with the high current flows in the Strangford Narrows reflected the opportunistic nature of the benthic species present with individuals being continuously and randomly affected by turbulent forces and physical damage. It is concluded that during operation, the removal of energy by marine tidal energy arrays in the far-field is unlikely to have a significant effect on benthic communities in high flow environments. The results are of major significance to developers and regulators in the tidal energy industry when considering the environmental impacts for site licences. PMID:27560657

Recent changes in estuarine benthic and suprabenthic communities resulting from the development of harbour infrastructure.

PubMed

Dauvin, J C; Desroy, N; Janson, A L; Vallet, C; Duhamel, S

2006-01-01

Using a Before/During/After sampling protocol, the effects of the Le Havre harbour extension, which was started at the end of 2001, on the macrobenthic and suprabenthic communities in the eastern Bay of Seine (English Channel) were examined. As the construction phase has not yet been completed, the results presented here reflect only the data collected before and during the operations (September 2000 and 2002 for benthos sampling and March 2001, September 2001, October 2002 and March 2003 for suprabenthos sampling). Although bio-sedimentary changes did occur at the mouth of the Seine river, an analysis of benthic assemblages reveals that the dredging and construction operations do not seem to have influenced assemblage structure or the spatial distribution of organisms. Comparisons of the suprabenthic assemblages at each sampling date indicate that seasonal dynamics was mainly responsible for determining species distribution. We conclude that, 1 year into the harbour management plan, the observed changes in benthic and suprabenthic assemblage abundance do not exceed the range of spatial variability that exists naturally in the Seine estuary. Despite this compensatory actions designed to protect the aquatic habitats and to preserve a sustainable and healthy ecosystem have been added to the infrastructure development plan.

Effects of shoreline discharge of iron mine tailings on a marine soft-bottom community in northern Chile.

PubMed

Lancellotti, D A; Stotz, W B

2004-02-01

This study evaluates the magnitude and extension of the impact produced by the discharge of inert allochthonous materials, including clays and particulate iron, on macrobenthic soft-bottom assemblages in the subtidal zone of a coastal bay in north-central Chile. An average of 118 Ton h(-1) of finely divided solids were discharged into the rocky intertidal zone of the bay for a period of over 16 years, producing continuous turbidity in the water column and sedimentation in the subtidal zone. Data obtained four months before cessation of the discharge showed that the macrofauna present at 20 and 50 m depth in the bay suffered an important decrease in abundance and species richness, low diversity/high dominance, and deep changes in community structure related to the discharge. The faunal assemblages present at 110 m depth did not show effects from the discharge, suggesting that the impact was limited to the inner part of the bay. The impoverished faunal aggregates at 20 and 50 m depth showed exclusive domination by the Lumbrineris bifilaris (polychaete)-Diastylis tongoyensis (cumacean) association, representing a simple trophic guild of deposit feeders. The complete absence of opportunistic species such as capitellid, spionid, and/or cirratulid polychaetes may be associated with the turbidity and sedimentation levels in the bay.

Macrobenthos in anthropogenically influenced zones of a coralline marine protected area in the Gulf of Kachchh, India

NASA Astrophysics Data System (ADS)

Sukumaran, Soniya; Vijapure, Tejal; Mulik, Jyoti; Rokade, M. A.; Gajbhiye, S. N.

2013-02-01

The Gulf of Kachchh Marine National Park and Sanctuary (MNPS) has one of the four coral reef systems of India. However, owing to its unique geographical position, this area has been transformed into an industrial hub dominated by oil and gas production, refining and transportation facilities. This study investigates the status of macrobenthos along with associated hydro-sedimentological data at 30 stations, sampled within three industrially active zones of the MNPS. The bottom water and sediment characteristics recorded in the study area fulfil the prescribed criteria for ecosensitive zones of India, despite the various stressors operational in the region. The univariate parameters suggest a healthy macrobenthic community except for a few pockets of stressed environment. However, CCA and correlation analyses indicate that even at low levels, petroleum hydrocarbons, along with sediment texture, were influencing polychaete community structure. As this protected area is denoted a "high oil spill risk area", polychaete/amphipod ratio was employed to verify the environmental status which revealed that a major part of the study area had a good representation of oil-sensitive amphipods. The current study is the first of its kind to provide valuable baseline data of macrobenthos along with prevailing environmental conditions in this ecosensitive area.

Return to the Strangelove Ocean?: Preliminary results of carbon and oxygenisotope compositions of post-impact sediments, IODP Expedition 364 "Chicxulub Impact Crater"

NASA Astrophysics Data System (ADS)

Yamaguchi, K. E.; Ikehara, M.; Hayama, H.; Takiguchi, S.; Masuda, S.; Ogura, C.; Fujita, S.; Kurihara, E.; Matsumoto, T.; Oshio, S.; Ishihata, K.; Fuchizawa, Y.; Noda, H.; Sakurai, U.; Yamane, T.; Morgan, J. V.; Gulick, S. P. S.

2017-12-01

The Chicxulub crater in the northern Yucatan Peninsula, Mexico was formed by the asteroid impact at the Cretaceous-Paleogene boundary (66.0 Ma). In early 2016 the IODP Exp. 364 successfully drilled the materials from the topographic peak ring within the crater that was previously identified by seismological observations. A continuous core was recovered. The 112m-thick uppermost part of the continuous core (505.7-1334.7 mbsf) is post-impact sediments, including the PETM, that are mainly composed of carbonate with intercalation of siliciclastics and variable contents of organic carbon. More than 300 samples from the post-impact section were finely powdered for a variety of geochemical analysis. Here we report their carbon and oxygen isotope compositions of the carbonate fraction (mostly in the lower part of the analyzed section) and carbon and nitrogen isotope compositions of organic matter (mostly in the middle-upper part of the analyzed section). Isotope mass spectrometer Isoprime was used for the former analysis, and EA-irMS (elemental analyzer - isotope ratio mass spectrometer) was used for the latter analysis, both at CMCR, Kochi Univ. Depth profile of oxygen isotope compositions of carbonate fraction is variable and somewhat similar to those of Zachos et al. (2001; Science). Carbon isotope compositions of carbonate and organic carbon in the lower part of the analyzed section exhibit some excursions that could correspond to the hyperthemals in the early Paleogene. Their variable nitrogen isotope compositions reflect temporal changes in the style of biogeochemical cycles involving denitrification and nitrogen fixation. Coupled temporal changes in the carbon isotope compositions of organic and carbonate carbon immediately after the K-Pg boundary might support a Strangelove ocean (Kump, 1991; Geology), however high export production (Ba/Ti, nannoplankton and calcisphere blooms, high planktic foram richness, and diverse and abundant micro- and macrobenthic organisms) at the base of the Danian limestone cored during Exp. 364 contradict a Strangelove Ocean.

When time affects space: Dispersal ability and extreme weather events determine metacommunity organization in marine sediments.

PubMed

Corte, Guilherme N; Gonçalves-Souza, Thiago; Checon, Helio H; Siegle, Eduardo; Coleman, Ross A; Amaral, A Cecília Z

2018-05-01

Community ecology has traditionally assumed that the distribution of species is mainly influenced by environmental processes. There is, however, growing evidence that environmental (habitat characteristics and biotic interactions) and spatial processes (factors that affect a local assemblage regardless of environmental conditions - typically related to dispersal and movement of species) interactively shape biological assemblages. A metacommunity, which is a set of local assemblages connected by dispersal of individuals, is spatial in nature and can be used as a straightforward approach for investigating the interactive and independent effects of both environmental and spatial processes. Here, we examined (i) how environmental and spatial processes affect the metacommunity organization of marine macroinvertebrates inhabiting the intertidal sediments of a biodiverse coastal ecosystem; (ii) whether the influence of these processes is constant through time or is affected by extreme weather events (storms); and (iii) whether the relative importance of these processes depends on the dispersal abilities of organisms. We found that macrobenthic assemblages are influenced by each of environmental and spatial variables; however, spatial processes exerted a stronger role. We also found that this influence changes through time and is modified by storms. Moreover, we observed that the influence of environmental and spatial processes varies according to the dispersal capabilities of organisms. More effective dispersers (i.e., species with planktonic larvae) are more affected by spatial processes whereas environmental variables had a stronger effect on weaker dispersers (i.e. species with low motility in larval and adult stages). These findings highlight that accounting for spatial processes and differences in species life histories is essential to improve our understanding of species distribution and coexistence patterns in intertidal soft-sediments. Furthermore, it shows that storms modify the structure of coastal assemblages. Given that the influence of spatial and environmental processes is not consistent through time, it is of utmost importance that future studies replicate sampling over different periods so the influence of temporal and stochastic factors on macrobenthic metacommunities can be better understood. Copyright © 2018 Elsevier Ltd. All rights reserved.

Modelling and forecasting long-term dynamics of Western Baltic macrobenthic fauna in relation to climate signals and environmental change

NASA Astrophysics Data System (ADS)

Gröger, Joachim; Rumohr, Heye

2006-05-01

Long-term macrobenthos data from Kiel Bight in the Western Baltic collected between 1968 and 2000 have been correlated with the winter NAO index (North Atlantic Oscillation Index) and other environmental data such as temperature, salinity and oxygen content in the bottom water in order to detect systematic patterns related to so far unexplained abiotic signals in the dynamics of zoobenthic species assemblages. The benthos data come from a cluster of five stations (Süderfahrt/ Millionenviertel) in Kiel Bay. Our investigations concentrated on the macrobenthic dynamics with a focus on the number of species m - 2 (species richness). Using logarithms and the time series analysis approach of Box/Jenkins (ARIMA modelling, transfer function modelling) it was shown that species richness was strongly influenced by the winter NAO (adjusted for a linear time trend within the 1968-2000 period) and salinity (with a shift/lag of four years). Bootstrapping experiments (i.e. sampling from the error process) and analysis of prediction power (by means of the one- or more-years leaving-out method) showed that the parameter estimates behaved in a stable way, leading to a relatively robust model.

Detection of environmental impacts of shrimp farming through multiple lines of evidence.

PubMed

Hatje, Vanessa; de Souza, Manuel M; Ribeiro, Luisa F; Eça, Gilmara F; Barros, Francisco

2016-12-01

In order to evaluate the impact of semi-intensive shrimp farming, comparisons between Control and Impact areas were made based on multiple lines of evidence using an asymmetrical design. Water and sediment samples were collected in four shrimp farms located in Todos os Santos Bay, Bahia, Brazil. Nutrients, trace elements and macrobenthic assemblages were evaluated using uni- and multivariate analyzes. Significant differences were observed between Impact and Control areas for the water column dataset (i.e., ancillary variables, SPM, dissolved nutrients and major and trace elements in SPM), whereas no significant differences were observed for the chemistry of sediments. Macrobenthic assemblages were negatively affected by shrimp farm activities. Impacted sites presented the lowest abundance, richness and different structure of macrofaunal benthic assemblages. Farms clearly produced negative impacts in the Todos os Santos Bay. This conclusion was only possible to be reached through the use of multiple lines of evidence. Chemistry and benthic assemblages data combined produced a better description of the quality and impacts of the evaluated environments. Different conclusions would have been reached if chemistry and ecology results were studied separately vs. together. Copyright © 2016 Elsevier Ltd. All rights reserved.

AMBI indices and multivariate approach to assess the ecological health of Vellar-Coleroon estuarine system undergoing various human activities.

PubMed

Sigamani, Sivaraj; Perumal, Murugesan; Arumugam, Silambarasan; Preetha Mini Jose, H M; Veeraiyan, Bharathidasan

2015-11-15

Estuaries receive a considerable amount of pollutants from various sources. Presently an attempt has been made to assess whether the aquaculture discharges and dredging activities alter the ecological conditions of Vellar-Coleroon estuarine complex. The European Water Framework Directive (WFD) established a framework for the protection of marine waters. In this commission, a variety of indices were used, among them, AMBI (AZTI Marine Biotic Index) indices along with multivariate statistical approach is unique, to assess the ecological status by using macrobenthic communities. Keeping this in view, stations VE-1 and VE-4 in Vellar; CE-6 and CE-7 in Coleroon estuaries showed moderately disturbed with the AMBI values ranging between 3.45 and 3.72. The above said stations were situated near the shrimp farm discharge point and sites of dredging activities. The present study proves that various statistical and biotic indices have great potential in assessing the nature of the ecosystem undergoing various human pressures. Copyright © 2015 Elsevier Ltd. All rights reserved.

The "one-out, all-out" principle entails the risk of imposing unnecessary restoration costs: a study case in two Mediterranean coastal lakes.

PubMed

Prato, S; La Valle, P; De Luca, E; Lattanzi, L; Migliore, G; Morgana, J G; Munari, C; Nicoletti, L; Izzo, G; Mistri, M

2014-03-15

The Water Framework Directive uses the "one-out, all-out" principle in assessing water bodies (i.e., the worst status of the elements used in the assessment determines the final status of the water body). In this study, we assessed the ecological status of two coastal lakes in Italy. Indices for all biological quality elements used in transitional waters from the Italian legislation and other European countries were employed and compared. Based on our analyses, the two lakes require restoration, despite the lush harbor seagrass beds, articulated macrobenthic communities and rich fish fauna. The "one-out, all-out" principle tends to inflate Type I errors, i.e., concludes that a water body is below the "good" status even if the water body actually has a "good" status. This may cause additional restoration costs where they are not necessarily needed. The results from this study strongly support the need for alternative approaches to the "one-out, all-out" principle. Copyright © 2014 Elsevier Ltd. All rights reserved.

Effects of wave energy converters on the surrounding soft-bottom macrofauna (west coast of Sweden).

PubMed

Langhamer, O

2010-06-01

Offshore wave energy conversion is expected to develop, thus contributing to an increase in submerged constructions on the seabed. An essential concern related to the deployment of wave energy converters (WECs) is their possible impact on the surrounding soft-bottom habitats. In this study, the macrofaunal assemblages in the seabed around the wave energy converters in the Lysekil research site on the Swedish west coast and a neighbouring reference site were examined yearly during a period of 5 years (2004-2008). Macrobenthic communities living in the WECs' surrounding seabed were mainly composed by organisms typical for the area and depth off the Swedish west coast. At both sites the number of individuals, number of species and biodiversity were low, and were mostly small, juvenile organisms. The species assemblages during the first years of sampling were significantly different between the Lysekil research site and the nearby reference site with higher species abundance in the research site. The high contribution to dissimilarities was mostly due to polychaetes. Sparse macrofaunal densities can be explained by strong hydrodynamic forces and/or earlier trawling. WECs may alter the surrounding seabed with an accumulation of organic matter inside the research area. This indicates that the deployment of WECs in the Lysekil research site tends to have rather minor direct ecological impacts on the surrounding benthic community relative to the natural high variances.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Not Available

The following appendices to volume I are presented: biomass of dominant microzooplankton; biomass of zooplankton in surface waters of Jobos Bay; comparison of zooplankton caught during day and night; variations in surface temperature and salinity at collection sites; distance, depth, and temperature related to dominant vegetation and sea grass; total biomass of Thalassia testudium; photosynthetic pigment diversity; invertebrate species and frequency of occurrence; distribution of macrobenthic organisms; species found on mangrove roots; distribution of fish species; and seasonal occurrence of fish species. (HLW)

Scientific Literature Review on the Topic of Monitoring and Modeling Seabed Evolution Rates

DTIC Science & Technology

2014-11-01

measurement techniques Benthic sea-floor characterisation Coastal Mapping/LIDAR Biomass /benthic habitat Climatology XBeach Policy 1.2.2...http://ed.gdr.nrcan.gc.ca/index_e.php On online data base of “Measurements of biomass and productivity of seabed macrobenthic and megabenthic...unknown origin. At one site, long wavelength ripples are present in what is presumed to be sediment composed of broken shells , tidal velocities exceed

Relationships between meiofaunal biodiversity and prokaryotic heterotrophic production in different tropical habitats and oceanic regions.

PubMed

Pusceddu, Antonio; Gambi, Cristina; Corinaldesi, Cinzia; Scopa, Mariaspina; Danovaro, Roberto

2014-01-01

Tropical marine ecosystems are among the most diverse of the world oceans, so that assessing the linkages between biodiversity and ecosystem functions (BEF) is a crucial step to predict consequences of biodiversity loss. Most BEF studies in marine ecosystems have been carried out on macrobenthic diversity, whereas the influence of the meiofauna on ecosystem functioning has received much less attention. We compared meiofaunal and nematode biodiversity and prokaryotic heterotrophic production across seagrass, mangrove and reef sediments in the Caribbean, Celebes and Red Seas. For all variables we report the presence of differences among habitats within the same region, and among regions within the same habitat. In all regions, the richness of meiofaunal taxa in reef and seagrass sediments is higher than in mangrove sediments. The sediments of the Celebes Sea show the highest meiofaunal biodiversity. The composition of meiofaunal assemblages varies significantly among habitats in the same region. The nematode beta diversity among habitats within the same region is higher than the beta diversity among regions. Although one site per habitat was considered in each region, these results suggest that the composition of meiofaunal assemblages varies primarily among biogeographic regions, whereas the composition of nematode assemblages varies more considerably among habitats. Meiofauna and nematode biodiversity and prokaryotic heterotrophic production, even after the removal of covariate effects linked with longitude and the quantity and nutritional quality of organic matter, are positively and linearly linked both across regions and within each habitat type. Our results confirm that meiofauna and nematode biodiversity may influence benthic prokaryotic activity, which, in turn, implies that diversity loss could have negative impacts on ecosystem functioning in these systems.

The Impact of Trampling on Reef Macrobenthos in Northeastern Brazil: How Effective are Current Conservation Strategies?

NASA Astrophysics Data System (ADS)

Santos, Gleice S.; Burgos, Douglas C.; Lira, Simone M. A.; Schwamborn, Ralf

2015-10-01

Tropical reefs are used for intensive tourism in various parts of the world. However, few studies have investigated the effect of regular trampling on these fragile ecosystems. The aim of this study was to assess the effect of different conservation strategies (open access, partial protection, and total long-term closure) on intertidal reef tops in Porto de Galinhas and Tamandaré, Pernambuco State, Brazil. Analysis of the macrobenthic community was performed with photo transects and image analysis (CPCe). Twenty-seven transects were surveyed from January to August 2012, in intensively impacted (I) open-access sites, in partially protected (P) sites with occasional, illegal trampling, and in a permanently closed (C) site. In I sites, total live cover was half the cover found in adjacent P sites. The area of bare rock averaged 53.6 and 25.0 % in I and P sites, respectively. In the C site, the area of bare rock was only 19.8 %. In I and P sites, macroalgae ( Palisada perforata) were dominating, while in the C site, the zoanthid Zoanthus sociatus was most abundant. Shell-bearing vermetids ( Petaloconchus varians) and bivalves ( Isognomon bicolor) were more abundant at the C site, being possible bioindicators for areas with zero or little trampling. Twelve years of total closure produced near-pristine communities in the C site, dominated by zoanthids and fragile mollusks. This study showed that trampling has severe and long-lasting consequences for the structure of these ecosystems.

The Impact of Trampling on Reef Macrobenthos in Northeastern Brazil: How Effective are Current Conservation Strategies?

PubMed

Santos, Gleice S; Burgos, Douglas C; Lira, Simone M A; Schwamborn, Ralf

2015-10-01

Tropical reefs are used for intensive tourism in various parts of the world. However, few studies have investigated the effect of regular trampling on these fragile ecosystems. The aim of this study was to assess the effect of different conservation strategies (open access, partial protection, and total long-term closure) on intertidal reef tops in Porto de Galinhas and Tamandaré, Pernambuco State, Brazil. Analysis of the macrobenthic community was performed with photo transects and image analysis (CPCe). Twenty-seven transects were surveyed from January to August 2012, in intensively impacted (I) open-access sites, in partially protected (P) sites with occasional, illegal trampling, and in a permanently closed (C) site. In I sites, total live cover was half the cover found in adjacent P sites. The area of bare rock averaged 53.6 and 25.0% in I and P sites, respectively. In the C site, the area of bare rock was only 19.8%. In I and P sites, macroalgae (Palisada perforata) were dominating, while in the C site, the zoanthid Zoanthus sociatus was most abundant. Shell-bearing vermetids (Petaloconchus varians) and bivalves (Isognomon bicolor) were more abundant at the C site, being possible bioindicators for areas with zero or little trampling. Twelve years of total closure produced near-pristine communities in the C site, dominated by zoanthids and fragile mollusks. This study showed that trampling has severe and long-lasting consequences for the structure of these ecosystems.

Impact of intertidal oyster trestle cultivation on the Ecological Status of benthic habitats.

PubMed

Forde, James; O'Beirn, Francis X; O'Carroll, Jack Pj; Patterson, Adrian; Kennedy, Robert

2015-06-15

A considerable number of Ireland's shellfish production areas co-occur with or are adjacent to Natura 2000 sites which are protected under European legislation. To investigate the general interaction between trestle oyster cultivation and the surrounding intertidal environment, six sites were selected within designated Natura 2000 sites. At each trestle site three Treatment areas were sampled. One Treatment area corresponded to potential impacts associated with cultivation activities occurring at trestle structures (designated the Trestle Treatment) while one Treatment area corresponded to potential impacts due to cultivation activities occurring along access routes (the Access Treatment). An area not subject to any known anthropogenic activity was used as a control (the Control Treatment). Potential impacts associated with Trestle Treatment areas included changes in sediment total organic matter (TOM) levels underneath trestles due to the bio-deposition of faecal/pseudofaecal material while the predominant impact associated with Access Treatment areas was compaction of sediments due to heavy vehicle traffic. In this study, macrobenthic communities at the sites were highly variable and exhibited low levels of diversity which prevented the detection of general effects of cultivation activity on community structure, diversity and secondary production. To overcome this variability, the Infaunal Quality Index (IQI) was used to assess impacts on Ecological Status (ES) of benthic communities (sensu Water Framework Directive). Relative to Control and Trestle Treatment areas, activities occurring at Access Treatment areas had a significant negative impact on ES. This study highlights the potential of the IQI for the management of aquaculture activity and provides validation for the use of the IQI in Irish intertidal environments. This study also highlights the IQI as a potential tool for assessing the conservation status of designated habitats in Natura 2000 sites. Copyright © 2015 Elsevier Ltd. All rights reserved.

Clam dredging effects and subsequent recovery of benthic communities at different depth ranges.

PubMed

Constantino, R; Gaspar, M B; Tata-Regala, J; Carvalho, S; Cúrdia, J; Drago, T; Taborda, R; Monteiro, C C

2009-03-01

This study aimed to assess the potential effects of clam dredging and the subsequent recovery of the benthic environment. Two experimental areas located at 6 and 18m depth were established in order to analyse whether impacts and recovery of benthic environment are depth-related. Study areas were located within an area closed to dredging and two different plots were established at both depths. One of the plots was subjected to intense clam dredge-fishing, while the other was undisturbed and therefore used as control. Sampling followed a BACI design, with samples for macrobenthic, meiobenthic and sediment particle size analysis being taken by SCUBA divers from both areas before and after fishing stress. For both depths, impacts on the benthic environment were very low resulting in high recovery rates. Nevertheless, at shallower depths communities demonstrated a faster recovery. It was shown that depending on the faunal component used as a bioindicator, different results can be observed. Generally deposit-feeding organisms with scales or chitinous plates and vermiform shape (mainly crustaceans, polychaetes and ophiuroids), without external protection, were the most affected by dredging, while some polychaetes without external protection and with a carnivorous feeding mode seemed to be enhanced by fishing. The low level of perturbations induced by the dredging activities was comparable to the impact of surface waves on the bottom, as experiments were undertaken in wave-dominated environments. The coexistence of storm events during the study period proved to have similar or even more deleterious effects on the benthic environment. It appears that communities from hydrodynamic fishing grounds that are well adapted to natural physical stress are not highly affected by dredging.

Assessing the role of benthic filter feeders on phytoplankton production in a shellfish farming site: Mont Saint Michel Bay, France

NASA Astrophysics Data System (ADS)

Cugier, Philippe; Struski, Caroline; Blanchard, Michel; Mazurié, Joseph; Pouvreau, Stéphane; Olivier, Frédéric; Trigui, Jihane R.; Thiébaut, Eric

2010-07-01

The macrobenthic community of Mont Saint Michel Bay (English Channel, France) is mainly dominated by filter feeders, including cultivated species (oysters and mussels). An ecological model of the bay was developed, coupling a 2D hydro-sedimentary model and two biological models for primary production and filter-feeder filtration. The filter-feeder model includes three cultivated species ( Mytilus edulis, Crassostrea gigas and Ostrea edulis), one invasive species ( Crepidula fornicata) and eight wild native species ( Abra alba, Cerastoderma edule, Glycymeris glycymeris, Lanice conchilega, Macoma balthica, Paphia rhomboides, Sabellaria alveolata, andSpisula ovalis). For cultivated and invasive species, the production of biodeposits was computed to assess their role in restimulating primary production. Chlorophyll a concentrations appeared to be strongly controlled by the filter feeders. When the pressure of each benthic compartment on phytoplankton was estimated separately wild species and the invasive slipper limpet C.fornicata were shown to be key elements in the control of primary production. Conversely, the role of cultivated species, particularly oysters, was weaker. Feedback due to the mineralization of biodeposits also appears to be crucial to fully evaluate the role of filter feeders in primary production.

Effects of dredging operations on soft bottom macrofauna in a harbor in the Patos Lagoon estuarine region of southern Brazil.

PubMed

Bemvenuti, C E; Angonesi, L G; Gandra, M S

2005-11-01

An evaluation was made of the effects of dredging on the soft bottom community in the channel of the Rio Grande harbor in the Patos Lagoon estuarine region of southern Brazil. During four seasonal cruises, samples were collected from nine biological stations, one of which was located outside the dredged area. Three macrobenthic samples were collected on each cruise from each station, using a 0.08 m2 van Veen grab. A cluster analysis was applied to group summer and autumn cruise stations before the dredging period, revealing larger numbers of species (35-36 spp.) and higher densities of organisms. The station located outside the dredging area was always included in this group, regardless of the sampling period or conditions of salinity. Another group comprised the winter and spring stations during the dredging period. This group was characterized by stations with the fewest species (20-18 spp.) and the lowest and most variable organism densities. The efficient strategies of resilience of the dominant estuarine species may minimize the effects of dredging on the biota through the rapid recolonization of the soft bottom of the harbor channel.

Seasonal dynamics of microbial community composition and function in oak canopy and open grassland soils

USGS Publications Warehouse

Waldrop, M.P.; Firestone, M.K.

2006-01-01

Soil microbial communities are closely associated with aboveground plant communities, with multiple potential drivers of this relationship. Plants can affect available soil carbon, temperature, and water content, which each have the potential to affect microbial community composition and function. These same variables change seasonally, and thus plant control on microbial community composition may be modulated or overshadowed by annual climatic patterns. We examined microbial community composition, C cycling processes, and environmental data in California annual grassland soils from beneath oak canopies and in open grassland areas to distinguish factors controlling microbial community composition and function seasonally and in association with the two plant overstory communities. Every 3 months for up to 2 years, we monitored microbial community composition using phospholipid fatty acid (PLFA) analysis, microbial biomass, respiration rates, microbial enzyme activities, and the activity of microbial groups using isotope labeling of PLFA biomarkers (13C-PLFA) . Distinct microbial communities were associated with oak canopy soils and open grassland soils and microbial communities displayed seasonal patterns from year to year. The effects of plant species and seasonal climate on microbial community composition were similar in magnitude. In this Mediterranean ecosystem, plant control of microbial community composition was primarily due to effects on soil water content, whereas the changes in microbial community composition seasonally appeared to be due, in large part, to soil temperature. Available soil carbon was not a significant control on microbial community composition. Microbial community composition (PLFA) and 13C-PLFA ordination values were strongly related to intra-annual variability in soil enzyme activities and soil respiration, but microbial biomass was not. In this Mediterranean climate, soil microclimate appeared to be the master variable controlling microbial community composition and function. ?? 2006 Springer Science+Business Media, Inc.

Enrichment and shifts in macrobenthic assemblages in an offshore wind farm area in the Belgian part of the North Sea.

PubMed

Coates, Delphine A; Deschutter, Yana; Vincx, Magda; Vanaverbeke, Jan

2014-04-01

The growing development of offshore wind energy installations across the North Sea is producing new hard anthropogenic structures in the natural soft sediments, causing changes to the surrounding macrobenthos. The extent of modification in permeable sediments around a gravity based wind turbine in the Belgian part of the North Sea was investigated in the period 2011-2012, along four gradients (south-west, north-east, south-east, north-west). Sediment grain size significantly reduced from 427 μm at 200 m to 312 ± 3 μm at 15 m from the foundation along the south-west and north-west gradients. The organic matter content increased from 0.4 ± 0.01% at 100 m to 2.5 ± 0.9% at 15 m from the foundation. The observed changes in environmental characteristics triggered an increase in the macrobenthic density from 1390 ± 129 ind m⁻² at 200 m to 18 583 ± 6713 ind m⁻² at 15 m together with an enhanced diversity from 10 ± 2 at 200 m to 30 ± 5 species per sample at 15 m. Shifts in species dominance were also detected with a greater dominance of the ecosystem-engineer Lanice conchilega (16-25%) close to the foundation. This study suggests a viable prediction of the effects offshore wind farms could create to the naturally occurring macrobenthos on a large-scale. Copyright © 2013 Elsevier Ltd. All rights reserved.

Regional and latitudinal patterns of soft-bottom macrobenthic invertebrates along French coasts: Results from the RESOMAR database

NASA Astrophysics Data System (ADS)

Gallon, Régis K.; Lavesque, Nicolas; Grall, Jacques; Labrune, Céline; Gremare, Antoine; Bachelet, Guy; Blanchet, Hugues; Bonifácio, Paulo; Bouchet, Vincent M. P.; Dauvin, Jean-Claude; Desroy, Nicolas; Gentil, Franck; Guerin, Laurent; Houbin, Céline; Jourde, Jérôme; Laurand, Sandrine; Le Duff, Michel; Le Garrec, Vincent; de Montaudouin, Xavier; Olivier, Frédéric; Orvain, Francis; Sauriau, Pierre-Guy; Thiebaut, Éric; Gauthier, Olivier

2017-12-01

This study aims to describe the patterns of soft bottom macrozoobenthic richness along French coasts. It is based on a collaborative database developed by the "Réseau des Stations et Observatoires Marins" (RESOMAR). We investigated patterns of species richness in sublittoral soft bottom habitats (EUNIS level 3) at two different spatial scales: 1) seaboards: English Channel, Bay of Biscay and Mediterranean Sea and 2) 0.5° latitudinal and longitudinal grid. Total observed richness, rarefaction curves and three incidence-based richness estimators (Chao2, ICE and Jacknife1) were used to compare soft bottom habitats species richness in each seaboard. Overall, the Mediterranean Sea has the highest richness and despite higher sampling effort, the English Channel hosts the lowest number of species. The distribution of species occurrence within and between seaboards was assessed for each major phylum using constrained rarefaction curves. The Mediterranean Sea hosts the highest number of exclusive species. In pairwise comparisons, it also shares a lower proportion of taxa with the Bay of Biscay (34.1%) or the English Channel (27.6%) than that shared between these two seaboards (49.7%). Latitudinal species richness patterns along the Atlantic and English Channel coasts were investigated for each major phylum using partial LOESS regression controlling for sampling effort. This showed the existence of a bell-shaped latitudinal pattern, highlighting Brittany as a hotspot for macrobenthic richness at the confluence of two biogeographic provinces.

Biological control of trace metal and organometal benthic fluxes in a eutrophic lagoon (Thau Lagoon, Mediterranean Sea, France)

NASA Astrophysics Data System (ADS)

Point, D.; Monperrus, M.; Tessier, E.; Amouroux, D.; Chauvaud, L.; Thouzeau, G.; Jean, F.; Amice, E.; Grall, J.; Leynaert, A.; Clavier, J.; Donard, O. F. X.

2007-04-01

In situ benthic chamber experiments were conducted in the Thau Lagoon that allowed the simultaneous determination of the benthic exchanges of trace metals (Cd, Co, Cu, Mn, Pb and U) and mercury species (iHg and MMHg). Fluxes of organotin compounds (MBT, DBT and TBT) were also investigated for the first time. The benthic incubations were performed during two campaigns at four stations that presented different macrobenthic and macrophytic species distribution and abundance (see [Thouzeau, G., Grall, J., Clavier, J., Chauvaud, L., Jean, F., Leynaert, A., Longpuirt, S., Amice, E., Amouroux, D., 2007. Spatial and temporal variability of benthic biogeochemical fluxes associated with macrophytic and macrofaunal distributions in the Thau lagoon (France). Estuarine, Coastal and Shelf Science 72 (3), 432 446.]). The results indicate that most of the flux intensity as well as the temporal and spatial variability can be explained by the combined influence of microscale and macroscale processes. Microscale changes were identified using Mn flux as a good indicator of the redox conditions at the sediment water interface, and by extension, as an accurate proxy of benthic fluxes for most trace metals and mercury species. We also observed that the redox gradient at the interface is promoted by both microbial and macrobenthic species activity that governs O2 budgets. Macroscale processes have been investigated considering macrobenthic organisms activity (macrofauna and macroalgal cover). The density of such macroorganisms is able to explain most of the spatial and temporal variability of the benthic metal fluxes within a specific site. A tentative estimation of the flux of metals and organometals associated with deposit feeder and suspension feeder activity was found to be in the range of the flux determined within the chambers for most considered elements. Furthermore, a light/dark incubation investigating a dense macroalgal cover present at the sediment surface illustrates the role of photosynthetic activity in controlling benthic exchanges. Significant changes in benthic flux intensity and/or direction were reported for all redox sensitive elements (Cd, Co, Cu, Mn, Pb, U, and iHg). For MMHg and organotin species, other complimentary processes such as photodegradation/uptake and hydrophobic absorption/desorption need to be considered. This work demonstrates that the processes governing benthic exchanges are complex and that benthic organisms play a major role in the significant seasonal, diurnal and spatial variability of trace metals and organometals benthic fluxes in the lagoon.

Saugus River and Tributaries, Lynn Malden, Revere and Saugus, Massachusetts. Flood Damage Reduction. Volume 8. Appendix K. Environmental

DTIC Science & Technology

1989-06-01

K10 Summary of Soil Analyses for the Salt Marsh Transects K32 KI1 Plant Community Composition Data Along Compartment K33 B Transect K12 Plant...Community Composition Data Along Compartment K33 I Transect K13 Plant Community Composition Data Along Compartment K33 K1 Transect K14 Plant Community... Composition Data Along Compartment K34 K3 Transect K15 Plant Community Composition Data Along Compartment K34 L2 Transect K16 Plant Community Composition

Interspecific Relationships in Benthic Assemblages of a Large Lowland River : Co-existence or Competition as a Result of Habitat Characteristics

NASA Astrophysics Data System (ADS)

Akopian, M.; Usseglio-Polatera, P.

2005-05-01

Macrobenthic assemblages of the lower, regulated and canalized Marne River (France) are dominated by several "exotic", recently introduced species. Arrival, installation and spread of such alien species were certainly promoted by (1) the close connection between French and other European river systems (Rhine, Danube), (2) the modification of natural river flow and benthic habitats. Both habitat characteristics (e.g. granulometric composition, organic content) and corresponding benthic assemblage structure were analysed to identify the substrate affinity of major taxa in the lower Marne River. The main aim of the study was to evaluate the possible biotic interactions (i.e. competition for food and/or space) among dominant taxa as function of habitat features and to predict the future development of newly established species, already known as potential invaders: Corbicula fluminea (Bivalvia), Hypania invalida (Polychaeta), Chelicorophium curvispinum (Amphipoda), etc. Most of the newly established species, coming from the same biogeographical area ("invasional meltdown" hypothesis?), are eurytopic, with high fecundity and large food spectrum. First results demonstrated the co-existence of such species in the Marne River. But the future ecological importance of these organisms in benthic assemblages of the river depends on their present population size, population dynamics, and ability to colonize bottom substrates.

Chemosynthetic bacteria found in bivalve species from mud volcanoes of the Gulf of Cadiz.

PubMed

Rodrigues, Clara F; Webster, Gordon; Cunha, Marina R; Duperron, Sébastien; Weightman, Andrew J

2010-09-01

As in other cold seeps, the dominant bivalves in mud volcanoes (MV) from the Gulf of Cadiz are macrofauna belonging to the families Solemyidae (Acharax sp., Petrasma sp.), Lucinidae (Lucinoma sp.), Thyasiridae (Thyasira vulcolutre) and Mytilidae (Bathymodiolus mauritanicus). The delta(13)C values measured in solemyid, lucinid and thyasirid specimens support the hypothesis of thiotrophic nutrition, whereas isotopic signatures of B. mauritanicus suggest methanotrophic nutrition. The indication by stable isotope analysis that chemosynthetic bacteria make a substantial contribution to the nutrition of the bivalves led us to investigate their associated bacteria and their phylogenetic relationships based on comparative 16S rRNA gene sequence analysis. PCR-denaturing gradient gel electrophoresis analysis and cloning of bacterial 16S rRNA-encoding genes confirmed the presence of sulfide-oxidizing symbionts within gill tissues of many of the studied specimens. Phylogenetic analysis of bacterial 16S rRNA gene sequences demonstrated that most bacteria were related to known sulfide-oxidizing endosymbionts found in other deep-sea chemosynthetic environments, with the co-occurrence of methane-oxidizing symbionts in Bathymodiolus specimens. This study confirms the presence of several chemosynthetic bivalves in the Gulf of Cadiz and further highlights the importance of sulfide- and methane-oxidizing symbionts in the trophic ecology of macrobenthic communities in MV.

Fire severity mediates climate-driven shifts in understorey community composition of black spruce stands of interior Alaska

Treesearch

Emily L. Bernhardt; Teresa N. Hollingsworth; F. Stuart Chapin

2011-01-01

Question: How do pre-fire conditions (community composition and environmental characteristics) and climate-driven disturbance characteristics (fire severity) affect post-fire community composition in black spruce stands? Location: Northern boreal forest, interior Alaska. Methods: We compared plant community composition and environmental stand characteristics in 14...

The interacting roles of climate, soils, and plant production on soil microbial communities at a continental scale

USGS Publications Warehouse

Waldrop, Mark P.; Holloway, JoAnn M.; Smith, David; Goldhaber, Martin B.; Drenovsky, R.E.; Scow, K.M.; Dick, R.; Howard, Daniel M.; Wylie, Bruce K.; Grace, James B.

2017-01-01

Soil microbial communities control critical ecosystem processes such as decomposition, nutrient cycling, and soil organic matter formation. Continental scale patterns in the composition and functioning of microbial communities are related to climatic, biotic, and edaphic factors such as temperature and precipitation, plant community composition, and soil carbon, nitrogen, and pH. Although these relationships have been well explored individually, the examination of the factors that may act directly on microbial communities vs. those that may act indirectly through other ecosystem properties has not been well developed. To further such understanding, we utilized structural equation modeling (SEM) to evaluate a set of hypotheses about the direct and indirect effects of climatic, biotic, and edaphic variables on microbial communities across the continental United States. The primary goals of this work were to test our current understanding of the interactions among climate, soils, and plants in affecting microbial community composition, and to examine whether variation in the composition of the microbial community affects potential rates of soil enzymatic activities. A model of interacting factors created through SEM shows several expected patterns. Distal factors such as climate had indirect effects on microbial communities by influencing plant productivity, soil mineralogy, and soil pH, but factors related to soil organic matter chemistry had the most direct influence on community composition. We observed that both plant productivity and soil mineral composition were important indirect influences on community composition at the continental scale, both interacting to affect organic matter content and microbial biomass and ultimately community composition. Although soil hydrolytic enzymes were related to the moisture regime and soil carbon, oxidative enzymes were also affected by community composition, reflected in the abundance of soil fungi. These results highlight that soil microbial communities can be modeled within the context of multiple interacting ecosystem properties acting both directly and indirectly on their composition and function, and this provides a rich and informative context with which to examine communities. This work also highlights that variation in climate, microbial biomass, and microbial community composition can affect maximum rates of soil enzyme activities, potentially influencing rates of decomposition and nutrient mineralization in soils.

Temporal changes in randomness of bird communities across Central Europe.

PubMed

Renner, Swen C; Gossner, Martin M; Kahl, Tiemo; Kalko, Elisabeth K V; Weisser, Wolfgang W; Fischer, Markus; Allan, Eric

2014-01-01

Many studies have examined whether communities are structured by random or deterministic processes, and both are likely to play a role, but relatively few studies have attempted to quantify the degree of randomness in species composition. We quantified, for the first time, the degree of randomness in forest bird communities based on an analysis of spatial autocorrelation in three regions of Germany. The compositional dissimilarity between pairs of forest patches was regressed against the distance between them. We then calculated the y-intercept of the curve, i.e. the 'nugget', which represents the compositional dissimilarity at zero spatial distance. We therefore assume, following similar work on plant communities, that this represents the degree of randomness in species composition. We then analysed how the degree of randomness in community composition varied over time and with forest management intensity, which we expected to reduce the importance of random processes by increasing the strength of environmental drivers. We found that a high portion of the bird community composition could be explained by chance (overall mean of 0.63), implying that most of the variation in local bird community composition is driven by stochastic processes. Forest management intensity did not consistently affect the mean degree of randomness in community composition, perhaps because the bird communities were relatively insensitive to management intensity. We found a high temporal variation in the degree of randomness, which may indicate temporal variation in assembly processes and in the importance of key environmental drivers. We conclude that the degree of randomness in community composition should be considered in bird community studies, and the high values we find may indicate that bird community composition is relatively hard to predict at the regional scale.

Recovery of lotic macroinvertebrate communities from disturbance

NASA Astrophysics Data System (ADS)

Wallace, J. Bruce

1990-09-01

Ecosystem disturbances produce changes in macrobenthic community structure (abundances, biomass, and production) that persist for a few weeks to many decades. Examples of disturbances with extremely long-term effects on benthic communities include contamination by persistent toxic agents, physical changes in habitats, and altered energy inputs. Stream size, retention, and local geomorphology may ameliorate the influence of disturbances on invertebrates. Disturbances can alter food webs and may select for favorable genotypes (e.g., insecticidal resistance). Introductions of pesticides into lotic ecosystems, which do not result in major physical changes within habitats, illustrate several factors that influence invertebrate recovery time from disturbance. These include: (1) magnitude of original contamination, toxicity, and extent of continued use; (2) spatial scale of the disturbance; (3) persistence of the pesticide; (4) timing of the contamination in relation to the life history stages of the organisms; (5) vagility of populations influenced by pesticides; and (6) position within the drainage network. The ability of macroinvertebrates to recolonize denuded stream habitats may vary greatly depending on regional life histories, dispersal abilities, and position within the stream network (e.g., headwaters vs larger rivers). Although downstream drift is the most frequently cited mechanism of invertebrate recolonization following disturbance in middle- and larger-order streams, evidence is presented that shows aerial recolonization to be potentially important in headwater streams. There is an apparent stochastic element operating for aerial recolonization, depending on the timing of disturbance and flight periods of various taxa. Available evidence indicates that recolonization of invertebrate taxa without an aerial adult stage requires longer periods of time than for those that possess winged, terrestrial adult stages (i.e., most insects). Innovative, manipulative experiments are needed in order to address recolonization mechanisms of animals inhabiting streams that differ in size, latitude, disturbance frequency and magnitude, as well as the potential influence of early colonists on successional sequences of species following disturbance.

Characterizing fish community diversity across Virginia landscapes: Prerequisite for conservation

USGS Publications Warehouse

Angermeier, P.L.; Winston, M.R.

1999-01-01

The number of community types occurring within landscapes is an important, but often unprotected, component of biological diversity. Generally applicable protocols for characterizing community diversity need to be developed to facilitate conservation. We used several multivariate techniques to analyze geographic variation in the composition of fish communities in Virginia streams. We examined relationships between community composition and six landscape variables: drainage basin, physiography, stream order, elevation, channel slope, and map coordinates. We compared patterns at two scales (statewide and subdrainage-specific) to assess sensitivity of community classification to spatial scale. We also compared patterns based on characterizing communities by species composition vs. ecological composition. All landscape variables explained significant proportions of the variance in community composition. Statewide, they explained 32% of the variance in species composition and 48% of the variance in ecological composition. Typical communities in each drainage or physiography were statistically distinctive. Communities in different combinations of drainage, physiography, and stream size were even more distinctive, but composition was strongly spatially autocorrelated. Ecological similarity and species similarity of community pairs were strongly related, but replacement by ecologically similar species was common among drainage-physiography combinations. Landscape variables explained significant proportions of variance in community composition within selected subdrainages, but proportions were less than at the statewide scale, and the explanatory power of individual variables varied considerably among subdrainages. Community variation within subdrainages appeared to be much more closely related to environmental variation than to replacement among ecologically similar species. Our results suggest that taxonomic and ecological characterizations of community composition are complementary; both are useful in a conservation context. Landscape features such as drainage, physiography, and water body size generally may provide a basis for assessing aquatic community diversity, especially in regions where the biota is poorly known. Systematic conservation of community types would be a major advance relative to most current conservation programs, which typically focus narrowly on populations of imperiled species. More effective conservation of aquatic biodiversity will require new approaches that recognize the value of both species and assemblages, and that emphasize protection of key landscape-scale processes.

Effects of sub-seabed CO2 leakage: Short- and medium-term responses of benthic macrofaunal assemblages.

PubMed

Amaro, T; Bertocci, I; Queiros, A M; Rastelli, E; Borgersen, G; Brkljacic, M; Nunes, J; Sorensen, K; Danovaro, R; Widdicombe, S

2018-03-01

The continued rise in atmospheric carbon dioxide (CO 2 ) levels is driving climate change and temperature shifts at a global scale. CO 2 Capture and Storage (CCS) technologies have been suggested as a feasible option for reducing CO 2 emissions and mitigating their effects. However, before CCS can be employed at an industrial scale, any environmental risks associated with this activity should be identified and quantified. Significant leakage of CO 2 from CCS reservoirs and pipelines is considered to be unlikely, however direct and/or indirect effects of CO 2 leakage on marine life and ecosystem functioning must be assessed, with particular consideration given to spatial (e.g. distance from the source) and temporal (e.g. duration) scales at which leakage impacts could occur. In the current mesocosm experiment we tested the potential effects of CO 2 leakage on macrobenthic assemblages by exposing infaunal sediment communities to different levels of CO 2 concentration (400, 1000, 2000, 10,000 and 20,000 ppm CO 2 ), simulating a gradient of distance from a hypothetic leakage, over short-term (a few weeks) and medium-term (several months). A significant impact on community structure, abundance and species richness of macrofauna was observed in the short-term exposure. Individual taxa showed idiosyncratic responses to acidification. We conclude that the main impact of CO 2 leakage on macrofaunal assemblages occurs almost exclusively at the higher CO 2 concentration and over short time periods, tending to fade and disappear at increasing distance and exposure time. Although under the cautious perspective required by the possible context-dependency of the present findings, this study contributes to the cost-benefit analysis (environmental risk versus the achievement of the intended objectives) of CCS strategies. Copyright © 2018. Published by Elsevier Ltd.

Pyridine-type alkaloid composition affects bacterial community composition of floral nectar

PubMed Central

Aizenberg-Gershtein, Yana; Izhaki, Ido; Santhanam, Rakesh; Kumar, Pavan; Baldwin, Ian T.; Halpern, Malka

2015-01-01

Pyridine-type alkaloids are most common in Nicotiana species. To study the effect of alkaloid composition on bacterial community composition in floral nectar, we compared the nicotine-rich wild type (WT) N. attenuata, the nicotine biosynthesis-silenced N. attenuata that was rich in anatabine and the anabasine-rich WT N. glauca plants. We found that the composition of these secondary metabolites in the floral nectar drastically affected the bacterial community richness, diversity and composition. Significant differences were found between the bacterial community compositions in the nectar of the three plants with a much greater species richness and diversity in the nectar from the transgenic plant. The highest community composition similarity index was detected between the two wild type plants. The different microbiome composition and diversity, caused by the different pyridine-type alkaloid composition, could modify the nutritional content of the nectar and consequently, may contribute to the change in the nectar consumption and visitation. These may indirectly have an effect on plant fitness. PMID:26122961

Pyridine-type alkaloid composition affects bacterial community composition of floral nectar.

PubMed

Aizenberg-Gershtein, Yana; Izhaki, Ido; Santhanam, Rakesh; Kumar, Pavan; Baldwin, Ian T; Halpern, Malka

2015-06-30

Pyridine-type alkaloids are most common in Nicotiana species. To study the effect of alkaloid composition on bacterial community composition in floral nectar, we compared the nicotine-rich wild type (WT) N. attenuata, the nicotine biosynthesis-silenced N. attenuata that was rich in anatabine and the anabasine-rich WT N. glauca plants. We found that the composition of these secondary metabolites in the floral nectar drastically affected the bacterial community richness, diversity and composition. Significant differences were found between the bacterial community compositions in the nectar of the three plants with a much greater species richness and diversity in the nectar from the transgenic plant. The highest community composition similarity index was detected between the two wild type plants. The different microbiome composition and diversity, caused by the different pyridine-type alkaloid composition, could modify the nutritional content of the nectar and consequently, may contribute to the change in the nectar consumption and visitation. These may indirectly have an effect on plant fitness.

Community size and composition of ammonia oxidizers and denitrifiers in an alluvial intertidal wetland ecosystem

PubMed Central

Hu, Ziye; Meng, Han; Shi, Jin-Huan; Bu, Nai-Shun; Fang, Chang-Ming; Quan, Zhe-Xue

2014-01-01

Global nitrogen cycling is mainly mediated by the activity of microorganisms. Nitrogen cycle processes are mediated by functional groups of microorganisms that are affected by constantly changing environmental conditions and substrate availability. In this study, we investigated the temporal and spatial patterns of nitrifier and denitrifier communities in an intertidal wetland. Soil samples were collected over four distinct seasons from three locations with different vegetative cover. Multiple environmental factors and process rates were measured and analyzed together with the community size and composition profiles. We observed that the community size and composition of the nitrifiers and denitrifiers are affected significantly by seasonal factors, while vegetative cover affected the community composition. The seasonal impacts on the community size of ammonia oxidizing archaea (AOA) are much higher than that of ammonia oxidizing bacteria (AOB). The seasonal change was a more important indicator for AOA community composition patterns, while vegetation was more important for the AOB community patterns. The microbial process rates were correlated with both the community size and composition. PMID:25101072

Effects of Soil Organic Matter Properties and Microbial Community Composition on Enzyme Activities in Cryoturbated Arctic Soils

PubMed Central

Schnecker, Jörg; Wild, Birgit; Hofhansl, Florian; Eloy Alves, Ricardo J.; Bárta, Jiří; Čapek, Petr; Fuchslueger, Lucia; Gentsch, Norman; Gittel, Antje; Guggenberger, Georg; Hofer, Angelika; Kienzl, Sandra; Knoltsch, Anna; Lashchinskiy, Nikolay; Mikutta, Robert; Šantrůčková, Hana; Shibistova, Olga; Takriti, Mounir; Urich, Tim; Weltin, Georg; Richter, Andreas

2014-01-01

Enzyme-mediated decomposition of soil organic matter (SOM) is controlled, amongst other factors, by organic matter properties and by the microbial decomposer community present. Since microbial community composition and SOM properties are often interrelated and both change with soil depth, the drivers of enzymatic decomposition are hard to dissect. We investigated soils from three regions in the Siberian Arctic, where carbon rich topsoil material has been incorporated into the subsoil (cryoturbation). We took advantage of this subduction to test if SOM properties shape microbial community composition, and to identify controls of both on enzyme activities. We found that microbial community composition (estimated by phospholipid fatty acid analysis), was similar in cryoturbated material and in surrounding subsoil, although carbon and nitrogen contents were similar in cryoturbated material and topsoils. This suggests that the microbial community in cryoturbated material was not well adapted to SOM properties. We also measured three potential enzyme activities (cellobiohydrolase, leucine-amino-peptidase and phenoloxidase) and used structural equation models (SEMs) to identify direct and indirect drivers of the three enzyme activities. The models included microbial community composition, carbon and nitrogen contents, clay content, water content, and pH. Models for regular horizons, excluding cryoturbated material, showed that all enzyme activities were mainly controlled by carbon or nitrogen. Microbial community composition had no effect. In contrast, models for cryoturbated material showed that enzyme activities were also related to microbial community composition. The additional control of microbial community composition could have restrained enzyme activities and furthermore decomposition in general. The functional decoupling of SOM properties and microbial community composition might thus be one of the reasons for low decomposition rates and the persistence of 400 Gt carbon stored in cryoturbated material. PMID:24705618

Differential responses of soil bacteria, fungi, archaea and protists to plant species richness and plant functional group identity.

PubMed

Dassen, Sigrid; Cortois, Roeland; Martens, Henk; de Hollander, Mattias; Kowalchuk, George A; van der Putten, Wim H; De Deyn, Gerlinde B

2017-08-01

Plants are known to influence belowground microbial community structure along their roots, but the impacts of plant species richness and plant functional group (FG) identity on microbial communities in the bulk soil are still not well understood. Here, we used 454-pyrosequencing to analyse the soil microbial community composition in a long-term biodiversity experiment at Jena, Germany. We examined responses of bacteria, fungi, archaea, and protists to plant species richness (communities varying from 1 to 60 sown species) and plant FG identity (grasses, legumes, small herbs, tall herbs) in bulk soil. We hypothesized that plant species richness and FG identity would alter microbial community composition and have a positive impact on microbial species richness. Plant species richness had a marginal positive effect on the richness of fungi, but we observed no such effect on bacteria, archaea and protists. Plant species richness also did not have a large impact on microbial community composition. Rather, abiotic soil properties partially explained the community composition of bacteria, fungi, arbuscular mycorrhizal fungi (AMF), archaea and protists. Plant FG richness did not impact microbial community composition; however, plant FG identity was more effective. Bacterial richness was highest in legume plots and lowest in small herb plots, and AMF and archaeal community composition in legume plant communities was distinct from that in communities composed of other plant FGs. We conclude that soil microbial community composition in bulk soil is influenced more by changes in plant FG composition and abiotic soil properties, than by changes in plant species richness per se. © 2017 The Authors. Molecular Ecology Published by John Wiley & Sons Ltd.

Bacterial and fungal communities and contribution of physicochemical factors during cattle farm waste composting.

PubMed

Huhe; Jiang, Chao; Wu, Yanpei; Cheng, Yunxiang

2017-12-01

During composting, the composition of microbial communities is subject to constant change owing to interactions with fluctuating physicochemical parameters. This study explored the changes in bacterial and fungal communities during cattle farm waste composting and aimed to identify and prioritize the contributing physicochemical factors. Microbial community compositions were determined by high-throughput sequencing. While the predominant phyla in the bacterial and fungal communities were largely consistent during the composting, differences in relative abundances were observed. Bacterial and fungal community diversity and relative abundance varied significantly, and inversely, over time. Relationships between physicochemical factors and microbial community compositions were evaluated by redundancy analysis. The variation in bacterial community composition was significantly related to water-soluble organic carbon (WSOC), and pile temperature and moisture (p < .05), while the largest portions of variation in fungal community composition were explained by pile temperature, WSOC, and C/N (p < .05). These findings indicated that those parameters are the most likely ones to influence, or be influenced by the bacterial and fungal communities. Variation partitioning analyses indicated that WSOC and pile temperature had predominant effects on bacterial and fungal community composition, respectively. Our findings will be useful for improving the quality of cattle farm waste composts. © 2017 The Authors. MicrobiologyOpen published by John Wiley & Sons Ltd.

Chronic effect of cadmium in sediments on colonization by benthic marine organisms: An evaluation of the role of interstitial cadmium and acid-volatile sulfide in biological availability

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hansen, D.J.; Berry, W.J.; Benyi, S.J.

1996-12-01

The role of interstitial cadmium and acid-volatile sulfide (AVS) in controlling the bioavailability of sediment-associated metal was examined using the chronic saltwater benthic colonization test. Sediments were spiked to achieve nominal cadmium/AVS molar ratios of 0.0 (control), 0.1, 0.8, and 3.0 in this 118-d test. Oxidation of AVS in the surficial 2.4 cm within 2 to 4 weeks resulted in sulfide profiles similar to those occurring naturally in local sediments. In the nominal 0.1 cadmium/AVS treatment measured simultaneously extracted metal (SEM{sub Cd}) was always less than AVS. Interstitial cadmium concentrations were less than those likely to cause biological effects. Nomore » significant biological effects were detected. In the nominal 0.8 cadmium/AVS treatment, measured SEM{sub Cd} commonly exceeded AVS in the surficial 2.4 cm of sediment. Interstitial cadmium concentrations were of likely toxicological significance to highly sensitive species. Shifts in the presence or absence over all taxa, and fewer macrobenthic polychaetes (Mediomastus ambiseta, Streblospio benedicti, and Podarke obscurea) and unidentified meiofaunal nematodes, were observed. In the nominal 3.0 cadmium/AVS treatment, concentrations of SEM{sub Cd} were always greater than AVS throughout the sediment column. Interstitial cadmium ranged from 28,000 to 174,000 {micro}g/L. In addition to the effects above, the sediments were colonized by fewer macrobenthic species, polychaete species, and harpacticoids; had lower densities of diatoms; lacked bivalve molluscs; and exhibited other impacts. Over all treatments, the observed biological responses were consistent with SEM{sub Cd}/AVS ratios in surficial sediments and interstitial water cadmium concentrations.« less

Effect of cadmium in sediments on colonization by benthic marine organisms: Role of interstitial cadmium and acid volatile sulfide in bioavailability

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hansen, D.; Berry, W.; Benyi, S.

1995-12-31

The role of interstitial cadmium and acid volatile sulfide (AVS) in controlling the bioavailability of sediment-associated metal was examined using the chronic saltwater benthic colonization test. Sediments were spiked with cadmium to achieve simultaneously extracted metal (SEM)/AVS molar ratios of 0. 0 (control), 0.1, 0.8 and 3.0 in this 118-day test. Oxidation of AVS in the surficial 2.4 cm within two to four weeks resulted in sulfide profiles similar to those occurring naturally in local sediments. In the nominal 0.1 SEM/AVS treatment, measured SEM was always less than AVS. Interstitial cadmium concentrations (< 3--10 {micro}g/L) were below those likely tomore » cause biological effects. No significant biological effects were detected. In the nominal 0.8 SEM/AVS treatment, measured SEM commonly exceeded AVS in the surficial 2.4 cm of sediment. Interstitial cadmium concentrations (24--157 {micro}g/L) were likely of toxicological significance to sensitive species. Shifts were observed in presence/absence of species, and there were fewer macrobenthic polychaetes (Mediomastus ambiseta, Strebloapio benedicti and Podarke obscura) and unidentified meiofaunal nematodes. In the nominal 3.0 SEM/AVS treatment, concentrations of SEM were always greater than AVS throughout the sediment column. Interstitial cadmium ranged from 28,000 to 174,000 {micro}g/L. In addition to the effects above, these sediments were colonized by fewer macrobenthic species, polychaete species and harpacticoids; had lower densities of diatoms; lacked bivalve molluscs and exhibited other impacts. The observed biological responses were consistent with measured SEM/AVS ratios in surficial sediments and interstitial water cadmium concentrations, further supporting their utility in predicting metals bioavailability.« less

Response of soft-bottom macrobenthic assemblages to artisanal trawling fisheries in a subtropical estuary

NASA Astrophysics Data System (ADS)

Ortega, Ileana; Colling, Leonir André; Dumont, Luiz Felipe Cestari

2018-07-01

Bottom trawling is one of the most harmful and widespread activities affecting benthic habitats and fauna. In this study, we analyzed the impact of shrimp trawling fisheries on the densities, assemblage structure and vertical stratification of the benthic macrofauna in shallow mudflats of the Patos Lagoon Estuary (Brazil). Experimental trawls of different intensities were performed during three shrimp fishing seasons (2015-2017), comparing macrofauna among before and after trawling, and a control zone. The changes in macrofaunal assemblages were more consistently related to natural variability than to trawling impact, being mostly influenced by sediment structure and salinity variation. The trawling impact was mainly detected in the area with higher percentages of fine sediments, with different macrofaunal responses in each month and stratum. Some non-significant decreases on total densities after trawling were observed, mainly on the superficial stratum, and signs of burial activities. The response to trawling disturbance of each species was different and it highly depended on their natural variability. Only five species showed significant variation to the trawling treatment (Erodona mactroides, Heleobia australis, H. charruana, Heteromastus similis and Laeonereis acuta), with temporally different responses. Decreasing densities were more related to the high impact treatment. In some seasons, decreases on the abundance of Monokalliapseudes schubarti after high impact trawls were up to 60% of the seasonal mean densities. Trawling fisheries may reduce macrobenthic densities but not their vertical stratification. The impact of trawling on key species may compromise the ecosystem function, as benthic macrofauna provide food sources for many aquatic resources. This study highlights trawling impacts in an estuarine nursery area, which should be fully considered since they may be reflected in the trophic webs.

Macrobenthic molluscs from a marine - lagoonal environmental transition in Lesvos Island (Greece).

PubMed

Evagelopoulos, Athanasios; Koutsoubas, Drosos; Gerovasileiou, Vasilis; Katsiaras, Nikolaos

2016-01-01

This paper describes an occurence dataset, also including numerical abundance and biomass data, pertaining to the macrobenthic molluscan assemblages from a marine - lagoonal environmental transition. The study system was the soft-substrate benthoscape of the area of the Kalloni solar saltworks (Lesvos Island, Greece). Specifically, the study area extended from the infralittoral zone of the inner Kalloni Gulf (marine habitat) to the bottoms of the first two evaporation ponds of the Kalloni solar saltworks (lagoonal habitat). Bottom sediment samples (3 replicates) were collected with a Van Veen grab sampler (0.1 m 2 ) at four sampling sites, along a 1.5 km long line transect that spanned the marine - lagoonal environmental transition. A total of four surveys were carried out seasonally in 2004.  A total of 39,345 molluscan individuals were sorted out of the sediment samples and were identified to 71 species, belonging to the Gastropoda (36), Bivalvia (34) and Scaphopoda (1) classes. Numerical abundance and wet biomass (with shells) data are included in the dataset. The dataset described in the present paper partially fills a significant gap in the scientific literature: Because ecological research of coastal lagoons has seldom explicitly considered the marine - lagoonal habitats interface, there are no openly accessible datasets pertaining to the particular structural component of the transitional waters benthoscapes of the Mediterranean Sea. Such datasets could prove valuable in the research of the structure and functioning of transitional waters benthoscapes. The present dataset is available as a supplementary file (Suppl. material 1) and can also be accessed at http://ipt.medobis.eu/resource?r=kalloni_saltworks_phd.

Stratigraphic Paleobiology of the Taranto Area

NASA Astrophysics Data System (ADS)

Scarponi, Daniele; Angeletti, Lorenzo; Taviani, Marco; Huntley, John Warren; Amorosi, Alessandro; Negri, Alessandra; Battista Vai, Gian

2015-04-01

The area surrounding Taranto, Italy is chronostratigraphically very important, as it is one of the few areas in the world where Upper Pleistocene marine successions are well exposed, easily accessible, and relatively thick. Several outcrops in this area were investigated as suitable marine sections for defining the Late Pleistocene GSSP. At these locations, the late Pleistocene bathymetric history of the Taranto area was depicted using macrobenthic assemblages from a network of outcrops and cores. Outcrops at Pontile, Fronte, and Garitta, along with two cores drilled at Cimino and Cantoro were densely sampled to conduct quantitatively-derived paleobathymetric reconstructions. These deposits yielded relatively diverse mollusk associations (> 250 species and > 9.000 specimens distributed among 55 samples), dominated by extant mollusk species of known bathymetric distribution. Multiple analytical approaches were applied to the macrobenthic dataset in a comparative fashion: (i) direct calibration by weighted averaging of taxa with known preferred depth recovered in a sample, (ii) posteriori-calibrated ordination (DCA) using bathymetric data of key extant taxa. These analyses were conducted at both species and genus level. Regardless of the choice of the analytical method, mollusk assemblages yielded bathymetric trends congruent with previous qualitative and semi-quantitative paleoecological and stratigraphic analyses: the bathymetric range of sampled deposits is bracketed between 140 and 0 meters. Secondly, macrobenthos-derived proxies provided an improved characterization of the marine deposits in terms of sample bathymetry and by discriminating shallowing-upward (regressive) trends from deepening-upward (transgressive) tendencies. Thirdly, mollusk-derived bathymetric inferences suggest spatial bathymetric gradients that are coherent with the morphology of the study area. In conclusion, the results provided an improved characterization of coastal depositional facies in a sequence stratigraphic perspective, which is one of the primary research goals of Stratigraphic Paleobiology.

Spatial scale-dependent habitat heterogeneity influences submarine canyon macrofaunal abundance and diversity off the Main and Northwest Hawaiian Islands

NASA Astrophysics Data System (ADS)

De Leo, Fabio C.; Vetter, Eric W.; Smith, Craig R.; Rowden, Ashley A.; McGranaghan, Matthew

2014-06-01

The mapping of biodiversity on continental margins on landscape scales is highly relevant to marine spatial planning and conservation. Submarine canyons are widespread topographic features on continental and island margins that enhance benthic biomass across a range of oceanic provinces and productivity regimes. However, it remains unclear whether canyons enhance faunal biodiversity on landscape scales relevant to marine protected area (MPA) design. Furthermore, it is not known which physical attributes and heterogeneity metrics can provide good surrogates for large-scale mapping of canyon benthic biodiversity. To test mechanistic hypotheses evaluating the role of different canyon-landscape attributes in enhancing benthic biodiversity at different spatial scales we conducted 34 submersible dives in six submarine canyons and nearby slopes in the Hawaiian archipelago, sampling infaunal macrobenthos in a depth-stratified sampling design. We employed multivariate multiple regression models to evaluate sediment and topographic heterogeneity, canyon transverse profiles, and overall water mass variability as potential drivers of macrobenthic community structure and species richness. We find that variables related to habitat heterogeneity at medium (0.13 km2) and large (15-33 km2) spatial scales such as slope, backscatter reflectivity and canyon transverse profiles are often good predictors of macrobenthic biodiversity, explaining 16-30% of the variance. Particulate organic carbon (POC) flux and distance from shore are also important variables, implicating food supply as a major predictor of canyon biodiversity. Canyons off the high Main Hawaiian Islands (Oahu and Moloka'i) are significantly affected by organic enrichment, showing enhanced infaunal macrobenthos abundance, whereas this effect is imperceptible around the low Northwest Hawaiian Islands (Nihoa and Maro Reef). Variable canyon alpha-diversity and high rates of species turnover (beta-diversity), particularly for polychaetes, suggest that canyons play important roles in maintaining high levels of regional biodiversity in the extremely oligotrophic system of the North Pacific Subtropical Gyre. This information is of key importance to the process of MPA design, suggesting that canyon habitats be explicitly included in marine spatial planning. The low-islands of Nihoa and Maro Reef in the NWHI showed a lack of sustained input of terrestrial and macrolagae detritus, likely having an influence on the observed low macrofaunal abundances (see further discussion of ‘canyon effects’ in Section 4.3), and showing the fundamental role of coastal landscape characteristics in determining the amount and nature of allochthonous organic matter entering the system. Total and highly-mobile invertebrate megafauna abundances were two to three times higher in the submarine canyons and slopes of the MHI contrasted with the NWHI (Vetter et al., 2010), also demonstrating the role of this larger contribution of terrestrial and coastal organic enrichment in the MHI contrasted with the NWHI.

The arthropod, but not the vertebrate host or its environment, dictates bacterial community composition of fleas and ticks

PubMed Central

Hawlena, Hadas; Rynkiewicz, Evelyn; Toh, Evelyn; Alfred, Andrew; Durden, Lance A; Hastriter, Michael W; Nelson, David E; Rong, Ruichen; Munro, Daniel; Dong, Qunfeng; Fuqua, Clay; Clay, Keith

2013-01-01

Bacterial community composition in blood-sucking arthropods can shift dramatically across time and space. We used 16S rRNA gene amplification and pyrosequencing to investigate the relative impact of vertebrate host-related, arthropod-related and environmental factors on bacterial community composition in fleas and ticks collected from rodents in southern Indiana (USA). Bacterial community composition was largely affected by arthropod identity, but not by the rodent host or environmental conditions. Specifically, the arthropod group (fleas vs ticks) determined the community composition of bacteria, where bacterial communities of ticks were less diverse and more dependent on arthropod traits—especially tick species and life stage—than bacterial communities of fleas. Our data suggest that both arthropod life histories and the presence of arthropod-specific endosymbionts may mask the effects of the vertebrate host and its environment. PMID:22739493

Does stability in local community composition depend on temporal variation in rates of dispersal and connectivity?

NASA Astrophysics Data System (ADS)

Valanko, Sebastian; Norkko, Joanna; Norkko, Alf

2015-04-01

In ecology understanding variation in connectivity is central for how biodiversity is maintained. Field studies on dispersal and temporal dynamics in community regulating processes are, however, rare. We test the short-term temporal stability in community composition in a soft-sediment benthic community by determining among-sampling interval similarity in community composition. We relate stability to in situ measures of connectivity (wind, wave, current energy) and rates of dispersal (quantified in different trap types). Waves were an important predictor of when local community taxa are most likely to disperse in different trap-types, suggesting that wave energy is important for connectivity in a region. Community composition at the site was variable and changed stochastically over time. We found changes in community composition (occurrence, abundance, dominance) to be greater at times when connectivity and rates of dispersal were low. In response to periods of lower connectedness dominant taxa in the local community only exhibited change in their relative abundance. In contrast, locally less abundant taxa varied in both their presence, as well as in relative abundance. Constancy in connectivity and rates of dispersal promotes community stability and persistence, suggesting that local community composition will be impacted by changes in the spatial extent over which immigration and emigration operates in the region. Few empirical studies have actually measured dispersal directly in a multi-species context to demonstrate the role it plays in maintaining local community structure. Even though our study does not evaluate coexistence over demographic time scales, it importantly demonstrates that dispersal is not only important in initial recruitment or following a disturbance, but also key in maintaining local community composition.

Consequences of spring phytodetritus sedimentation on the benthic compartment along a depth gradient in the Eastern English Channel.

PubMed

Denis, Lionel; Desroy, Nicolas

2008-11-01

Phaeocystis blooms are of major importance in the Eastern English Channel, where they significantly contribute to spring organic matter input with chlorophyll concentrations commonly higher than 30 microgl(-1) in the water column. Post-bloom deposition of Phaeocystis derived mucilaginous compounds has been shown to have a major importance on benthic intertidal systems, but resulting mineralization processes and consequences on the macrobenthic compartment remain poorly documented in subtidal areas. In this frame, a study was performed along the French coast of the English Channel to quantify mineralization processes, as well as potential consequences on subtidal sediments, especially their geochemistry and associated macrofaunal communities. Seven stations were studied along a depth gradient during four cruises: before (March), during (April, May) and after (June) the spring bloom. Sediment characteristics and organic carbon content were described, as well as sediment-water fluxes of oxygen and ammonium. Macrofaunal characteristics were also analyzed. Stations were chosen as representative of the various benthic communities present in the area, which are directly linked to the granulometric characteristics of the sediments. To account for the general functioning of the water column, characterized by a coastal flow where higher concentrations of Phaeocystis are generally recorded, similar communities were sampled inshore and offshore, when possible: (i) the Abra alba community located only close to the coast, (ii) the Ophelia borealis community located inshore and offshore, and (iii) the Amphioxus lanceolatus community located inshore and offshore. Generally, low exchange rates of oxygen and ammonium were measured (respectively, in the range 50-150 micromol O2 m(-2)h(-1) and -25 to 35 micromol NH4+ m(-2)h(-1)) between the water column and the muddy-sand to coarse sand permeable sediments, as a consequence of the low organic carbon content due to the high hydrodynamic forcing. As a consequence of organic matter accumulation in surficial sediments probably resulting from Phaeocystis post-bloom deposition, an increase of sediment oxygen demand and ammonium release was clearly evidenced up to 660 micromol O2 m(-2)h(-1) and 205 micromol NH4+ m(-2)h(-1) in May, only in stations located close to the coast (<8 kms), in the A. alba community. Despite those significant biogeochemical changes in surficial sediments, no significant consequence was pointed out on macrofauna, neither in the O. borealis and A. lanceolatus communities, nor in the coastal A. alba community. Most of the temporal variations recorded might be attributed to the common spring population dynamics, but this study highlights the potential use of geochemical parameters as a forewarning signal of benthic disequilibrium.

Urban stormwater runoff drives denitrifying community composition through changes in sediment texture and carbon content.

PubMed

Perryman, Shane E; Rees, Gavin N; Walsh, Christopher J; Grace, Michael R

2011-05-01

The export of nitrogen from urban catchments is a global problem, and denitrifying bacteria in stream ecosystems are critical for reducing in-stream N. However, the environmental factors that control the composition of denitrifying communities in streams are not well understood. We determined whether denitrifying community composition in sediments of nine streams on the eastern fringe of Melbourne, Australia was correlated with two measures of catchment urban impact: effective imperviousness (EI, the proportion of a catchment covered by impervious surfaces with direct connection to streams) or septic tank density (which affects stream water chemistry, particularly stream N concentrations). Denitrifying community structure was examined by comparing terminal restriction fragment length polymorphisms of nosZ genes in the sediments, as the nosZ gene codes for nitrous oxide reductase, the last step in the denitrification pathway. We also determined the chemical and physical characteristics of the streams that were best correlated with denitrifying community composition. EI was strongly correlated with community composition and sediment physical and chemical properties, while septic tank density was not. Sites with high EI were sandier, with less fine sediment and lower organic carbon content, higher sediment cations (calcium, sodium and magnesium) and water filterable reactive phosphorus concentrations. These were also the best small-scale environmental variables that explained denitrifying community composition. Among our study streams, which differed in the degree of urban stormwater impact, sediment grain size and carbon content are the most likely drivers of change in community composition. Denitrifying community composition is another in a long list of ecological indicators that suggest the profound degradation of streams is caused by urban stormwater runoff. While the relationships between denitrifying community composition and denitrification rates are yet to be unequivocally established, landscape-scale indices of environmental impact such as EI may prove to be useful indicators of change in microbial communities.

Microbial community succession in alkaline, saline bauxite residue: a cross-refinery study

NASA Astrophysics Data System (ADS)

Santini, T.; Malcolm, L. I.; Tyson, G. W.; Warren, L. A.

2015-12-01

Bauxite residue, a byproduct of the Bayer process for alumina refining, is an alkaline, saline tailings material that is generally considered to be inhospitable to microbial life. In situ remediation strategies promote soil formation in bauxite residue by enhancing leaching of saline, alkaline pore water, and through incorporation of amendments to boost organic matter content, decrease pH, and improve physical structure. The amelioration of chemical and physical conditions in bauxite residue is assumed to support diversification of microbial communities from narrow, poorly functioning microbial communities towards diverse, well-functioning communities. This study aimed to characterise microbial communities in fresh and remediated bauxite residues from refineries worldwide, to identify (a) whether initial microbial communities differed between refineries; (b) major environmental controls on microbial community composition; and (c) whether remediation successfully shifts the composition of microbial communities in bauxite residue towards those found in reference (desired endpoint) soils. Samples were collected from 16 refineries and characterised using 16S amplicon sequencing to examine microbial community composition and structure, in conjunction with physicochemical analyses. Initial microbial community composition was similar across refineries but partitioned into two major groups. Microbial community composition changes slowly over time and indicates that alkalinity and salinity inhibit diversification. Microbially-based strategies for in situ remediation should consider the initial microbial community composition and whether the pre-treatment of chemical properties would optimise subsequent bioremediation outcomes. During in situ remediation, microbial communities become more diverse and develop wider functional capacity, indicating progression towards communities more commonly observed in natural grassland and forest soils.

Fire regime, not time-since-fire, affects soil fungal community diversity and composition in temperate grasslands.

PubMed

Egidi, Eleonora; McMullan-Fisher, Sapphire; Morgan, John W; May, Tom; Zeeman, Ben; Franks, Ashley E

2016-09-01

Frequent burning is commonly undertaken to maintain diversity in temperate grasslands of southern Australia. How burning affects below-ground fungal community diversity remains unknown. We show, using a fungal rDNA metabarcoding approach (Illumina MiSeq), that the fungal community composition was influenced by fire regime (frequency) but not time-since-fire. Fungal community composition was resilient to direct fire effects, most likely because grassland fires transfer little heat to the soil. Differences in the fungal community composition due to fire regime was likely due to associated changes that occur in vegetation with recurrent fire, via the break up of obligate symbiotic relationships. However, fire history only partially explains the observed dissimilarity in composition among the soil samples, suggesting a distinctiveness in composition in each grassland site. The importance of considering changes in soil microbe communities when managing vegetation with fire is highlighted. © FEMS 2016. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Community barcoding reveals little effect of ocean acidification on the composition of coastal plankton communities: Evidence from a long-term mesocosm study in the Gullmar Fjord, Skagerrak.

PubMed

Langer, Julia A F; Sharma, Rahul; Schmidt, Susanne I; Bahrdt, Sebastian; Horn, Henriette G; Algueró-Muñiz, María; Nam, Bora; Achterberg, Eric P; Riebesell, Ulf; Boersma, Maarten; Thines, Marco; Schwenk, Klaus

2017-01-01

The acidification of the oceans could potentially alter marine plankton communities with consequences for ecosystem functioning. While several studies have investigated effects of ocean acidification on communities using traditional methods, few have used genetic analyses. Here, we use community barcoding to assess the impact of ocean acidification on the composition of a coastal plankton community in a large scale, in situ, long-term mesocosm experiment. High-throughput sequencing resulted in the identification of a wide range of planktonic taxa (Alveolata, Cryptophyta, Haptophyceae, Fungi, Metazoa, Hydrozoa, Rhizaria, Straminipila, Chlorophyta). Analyses based on predicted operational taxonomical units as well as taxonomical compositions revealed no differences between communities in high CO2 mesocosms (~ 760 μatm) and those exposed to present-day CO2 conditions. Observed shifts in the planktonic community composition were mainly related to seasonal changes in temperature and nutrients. Furthermore, based on our investigations, the elevated CO2 did not affect the intraspecific diversity of the most common mesozooplankter, the calanoid copepod Pseudocalanus acuspes. Nevertheless, accompanying studies found temporary effects attributed to a raise in CO2. Differences in taxa composition between the CO2 treatments could, however, only be observed in a specific period of the experiment. Based on our genetic investigations, no compositional long-term shifts of the plankton communities exposed to elevated CO2 conditions were observed. Thus, we conclude that the compositions of planktonic communities, especially those in coastal areas, remain rather unaffected by increased CO2.

Community barcoding reveals little effect of ocean acidification on the composition of coastal plankton communities: Evidence from a long-term mesocosm study in the Gullmar Fjord, Skagerrak

PubMed Central

Sharma, Rahul; Schmidt, Susanne I.; Bahrdt, Sebastian; Horn, Henriette G.; Algueró-Muñiz, María; Nam, Bora; Achterberg, Eric P.; Riebesell, Ulf; Boersma, Maarten; Thines, Marco; Schwenk, Klaus

2017-01-01

The acidification of the oceans could potentially alter marine plankton communities with consequences for ecosystem functioning. While several studies have investigated effects of ocean acidification on communities using traditional methods, few have used genetic analyses. Here, we use community barcoding to assess the impact of ocean acidification on the composition of a coastal plankton community in a large scale, in situ, long-term mesocosm experiment. High-throughput sequencing resulted in the identification of a wide range of planktonic taxa (Alveolata, Cryptophyta, Haptophyceae, Fungi, Metazoa, Hydrozoa, Rhizaria, Straminipila, Chlorophyta). Analyses based on predicted operational taxonomical units as well as taxonomical compositions revealed no differences between communities in high CO2 mesocosms (~ 760 μatm) and those exposed to present-day CO2 conditions. Observed shifts in the planktonic community composition were mainly related to seasonal changes in temperature and nutrients. Furthermore, based on our investigations, the elevated CO2 did not affect the intraspecific diversity of the most common mesozooplankter, the calanoid copepod Pseudocalanus acuspes. Nevertheless, accompanying studies found temporary effects attributed to a raise in CO2. Differences in taxa composition between the CO2 treatments could, however, only be observed in a specific period of the experiment. Based on our genetic investigations, no compositional long-term shifts of the plankton communities exposed to elevated CO2 conditions were observed. Thus, we conclude that the compositions of planktonic communities, especially those in coastal areas, remain rather unaffected by increased CO2. PMID:28445483

Influences of space, soil, nematodes and plants on microbial community composition of chalk grassland soils.

PubMed

Yergeau, Etienne; Bezemer, T Martijn; Hedlund, Katarina; Mortimer, Simon R; Kowalchuk, George A; Van Der Putten, Wim H

2010-08-01

Microbial communities respond to a variety of environmental factors related to resources (e.g. plant and soil organic matter), habitat (e.g. soil characteristics) and predation (e.g. nematodes, protozoa and viruses). However, the relative contribution of these factors on microbial community composition is poorly understood. Here, we sampled soils from 30 chalk grassland fields located in three different chalk hill ridges of Southern England, using a spatially explicit sampling scheme. We assessed microbial communities via phospholipid fatty acid (PLFA) analyses and PCR-denaturing gradient gel electrophoresis (DGGE) and measured soil characteristics, as well as nematode and plant community composition. The relative influences of space, soil, vegetation and nematodes on soil microorganisms were contrasted using variation partitioning and path analysis. Results indicate that soil characteristics and plant community composition, representing habitat and resources, shape soil microbial community composition, whereas the influence of nematodes, a potential predation factor, appears to be relatively small. Spatial variation in microbial community structure was detected at broad (between fields) and fine (within fields) scales, suggesting that microbial communities exhibit biogeographic patterns at different scales. Although our analysis included several relevant explanatory data sets, a large part of the variation in microbial communities remained unexplained (up to 92% in some analyses). However, in several analyses, significant parts of the variation in microbial community structure could be explained. The results of this study contribute to our understanding of the relative importance of different environmental and spatial factors in driving the composition of soil-borne microbial communities. © 2009 Society for Applied Microbiology and Blackwell Publishing Ltd.

Effects of climate change on plant population growth rate and community composition change.

PubMed

Chang, Xiao-Yu; Chen, Bao-Ming; Liu, Gang; Zhou, Ting; Jia, Xiao-Rong; Peng, Shao-Lin

2015-01-01

The impacts of climate change on forest community composition are still not well known. Although directional trends in climate change and community composition change were reported in recent years, further quantitative analyses are urgently needed. Previous studies focused on measuring population growth rates in a single time period, neglecting the development of the populations. Here we aimed to compose a method for calculating the community composition change, and to testify the impacts of climate change on community composition change within a relatively short period (several decades) based on long-term monitoring data from two plots-Dinghushan Biosphere Reserve, China (DBR) and Barro Colorado Island, Panama (BCI)-that are located in tropical and subtropical regions. We proposed a relatively more concise index, Slnλ, which refers to an overall population growth rate based on the dominant species in a community. The results indicated that the population growth rate of a majority of populations has decreased over the past few decades. This decrease was mainly caused by population development. The increasing temperature had a positive effect on population growth rates and community change rates. Our results promote understanding and explaining variations in population growth rates and community composition rates, and are helpful to predict population dynamics and population responses to climate change.

Increased diversity of egg-associated bacteria on brown trout (Salmo trutta) at elevated temperatures.

PubMed

Wilkins, Laetitia G E; Rogivue, Aude; Schütz, Frédéric; Fumagalli, Luca; Wedekind, Claus

2015-11-27

The taxonomic composition of egg-associated microbial communities can play a crucial role in the development of fish embryos. In response, hosts increasingly influence the composition of their associated microbial communities during embryogenesis, as concluded from recent field studies and laboratory experiments. However, little is known about the taxonomic composition and the diversity of egg-associated microbial communities within ecosystems; e.g., river networks. We sampled late embryonic stages of naturally spawned brown trout at nine locations within two different river networks and applied 16S rRNA pyrosequencing to describe their bacterial communities. We found no evidence for a significant isolation-by-distance effect on the composition of bacterial communities, and no association between neutral genetic divergence of fish host (based on 11 microsatellites) and phylogenetic distances of the composition of their associated bacterial communities. We characterized core bacterial communities on brown trout eggs and compared them to corresponding water samples with regard to bacterial composition and its presumptive function. Bacterial diversity was positively correlated with water temperature at the spawning locations. We discuss this finding in the context of the increased water temperatures that have been recorded during the last 25 years in the study area.

Increased diversity of egg-associated bacteria on brown trout (Salmo trutta) at elevated temperatures

PubMed Central

Wilkins, Laetitia G. E.; Rogivue, Aude; Schütz, Frédéric; Fumagalli, Luca; Wedekind, Claus

2015-01-01

The taxonomic composition of egg-associated microbial communities can play a crucial role in the development of fish embryos. In response, hosts increasingly influence the composition of their associated microbial communities during embryogenesis, as concluded from recent field studies and laboratory experiments. However, little is known about the taxonomic composition and the diversity of egg-associated microbial communities within ecosystems; e.g., river networks. We sampled late embryonic stages of naturally spawned brown trout at nine locations within two different river networks and applied 16S rRNA pyrosequencing to describe their bacterial communities. We found no evidence for a significant isolation-by-distance effect on the composition of bacterial communities, and no association between neutral genetic divergence of fish host (based on 11 microsatellites) and phylogenetic distances of the composition of their associated bacterial communities. We characterized core bacterial communities on brown trout eggs and compared them to corresponding water samples with regard to bacterial composition and its presumptive function. Bacterial diversity was positively correlated with water temperature at the spawning locations. We discuss this finding in the context of the increased water temperatures that have been recorded during the last 25 years in the study area. PMID:26611640

Compositional Stability of the Bacterial Community in a Climate-Sensitive Sub-Arctic Peatland.

PubMed

Weedon, James T; Kowalchuk, George A; Aerts, Rien; Freriks, Stef; Röling, Wilfred F M; van Bodegom, Peter M

2017-01-01

The climate sensitivity of microbe-mediated soil processes such as carbon and nitrogen cycling offers an interesting case for evaluating the corresponding sensitivity of microbial community composition to environmental change. Better understanding of the degree of linkage between functional and compositional stability would contribute to ongoing efforts to build mechanistic models aiming at predicting rates of microbe-mediated processes. We used an amplicon sequencing approach to test if previously observed large effects of experimental soil warming on C and N cycle fluxes (50-100% increases) in a sub-arctic Sphagnum peatland were reflected in changes in the composition of the soil bacterial community. We found that treatments that previously induced changes to fluxes did not associate with changes in the phylogenetic composition of the soil bacterial community. For both DNA- and RNA-based analyses, variation in bacterial communities could be explained by the hierarchy: spatial variation (12-15% of variance explained) > temporal variation (7-11%) > climate treatment (4-9%). We conclude that the bacterial community in this environment is stable under changing conditions, despite the previously observed sensitivity of process rates-evidence that microbe-mediated soil processes can alter without concomitant changes in bacterial communities. We propose that progress in linking soil microbial communities to ecosystem processes can be advanced by further investigating the relative importance of community composition effects versus physico-chemical factors in controlling biogeochemical process rates in different contexts.

Macrofaunal production and biological traits: Spatial relationships along the UK continental shelf

NASA Astrophysics Data System (ADS)

Bolam, S. G.; Eggleton, J. D.

2014-04-01

Biological trait analysis (BTA) is increasingly being employed to improve our understanding of the ecological functioning of marine benthic invertebrate communities. However, changes in trait composition are seldomly compared with concomitant changes in metrics of ecological function. Consequently, inferences regarding the functional implications of any changes are often anecdotal; we currently have a limited understanding of the functional significance of the traits commonly used. In this study, we quantify the relationship between benthic invertebrate trait composition and secondary production estimates using data spanning almost the breadth of the UK continental shelf. Communities described by their composition of 10 traits representing life history, morphology and behaviour showed strong relationships with variations in total secondary production. A much weaker relationship was observed for community productivity (or P:B), a measure of rate of energy turnover. Furthermore, the relationship between total production and multivariate taxonomic community composition was far weaker than that for trait composition. Indeed, the similarities between communities as defined by taxonomy were very different from those depicted by their trait composition. That is, as many studies have demonstrated, taxonomically different communities may display similar trait compositions, and vice versa. Finally, we found that descriptions of community trait composition vary greatly depending on whether abundance or biomass is used as the enumeration weighting method during BTA, and trait assessments based on biomass produced better relations with secondary production than those based on abundance. We discuss the significance of these findings with respect to BTA using marine benthic invertebrates.

Biofilm composition in the Olt River (Romania) reservoirs impacted by a chlor-alkali production plant.

PubMed

Dranguet, P; Cosio, C; Le Faucheur, S; Hug Peter, D; Loizeau, J-L; Ungureanu, V-Gh; Slaveykova, V I

2017-05-24

Freshwater biofilms can be useful indicators of water quality and offer the possibility to assess contaminant effects at the community level. The present field study examines the effects of chlor-alkali plant effluents on the community composition of biofilms grown in the Olt River (Romania) reservoirs. The relationship between ambient water quality variables and community composition alterations was explored. Amplicon sequencing revealed a significant modification of the composition of microalgal, bacterial and fungal communities in the biofilms collected in the impacted reservoirs in comparison with those living in the uncontaminated control reservoir. The abundance corrected Simpson index showed lower richness and diversity in biofilms collected in the impacted reservoirs than in the control reservoir. The biofilm bacterial communities of the impacted reservoirs were characterized by the contaminant-tolerant Cyanobacteria and Bacteroidetes, whereas microalgal communities were predominantly composed of Bacillariophyta and fungal communities of Lecanoromycetes and Paraglomycetes. A principal component analysis revealed that major contaminants present in the waste water of the chlor-alkali production plant, i.e. Na + , Ca 2+ , Cl - and Hg, were correlated with the alteration of biofilm community composition in the impacted reservoirs. However, the biofilm composition was also influenced by water quality variables such as NO 3 - , SO 4 2- , DOC and Zn from unknown sources. The results of the present study imply that, even when below the environmental quality standards, typical contaminants of chlor-alkali plant releases may affect biofilm composition and that their impacts on the microbial biodiversity might be currently overlooked.

Microbial biogeography of arctic streams: exploring influences of lithology and habitat.

PubMed

Larouche, Julia R; Bowden, William B; Giordano, Rosanna; Flinn, Michael B; Crump, Byron C

2012-01-01

Terminal restriction fragment length polymorphism and 16S rRNA gene sequencing were used to explore the community composition of bacterial communities in biofilms on sediments (epipssamon) and rocks (epilithon) in stream reaches that drain watersheds with contrasting lithologies in the Noatak National Preserve, Alaska. Bacterial community composition varied primarily by stream habitat and secondarily by lithology. Positive correlations were detected between bacterial community structure and nutrients, base cations, and dissolved organic carbon. Our results showed significant differences at the stream habitat, between epipssamon and epilithon bacterial communities, which we expected. Our results also showed significant differences at the landscape scale that could be related to different lithologies and associated stream biogeochemistry. These results provide insight into the bacterial community composition of little known and pristine arctic stream ecosystems and illustrate how differences in the lithology, soils, and vegetation community of the terrestrial environment interact to influence stream bacterial taxonomic richness and composition.

Microbial Biogeography of Arctic Streams: Exploring Influences of Lithology and Habitat

PubMed Central

Larouche, Julia R.; Bowden, William B.; Giordano, Rosanna; Flinn, Michael B.; Crump, Byron C.

2012-01-01

Terminal restriction fragment length polymorphism and 16S rRNA gene sequencing were used to explore the community composition of bacterial communities in biofilms on sediments (epipssamon) and rocks (epilithon) in stream reaches that drain watersheds with contrasting lithologies in the Noatak National Preserve, Alaska. Bacterial community composition varied primarily by stream habitat and secondarily by lithology. Positive correlations were detected between bacterial community structure and nutrients, base cations, and dissolved organic carbon. Our results showed significant differences at the stream habitat, between epipssamon and epilithon bacterial communities, which we expected. Our results also showed significant differences at the landscape scale that could be related to different lithologies and associated stream biogeochemistry. These results provide insight into the bacterial community composition of little known and pristine arctic stream ecosystems and illustrate how differences in the lithology, soils, and vegetation community of the terrestrial environment interact to influence stream bacterial taxonomic richness and composition. PMID:22936932

Using a trait-based approach to link microbial community composition and functioning to soil salinity

NASA Astrophysics Data System (ADS)

Rath, Kristin; Fierer, Noah; Rousk, Johannes

2017-04-01

Our knowledge of the dynamics structuring microbial communities and the consequences this has for soil functions is rudimentary. In particular, predictions of the response of microbial communities to environmental change and the implications for associated ecosystem processes remain elusive. Understanding how environmental factors structure microbial communities and regulate the functions they perform is key to a mechanistic understanding of how biogeochemical cycles respond to environmental change. Soil salinization is an agricultural problem in many parts of the world. The activity of soil microorganisms is reduced in saline soils compared to non-saline soil. However, soil salinity often co-varies with other factors, making it difficult to assign responses of microbial communities to direct effects of salinity. A trait-based approach allows us to connect the environmental factor salinity with the responses of microbial community composition and functioning. Salinity along a salinity gradient serves as a filter for the community trait distribution of salt tolerance, selecting for higher salt tolerance at more saline sites. This trait-environment relationship can be used to predict responses of microbial communities to environmental change. Our aims were to (i) use salinity along natural salinity gradients as an environmental filter, and (ii) link the resulting filtered trait-distributions of the communities (the trait being salt tolerance) to the community composition. Soil samples were obtained from two replicated salinity gradients along an Australian salt lake, spanning a wide range of soil salinities (0.1 dS m-1 to >50 dS m-1). In one of the two gradients salinity was correlated with pH. Community trait distributions for salt tolerance were assessed by establishing dose-dependences for extracted bacterial communities using growth rate assays. In addition, functional parameters were measured along the salt gradients. Community composition of sites was compared through 16S rRNA gene amplicon sequencing. Microbial community composition changed greatly along the salinity gradients. Using the salt-tolerance assessments to estimate bacterial trait-distributions we could determine substantial differences in tolerance to salt revealing a strong causal connection between environment and trait distributions. By constraining the community composition with salinity tolerance in ordinations, we could assign which community differences were directly due to a shift in community trait distributions. These analyses revealed that a substantial part (up to 30%) of the community composition differences were directly driven by environmental salt concentrations.. Even though communities in saline soils had trait-distributions aligned to their environment, their performance (respiration, growth rates) was lower than those in non-saline soils and remained low even after input of organic material. Using a trait-based approach we could connect filtered trait distributions along environmental gradients, to the composition of the microbial community. We show that soil salinity played an important role in shaping microbial community composition by selecting for communities with higher salt tolerance. The shift toward bacterial communities with trait distributions matched to salt environments probably compensated for much of the potential loss of function induced by salinity, resulting in a degree of apparent functional redundancy for decomposition. However, more tolerant communities still showed reduced functioning, suggesting a trade-off between salt tolerance and performance.

Analysis of Structure and Composition of Bacterial Core Communities in Mature Drinking Water Biofilms and Bulk Water of a Citywide Network in Germany

PubMed Central

Henne, Karsten; Kahlisch, Leila; Brettar, Ingrid

2012-01-01

The bacterial core communities of bulk water and corresponding biofilms of a more than 20-year-old drinking water network were compared using 16S rRNA single-strand confirmation polymorphism (SSCP) fingerprints based on extracted DNA and RNA. The structure and composition of the bacterial core community in the bulk water was highly similar (>70%) across the city of Braunschweig, Germany, whereas all biofilm samples contained a unique community with no overlapping phylotypes from bulk water. Biofilm samples consisted mainly of Alphaproteobacteria (26% of all phylotypes), Gammaproteobacteria (11%), candidate division TM6 (11%), Chlamydiales (9%), and Betaproteobacteria (9%). The bulk water community consisted primarily of Bacteroidetes (25%), Betaproteobacteria (20%), Actinobacteria (16%), and Alphaproteobacteria (11%). All biofilm communities showed higher relative abundances of single phylotypes and a reduced richness compared to bulk water. Only biofilm communities sampled at nearby sampling points showed similar communities irrespective of support materials. In all of our bulk water studies, the community composition determined from 16S rRNA was completely different from the 16S rRNA gene-based community composition, whereas in biofilms both molecular fractions resulted in community compositions that were similar to each other. We hypothesize that a higher fraction of active bacterial phylotypes and a better protection from oxidative stress in drinking water biofilms are responsible for this higher similarity. PMID:22389373

Analysis of structure and composition of bacterial core communities in mature drinking water biofilms and bulk water of a citywide network in Germany.

PubMed

Henne, Karsten; Kahlisch, Leila; Brettar, Ingrid; Höfle, Manfred G

2012-05-01

The bacterial core communities of bulk water and corresponding biofilms of a more than 20-year-old drinking water network were compared using 16S rRNA single-strand confirmation polymorphism (SSCP) fingerprints based on extracted DNA and RNA. The structure and composition of the bacterial core community in the bulk water was highly similar (>70%) across the city of Braunschweig, Germany, whereas all biofilm samples contained a unique community with no overlapping phylotypes from bulk water. Biofilm samples consisted mainly of Alphaproteobacteria (26% of all phylotypes), Gammaproteobacteria (11%), candidate division TM6 (11%), Chlamydiales (9%), and Betaproteobacteria (9%). The bulk water community consisted primarily of Bacteroidetes (25%), Betaproteobacteria (20%), Actinobacteria (16%), and Alphaproteobacteria (11%). All biofilm communities showed higher relative abundances of single phylotypes and a reduced richness compared to bulk water. Only biofilm communities sampled at nearby sampling points showed similar communities irrespective of support materials. In all of our bulk water studies, the community composition determined from 16S rRNA was completely different from the 16S rRNA gene-based community composition, whereas in biofilms both molecular fractions resulted in community compositions that were similar to each other. We hypothesize that a higher fraction of active bacterial phylotypes and a better protection from oxidative stress in drinking water biofilms are responsible for this higher similarity.

Rapid recovery of soil bacterial communities after wildfire in a Chinese boreal forest

PubMed Central

Xiang, Xingjia; Shi, Yu; Yang, Jian; Kong, Jianjian; Lin, Xiangui; Zhang, Huayong; Zeng, Jun; Chu, Haiyan

2014-01-01

Fires affect hundreds of millions of hectares annually. Above-ground community composition and diversity after fire have been studied extensively, but effects of fire on soil bacterial communities remain largely unexamined despite the central role of bacteria in ecosystem recovery and functioning. We investigated responses of bacterial community to forest fire in the Greater Khingan Mountains, China, using tagged pyrosequencing. Fire altered soil bacterial community composition substantially and high-intensity fire significantly decreased bacterial diversity 1-year-after-burn site. Bacterial community composition and diversity returned to similar levels as observed in controls (no fire) after 11 years. The understory vegetation community typically takes 20–100 years to reach pre-fire states in boreal forest, so our results suggest that soil bacteria could recover much faster than plant communities. Finally, soil bacterial community composition significantly co-varied with soil pH, moisture content, NH4+ content and carbon/nitrogen ratio (P < 0.05 in all cases) in wildfire-perturbed soils, suggesting that fire could indirectly affect bacterial communities by altering soil edaphic properties. PMID:24452061

Bacterial Community Succession in Pine-Wood Decomposition.

PubMed

Kielak, Anna M; Scheublin, Tanja R; Mendes, Lucas W; van Veen, Johannes A; Kuramae, Eiko E

2016-01-01

Though bacteria and fungi are common inhabitants of decaying wood, little is known about the relationship between bacterial and fungal community dynamics during natural wood decay. Based on previous studies involving inoculated wood blocks, strong fungal selection on bacteria abundance and community composition was expected to occur during natural wood decay. Here, we focused on bacterial and fungal community compositions in pine wood samples collected from dead trees in different stages of decomposition. We showed that bacterial communities undergo less drastic changes than fungal communities during wood decay. Furthermore, we found that bacterial community assembly was a stochastic process at initial stage of wood decay and became more deterministic in later stages, likely due to environmental factors. Moreover, composition of bacterial communities did not respond to the changes in the major fungal species present in the wood but rather to the stage of decay reflected by the wood density. We concluded that the shifts in the bacterial communities were a result of the changes in wood properties during decomposition and largely independent of the composition of the wood-decaying fungal communities.

Bacterial Community Succession in Pine-Wood Decomposition

PubMed Central

Kielak, Anna M.; Scheublin, Tanja R.; Mendes, Lucas W.; van Veen, Johannes A.; Kuramae, Eiko E.

2016-01-01

Though bacteria and fungi are common inhabitants of decaying wood, little is known about the relationship between bacterial and fungal community dynamics during natural wood decay. Based on previous studies involving inoculated wood blocks, strong fungal selection on bacteria abundance and community composition was expected to occur during natural wood decay. Here, we focused on bacterial and fungal community compositions in pine wood samples collected from dead trees in different stages of decomposition. We showed that bacterial communities undergo less drastic changes than fungal communities during wood decay. Furthermore, we found that bacterial community assembly was a stochastic process at initial stage of wood decay and became more deterministic in later stages, likely due to environmental factors. Moreover, composition of bacterial communities did not respond to the changes in the major fungal species present in the wood but rather to the stage of decay reflected by the wood density. We concluded that the shifts in the bacterial communities were a result of the changes in wood properties during decomposition and largely independent of the composition of the wood-decaying fungal communities. PMID:26973611

Metal oxides, clay minerals and charcoal determine the composition of microbial communities in matured artificial soils and their response to phenanthrene.

PubMed

Babin, Doreen; Ding, Guo-Chun; Pronk, Geertje Johanna; Heister, Katja; Kögel-Knabner, Ingrid; Smalla, Kornelia

2013-10-01

Microbial communities in soil reside in a highly heterogeneous habitat where diverse mineral surfaces, complex organic matter and microorganisms interact with each other. This study aimed to elucidate the long-term effect of the soil mineral composition and charcoal on the microbial community composition established in matured artificial soils and their response to phenanthrene. One year after adding sterile manure to different artificial soils and inoculating microorganisms from a Cambisol, the matured soils were spiked with phenanthrene or not and incubated for another 70 days. 16S rRNA gene and internal transcribed spacer fragments amplified from total community DNA were analyzed by denaturing gradient gel electrophoresis. Metal oxides and clay minerals and to a lesser extent charcoal influenced the microbial community composition. Changes in the bacterial community composition in response to phenanthrene differed depending on the mineral composition and presence of charcoal, while no shifts in the fungal community composition were observed. The abundance of ring-hydroxylating dioxygenase genes was increased in phenanthrene-spiked soils except for charcoal-containing soils. Here we show that the formation of biogeochemical interfaces in soil is an ongoing process and that different properties present in artificial soils influenced the bacterial response to the phenanthrene spike. © 2012 Federation of European Microbiological Societies. Published by Blackwell Publishing Ltd. All rights reserved.

Variation in coastal Antarctic microbial community composition at sub-mesoscale: spatial distance or environmental filtering?

PubMed

Moreno-Pino, Mario; De la Iglesia, Rodrigo; Valdivia, Nelson; Henríquez-Castilo, Carlos; Galán, Alexander; Díez, Beatriz; Trefault, Nicole

2016-07-01

Spatial environmental heterogeneity influences diversity of organisms at different scales. Environmental filtering suggests that local environmental conditions provide habitat-specific scenarios for niche requirements, ultimately determining the composition of local communities. In this work, we analyze the spatial variation of microbial communities across environmental gradients of sea surface temperature, salinity and photosynthetically active radiation and spatial distance in Fildes Bay, King George Island, Antarctica. We hypothesize that environmental filters are the main control of the spatial variation of these communities. Thus, strong relationships between community composition and environmental variation and weak relationships between community composition and spatial distance are expected. Combining physical characterization of the water column, cell counts by flow cytometry, small ribosomal subunit genes fingerprinting and next generation sequencing, we contrast the abundance and composition of photosynthetic eukaryotes and heterotrophic bacterial local communities at a submesoscale. Our results indicate that the strength of the environmental controls differed markedly between eukaryotes and bacterial communities. Whereas eukaryotic photosynthetic assemblages responded weakly to environmental variability, bacteria respond promptly to fine-scale environmental changes in this polar marine system. © FEMS 2016. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Composition Influences the Pathway but not the Outcome of the Metabolic Response of Bacterioplankton to Resource Shifts

PubMed Central

Comte, Jérôme; del Giorgio, Paul A.

2011-01-01

Bacterioplankton community metabolism is central to the functioning of aquatic ecosystems, and strongly reactive to changes in the environment, yet the processes underlying this response remain unclear. Here we explore the role that community composition plays in shaping the bacterial metabolic response to resource gradients that occur along aquatic ecotones in a complex watershed in Québec. Our results show that the response is mediated by complex shifts in community structure, and structural equation analysis confirmed two main pathways, one involving adjustments in the level of activity of existing phylotypes, and the other the replacement of the dominant phylotypes. These contrasting response pathways were not determined by the type or the intensity of the gradients involved, as we had hypothesized, but rather it would appear that some compositional configurations may be intrinsically more plastic than others. Our results suggest that community composition determines this overall level of community plasticity, but that composition itself may be driven by factors independent of the environmental gradients themselves, such that the response of bacterial communities to a given type of gradient may alternate between the adjustment and replacement pathways. We conclude that community composition influences the pathways of response in these bacterial communities, but not the metabolic outcome itself, which is driven by the environment, and which can be attained through multiple alternative configurations. PMID:21980410

Integrating community assembly and biodiversity to better understand ecosystem function: the Community Assembly and the Functioning of Ecosystems (CAFE) approach.

PubMed

Bannar-Martin, Katherine H; Kremer, Colin T; Ernest, S K Morgan; Leibold, Mathew A; Auge, Harald; Chase, Jonathan; Declerck, Steven A J; Eisenhauer, Nico; Harpole, Stanley; Hillebrand, Helmut; Isbell, Forest; Koffel, Thomas; Larsen, Stefano; Narwani, Anita; Petermann, Jana S; Roscher, Christiane; Cabral, Juliano Sarmento; Supp, Sarah R

2018-02-01

The research of a generation of ecologists was catalysed by the recognition that the number and identity of species in communities influences the functioning of ecosystems. The relationship between biodiversity and ecosystem functioning (BEF) is most often examined by controlling species richness and randomising community composition. In natural systems, biodiversity changes are often part of a bigger community assembly dynamic. Therefore, focusing on community assembly and the functioning of ecosystems (CAFE), by integrating both species richness and composition through species gains, losses and changes in abundance, will better reveal how community changes affect ecosystem function. We synthesise the BEF and CAFE perspectives using an ecological application of the Price equation, which partitions the contributions of richness and composition to function. Using empirical examples, we show how the CAFE approach reveals important contributions of composition to function. These examples show how changes in species richness and composition driven by environmental perturbations can work in concert or antagonistically to influence ecosystem function. Considering how communities change in an integrative fashion, rather than focusing on one axis of community structure at a time, will improve our ability to anticipate and predict changes in ecosystem function. © 2017 The Authors. Ecology Letters published by CNRS and John Wiley & Sons Ltd.

Compositional Stability of the Bacterial Community in a Climate-Sensitive Sub-Arctic Peatland

PubMed Central

Weedon, James T.; Kowalchuk, George A.; Aerts, Rien; Freriks, Stef; Röling, Wilfred F. M.; van Bodegom, Peter M.

2017-01-01

The climate sensitivity of microbe-mediated soil processes such as carbon and nitrogen cycling offers an interesting case for evaluating the corresponding sensitivity of microbial community composition to environmental change. Better understanding of the degree of linkage between functional and compositional stability would contribute to ongoing efforts to build mechanistic models aiming at predicting rates of microbe-mediated processes. We used an amplicon sequencing approach to test if previously observed large effects of experimental soil warming on C and N cycle fluxes (50–100% increases) in a sub-arctic Sphagnum peatland were reflected in changes in the composition of the soil bacterial community. We found that treatments that previously induced changes to fluxes did not associate with changes in the phylogenetic composition of the soil bacterial community. For both DNA- and RNA-based analyses, variation in bacterial communities could be explained by the hierarchy: spatial variation (12–15% of variance explained) > temporal variation (7–11%) > climate treatment (4–9%). We conclude that the bacterial community in this environment is stable under changing conditions, despite the previously observed sensitivity of process rates—evidence that microbe-mediated soil processes can alter without concomitant changes in bacterial communities. We propose that progress in linking soil microbial communities to ecosystem processes can be advanced by further investigating the relative importance of community composition effects versus physico-chemical factors in controlling biogeochemical process rates in different contexts. PMID:28326062

Small-scale spatial heterogeneity of ecosystem properties, microbial community composition and microbial activities in a temperate mountain forest soil.

PubMed

Štursová, Martina; Bárta, Jiří; Šantrůčková, Hana; Baldrian, Petr

2016-12-01

Forests are recognised as spatially heterogeneous ecosystems. However, knowledge of the small-scale spatial variation in microbial abundance, community composition and activity is limited. Here, we aimed to describe the heterogeneity of environmental properties, namely vegetation, soil chemical composition, fungal and bacterial abundance and community composition, and enzymatic activity, in the topsoil in a small area (36 m 2 ) of a highly heterogeneous regenerating temperate natural forest, and to explore the relationships among these variables. The results demonstrated a high level of spatial heterogeneity in all properties and revealed differences between litter and soil. Fungal communities had substantially higher beta-diversity than bacterial communities, which were more uniform and less spatially autocorrelated. In litter, fungal communities were affected by vegetation and appeared to be more involved in decomposition. In the soil, chemical composition affected both microbial abundance and the rates of decomposition, whereas the effect of vegetation was small. Importantly, decomposition appeared to be concentrated in hotspots with increased activity of multiple enzymes. Overall, forest topsoil should be considered a spatially heterogeneous environment in which the mean estimates of ecosystem-level processes and microbial community composition may confound the existence of highly specific microenvironments. © FEMS 2016. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Defining microbial community composition and seasonal variation in a sewage treatment plant in India using a down-flow hanging sponge reactor.

PubMed

Nomoto, Naoki; Hatamoto, Masashi; Hirakata, Yuga; Ali, Muntjeer; Jayaswal, Komal; Iguchi, Akinori; Okubo, Tsutomu; Takahashi, Masanobu; Kubota, Kengo; Tagawa, Tadashi; Uemura, Shigeki; Yamaguchi, Takashi; Harada, Hideki

2018-05-01

The characteristics of the microbial community in a practical-scale down-flow hanging sponge (DHS) reactor, high in organic matter and sulfate ion concentration, and the seasonal variation of the microbial community composition were investigated. Microorganisms related to sulfur oxidation and reduction (2-27%), as well as Leucobacter (7.50%), were abundant in the reactor. Anaerobic bacteria (27-38% in the first layer) were also in abundance and were found to contribute to the removal of organic matter from the sewage in the reactor. By comparing the Simpson index, the abundance-based coverage estimator (ACE) index, and the species composition of the microbial community across seasons (summer/dry, summer/rainy, autumn/dry, and winter/dry), the microbial community was found to change in composition only during the winter season. In addition to the estimation of seasonal variation, the difference in the microbial community composition along the axes of the DHS reactor was investigated for the first time. Although the abundance of each bacterial species differed along both axes of the reactor, the change of the community composition in the reactor was found to be greater along the vertical axis than the horizontal axis of the DHS reactor.

Effects of dredging operations on the demersal fish fauna of a South American tropical-subtropical transition estuary.

PubMed

Barletta, M; Cysneiros, F J A; Lima, A R A

2016-07-01

Changes in the environment and in the composition of fish assemblages in the Paranaguá Estuary (South Brazil) were assessed by comparisons made before, during and after dredging operations, in the same months and areas studied in the previous year. Interactions between year and month were observed for salinity. During the dredging year fish total density was 2 individuals m(-2) and with a total biomass of 104 g m(-2) (among 31 species captured). For the same period the year before, 0·3 individuals m(-2) and 3 g m(-2) were captured (38 species). The number of species showed significant time v. month interactions, assuming that fish species composition varied for both year and month. Total mean density and biomass showed significant differences for interaction time v. month, and density and biomass in the dredging month September 2001 in the main channel were scientifically different from other months. Interaction times v. area were significant for Cathorops spixii (increased biomass), Aspistor luniscutis (increased density), Menticirrhus americanus (decreased biomass) and Cynoscion leiarchus (decreased density and biomass). This suggests that during the dredging process there is a change in the structure of the demersal fish assemblage. The impact (damage and mortality) induced by dredging on the macrobenthic animals along the dredge path attracted adults of C. spixii that reached densities 10 times greater than in the year before. On the other hand, sciaenid species practically disappeared. To contribute to the conservation of the estuarine fish fauna, and maintain fisheries production of the Paranaguá Estuary and surrounding areas, it is recommended that, dredging should be done from the late rainy season to the early dry season. Decisions must take into account the ecological cycles of socio-economically important fish species and prioritize the safe disposal of dredged spoils. © 2016 The Fisheries Society of the British Isles.

The role of Callianassa subterranea (Montagu) (THALASSINIDEA) in sediment resuspension in the North Sea

NASA Astrophysics Data System (ADS)

Rowden, A. A.; Jones, M. B.; Morris, A. W.

1998-09-01

The mud shrimp Callianassa subterranea (Montagu) is a common member of the macrobenthic community at the site in the North Sea selected to study the dynamics of suspended sediment behaviour. The extensive burrowing habit of this deposit-feeding species makes it an important contributor to the degree of bioturbation experienced at the site. Individuals recovered from the site were returned to the laboratory to investigate the influence of body size and temperature upon the amount of sediment expelled. A clear relationship between these variables and the quantity of expelled sediment was identified, and a well-defined temporal pattern of expulsion activity and inactivity was demonstrated. These experimental data, together with field information on seawater temperatures and aspects of mud shrimp population dynamics, allow the construction of an estimated annual sediment turnover budget of 11 kg (dry weight) m -2 yr -1. Field observations at the North Sea site show that the sediment expelled by the mud shrimp forms unconsolidated volcano-like mounds, which significantly modify seabed surface topography. The dimensions of these surface features were measured from bottom photographs of the site and used to determine values of boundary roughness length ( Zo). In January Zo was 0.0007 cm, whilst in September Zo equaled 0.79 cm. Callianassa subterranea's maximum contribution to resuspension was assessed by calculating a derived lateral sediment transport rate of 7 kg m -1 month -1 (from values of near-bed current velocity, modified boundary roughness length and sediment turnover rate).

Aspen community types of the Intermountain Region

Treesearch

Walter F. Mueggler

1988-01-01

This vegetation classification is based upon existing community structure and composition in the aspen-dominated forests of the Intermountain Region of the Forest Service. The 56 community types occur within eight tree-cover types. A diagnostic key using indicator species facilitates field identification of the community types. Vegetational composition, productivity,...

Bacterial community composition and structure in an Urban River impacted by different pollutant sources.

PubMed

Ibekwe, A Mark; Ma, Jincai; Murinda, Shelton E

2016-10-01

Microbial communities in terrestrial fresh water are diverse and dynamic in composition due to different environmental factors. The goal of this study was to undertake a comprehensive analysis of bacterial composition along different rivers and creeks and correlate these to land-use practices and pollutant sources. Here we used 454 pyrosequencing to determine the total bacterial community composition, and bacterial communities that are potentially of fecal origin, and of relevance to water quality assessment. The results were analyzed using UniFrac coupled with principal coordinate analysis (PCoA) to compare diversity, abundance, and community composition. Detrended correspondence analysis (DCA) and canonical correspondence analysis (CCA) were used to correlate bacterial composition in streams and creeks to different environmental parameters impacting bacterial communities in the sediment and surface water within the watershed. Bacteria were dominated by the phyla Proteobacteria, Bacteroidetes, Acidobacteria, and Actinobacteria, with Bacteroidetes significantly (P<0.001) higher in all water samples than sediment, where as Acidobacteria and Actinobacteria where significantly higher (P<0.05) in all the sediment samples than surface water. Overall results, using the β diversity measures, coupled with PCoA and DCA showed that bacterial composition in sediment and surface water was significantly different (P<0.001). Also, there were differences in bacterial community composition between agricultural runoff and urban runoff based on parsimony tests using 454 pyrosequencing data. Fecal indicator bacteria in surface water along different creeks and channels were significantly correlated with pH (P<0.01), NO2 (P<0.03), and NH4N (P<0.005); and in the sediment with NO3 (P<0.015). Our results suggest that microbial community compositions were influenced by several environmental factors, and pH, NO2, and NH4 were the major environmental factors driving FIB in surface water based on CCA analysis, while NO3 was the only factor in sediment. Published by Elsevier B.V.

Links between plant and fungal communities across a deforestation chronosequence in the Amazon rainforest.

PubMed

Mueller, Rebecca C; Paula, Fabiana S; Mirza, Babur S; Rodrigues, Jorge L M; Nüsslein, Klaus; Bohannan, Brendan J M

2014-07-01

Understanding the interactions among microbial communities, plant communities and soil properties following deforestation could provide insights into the long-term effects of land-use change on ecosystem functions, and may help identify approaches that promote the recovery of degraded sites. We combined high-throughput sequencing of fungal rDNA and molecular barcoding of plant roots to estimate fungal and plant community composition in soil sampled across a chronosequence of deforestation. We found significant effects of land-use change on fungal community composition, which was more closely correlated to plant community composition than to changes in soil properties or geographic distance, providing evidence for strong links between above- and below-ground communities in tropical forests.

Analysis of microbial community composition in a lab-scale membrane distillation bioreactor.

PubMed

Zhang, Q; Shuwen, G; Zhang, J; Fane, A G; Kjelleberg, S; Rice, S A; McDougald, D

2015-04-01

Membrane distillation bioreactors (MDBR) have potential for industrial applications where wastewater is hot or waste heat is available, but the role of micro-organisms in MDBRs has never been determined, and thus was the purpose of this study. Microbial communities were characterized by bacterial and archaeal 16S and eukaryotic 18S rRNA gene tag-encoded pyrosequencing of DNA obtained from sludge. Taxonomy-independent analysis revealed that bacterial communities had a relatively low richness and diversity, and community composition strongly correlated with conductivity, total nitrogen and bound extracellular polymeric substances (EPS). Taxonomy-dependent analysis revealed that Rubrobacter and Caldalkalibacillus were abundant members of the bacterial community, but no archaea were detected. Eukaryotic communities had a relatively high richness and diversity, and both changes in community composition and abundance of the dominant genus, Candida, correlated with bound EPS. Thermophilic MDBR communities were comprised of a low diversity bacterial community and a highly diverse eukaryotic community with no archea detected. Communities exhibited low resilience to changes in operational parameters. Specifically, retenatate nutrient composition and concentration was strongly correlated with the dominant species. This study provides an understanding of microbial community diversity in an MDBR, which is fundamental to the optimization of reactor performance. © 2015 The Authors published by John Wiley & Sons Ltd on behalf of Society for Applied Microbiology.

Analysis of microbial community composition in a lab-scale membrane distillation bioreactor

PubMed Central

Zhang, Q; Shuwen, G; Zhang, J; Fane, AG; Kjelleberg, S; Rice, SA; McDougald, D

2015-01-01

Aims Membrane distillation bioreactors (MDBR) have potential for industrial applications where wastewater is hot or waste heat is available, but the role of micro-organisms in MDBRs has never been determined, and thus was the purpose of this study. Methods and Results Microbial communities were characterized by bacterial and archaeal 16S and eukaryotic 18S rRNA gene tag-encoded pyrosequencing of DNA obtained from sludge. Taxonomy-independent analysis revealed that bacterial communities had a relatively low richness and diversity, and community composition strongly correlated with conductivity, total nitrogen and bound extracellular polymeric substances (EPS). Taxonomy-dependent analysis revealed that Rubrobacter and Caldalkalibacillus were abundant members of the bacterial community, but no archaea were detected. Eukaryotic communities had a relatively high richness and diversity, and both changes in community composition and abundance of the dominant genus, Candida, correlated with bound EPS. Conclusions Thermophilic MDBR communities were comprised of a low diversity bacterial community and a highly diverse eukaryotic community with no archea detected. Communities exhibited low resilience to changes in operational parameters. Specifically, retenatate nutrient composition and concentration was strongly correlated with the dominant species. Significance and Impact of the Study This study provides an understanding of microbial community diversity in an MDBR, which is fundamental to the optimization of reactor performance. PMID:25604265

Characterization of successional changes in bacterial community composition during bioremediation of used motor oil-contaminated soil in a boreal climate.

PubMed

Yan, Lijuan; Sinkko, Hanna; Penttinen, Petri; Lindström, Kristina

2016-01-15

The widespread use of motor oil makes it a notable risk factor to cause scattered contamination in soil. The monitoring of microbial community dynamics can serve as a comprehensive tool to assess the ecological impact of contaminants and their disappearance in the ecosystem. Hence, a field study was conducted to monitor the ecological impact of used motor oil under different perennial cropping systems (fodder galega, brome grass, galega-brome grass mixture and bare fallow) in a boreal climate zone. Length heterogeneity PCR characterized a successional pattern in bacterial community following oil contamination over a four-year bioremediation period. Soil pH and electrical conductivity were associated with the shifts in bacterial community composition. Crops had no detectable effect on bacterial community composition or complexity. However, the legume fodder galega increased soil microbial biomass, expressed as soil total DNA. Oil contamination induced an abrupt change in bacterial community composition at the early stage, yet the effect did not last as long as the oil in soil. The successional variation in bacterial community composition can serve as a sensitive ecological indicator of oil contamination and remediation in situ. Copyright © 2015 Elsevier B.V. All rights reserved.

Land use influences arbuscular mycorrhizal fungal communities in the farming-pastoral ecotone of northern China.

PubMed

Xiang, Dan; Verbruggen, Erik; Hu, Yajun; Veresoglou, Stavros D; Rillig, Matthias C; Zhou, Wenping; Xu, Tianle; Li, Huan; Hao, Zhipeng; Chen, Yongliang; Chen, Baodong

2014-12-01

We performed a landscape-scale investigation to compare the arbuscular mycorrhizal fungal (AMF) communities between grasslands and farmlands in the farming-pastoral ecotone of northern China. AMF richness and community composition were examined with 454 pyrosequencing. Structural equation modelling (SEM) and multivariate analyses were applied to disentangle the direct and indirect effects (mediated by multiple environmental factors) of land use on AMF. Land use conversion from grassland to farmland significantly reduced AMF richness and extraradical hyphal length density, and these land use types also differed significantly in AMF community composition. SEM showed that the effects of land use on AMF richness and hyphal length density in soil were primarily mediated by available phosphorus and soil structural quality. Soil texture was the strongest predictor of AMF community composition. Soil carbon, nitrogen and soil pH were also significantly correlated with AMF community composition, indicating that these abiotic variables could be responsible for some of the community composition differences among sites. Our study shows that land use has a partly predictable effect on AMF communities across this ecologically relevant area of China, and indicates that high soil phosphorus concentrations and poor soil structure are particularly detrimental to AMF in this fragile ecosystem. © 2014 The Author. New Phytologist © 2014 New Phytologist Trust.

Organic carbon and nitrogen availability determine bacterial community composition in paddy fields of the Indo-Gangetic plain.

PubMed

Kumar, Arvind; Rai, Lal Chand

2017-07-01

Soil quality is an important factor and maintained by inhabited microorganisms. Soil physicochemical characteristics determine indigenous microbial population and rice provides food security to major population of the world. Therefore, this study aimed to assess the impact of physicochemical variables on bacterial community composition and diversity in conventional paddy fields which could reflect a real picture of the bacterial communities operating in the paddy agro-ecosystem. To fulfill the objective; soil physicochemical characterization, bacterial community composition and diversity analysis was carried out using culture-independent PCR-DGGE method from twenty soils distributed across eight districts. Bacterial communities were grouped into three clusters based on UPGMA cluster analysis of DGGE banding pattern. The linkage of measured physicochemical variables with bacterial community composition was analyzed by canonical correspondence analysis (CCA). CCA ordination biplot results were similar to UPGMA cluster analysis. High levels of species-environment correlations (0.989 and 0.959) were observed and the largest proportion of species data variability was explained by total organic carbon (TOC), available nitrogen, total nitrogen and pH. Thus, results suggest that TOC and nitrogen are key regulators of bacterial community composition in the conventional paddy fields. Further, high diversity indices and evenness values demonstrated heterogeneity and co-abundance of the bacterial communities.

Changes in zooplankton community, and seston and zooplankton fatty acid profiles at the freshwater/saltwater interface of the Chowan River, North Carolina

PubMed Central

Rinchard, Jacques; Kimmel, David G.

2017-01-01

The variability in zooplankton fatty acid composition may be an indicator of larval fish habitat quality as fatty acids are linked to fish larval growth and survival. We sampled an anadromous fish nursery, the Chowan River, during spring of 2013 in order to determine how the seston fatty acid composition varied in comparison with the zooplankton community composition and fatty acid composition during the period of anadromous larval fish residency. The seston fatty acid profiles showed no distinct pattern in relation to sampling time or location. The mesozooplankton community composition varied spatially and the fatty acid profiles were typical of freshwater species in April. The Chowan River experienced a saltwater intrusion event during May, which resulted in brackish water species dominating the zooplankton community and the fatty acid profile showed an increase in polyunsaturated fatty acids (PUFA), in particular eicosapentaenoic acid (EPA) and docosahexaenoic acid (DHA). The saltwater intrusion event was followed by an influx of freshwater due to high precipitation levels in June. The zooplankton community composition once again became dominated by freshwater species and the fatty acid profiles shifted to reflect this change; however, EPA levels remained high, particularly in the lower river. We found correlations between the seston, microzooplankton and mesozooplankton fatty acid compositions. Salinity was the main factor correlated to the observed pattern in species composition, and fatty acid changes in the mesozooplankton. These data suggest that anadromous fish nursery habitat likely experiences considerable spatial variability in fatty acid profiles of zooplankton prey and that are correlated to seston community composition and hydrodynamic changes. Our results also suggest that sufficient prey density as well as a diverse fatty acid composition is present in the Chowan River to support larval fish production. PMID:28828262

Neighboring trees affect ectomycorrhizal fungal community composition in a woodland-forest ecotone.

PubMed

Hubert, Nathaniel A; Gehring, Catherine A

2008-09-01

Ectomycorrhizal fungi (EMF) are frequently species rich and functionally diverse; yet, our knowledge of the environmental factors that influence local EMF diversity and species composition remains poor. In particular, little is known about the influence of neighboring plants on EMF community structure. We tested the hypothesis that the EMF of plants with heterospecific neighbors would differ in species richness and community composition from the EMF of plants with conspecific neighbors. We conducted our study at the ecotone between pinyon (Pinus edulis)-juniper (Juniperus monosperma) woodland and ponderosa pine (Pinus ponderosa) forest in northern Arizona, USA where the dominant trees formed associations with either EMF (P. edulis and P. ponderosa) or arbuscular mycorrhizal fungi (AMF; J. monosperma). We also compared the EMF communities of pinyon and ponderosa pines where their rhizospheres overlapped. The EMF community composition, but not species richness of pinyon pines was significantly influenced by neighboring AM juniper, but not by neighboring EM ponderosa pine. Ponderosa pine EMF communities were different in species composition when growing in association with pinyon pine than when growing in association with a conspecific. The EMF communities of pinyon and ponderosa pines were similar where their rhizospheres overlapped consisting of primarily the same species in similar relative abundance. Our findings suggest that neighboring tree species identity shaped EMF community structure, but that these effects were specific to host-neighbor combinations. The overlap in community composition between pinyon pine and ponderosa pine suggests that these tree species may serve as reservoirs of EMF inoculum for one another.

Modeling the effects of free-living marine bacterial community composition on heterotrophic remineralization rates and biogeochemical carbon cycling

NASA Astrophysics Data System (ADS)

Teel, E.; Liu, X.; Cram, J. A.; Sachdeva, R.; Fuhrman, J. A.; Levine, N. M.

2016-12-01

Global oceanic ecosystem models either disregard fluctuations in heterotrophic bacterial remineralization or vary remineralization as a simple function of temperature, available carbon, and nutrient limitation. Most of these models were developed before molecular techniques allowed for the description of microbial community composition and functional diversity. Here we investigate the impact of a dynamic heterotrophic community and variable remineralization rates on biogeochemical cycling. Specifically, we integrated variable microbial remineralization into an ecosystem model by utilizing molecular community composition data, association network analysis, and biogeochemical rate data from the San Pedro Ocean Time-series (SPOT) station. Fluctuations in free-living bacterial community function and composition were examined using monthly environmental and biological data collected at SPOT between 2000 and 2011. On average, the bacterial community showed predictable seasonal changes in community composition and peaked in abundance in the spring with a one-month lag from peak chlorophyll concentrations. Bacterial growth efficiency (BGE), estimated from bacterial production, was found to vary widely at the site (5% to 40%). In a multivariate analysis, 47.6% of BGE variability was predicted using primary production, bacterial community composition, and temperature. A classic Nutrient-Phytoplankton-Zooplankton-Detritus model was expanded to include a heterotroph module that captured the observed relationships at the SPOT site. Results show that the inclusion of dynamic bacterial remineralization into larger oceanic ecosystem models can significantly impact microzooplankton grazing, the duration of surface phytoplankton blooms, and picophytoplankton primary production rates.

Succession of bacterial community composition over two consecutive years in two aquatic systems: a natural lake and a lake-reservoir.

PubMed

Boucher, Delphine; Jardillier, Ludwig; Debroas, Didier

2006-01-01

The succession in bacterial community composition was studied over two years in the epilimnion and hypolimnion of two freshwater systems: a natural lake (Pavin Lake) and a lake-reservoir (Sep Reservoir). The bacterial community composition was determined by cloning-sequencing of 16S rRNA and by terminal restriction fragment length polymorphism. Despite large hydrogeological differences, in the Sep Reservoir and Pavin Lake the dominant bacteria were from the same taxonomic divisions, particularly Actinobacteria and Betaproteobacteria. In both ecosystems, these major bacterial divisions showed temporal fluctuations that were much less marked than those occurring at a finer phylogenetic scale. Nutrient availability and mortality factors, the nature of which differed from one lake to another, covaried with the temporal variations in the bacterial community composition at all sampling depths, whereas factors related to seasonal forces (temperature and outflow for Sep Reservoir) seemed to account only for the variation of the hypolimnion bacterial community composition. No seasonal reproducibility in temporal evolution of bacterial community from one year to the next was observed.

Influence of Tree Species Composition and Community Structure on Carbon Density in a Subtropical Forest

PubMed Central

Hu, Yanqiu; Su, Zhiyao; Li, Wenbin; Li, Jingpeng; Ke, Xiandong

2015-01-01

We assessed the impact of species composition and stand structure on the spatial variation of forest carbon density using data collected from a 4-ha plot in a subtropical forest in southern China. We found that 1) forest biomass carbon density significantly differed among communities, reflecting a significant effect of community structure and species composition on carbon accumulation; 2) soil organic carbon density increased whereas stand biomass carbon density decreased across communities, indicating that different mechanisms might account for the accumulation of stand biomass carbon and soil organic carbon in the subtropical forest; and 3) a small number of tree individuals of the medium- and large-diameter class contributed predominantly to biomass carbon accumulation in the community, whereas a large number of seedlings and saplings were responsible for a small proportion of the total forest carbon stock. These findings demonstrate that both biomass carbon and soil carbon density in the subtropical forest are sensitive to species composition and community structure, and that heterogeneity in species composition and stand structure should be taken into account to ensure accurate forest carbon accounting. PMID:26317523

Influence of Tree Species Composition and Community Structure on Carbon Density in a Subtropical Forest.

PubMed

Hu, Yanqiu; Su, Zhiyao; Li, Wenbin; Li, Jingpeng; Ke, Xiandong

2015-01-01

We assessed the impact of species composition and stand structure on the spatial variation of forest carbon density using data collected from a 4-ha plot in a subtropical forest in southern China. We found that 1) forest biomass carbon density significantly differed among communities, reflecting a significant effect of community structure and species composition on carbon accumulation; 2) soil organic carbon density increased whereas stand biomass carbon density decreased across communities, indicating that different mechanisms might account for the accumulation of stand biomass carbon and soil organic carbon in the subtropical forest; and 3) a small number of tree individuals of the medium- and large-diameter class contributed predominantly to biomass carbon accumulation in the community, whereas a large number of seedlings and saplings were responsible for a small proportion of the total forest carbon stock. These findings demonstrate that both biomass carbon and soil carbon density in the subtropical forest are sensitive to species composition and community structure, and that heterogeneity in species composition and stand structure should be taken into account to ensure accurate forest carbon accounting.

Similar processes but different environmental filters for soil bacterial and fungal community composition turnover on a broad spatial scale.

PubMed

Chemidlin Prévost-Bouré, Nicolas; Dequiedt, Samuel; Thioulouse, Jean; Lelièvre, Mélanie; Saby, Nicolas P A; Jolivet, Claudy; Arrouays, Dominique; Plassart, Pierre; Lemanceau, Philippe; Ranjard, Lionel

2014-01-01

Spatial scaling of microorganisms has been demonstrated over the last decade. However, the processes and environmental filters shaping soil microbial community structure on a broad spatial scale still need to be refined and ranked. Here, we compared bacterial and fungal community composition turnovers through a biogeographical approach on the same soil sampling design at a broad spatial scale (area range: 13300 to 31000 km2): i) to examine their spatial structuring; ii) to investigate the relative importance of environmental selection and spatial autocorrelation in determining their community composition turnover; and iii) to identify and rank the relevant environmental filters and scales involved in their spatial variations. Molecular fingerprinting of soil bacterial and fungal communities was performed on 413 soils from four French regions of contrasting environmental heterogeneity (Landes

Legacy effects of no-analogue disturbances alter plant community diversity and composition in semi-arid sagebrush steppe

USGS Publications Warehouse

Ripplinger, Julie; Franklin, Janet; Edwards, Thomas C.

2015-01-01

Questions(i) What role does the type of managed disturbance play in structuring sagebrush steppe plant communities? (ii) How does the composition of post-disturbance plant communities change with time since disturbance? (iii) Does plant community diversity change over time following managed disturbance?LocationField study within the sagebrush steppe ecosystem. Rich County, Utah, USA.MethodsWe developed a chronosequence spanning up to 50 yrs post-treatment to study sagebrush steppe vegetation dynamics. Direct ordination was used to examine plant community composition by managed disturbance type and time since disturbance, and factorial analysis of covariance was used to examine diversity dynamics following disturbance. Indicator species values were calculated in order to identify characteristic species for each disturbance type.ResultsPlant communities experienced a shift toward distinct community composition for each of the three managed disturbance types, and gave no indication of returning to untreated community composition or diversity. Small post-disturbance increases in the number of non-native grass species were observed in the treatments relative to reference, with native forb species making the largest contribution to altered composition. On fire- and chemically-treated sites the proportional native forb species richness increased over time since disturbance, while the proportional contribution of non-native forbs to total species richness decreased. For all three treatment types, native grasses contributed less on average to total richness than on reference sites, while non-native grasses made up a higher proportion of total richness.ConclusionsCommon shrubland management techniques have legacy effects on the composition and diversity of sagebrush steppe plant communities, and no-analogue disturbances, such as chemical or mechanical treatments, have more pronounced legacy effects than treatments similar to natural disturbance regimes (fire). This study informs a broader understanding of how management actions affect natural systems by highlighting the importance of long-term management legacies as drivers of plant community structure and function.

Plant Communities Rather than Soil Properties Structure Arbuscular Mycorrhizal Fungal Communities along Primary Succession on a Mine Spoil

PubMed Central

Krüger, Claudia; Kohout, Petr; Janoušková, Martina; Püschel, David; Frouz, Jan; Rydlová, Jana

2017-01-01

Arbuscular mycorrhizal fungal (AMF) community assembly during primary succession has so far received little attention. It remains therefore unclear, which of the factors, driving AMF community composition, are important during ecosystem development. We addressed this question on a large spoil heap, which provides a mosaic of sites in different successional stages under different managements. We selected 24 sites of c. 12, 20, 30, or 50 years in age, including sites with spontaneously developing vegetation and sites reclaimed by alder plantations. On each site, we sampled twice a year roots of the perennial rhizomatous grass Calamagrostis epigejos (Poaceae) to determine AMF root colonization and diversity (using 454-sequencing), determined the soil chemical properties and composition of plant communities. AMF taxa richness was unaffected by site age, but AMF composition variation increased along the chronosequences. AMF communities were unaffected by soil chemistry, but related to the composition of neighboring plant communities of the sampled C. epigejos plants. In contrast, the plant communities of the sites were more distinctively structured than the AMF communities along the four successional stages. We conclude that AMF and plant community successions respond to different factors. AMF communities seem to be influenced by biotic rather than by abiotic factors and to diverge with successional age. PMID:28473828

Prey versus substrate as determinants of habitat choice in a feeding shorebird

NASA Astrophysics Data System (ADS)

Finn, Paul G.; Catterall, Carla P.; Driscoll, Peter V.

2008-11-01

Many shorebirds on their non-breeding grounds feed on macrobenthic fauna which become available at low tide in coastal intertidal flats. The Eastern Curlew Numenius madagascariensis in Moreton Bay Australia, varies greatly in density among different tidal flats. This study asks: how important is the abundance of intertidal prey as a predictor of this variation? We quantified feeding curlews' diet across 12 sites (different tidal flats, each re-visited at least eight times), through 970 focal observations. We also estimated the abundance of total macrobenthic fauna, potential prey taxa and crustacean prey on each tidal flat; measured as the number of individuals and a relative biomass index per unit substrate surface area obtained from substrate core samples. We estimated curlew density at each site using low-tide surveys from every site visit. Curlew density showed a strong positive association with both the density and biomass of fauna and of potential prey ( r values all around 0.70) across the 12 flats. Associations with crustacean density and biomass were also statistically significant (r values both 0.60). However, these variables also showed a strong negative correlation with a measure of substrate resistance (based on the amount of hard material in the substrate core), which was the best predictor of curlew density ( r = -0.82). Curlews were most abundant at sites with the least resistant substrate, and these sites also generally had the highest faunal density and biomass. When the effect of substrate resistance was statistically removed, curlew density was no longer significantly correlated with fauna density and biomass. This suggests that macro-scale habitat choice by Eastern Curlew on their non-breeding grounds is more strongly influenced by prey availability (which is higher when substrate resistance is lower) than by prey density or biomass, although in Moreton Bay a positive correlation across sites meant that these factors were synergistic.

Isotopic determination of the trophic ecology of a ubiquitous key species - The crab Liocarcinus depurator (Brachyura: Portunidae)

NASA Astrophysics Data System (ADS)

Careddu, Giulio; Calizza, Edoardo; Costantini, Maria Letizia; Rossi, Loreto

2017-05-01

Knowledge of the trophic ecology of predators is key to understanding how they affect food web structure and ecosystem functioning. The harbour crab Liocarcinus depurator (L.) (Brachyura: Portunidae) is one of the most abundant decapod species in soft-bottom areas of the Mediterranean Sea and northeast Atlantic Ocean. It is both a common prey and predator of commercial and non-commercial marine species and its predation pressure appears to have little effect on the subtidal community assemblage. However, there are few studies of its diet and little is known about its role in mediating energy flows in marine ecosystems. In this study, carbon (δ13C) and nitrogen (δ15N) stable isotope analysis (SIA) and Bayesian analytical tools were used to characterise the trophic niche of L. depurator and to quantify the most important prey supporting this species under various environmental conditions. Specimens of L. depurator, their potential prey and basal resources were collected from two different subtidal areas of the Gulf of Gaeta, one affected by human activities (north side) and the other seasonally influenced by freshwater inputs originating from the River Garigliano (south side). While there were differences between the two sampling areas in terms of the abundance and δ15N and δ13C values of the macrobenthic prey community, no differences in the δ15N values and trophic position of L. depurator were observed. Specifically, Bayesian mixing models showed Polychaeta Errantia as the main source of crab diets in both areas. The observed differences in the δ13C values and the analysis of trophic pathways also indicate that the terrestrial organic matter originating from the discharge of the River Garigliano was integrated along the food web up to L. depurator. Although this species is usually considered an opportunistic feeder, it appears to be highly selective and its trophic habits did not influence food web topology, which in contrast was found to be strongly influenced by River Garigliano discharge.

A long-term study of the recovery of the macrozoobenthos on large defaunated plots on a tidal flat in the Wadden Sea

NASA Astrophysics Data System (ADS)

Beukema, J. J.; Flach, E. C.; Dekker, R.; Starink, M.

1999-11-01

The process of recovery of the macrozoobenthos community on tidal flats after disturbance by anoxia was studied by monitoring changes in the macrozoobenthos over periods of up to 4.5 year within and around eleven defaunated squares of about 120 m 2 each. Regardless of the season, nearly all species that were present in the surrounding area had settled again in the central parts of the plots within 6 months, though their numbers were generally low if only a winter half-year had elapsed. The total numbers of macrobenthic animals reached values similar to those of the surrounding areas as soon as the recovery period had included at least one summer. Numerical recovery thus proceeded much faster if it started in spring than in autumn. As opposed to species richness and total number of animals, biomass recovery needed several years, as did the recovery of the size and age structure of the long-lived species. Most species settled primarily as early postlarvae in summer, a few species ( Macoma balthica, Arenicola marina) also in high numbers as juveniles in winter. Moreover, several species showed slow colonisation in all seasons by adults transported by tidal currents or moving across the sediment. Seasonal migration abilities of the constituent species and their life stages appear to be the most important mechanism explaining the course of the recovery of the infaunal community on tidal flats. The extraordinarily successful settlement of larvae of several species within still sparsely populated plots led to (sometimes substantially) higher densities of these species within than outside the plots. Such abundance overshoots were not only frequently observed in short-lived opportunistic species (such as Pygospio elegans and Capitella capitata) but also in the juveniles of several long-lived species (such as Macoma balthica and Mya arenaria). It is concluded that inhibition outside rather than facilitation within the plots was an important cause of these abundance overshoots.

Relating belowground microbial composition to the taxonomic, phylogenetic, and functional trait distributions of trees in a tropical forest.

PubMed

Barberán, Albert; McGuire, Krista L; Wolf, Jeffrey A; Jones, F Andrew; Wright, Stuart Joseph; Turner, Benjamin L; Essene, Adam; Hubbell, Stephen P; Faircloth, Brant C; Fierer, Noah

2015-12-01

The complexities of the relationships between plant and soil microbial communities remain unresolved. We determined the associations between plant aboveground and belowground (root) distributions and the communities of soil fungi and bacteria found across a diverse tropical forest plot. Soil microbial community composition was correlated with the taxonomic and phylogenetic structure of the aboveground plant assemblages even after controlling for differences in soil characteristics, but these relationships were stronger for fungi than for bacteria. In contrast to expectations, the species composition of roots in our soil core samples was a poor predictor of microbial community composition perhaps due to the patchy, ephemeral, and highly overlapping nature of fine root distributions. Our ability to predict soil microbial composition was not improved by incorporating information on plant functional traits suggesting that the most commonly measured plant traits are not particularly useful for predicting the plot-level variability in belowground microbial communities. © 2015 John Wiley & Sons Ltd/CNRS.

Intrinsic and extrinsic drivers of succession: Effects of habitat age and season on an aquatic insect community.

PubMed

Murrell, Ebony G; Ives, Anthony R; Juliano, Steven A

2014-06-01

1. Classical studies of succession, largely dominated by plant community studies, focus on intrinsic drivers of change in community composition, such as interspecific competition and changes to the abiotic environment. They often do not consider extrinsic drivers of colonization, such as seasonal phenology, that can affect community change. 2. We investigated both intrinsic and extrinsic drivers of succession for dipteran communities that occupy ephemeral pools, such as those in artificial containers. By initiating communities at different times in the season and following them over time, we compared the relative importance of intrinsic (i.e., habitat age) vs. extrinsic (i.e., seasonal phenology) drivers of succession. 3. We placed water-filled artificial containers in a deciduous forest with 20 containers initiated in each of three months. Containers were sampled weekly to assess community composition. Repeated-measures mixed-effects analysis of community correspondence analysis (CA) scores enabled us to partition intrinsic and extrinsic effects on succession. Covariates of temperature and precipitation were also tested. 4. Community trajectories (as defined by CA) differed significantly with habitat age and season, indicating that both intrinsic and extrinsic effects influence succession patterns. Comparisons of AICcs showed that habitat age was more important than season for species composition. Temperature and precipitation did not explain composition changes beyond those explained by habitat age and season. 5. Quantification of relative strengths of intrinsic and extrinsic effects on succession in dipteran and other ephemeral communities enables us to disentangle processes that must be understood for predicting changes in community composition.

Fungal community composition and diversity vary with soil depths and landscape position in a no-till wheat cropping system.

USDA-ARS?s Scientific Manuscript database

Fungal communities in soil are critical to plant health and ecosystem processes in agricultural systems. Although the composition of fungal communities is often related to soil edaphic characteristic and host plant identity, there is a paucity of information on how communities vary with soil depth a...

Compositional differences in simulated root exudates elicit a limited functional and compositional response in soil microbial communities.

PubMed

Strickland, Michael S; McCulley, Rebecca L; Nelson, Jim A; Bradford, Mark A

2015-01-01

Inputs of low molecular weight carbon (LMW-C) to soil - primarily via root exudates- are expected to be a major driver of microbial activity and source of stable soil organic carbon. It is expected that variation in the type and composition of LMW-C entering soil will influence microbial community composition and function. If this is the case then short-term changes in LMW-C inputs may alter processes regulated by these communities. To determine if change in the composition of LMW-C inputs influences microbial community function and composition, we conducted a 90 day microcosm experiment whereby soils sourced from three different land covers (meadows, deciduous forests, and white pine stands) were amended, at low concentrations, with one of eight simulated root exudate treatments. Treatments included no addition of LMW-C, and the full factorial combination of glucose, glycine, and oxalic acid. After 90 days, we conducted a functional response assay and determined microbial composition via phospholipid fatty acid analysis. Whereas we noted a statistically significant effect of exudate treatments, this only accounted for ∼3% of the variation observed in function. In comparison, land cover and site explained ∼46 and ∼41% of the variation, respectively. This suggests that exudate composition has little influence on function compared to site/land cover specific factors. Supporting the finding that exudate effects were minor, we found that an absence of LMW-C elicited the greatest difference in function compared to those treatments receiving any LMW-C. Additionally, exudate treatments did not alter microbial community composition and observable differences were instead due to land cover. These results confirm the strong effects of land cover/site legacies on soil microbial communities. In contrast, short-term changes in exudate composition, at meaningful concentrations, may have little impact on microbial function and composition.

Change in soil fungal community structure driven by a decline in ectomycorrhizal fungi following a mountain pine beetle (Dendroctonus ponderosae) outbreak.

PubMed

Pec, Gregory J; Karst, Justine; Taylor, D Lee; Cigan, Paul W; Erbilgin, Nadir; Cooke, Janice E K; Simard, Suzanne W; Cahill, James F

2017-01-01

Western North American landscapes are rapidly being transformed by forest die-off caused by mountain pine beetle (Dendroctonus ponderosae), with implications for plant and soil communities. The mechanisms that drive changes in soil community structure, particularly for the highly prevalent ectomycorrhizal fungi in pine forests, are complex and intertwined. Critical to enhancing understanding will be disentangling the relative importance of host tree mortality from changes in soil chemistry following tree death. Here, we used a recent bark beetle outbreak in lodgepole pine (Pinus contorta) forests of western Canada to test whether the effects of tree mortality altered the richness and composition of belowground fungal communities, including ectomycorrhizal and saprotrophic fungi. We also determined the effects of environmental factors (i.e. soil nutrients, moisture, and phenolics) and geographical distance, both of which can influence the richness and composition of soil fungi. The richness of both groups of soil fungi declined and the overall composition was altered by beetle-induced tree mortality. Soil nutrients, soil phenolics and geographical distance influenced the community structure of soil fungi; however, the relative importance of these factors differed between ectomycorrhizal and saprotrophic fungi. The independent effects of tree mortality, soil phenolics and geographical distance influenced the community composition of ectomycorrhizal fungi, while the community composition of saprotrophic fungi was weakly but significantly correlated with the geographical distance of plots. Taken together, our results indicate that both deterministic and stochastic processes structure soil fungal communities following landscape-scale insect outbreaks and reflect the independent roles tree mortality, soil chemistry and geographical distance play in regulating the community composition of soil fungi. © 2016 The Authors. New Phytologist © 2016 New Phytologist Trust.

Similar Processes but Different Environmental Filters for Soil Bacterial and Fungal Community Composition Turnover on a Broad Spatial Scale

PubMed Central

Chemidlin Prévost-Bouré, Nicolas; Dequiedt, Samuel; Thioulouse, Jean; Lelièvre, Mélanie; Saby, Nicolas P. A.; Jolivet, Claudy; Arrouays, Dominique; Plassart, Pierre; Lemanceau, Philippe; Ranjard, Lionel

2014-01-01

Spatial scaling of microorganisms has been demonstrated over the last decade. However, the processes and environmental filters shaping soil microbial community structure on a broad spatial scale still need to be refined and ranked. Here, we compared bacterial and fungal community composition turnovers through a biogeographical approach on the same soil sampling design at a broad spatial scale (area range: 13300 to 31000 km2): i) to examine their spatial structuring; ii) to investigate the relative importance of environmental selection and spatial autocorrelation in determining their community composition turnover; and iii) to identify and rank the relevant environmental filters and scales involved in their spatial variations. Molecular fingerprinting of soil bacterial and fungal communities was performed on 413 soils from four French regions of contrasting environmental heterogeneity (Landes

Habitat connectivity shapes urban arthropod communities: the key role of green roofs.

PubMed

Braaker, S; Ghazoul, J; Obrist, M K; Moretti, M

2014-04-01

The installation of green roofs, defined here as rooftops with a shallow soil cover and extensive vegetation, has been proposed as a possible measure to mitigate the loss of green space caused by the steady growth of cities. However, the effectiveness of green roofs in supporting arthropod communities, and the extent to which they facilitate connectivity of these communities within the urban environment is currently largely unknown. We investigated the variation of species community composition (beta diversity) of four arthropod groups with contrasting mobility (Carabidae, Araneae, Curculionidae, and Apidae) on 40 green roofs and 40 extensively managed green sites on the ground in the city of Zurich, Switzerland. With redundancy analysis and variation partitioning, we (1) disentangled the relative importance of local environmental conditions, the surrounding land cover composition, and habitat connectivity on species community composition, (2) searched for specific spatial scales of habitat connectivity for the different arthropod groups, and (3) discussed the ecological and functional value of green roofs in cities. Our study revealed that on green roofs community composition of high-mobility arthropod groups (bees and weevils) were mainly shaped by habitat connectivity, while low-mobility arthropod groups (carabids and spiders) were more influenced by local environmental conditions. A similar but less pronounced pattern was found for ground communities. The high importance of habitat connectivity in shaping high-mobility species community composition indicates that these green roof communities are substantially connected by the frequent exchange of individuals among surrounding green roofs. On the other hand, low-mobility species communities on green roofs are more likely connected to ground sites than to other green roofs. The integration of green roofs in urban spatial planning strategies has great potential to enable higher connectivity among green spaces, so that eventually even communities of low-mobility species become connected. Furthermore, improving the design of green roofs (composition and configuration of vegetation and soil types) could enhance the ecological value, particularly for low-mobility species.

Grazing of leaf-associated Cercomonads (Protists: Rhizaria: Cercozoa) structures bacterial community composition and function.

PubMed

Flues, Sebastian; Bass, David; Bonkowski, Michael

2017-08-01

Preferential food selection in protists is well documented, but we still lack basic understanding on how protist predation modifies the taxonomic and functional composition of bacterial communities. We conducted feeding trials using leaf-associated cercomonad Cercozoa by incubating them on a standardized, diverse bacterial community washed from plant leaves. We used a shotgun metagenomics approach to investigate the taxonomic and functional changes of the bacterial community after five days protist predation on bacteria. Predation-induced shifts in bacterial community composition could be linked to phenotypic protist traits. Protist reproduction rate, morphological plasticity and cell speed were most important in determining bacterial community composition. Analyses of co-occurrence patterns showed less complex correlations between bacterial taxa in the protist-grazed treatments with a higher proportion of positive correlations than in non-grazed controls, suggesting that predation reduced the influence of strong competitors. Protist predation influenced 14 metabolic core functions including membrane transport from which type VI secretion systems were in particular upregulated. In view of the functional importance of bacterial communities in the phyllosphere and rhizosphere of plants, a more detailed understanding of predator-prey interactions, changes in microbial composition and function, and subsequent repercussions on plant performance are clearly required. © 2017 Society for Applied Microbiology and John Wiley & Sons Ltd.

Effects of biochar blends on microbial community composition in two coastal plain soils

EPA Science Inventory

The amendment of soil with biochar has been demonstrated to have an effect not only on the soil physicochemical properties, but also on soil microbial community composition and activity. Previous reports have demonstrated significant impacts on soil microbial community structure....

Composition, Cognition, Creativity, and Community

ERIC Educational Resources Information Center

Moberg, Eric Michael; Kobylarz, Philip

2015-01-01

The purpose of this study was to examine the intersection between and among creativity, cognition, composition, and community. Researchers studied hundreds of adult students from several California community colleges and private universities by means of surveys, observations, and interviews to augment an extensive historical literature review.…

Temporal Dynamics of the Human Vaginal Microbiota

PubMed Central

Gajer, Pawel; Brotman, Rebecca M.; Bai, Guoyun; Sakamoto, Joyce; Schütte, Ursel M.E.; Zhong, Xue; Koenig, Sara S.K.; Fu, Li; Ma, Zhanshan; Zhou, Xia; Abdo, Zaid; Forney, Larry J.; Ravel, Jacques

2012-01-01

Elucidating the factors that impinge on the stability of bacterial communities in the vagina may help in predicting the risk of diseases that affect women’s health. Here, we describe the temporal dynamics of the composition of vaginal bacterial communities in 32 reproductive age women over a 16-week period. The analysis revealed the dynamics of five major classes of bacterial communities and showed that some communities change markedly over short time periods, whereas others are relatively stable. Modeling community stability using new quantitative measures indicates that deviation from stability correlates with time in the menstrual cycle, bacterial community composition and sexual activity. The women studied are healthy, thus it appears that neither variation in community composition per se, nor higher levels of observed diversity (co-dominance) are necessarily indicative of dysbiosis, in which there is microbial imbalance accompanied by symptoms. PMID:22553250

Native arbuscular mycorrhizal symbiosis alters foliar bacterial community composition.

PubMed

Poosakkannu, Anbu; Nissinen, Riitta; Kytöviita, Minna-Maarit

2017-11-01

The effects of arbuscular mycorrhizal (AM) fungi on plant-associated microbes are poorly known. We tested the hypothesis that colonization by an AM fungus affects microbial species richness and microbial community composition of host plant tissues. We grew the grass, Deschampsia flexuosa in a greenhouse with or without the native AM fungus, Claroideoglomus etunicatum. We divided clonally produced tillers into two parts: one inoculated with AM fungus spores and one without AM fungus inoculation (non-mycorrhizal, NM). We characterized bacterial (16S rRNA gene) and fungal communities (internal transcribed spacer region) in surface-sterilized leaf and root plant compartments. AM fungus inoculation did not affect microbial species richness or diversity indices in leaves or roots, but the AM fungus inoculation significantly affected bacterial community composition in leaves. A total of three OTUs in leaves belonging to the phylum Firmicutes positively responded to the presence of the AM fungus in roots. Another six OTUs belonging to the Proteobacteria (Alpha, Beta, and Gamma) and Bacteroidetes were significantly more abundant in NM plants when compared to AM fungus-inoculated plants. Further, there was a significant correlation between plant dry weight and leaf microbial community compositional shift. Also, there was a significant correlation between leaf bacterial community compositional shift and foliar nitrogen content changes due to AM fungus inoculation. The results suggest that AM fungus colonization in roots has a profound effect on plant physiology that is reflected in leaf bacterial community composition.

First Investigation of Microbial Community Composition in the Bridge (Gadeok Channel) between the Jinhae-Masan Bay and the South Sea of Korea

NASA Astrophysics Data System (ADS)

Lee, Jiyoung; Lim, Jae-Hyun; Park, Junhyung; Youn, Seok-Hyun; Oh, Hyun-Ju; Kim, Ju-Hyoung; Kim, Myung Kyum; Cho, Hyeyoun; Yoon, Joo-Eun; Kim, Soyeon; Markkandan, Kesavan; Park, Ki-Tae; Kim, Il-Nam

2018-02-01

Microbial community composition varies based on seasonal dynamics (summer: strongly stratified water column; autumn: weakly stratified water column; winter: vertically homogeneous water column) and vertical distributions (surface, middle, and bottom depths) in the Gadeok Channel, which is the primary passage to exchange waters and materials between the Jinhae-Masan Bay and the South Sea waters. The microbial community composition was analyzed from June to December 2016 using 16S rRNA gene sequencing. The community was dominated by the phyla Proteobacteria (45%), Bacteroidetes (18%), Cyanobacteria (15%), Verrucomicrobia (6%), and Actinobacteria (6%). Alphaproteobacteria (29%) was the most abundant microbial class, followed by Flavobacteria (15%) and Gammaproteobacteria (15%) in all samples. The composition of the microbial communities was found to vary vertically and seasonally. The orders Flavobacteriales and Stramenopiles showed opposing seasonal patterns; Flavobacteriales was more abundant in August and December while Stramenopiles showed high abundance in June and October at all depths. The genus Synechococcus reached extremely high abundance (14%) in the June surface water column, but was much less abundant in December water columns. Clustering analysis showed that there was a difference in the microbial community composition pattern between the strongly stratified season and well-mixed season. These results indicate that the seasonal dynamics of physicochemical and hydrologic conditions throughout the water column are important parameters in shaping the microbial community composition in the Gadeok Channel.

Effect of ocean acidification on the structure and fatty acid composition of a natural plankton community in the Baltic Sea

NASA Astrophysics Data System (ADS)

Bermúdez, Rafael; Winder, Monika; Stuhr, Annegret; Almén, Anna-Karin; Engström-Öst, Jonna; Riebesell, Ulf

2016-12-01

Increasing atmospheric carbon dioxide (CO2) is changing seawater chemistry towards reduced pH, which affects various properties of marine organisms. Coastal and brackish water communities are expected to be less affected by ocean acidification (OA) as these communities are typically adapted to high fluctuations in CO2 and pH. Here we investigate the response of a coastal brackish water plankton community to increasing CO2 levels as projected for the coming decades and the end of this century in terms of community and biochemical fatty acid (FA) composition. A Baltic Sea plankton community was enclosed in a set of offshore mesocosms and subjected to a CO2 gradient ranging from natural concentrations ( ˜ 347 µatm fCO2) up to values projected for the year 2100 ( ˜ 1333 µatm fCO2). We show that the phytoplankton community composition was resilient to CO2 and did not diverge between the treatments. Seston FA composition was influenced by community composition, which in turn was driven by silicate and phosphate limitation in the mesocosms and showed no difference between the CO2 treatments. These results suggest that CO2 effects are dampened in coastal communities that already experience high natural fluctuations in pCO2. Although this coastal plankton community was tolerant of high pCO2 levels, hypoxia and CO2 uptake by the sea can aggravate acidification and may lead to pH changes outside the currently experienced range for coastal organisms.

Phytoplankton responses to temperature increases are constrained by abiotic conditions and community composition.

PubMed

Striebel, Maren; Schabhüttl, Stefanie; Hodapp, Dorothee; Hingsamer, Peter; Hillebrand, Helmut

2016-11-01

Effects of temperature changes on phytoplankton communities seem to be highly context-specific, but few studies have analyzed whether this context specificity depends on differences in the abiotic conditions or in species composition between studies. We present an experiment that allows disentangling the contribution of abiotic and biotic differences in shaping the response to two aspects of temperature change: permanent increase of mean temperature versus pulse disturbance in form of a heat wave. We used natural communities from six different sites of a floodplain system as well as artificially mixed communities from laboratory cultures and grew both, artificial and natural communities, in water from the six different floodplain lakes (sites). All 12 contexts (2 communities × 6 sites) were first exposed to three different temperature levels (12, 18, 24 °C, respectively) and afterward to temperature pulses (4 °C increase for 7 h day(-1)). Temperature-dependent changes in biomass and community composition depended on the initial composition of phytoplankton communities. Abiotic conditions had a major effect on biomass of phytoplankton communities exposed to different temperature conditions, however, the effect of biotic and abiotic conditions together was even more pronounced. Additionally, phytoplankton community responses to pulse temperature effects depended on the warming history. By disentangling abiotic and biotic effects, our study shows that temperature-dependent effects on phytoplankton communities depend on both, biotic and abiotic constraints.

Microbial community composition and endolith colonization at an Arctic thermal spring are driven by calcite precipitation

USGS Publications Warehouse

Starke, Verena; Kirshtein, Julie; Fogel, Marilyn L.; Steele, Andrew

2013-01-01

Environmental conditions shape community composition. Arctic thermal springs provide an opportunity to study how environmental gradients can impose strong selective pressures on microbial communities and provide a continuum of niche opportunities. We use microscopic and molecular methods to conduct a survey of microbial community composition at Troll Springs on Svalbard, Norway, in the high Arctic. Microorganisms there exist under a wide range of environmental conditions: in warm water as periphyton, in moist granular materials, and in cold, dry rock as endoliths. Troll Springs has two distinct ecosystems, aquatic and terrestrial, together in close proximity, with different underlying environmental factors shaping each microbial community. Periphyton are entrapped during precipitation of calcium carbonate from the spring's waters, providing microbial populations that serve as precursors for the development of endolithic communities. This process differs from most endolith colonization, in which the rock predates the communities that colonize it. Community composition is modulated as environmental conditions change within the springs. At Troll, the aquatic environments show a small number of dominant operational taxonomic units (OTUs) that are specific to each sample. The terrestrial environments show a more even distribution of OTUs common to multiple samples.

Soil biodiversity and soil community composition determine ecosystem multifunctionality

PubMed Central

Wagg, Cameron; Bender, S. Franz; Widmer, Franco; van der Heijden, Marcel G. A.

2014-01-01

Biodiversity loss has become a global concern as evidence accumulates that it will negatively affect ecosystem services on which society depends. So far, most studies have focused on the ecological consequences of above-ground biodiversity loss; yet a large part of Earth’s biodiversity is literally hidden below ground. Whether reductions of biodiversity in soil communities below ground have consequences for the overall performance of an ecosystem remains unresolved. It is important to investigate this in view of recent observations that soil biodiversity is declining and that soil communities are changing upon land use intensification. We established soil communities differing in composition and diversity and tested their impact on eight ecosystem functions in model grassland communities. We show that soil biodiversity loss and simplification of soil community composition impair multiple ecosystem functions, including plant diversity, decomposition, nutrient retention, and nutrient cycling. The average response of all measured ecosystem functions (ecosystem multifunctionality) exhibited a strong positive linear relationship to indicators of soil biodiversity, suggesting that soil community composition is a key factor in regulating ecosystem functioning. Our results indicate that changes in soil communities and the loss of soil biodiversity threaten ecosystem multifunctionality and sustainability. PMID:24639507

High taxonomic variability despite stable functional structure across microbial communities.

PubMed

Louca, Stilianos; Jacques, Saulo M S; Pires, Aliny P F; Leal, Juliana S; Srivastava, Diane S; Parfrey, Laura Wegener; Farjalla, Vinicius F; Doebeli, Michael

2016-12-05

Understanding the processes that are driving variation of natural microbial communities across space or time is a major challenge for ecologists. Environmental conditions strongly shape the metabolic function of microbial communities; however, other processes such as biotic interactions, random demographic drift or dispersal limitation may also influence community dynamics. The relative importance of these processes and their effects on community function remain largely unknown. To address this uncertainty, here we examined bacterial and archaeal communities in replicate 'miniature' aquatic ecosystems contained within the foliage of wild bromeliads. We used marker gene sequencing to infer the taxonomic composition within nine metabolic functional groups, and shotgun environmental DNA sequencing to estimate the relative abundances of these groups. We found that all of the bromeliads exhibited remarkably similar functional community structures, but that the taxonomic composition within individual functional groups was highly variable. Furthermore, using statistical analyses, we found that non-neutral processes, including environmental filtering and potentially biotic interactions, at least partly shaped the composition within functional groups and were more important than spatial dispersal limitation and demographic drift. Hence both the functional structure and taxonomic composition within functional groups of natural microbial communities may be shaped by non-neutral and roughly separate processes.

Seasonal composition and activity of sulfate-reducing prokaryotic communities in seagrass bed sediments

EPA Science Inventory

Sulfate-reducing prokaryotes (SRP) play a key role in the carbon and nutrient cycles of coastal marine, vegetated ecosystems, but the interactions of SRP communities with aquatic plants remain little studied. The abundance, activity, and community composition of SRP was studied i...

Floral and nesting resources, habitat structure, and fire influence bee distribution across an open-forest gradient

USGS Publications Warehouse

Grundel, R.; Jean, R.P.; Frohnapple, K.J.; Glowacki, G.A.; Scott, P.E.; Pavlovic, N.B.

2010-01-01

Given bees' central effect on vegetation communities, it is important to understand how and why bee distributions vary across ecological gradients. We examined how plant community composition, plant diversity, nesting suitability, canopy cover, land use, and fire history affected bee distribution across an open-forest gradient in northwest Indiana, USA, a gradient similar to the historic Midwest United States landscape mosaic. When considered with the other predictors, plant community composition was not a significant predictor of bee community composition. Bee abundance was negatively related to canopy cover and positively to recent fire frequency, bee richness was positively related to plant richness and abundance of potential nesting resources, and bee community composition was significantly related to plant richness, soil characteristics potentially related to nesting suitability, and canopy cover. Thus, bee abundance was predicted by a different set of environmental characteristics than was bee species richness, and bee community composition was predicted, in large part, by a combination of the significant predictors of bee abundance and richness. Differences in bee community composition along the woody vegetation gradient were correlated with relative abundance of oligolectic, or diet specialist, bees. Because oligoleges were rarer than diet generalists and were associated with open habitats, their populations may be especially affected by degradation of open habitats. More habitat-specialist bees were documented for open and forest/scrub habitats than for savanna/woodland habitats, consistent with bees responding to habitats of intermediate woody vegetation density, such as savannas, as ecotones rather than as distinct habitat types. Similarity of bee community composition, similarity of bee abundance, and similarity of bee richness between sites were not significantly related to proximity of sites to each other. Nestedness analysis indicated that species composition in species-poor sites was not merely a subset of species composition at richer sites. The lack of significant proximity or nestedness effects suggests that factors at a small spatial scale strongly influence bees' use of sites. The findings indicate that patterns of plant diversity, nesting resource availability, recent fire, and habitat shading, present at the scale of a few hundred meters, are key determinants of bee community patterns in the mosaic open-savanna-forest landscape. ?? 2010 by the Ecological Society of America.

An improved null model for assessing the net effects of multiple stressors on communities.

PubMed

Thompson, Patrick L; MacLennan, Megan M; Vinebrooke, Rolf D

2018-01-01

Ecological stressors (i.e., environmental factors outside their normal range of variation) can mediate each other through their interactions, leading to unexpected combined effects on communities. Determining whether the net effect of stressors is ecologically surprising requires comparing their cumulative impact to a null model that represents the linear combination of their individual effects (i.e., an additive expectation). However, we show that standard additive and multiplicative null models that base their predictions on the effects of single stressors on community properties (e.g., species richness or biomass) do not provide this linear expectation, leading to incorrect interpretations of antagonistic and synergistic responses by communities. We present an alternative, the compositional null model, which instead bases its predictions on the effects of stressors on individual species, and then aggregates them to the community level. Simulations demonstrate the improved ability of the compositional null model to accurately provide a linear expectation of the net effect of stressors. We simulate the response of communities to paired stressors that affect species in a purely additive fashion and compare the relative abilities of the compositional null model and two standard community property null models (additive and multiplicative) to predict these linear changes in species richness and community biomass across different combinations (both positive, negative, or opposite) and intensities of stressors. The compositional model predicts the linear effects of multiple stressors under almost all scenarios, allowing for proper classification of net effects, whereas the standard null models do not. Our findings suggest that current estimates of the prevalence of ecological surprises on communities based on community property null models are unreliable, and should be improved by integrating the responses of individual species to the community level as does our compositional null model. © 2017 John Wiley & Sons Ltd.

Experimental soil warming shifts the fungal community composition at the alpine treeline.

PubMed

Solly, Emily F; Lindahl, Björn D; Dawes, Melissa A; Peter, Martina; Souza, Rômulo C; Rixen, Christian; Hagedorn, Frank

2017-07-01

Increased CO 2 emissions and global warming may alter the composition of fungal communities through the removal of temperature limitation in the plant-soil system, faster nitrogen (N) cycling and changes in the carbon (C) allocation of host plants to the rhizosphere. At a Swiss treeline featuring Larix decidua and Pinus uncinata, the effects of multiple years of CO 2 enrichment and experimental soil warming on the fungal community composition in the organic horizons were analysed using 454-pyrosequencing of ITS2 amplicons. Sporocarp production and colonization of ectomycorrhizal root tips were investigated in parallel. Fungal community composition was significantly altered by soil warming, whereas CO 2 enrichment had little effect. Tree species influenced fungal community composition and the magnitude of the warming responses. The abundance of ectomycorrhizal fungal taxa was positively correlated with N availability, and ectomycorrhizal taxa specialized for conditions of high N availability proliferated with warming, corresponding to considerable increases in inorganic N in warmed soils. Traits related to N utilization are important in determining the responses of ectomycorrhizal fungi to warming in N-poor cold ecosystems. Shifts in the overall fungal community composition in response to higher temperatures may alter fungal-driven processes with potential feedbacks on ecosystem N cycling and C storage at the alpine treeline. © 2017 The Authors. New Phytologist © 2017 New Phytologist Trust.

Linking the development and functioning of a carnivorous pitcher plant's microbial digestive community.

PubMed

Armitage, David W

2017-11-01

Ecosystem development theory predicts that successional turnover in community composition can influence ecosystem functioning. However, tests of this theory in natural systems are made difficult by a lack of replicable and tractable model systems. Using the microbial digestive associates of a carnivorous pitcher plant, I tested hypotheses linking host age-driven microbial community development to host functioning. Monitoring the yearlong development of independent microbial digestive communities in two pitcher plant populations revealed a number of trends in community succession matching theoretical predictions. These included mid-successional peaks in bacterial diversity and metabolic substrate use, predictable and parallel successional trajectories among microbial communities, and convergence giving way to divergence in community composition and carbon substrate use. Bacterial composition, biomass, and diversity positively influenced the rate of prey decomposition, which was in turn positively associated with a host leaf's nitrogen uptake efficiency. Overall digestive performance was greatest during late summer. These results highlight links between community succession and ecosystem functioning and extend succession theory to host-associated microbial communities.

Bacterial, fungal, and plant communities exhibit no biomass or compositional response to two years of simulated nitrogen deposition in a semiarid grassland: Bacterial, fungal, and plant communities

DOE Office of Scientific and Technical Information (OSTI.GOV)

McHugh, Theresa A.; Morrissey, Ember M.; Mueller, Rebecca C.

Nitrogen (N) deposition affects myriad aspects of terrestrial ecosystem structure and function, and microbial communities may be particularly sensitive to anthropogenic N inputs. However, our understanding of N deposition effects on microbial communities is far from complete, especially for drylands where data are comparatively rare. To address the need for an improved understanding of dryland biological responses to N deposition, we conducted a two-year fertilization experiment in a semiarid grassland on the Colorado Plateau in the southwestern United States. We evaluated effects of varied levels of N inputs on archaeal, bacterial, fungal and chlorophyte community composition within three microhabitats: biologicalmore » soil crusts (biocrusts), soil below biocrusts, and the plant rhizosphere. Surprisingly, N addition did not affect the community composition or diversity of any of these microbial groups; however, microbial community composition varied significantly among sampling microhabitats. Further, while plant richness, diversity, and cover showed no response to N addition, there were strong linkages between plant properties and microbial community structure. Overall, these findings highlight the potential for some dryland communities to have limited biotic ability to retain augmented N inputs, possibly leading to large N losses to the atmosphere and to aquatic systems.« less

Bacterial, fungal, and plant communities exhibit no biomass or compositional response to two years of simulated nitrogen deposition in a semiarid grassland: Bacterial, fungal, and plant communities

DOE PAGES

McHugh, Theresa A.; Morrissey, Ember M.; Mueller, Rebecca C.; ...

2017-03-13

Nitrogen (N) deposition affects myriad aspects of terrestrial ecosystem structure and function, and microbial communities may be particularly sensitive to anthropogenic N inputs. However, our understanding of N deposition effects on microbial communities is far from complete, especially for drylands where data are comparatively rare. To address the need for an improved understanding of dryland biological responses to N deposition, we conducted a two-year fertilization experiment in a semiarid grassland on the Colorado Plateau in the southwestern United States. We evaluated effects of varied levels of N inputs on archaeal, bacterial, fungal and chlorophyte community composition within three microhabitats: biologicalmore » soil crusts (biocrusts), soil below biocrusts, and the plant rhizosphere. Surprisingly, N addition did not affect the community composition or diversity of any of these microbial groups; however, microbial community composition varied significantly among sampling microhabitats. Further, while plant richness, diversity, and cover showed no response to N addition, there were strong linkages between plant properties and microbial community structure. Overall, these findings highlight the potential for some dryland communities to have limited biotic ability to retain augmented N inputs, possibly leading to large N losses to the atmosphere and to aquatic systems.« less

Coral Reef Community Composition in the Context of Disturbance History on the Great Barrier Reef, Australia

PubMed Central

Graham, Nicholas A. J.; Chong-Seng, Karen M.; Huchery, Cindy; Januchowski-Hartley, Fraser A.; Nash, Kirsty L.

2014-01-01

Much research on coral reefs has documented differential declines in coral and associated organisms. In order to contextualise this general degradation, research on community composition is necessary in the context of varied disturbance histories and the biological processes and physical features thought to retard or promote recovery. We conducted a spatial assessment of coral reef communities across five reefs of the central Great Barrier Reef, Australia, with known disturbance histories, and assessed patterns of coral cover and community composition related to a range of other variables thought to be important for reef dynamics. Two of the reefs had not been extensively disturbed for at least 15 years prior to the surveys. Three of the reefs had been severely impacted by crown-of-thorns starfish outbreaks and coral bleaching approximately a decade before the surveys, from which only one of them was showing signs of recovery based on independent surveys. We incorporated wave exposure (sheltered and exposed) and reef zone (slope, crest and flat) into our design, providing a comprehensive assessment of the spatial patterns in community composition on these reefs. Categorising corals into life history groupings, we document major coral community differences in the unrecovered reefs, compared to the composition and covers found on the undisturbed reefs. The recovered reef, despite having similar coral cover, had a different community composition from the undisturbed reefs, which may indicate slow successional processes, or a different natural community dominance pattern due to hydrology and other oceanographic factors. The variables that best correlated with patterns in the coral community among sites included the density of juvenile corals, herbivore fish biomass, fish species richness and the cover of macroalgae. Given increasing impacts to the Great Barrier Reef, efforts to mitigate local stressors will be imperative to encouraging coral communities to persist into the future. PMID:24983747

Seasonal switchgrass ecotype contributions to soil organic carbon, deep soil microbial community composition and rhizodeposit uptake during an extreme drought

USDA-ARS?s Scientific Manuscript database

The importance of rhizodeposit C and associated microbial communities in deep soil C stabilization is relatively unknown. Phenotypic variability in plant root biomass could impact C cycling through belowground plant allocation, rooting architecture, and microbial community abundance and composition...

Testing the functional significance of microbial community composition.

Treesearch

Michael S. Strickland; Christian Lauber; Noah Fierer; Mark A. Bradford

2009-01-01

A critical assumption underlying terrestrial ecosystem models is that soil microbial communities, when placed in a common environment, will function in an identical manner regardless of the composition...

The phylogenetic composition and structure of soil microbial communities shifts in response to elevated carbon dioxide.

PubMed

He, Zhili; Piceno, Yvette; Deng, Ye; Xu, Meiying; Lu, Zhenmei; Desantis, Todd; Andersen, Gary; Hobbie, Sarah E; Reich, Peter B; Zhou, Jizhong

2012-02-01

One of the major factors associated with global change is the ever-increasing concentration of atmospheric CO(2). Although the stimulating effects of elevated CO(2) (eCO(2)) on plant growth and primary productivity have been established, its impacts on the diversity and function of soil microbial communities are poorly understood. In this study, phylogenetic microarrays (PhyloChip) were used to comprehensively survey the richness, composition and structure of soil microbial communities in a grassland experiment subjected to two CO(2) conditions (ambient, 368 p.p.m., versus elevated, 560 p.p.m.) for 10 years. The richness based on the detected number of operational taxonomic units (OTUs) significantly decreased under eCO(2). PhyloChip detected 2269 OTUs derived from 45 phyla (including two from Archaea), 55 classes, 99 orders, 164 families and 190 subfamilies. Also, the signal intensity of five phyla (Crenarchaeota, Chloroflexi, OP10, OP9/JS1, Verrucomicrobia) significantly decreased at eCO(2), and such significant effects of eCO(2) on microbial composition were also observed at the class or lower taxonomic levels for most abundant phyla, such as Proteobacteria, Firmicutes, Actinobacteria, Bacteroidetes and Acidobacteria, suggesting a shift in microbial community composition at eCO(2). Additionally, statistical analyses showed that the overall taxonomic structure of soil microbial communities was altered at eCO(2). Mantel tests indicated that such changes in species richness, composition and structure of soil microbial communities were closely correlated with soil and plant properties. This study provides insights into our understanding of shifts in the richness, composition and structure of soil microbial communities under eCO(2) and environmental factors shaping the microbial community structure.

Legacy effects of anaerobic soil disinfestation on soil bacterial community composition and production of pathogen-suppressing volatiles

PubMed Central

van Agtmaal, Maaike; van Os, Gera J.; Hol, W.H. Gera; Hundscheid, Maria P.J.; Runia, Willemien T.; Hordijk, Cornelis A.; de Boer, Wietse

2015-01-01

There is increasing evidence that microbial volatiles (VOCs) play an important role in natural suppression of soil-borne diseases, but little is known on the factors that influence production of suppressing VOCs. In the current study we examined whether a stress-induced change in soil microbial community composition would affect the production by soils of VOCs suppressing the plant-pathogenic oomycete Pythium. Using pyrosequencing of 16S ribosomal gene fragments we compared the composition of bacterial communities in sandy soils that had been exposed to anaerobic disinfestation (AD), a treatment used to kill harmful soil organisms, with the composition in untreated soils. Three months after the AD treatment had been finished, there was still a clear legacy effect of the former anaerobic stress on bacterial community composition with a strong increase in relative abundance of the phylum Bacteroidetes and a significant decrease of the phyla Acidobacteria, Planctomycetes, Nitrospirae, Chloroflexi, and Chlorobi. This change in bacterial community composition coincided with loss of production of Pythium suppressing soil volatiles (VOCs) and of suppression of Pythium impacts on Hyacinth root development. One year later, the composition of the bacterial community in the AD soils was reflecting that of the untreated soils. In addition, both production of Pythium-suppressing VOCs and suppression of Pythium in Hyacinth bioassays had returned to the levels of the untreated soil. GC/MS analysis identified several VOCs, among which compounds known to be antifungal, that were produced in the untreated soils but not in the AD soils. These compounds were again produced 15 months after the AD treatment. Our data indicate that soils exposed to a drastic stress can temporarily lose pathogen suppressive characteristics and that both loss and return of these suppressive characteristics coincides with shifts in the soil bacterial community composition. Our data are supporting the suggested importance of microbial VOCs in the natural buffer of soils against diseases caused by soil-borne pathogens. PMID:26217330

Changes in Microbial (Bacteria and Archaea) Plankton Community Structure after Artificial Dispersal in Grazer-Free Microcosms

PubMed Central

Karayanni, Hera; Meziti, Alexandra; Spatharis, Sofie; Genitsaris, Savvas; Courties, Claude; Kormas, Konstantinos A.

2017-01-01

Microbes are considered to have a global distribution due to their high dispersal capabilities. However, our knowledge of the way geographically distant microbial communities assemble after dispersal in a new environment is limited. In this study, we examined whether communities would converge because similar taxa would be selected under the same environmental conditions, or would diverge because of initial community composition, after artificial dispersal. To this aim, a microcosm experiment was performed, in which the temporal changes in the composition and diversity of different prokaryoplankton assemblages from three distant geographic coastal areas (Banyuls-sur-Mer in northwest Mediterranean Sea, Pagasitikos Gulf in northeast Mediterranean and Woods Hole, MA, USA in the northwest Atlantic), were studied. Diversity was investigated using amplicon pyrosequencing of the V1–V3 hypervariable regions of the 16S rRNA. The three assemblages were grown separately in particle free and autoclaved Banyuls-sur-mer seawater at 18 °C in the dark. We found that the variability of prokaryoplankton community diversity (expressed as richness, evenness and dominance) as well as the composition were driven by patterns observed in Bacteria. Regarding community composition, similarities were found between treatments at family level. However, at the OTU level microbial communities from the three different original locations diverge rather than converge during incubation. It is suggested that slight differences in the composition of the initial prokaryoplankton communities, resulted in separate clusters the following days even when growth took place under identical abiotic conditions. PMID:28587211

Shift in community structure in an early-successional Mediterranean shrubland driven by long-term experimental warming and drought and natural extreme droughts.

PubMed

Liu, Daijun; Estiarte, Marc; Ogaya, Romà; Yang, Xiaohong; Peñuelas, Josep

2017-10-01

Global warming and recurring drought are expected to accelerate water limitation for plant communities in semiarid Mediterranean ecosystems and produce directional shifts in structure and composition that are not easily detected, and supporting evidence is scarce. We conducted a long-term (17 years) nocturnal-warming (+0.6°C) and drought (-40% rainfall) experiments in an early-successional Mediterranean shrubland to study the changes in community structure and composition, contrasting functional groups and dominant species, and the superimposed effects of natural extreme drought. Species richness decreased in both the warming and drought treatments. Responses to the moderate warming were associated with decreases in herb abundance, and responses to the drought were associated with decreases in both herb and shrub abundances. The drought also significantly decreased community diversity and evenness. Changes in abundance differed between herbs (decreases) and shrubs (increases or no changes). Both warming and drought, especially drought, increased the relative species richness and abundance of shrubs, favoring the establishment of shrubs. Both warming and drought produced significant shifts in plant community composition. Experimental warming shifted the community composition from Erica multiflora toward Rosmarinus officinalis, and drought consistently shifted the composition toward Globularia alypum. The responses in biodiversity (e.g., community biodiversity, changes of functional groups and compositional shifts) were also strongly correlated with atmospheric drought (SPEI) in winter-spring and/or summer, indicating sensitivity to water limitation in this early-successional Mediterranean ecosystem, especially to natural extreme droughts. Our results suggest that the shifts in species assembles and community diversity and composition are accelerated by the long-term nocturnal-warming and drought, combined with natural severe droughts, and that the magnitude of the impacts of climate change is also correlated with the successional status of ecosystem. The results thus highlight the necessity for assessing the impacts on ecosystemic functioning and services and developing effective measures for conserving biodiversity. © 2017 John Wiley & Sons Ltd.

Grassland vegetation and bird communities in the southern Great Plains of North America

USGS Publications Warehouse

Chapman, R.N.; Engle, David M.; Masters, R.E.; Leslie, David M.

2004-01-01

Structure and composition of vegetation and abundance of breeding birds in grasslands seeded to Old World bluestem (Bothriochloa ischmaeum) were compared to native mixed prairie in the southern Great Plains of North America. Abundance of birds was determined using fixed-radius point counts. Detrended correspondence analysis was used to compare plant community composition and canonical correspondence analysis was used to examine the relationships between plant species composition and vegetation structure with the bird community. Plant species composition differed distinctly between seeded grassland and native mixed prairie, but the differences were not reflected in habitat structure, bird community composition, or abundance of bird species. Seeded grassland was inferior to native mixed prairie in terms of diversity of plant species, but that difference did not translate into meaningful differences in structure that drove habitat selection by breeding birds. Conservation programs that promote establishment of seeded grassland and do not allow for suitable disturbance regimes will selectively benefit a narrow suite of birds regardless of plant species composition. ?? 2004 Elsevier B.V. All rights reserved.

Accuracy, reproducibility, and interpretation of fatty acid methyl ester profiles of model bacterial communities

USGS Publications Warehouse

Kidd, Haack S.; Garchow, H.; Odelson, D.A.; Forney, L.J.; Klug, M.J.

1994-01-01

We determined the accuracy and reproducibility of whole-community fatty acid methyl ester (FAME) analysis with two model bacterial communities differing in composition by using the Microbial ID, Inc. (MIDI), system. The biomass, taxonomic structure, and expected MIDI-FAME profiles under a variety of environmental conditions were known for these model communities a priori. Not all members of each community could be detected in the composite profile because of lack of fatty acid 'signatures' in some isolates or because of variations (approximately fivefold) in fatty acid yield across taxa. MIDI- FAME profiles of replicate subsamples of a given community were similar in terms of fatty acid yield per unit of community dry weight and relative proportions of specific fatty acids. Principal-components analysis (PCA) of MIDI-FAME profiles resulted in a clear separation of the two different communities and a clustering of replicates of each community from two separate experiments on the first PCA axis. The first PCA axis accounted for 57.1% of the variance in the data and was correlated with fatty acids that varied significantly between communities and reflected the underlying community taxonomic structure. On the basis of our data, community fatty acid profiles can be used to assess the relative similarities and differences of microbial communities that differ in taxonomic composition. However, detailed interpretation of community fatty acid profiles in terms of biomass or community taxonomic composition must be viewed with caution until our knowledge of the quantitative and qualitative distribution of fatty acids over a wide variety of taxa and the effects of growth conditions on fatty acid profiles is more extensive.

Permafrost soil characteristics and microbial community structure across a boreal forest watershed vary over short spatial scales and dictate community responses to thaw.

NASA Astrophysics Data System (ADS)

Stegen, J.; Bottos, E. M.; Kennedy, D.; Romero, E. B.; Fansler, S.; Chu, R. K.; Tfaily, M.; Jansson, J.; Bernstein, H. C.; Brown, J. M.; Markillie, L. M.

2017-12-01

Understanding drivers of permafrost microbial community structure and function is critical for understanding permafrost microbiology and predicting ecosystem responses to thaw; however, studies describing ecological controls on these communities are lacking. We hypothesize that permafrost communities are uniquely shaped by constraints imposed by prolonged freezing, and decoupled from the selective factors that influence non-permafrost soil communities, but that pre-thaw environmental and community characteristics will be strong determinants of community structure and function post-thaw. We characterized patterns of environmental variation and microbial community composition in sixty permafrost samples spanning landscape gradients in a boreal forest watershed, and monitored community responses to thaw. Consistent with our hypothesis, we found that, proportionally, the strongest process influencing permafrost community composition was dispersal limitation (0.36), exceeding the influence of homogenous selection (0.21) and variable selection (0.16), and that deterministic selection arose primarily from energetic constraints of the permafrost environment. Our data supported a structural equation model in which organic carbon thermodynamics and organic acid content, influenced redox conditions and total selection. Post-thaw community composition was found to be driven primarily by pre-thaw community composition, indicating a strong influence of historical conditions. Together, these results suggest that community responses to thaw may be highly varied over short distances and that changes in community structure and function are likely to be drastic, as changes to system hydrology mobilize organisms and nutrients, thereby relieving the primary constraints on the system. These findings are being integrated with metabolomic and metatranscriptomic analyses to improve understanding of how pre-thaw conditions can be used to predict microbial activity post-thaw.

Potential Impacts of Climate Change on Insect Communities: A Transplant Experiment

PubMed Central

Nooten, Sabine S.; Andrew, Nigel R.; Hughes, Lesley

2014-01-01

Climate change will have profound impacts on the distribution, abundance and ecology of all species. We used a multi-species transplant experiment to investigate the potential effects of a warmer climate on insect community composition and structure. Eight native Australian plant species were transplanted into sites approximately 2.5°C (mean annual temperature) warmer than their native range. Subsequent insect colonisation was monitored for 12 months. We compared the insect communities on transplanted host plants at the warmer sites with control plants transplanted within the species' native range. Comparisons of the insect communities were also made among transplanted plants at warmer sites and congeneric plant species native to the warmer transplant area. We found that the morphospecies composition of the colonising Coleoptera and Hemiptera communities differed markedly between transplants at the control compared to the warmer sites. Community structure, as described by the distribution of feeding guilds, was also found to be different between the controls and transplants when the entire Coleoptera and Hemiptera community, including non-herbivore feeding guilds, was considered. However, the structure of the herbivorous insect community showed a higher level of consistency between plants at control and warm sites. There were marked differences in community composition and feeding guild structure, for both herbivores and non-herbivores, between transplants and congenerics at the warm sites. These results suggest that as the climate warms, considerable turnover in the composition of insect communities may occur, but insect herbivore communities may retain elements of their present-day structure. PMID:24465827

Salinity affects compositional traits of epibacterial communities on the brown macroalga Fucus vesiculosus.

PubMed

Stratil, Stephanie B; Neulinger, Sven C; Knecht, Henrik; Friedrichs, Anette K; Wahl, Martin

2014-05-01

Epibiotic biofilms have the potential to control major aspects of the biology and ecology of their hosts. Their composition and function may thus be essential for the health of the host. We tested the influence of salinity on the composition of epibacterial communities associated with the brown macroalga Fucus vesiculosus. Algal individuals were incubated at three salinities (5, 19, and 25) for 14 days and nonliving reference substrata (stones) were included in the experiment. Subsequently, the composition of their surface-associated bacterial communities was analyzed by 454 pyrosequencing of 16S rRNA gene sequences. Redundancy analysis revealed that the composition of epiphytic and epilithic communities significantly differed and were both affected by salinity. We found that 5% of 2494 epiphytic operational taxonomic units at 97% sequence similarity were responsible for the observed shifts. Epibacterial α-diversity was significantly lower at salinity 5 but did not differ between substrata. Our results indicate that salinity is an important factor in structuring alga-associated epibacterial communities with respect to composition and/or diversity. Whether direct or indirect mechanisms (via altered biotic interactions) may have been responsible for the observed shifts is discussed. © 2014 Federation of European Microbiological Societies. Published by John Wiley & Sons Ltd. All rights reserved.

Drivers of epibenthic megafaunal composition in the sponge grounds of the Sackville Spur, northwest Atlantic

NASA Astrophysics Data System (ADS)

Beazley, Lindsay; Kenchington, Ellen; Yashayaev, Igor; Murillo, Francisco Javier

2015-04-01

Deep-water sponges are considered ecosystem engineers, and the presence of large aggregations of these organisms, commonly referred to as sponge grounds, is associated with enhanced biodiversity and abundance of epibenthic fauna compared to non-sponge habitat. However, the degree and magnitude to which the presence of these sponge grounds elicits large changes in composition of the associated megafaunal community remains unknown. Here we identify the external drivers of epibenthic megafaunal community composition and explore the patterns and magnitude of compositional change in the megafaunal community within the sponge grounds of the Sackville Spur, northwest Atlantic. Epibenthic megafauna were quantified from five image transects collected on the Sackville Spur in 2009 between 1080 and 1723 m depth. Using Gradient Forest Modelling we found that the abundance of structure-forming sponges was the most important variable for predicting compositional patterns in the Sackville Spur megafaunal community, followed by depth, range in bottom current speed, in situ salinity, and longitude. Along the gradient in structure-forming sponge abundance, the largest turnover in megafaunal community composition occurred when the sponges reached 15 individuals m-2. Examination of the regional hydrographic conditions suggests that the dense sponge grounds of the Sackville Spur are associated with a warm, salty water mass that occurs between ~1300 and 1800 m.

Changes in composition and abundance of functional groups of arctic fungi in response to long-term summer warming

PubMed Central

Semenova, Tatiana A.; Morgado, Luis N.; Welker, Jeffrey M.

2016-01-01

We characterized fungal communities in dry and moist tundra and investigated the effect of long-term experimental summer warming on three aspects of functional groups of arctic fungi: richness, community composition and species abundance. Warming had profound effects on community composition, abundance, and, to a lesser extent, on richness of fungal functional groups. In addition, our data show that even within functional groups, the direction and extent of response to warming tend to be species-specific and we recommend that studies on fungal communities and their roles in nutrient cycling take into account species-level responses. PMID:27881760

Species composition, community and population dynamics of two gallery forests from the Brazilian Cerrado domain

PubMed Central

Almado, Roosevelt P; Miazaki, Angela S; Diniz, Écio S; Moreira, Luis C B; Meira-Neto, João A.A.

2016-01-01

Abstract Background To understand the impacts of global changes on future community compositions, knowledge of community dynamics is of crucial importance. To improve our knowledge of community composition, biomass stock and maintenance of gallery forests in the Brazilian Cerrado, we provide two datasets from the 0.5 ha Corrego Fazendinha Gallery Forest Dynamics Plot and the Corrego Fundo Gallery Forest Dynamics Plot situated in the Bom Despacho region, Minas Gerais, Southeastern Brazil. New information We report diameter at breast height, basal area and height measurements of 3417 trees and treelets identified during three censuses in both areas. PMID:27660529

Anthropogenic land use shapes the composition and phylogenetic structure of soil arbuscular mycorrhizal fungal communities.

PubMed

Moora, Mari; Davison, John; Öpik, Maarja; Metsis, Madis; Saks, Ülle; Jairus, Teele; Vasar, Martti; Zobel, Martin

2014-12-01

Arbuscular mycorrhizal (AM) fungi play an important role in ecosystems, but little is known about how soil AM fungal community composition varies in relation to habitat type and land-use intensity. We molecularly characterized AM fungal communities in soil samples (n = 88) from structurally open (permanent grassland, intensive and sustainable agriculture) and forested habitats (primeval forest and spruce plantation). The habitats harboured significantly different AM fungal communities, and there was a broad difference in fungal community composition between forested and open habitats, the latter being characterized by higher average AM fungal richness. Within both open and forest habitats, intensive land use significantly influenced community composition. There was a broad difference in the phylogenetic structure of AM fungal communities between mechanically disturbed and nondisturbed habitats. Taxa from Glomeraceae served as indicator species for the nondisturbed habitats, while taxa from Archaeosporaceae, Claroideoglomeraceae and Diversisporaceae were indicators for the disturbed habitats. The distribution of these indicator taxa among habitat types in the MaarjAM global database of AM fungal diversity was in accordance with their local indicator status. © 2014 Federation of European Microbiological Societies. Published by John Wiley & Sons Ltd. All rights reserved.

Temporal dynamics of hot desert microbial communities reveal structural and functional responses to water input

PubMed Central

Armstrong, Alacia; Valverde, Angel; Ramond, Jean-Baptiste; Makhalanyane, Thulani P.; Jansson, Janet K.; Hopkins, David W.; Aspray, Thomas J.; Seely, Mary; Trindade, Marla I.; Cowan, Don A.

2016-01-01

The temporal dynamics of desert soil microbial communities are poorly understood. Given the implications for ecosystem functioning under a global change scenario, a better understanding of desert microbial community stability is crucial. Here, we sampled soils in the central Namib Desert on sixteen different occasions over a one-year period. Using Illumina-based amplicon sequencing of the 16S rRNA gene, we found that α-diversity (richness) was more variable at a given sampling date (spatial variability) than over the course of one year (temporal variability). Community composition remained essentially unchanged across the first 10 months, indicating that spatial sampling might be more important than temporal sampling when assessing β-diversity patterns in desert soils. However, a major shift in microbial community composition was found following a single precipitation event. This shift in composition was associated with a rapid increase in CO2 respiration and productivity, supporting the view that desert soil microbial communities respond rapidly to re-wetting and that this response may be the result of both taxon-specific selection and changes in the availability or accessibility of organic substrates. Recovery to quasi pre-disturbance community composition was achieved within one month after rainfall. PMID:27680878

Temporal dynamics of hot desert microbial communities reveal structural and functional responses to water input.

PubMed

Armstrong, Alacia; Valverde, Angel; Ramond, Jean-Baptiste; Makhalanyane, Thulani P; Jansson, Janet K; Hopkins, David W; Aspray, Thomas J; Seely, Mary; Trindade, Marla I; Cowan, Don A

2016-09-29

The temporal dynamics of desert soil microbial communities are poorly understood. Given the implications for ecosystem functioning under a global change scenario, a better understanding of desert microbial community stability is crucial. Here, we sampled soils in the central Namib Desert on sixteen different occasions over a one-year period. Using Illumina-based amplicon sequencing of the 16S rRNA gene, we found that α-diversity (richness) was more variable at a given sampling date (spatial variability) than over the course of one year (temporal variability). Community composition remained essentially unchanged across the first 10 months, indicating that spatial sampling might be more important than temporal sampling when assessing β-diversity patterns in desert soils. However, a major shift in microbial community composition was found following a single precipitation event. This shift in composition was associated with a rapid increase in CO 2 respiration and productivity, supporting the view that desert soil microbial communities respond rapidly to re-wetting and that this response may be the result of both taxon-specific selection and changes in the availability or accessibility of organic substrates. Recovery to quasi pre-disturbance community composition was achieved within one month after rainfall.

Predictability of bee community composition after floral removals differs by floral trait group.

PubMed

Urban-Mead, Katherine R

2017-11-01

Plant-bee visitor communities are complex networks. While studies show that deleting nodes alters network topology, predicting these changes in the field remains difficult. Here, a simple trait-based approach is tested for predicting bee community composition following disturbance. I selected six fields with mixed cover of flower species with shallow (open) and deep (tube) nectar access, and removed all flowers or flower heads of species of each trait in different plots paired with controls, then observed bee foraging and composition. I compared the bee community in each manipulated plot with bees on the same flower species in control plots. The bee morphospecies composition in manipulations with only tube flowers remaining was the same as that in the control plots, while the bee morphospecies on only open flowers were dissimilar from those in control plots. However, the proportion of short- and long-tongued bees on focal flowers did not differ between control and manipulated plots for either manipulation. So, bees within some functional groups are more strongly linked to their floral trait partners than others. And, it may be more fruitful to describe expected bee community compositions in terms of relative proportions of relevant ecological traits than species, particularly in species-diverse communities. © 2017 The Author(s).

Soil resources and topography shape local tree community structure in tropical forests

PubMed Central

Baldeck, Claire A.; Harms, Kyle E.; Yavitt, Joseph B.; John, Robert; Turner, Benjamin L.; Valencia, Renato; Navarrete, Hugo; Davies, Stuart J.; Chuyong, George B.; Kenfack, David; Thomas, Duncan W.; Madawala, Sumedha; Gunatilleke, Nimal; Gunatilleke, Savitri; Bunyavejchewin, Sarayudh; Kiratiprayoon, Somboon; Yaacob, Adzmi; Supardi, Mohd N. Nur; Dalling, James W.

2013-01-01

Both habitat filtering and dispersal limitation influence the compositional structure of forest communities, but previous studies examining the relative contributions of these processes with variation partitioning have primarily used topography to represent the influence of the environment. Here, we bring together data on both topography and soil resource variation within eight large (24–50 ha) tropical forest plots, and use variation partitioning to decompose community compositional variation into fractions explained by spatial, soil resource and topographic variables. Both soil resources and topography account for significant and approximately equal variation in tree community composition (9–34% and 5–29%, respectively), and all environmental variables together explain 13–39% of compositional variation within a plot. A large fraction of variation (19–37%) was spatially structured, yet unexplained by the environment, suggesting an important role for dispersal processes and unmeasured environmental variables. For the majority of sites, adding soil resource variables to topography nearly doubled the inferred role of habitat filtering, accounting for variation in compositional structure that would previously have been attributable to dispersal. Our results, illustrated using a new graphical depiction of community structure within these plots, demonstrate the importance of small-scale environmental variation in shaping local community structure in diverse tropical forests around the globe. PMID:23256196

Post-Fire Recovery in Coastal Sage Scrub: Seed Rain and Community Trajectory.

PubMed

Conlisk, Erin; Swab, Rebecca; Martínez-Berdeja, Alejandra; Daugherty, Matthew P

2016-01-01

Disturbance is a primary mechanism structuring ecological communities. However, human activity has the potential to alter the frequency and intensity of natural disturbance regimes, with subsequent effects on ecosystem processes. In Southern California, human development has led to increased fire frequency close to urban areas that can form a positive feedback with invasive plant spread. Understanding how abiotic and biotic factors structure post-fire plant communities is a critical component of post-fire management and restoration. In this study we considered a variety of mechanisms affecting post-fire vegetation recovery in Riversidean sage scrub. Comparing recently burned plots to unburned plots, we found that burning significantly reduced species richness and percent cover of exotic vegetation the first two years following a 100-hectare wildfire. Seed rain was higher in burned plots, with more native forb seeds, while unburned plots had more exotic grass seeds. Moreover, there were significant correlations between seed rain composition and plant cover composition the year prior and the year after. Collectively, this case study suggests that fire can alter community composition, but there was not compelling evidence of a vegetation-type conversion. Instead, the changes in the community composition were temporary and convergence in community composition was apparent within two years post-fire.

The assembly of ecological communities inferred from taxonomic and functional composition

Treesearch

Eric R. Sokol; E.F. Benfield; Lisa K. Belden; H. Maurice. Valett

2011-01-01

Among-site variation in metacommunities (beta diversity) is typically correlated with the distance separating the sites (spatial lag). This distance decay in similarity pattern has been linked to both niche-based and dispersal-based community assembly hypotheses. Here we show that beta diversity patterns in community composition, when supplemented with functional-trait...

SPATIAL AND TEMPORAL VARIABILITY IN ZOOPLANKTON COMMUNITY DYNAMICS IN THREE URBANIZED BAYOUS OF THE PENSACOLA BAY SYSTEM, FLORIDA, USA

EPA Science Inventory

Spatial and temporal patterns in zooplankton community composition and abundance in near-coastal areas of the Gulf of Mexico are not well understood. This survey provides information on spatial and temporal differences in zoolplankton community composition and abundance for a coa...

Fragmentation of forest communities in the eastern United States

Treesearch

Kurt Riitters; John Coulston; James Wickham

2011-01-01

Forest fragmentation threatens the sustainability of forest communities in the eastern United States. Forest communities exhibiting either a low total area or low percentage of intact forest are subject to relatively higher risk of shifts in stand composition towards edge-adapted and invasive species. Such changes in stand composition could result in local extirpation...

Moving at the Speed of Potential: A Mixed-Methods Study of Accelerating Developmental Students in a California Community College

ERIC Educational Resources Information Center

Parks, Paula L.

2014-01-01

Most developmental community college students are not completing the composition sequence successfully. This mixed-methods study examined acceleration as a way to help developmental community college students complete the composition sequence more quickly and more successfully. Acceleration is a curricular redesign that includes challenging…

The role of topographic structure and soil macrofauna presence at spoil heaps during spontaneous succession.

NASA Astrophysics Data System (ADS)

Walmsley, Alena; Vachová, Pavla; Vach, Marek

2016-04-01

This research was investigating whether topographic features, which determine soil nutrient and moisture distribution, in combination with soil fauna (wireworm and earthworm) presence, affect plant community composition at a spontaneously revegetated post mining area with an undulating surface. Two sites of different age with 3 types of topographic features were selected, soil moisture and nutrient content were measured, plant community composition and soil macrofauna community was sampled at each position. Wireworms were present at all positions and were most abundant at bottoms of waves at the younger site; their presence was correlated with several plant species, but the direction of the interaction isn't clear. Earthworms were only present at the older site and had highest abundance at flat sections. Earthworm presence affected the amount of nitrogen in soil - the most nitrogen content was at the site with highest earthworm density and was followed by higher diversity of plant community. The plant community composition was generally correlated with plant available nutrient content - especially P and N. We infer that topographic features affect nutrient and soil fauna distribution, which consequently influences plant community composition.

Composition and stability of bacterial communities associated with granular activated carbon and anthracite filters in a pilot scale municipal drinking water treatment facility.

PubMed

Shirey, T B; Thacker, R W; Olson, J B

2012-06-01

Granular activated carbon (GAC) is an alternative filter substrate for municipal water treatment as it provides a high surface area suitable for microbial colonization. The resulting microbial growth promotes biodegradation of organic materials and other contaminants from influent waters. Here, the community structure of the bacteria associated with three GAC and two anthracite filters was examined over 12 months to monitor changes in community composition. Nearly complete 16S rRNA genes were polymerase chain reaction amplified for terminal restriction fragment length polymorphism (T-RFLP) analyses. The identity of commonly occurring peaks was determined through the construction of five representative 16S rRNA clone libraries. Based on sequence analysis, the bacterial communities associated with both anthracite and GAC filters appear to be composed of environmentally derived bacteria, with no known human pathogens. Analysis of similarity tests revealed that significant differences in bacterial community structure occurred over time, with filter substrate playing an important role in determining community composition. GAC filters exhibited the greatest degree of bacterial community variability over the sampling period, while anthracite filters showed a lower degree of variability and less change in community composition. Thus, GAC may be a suitable biologically active filter substrate for the treatment of municipal drinking water.

Urban-development-induced Changes in the Diversity and Composition of the Soil Bacterial Community in Beijing.

PubMed

Yan, Bing; Li, Junsheng; Xiao, Nengwen; Qi, Yue; Fu, Gang; Liu, Gaohui; Qiao, Mengping

2016-12-09

Numerous studies have implicated urbanization as a major cause of loss of biodiversity. Most of them have focused on plants and animals, even though soil microorganisms make up a large proportion of that biodiversity. However, it is unclear how the soil bacterial community is affected by urban development. Here, paired-end Illumina sequencing of the 16 S rRNA gene at V4 region was performed to study the soil microbial community across Beijing's built-up area. Proteobacteria, Acidobacteria, Bacteroidetes, Actinobacteria, Gemmatimonadetes, Verrucomicrobia, Planctomycetes, and Chloroflexi were the dominant phyla in all samples, but the relative abundance of these phyla differed significantly across these concentric zones. The diversity and composition of the soil bacterial community were found to be closely correlated with soil pH. Variance partitioning analysis suggested that urban ring roads contributed 5.95% of the bacterial community variation, and soil environmental factors explained 17.65% of the variation. The results of the current work indicate that urban development can alter the composition and diversity of the soil microbial community, and showed pH to be a key factor in the shaping of the composition of the soil bacterial community. Urban development did have a strong impact on the bacterial community of urban soil in Beijing.

Bacterial, fungal, and plant communities exhibit no biomass or compositional response to two years of simulated nitrogen deposition in a semiarid grassland

USGS Publications Warehouse

McHugh, Theresa A.; Morrissey, Ember M.; Mueller, Rebecca C.; Gallegos-Graves, La Verne; Kuske, Cheryl R.; Reed, Sasha C.

2017-01-01

Nitrogen (N) deposition affects myriad aspects of terrestrial ecosystem structure and function, and microbial communities may be particularly sensitive to anthropogenic N inputs. However, our understanding of N deposition effects on microbial communities is far from complete, especially for drylands where data are comparatively rare. To address the need for an improved understanding of dryland biological responses to N deposition, we conducted a two-year fertilization experiment in a semiarid grassland on the Colorado Plateau in the southwestern United States. We evaluated effects of varied levels of N inputs on archaeal, bacterial, fungal and chlorophyte community composition within three microhabitats: biological soil crusts (biocrusts), soil below biocrusts, and the plant rhizosphere. Surprisingly, N addition did not affect the community composition or diversity of any of these microbial groups; however, microbial community composition varied significantly among sampling microhabitats. Further, while plant richness, diversity, and cover showed no response to N addition, there were strong linkages between plant properties and microbial community structure. Overall, these findings highlight the potential for some dryland communities to have limited biotic ability to retain augmented N inputs, possibly leading to large N losses to the atmosphere and to aquatic systems.

Ecological and Evolutionary Effects of Stickleback on Community Structure

PubMed Central

Des Roches, Simone; Shurin, Jonathan B.; Schluter, Dolph; Harmon, Luke J.

2013-01-01

Species’ ecology and evolution can have strong effects on communities. Both may change concurrently when species colonize a new ecosystem. We know little, however, about the combined effects of ecological and evolutionary change on community structure. We simultaneously examined the effects of top-predator ecology and evolution on freshwater community parameters using recently evolved generalist and specialist ecotypes of three-spine stickleback (Gasterosteus aculeatus). We used a mesocosm experiment to directly examine the effects of ecological (fish presence and density) and evolutionary (phenotypic diversity and specialization) factors on community structure at lower trophic levels. We evaluated zooplankton biomass and composition, periphyton and phytoplankton chlorophyll-a concentration, and net primary production among treatments containing different densities and diversities of stickleback. Our results showed that both ecological and evolutionary differences in the top-predator affect different aspects of community structure and composition. Community structure, specifically the abundance of organisms at each trophic level, was affected by stickleback presence and density, whereas composition of zooplankton was influenced by stickleback diversity and specialization. Primary productivity, in terms of chlorophyll-a concentration and net primary production was affected by ecological but not evolutionary factors. Our results stress the importance of concurrently evaluating both changes in density and phenotypic diversity on the structure and composition of communities. PMID:23573203

Urban-development-induced Changes in the Diversity and Composition of the Soil Bacterial Community in Beijing

NASA Astrophysics Data System (ADS)

Yan, Bing; Li, Junsheng; Xiao, Nengwen; Qi, Yue; Fu, Gang; Liu, Gaohui; Qiao, Mengping

2016-12-01

Numerous studies have implicated urbanization as a major cause of loss of biodiversity. Most of them have focused on plants and animals, even though soil microorganisms make up a large proportion of that biodiversity. However, it is unclear how the soil bacterial community is affected by urban development. Here, paired-end Illumina sequencing of the 16 S rRNA gene at V4 region was performed to study the soil microbial community across Beijing’s built-up area. Proteobacteria, Acidobacteria, Bacteroidetes, Actinobacteria, Gemmatimonadetes, Verrucomicrobia, Planctomycetes, and Chloroflexi were the dominant phyla in all samples, but the relative abundance of these phyla differed significantly across these concentric zones. The diversity and composition of the soil bacterial community were found to be closely correlated with soil pH. Variance partitioning analysis suggested that urban ring roads contributed 5.95% of the bacterial community variation, and soil environmental factors explained 17.65% of the variation. The results of the current work indicate that urban development can alter the composition and diversity of the soil microbial community, and showed pH to be a key factor in the shaping of the composition of the soil bacterial community. Urban development did have a strong impact on the bacterial community of urban soil in Beijing.

Functional composition of epifauna in the south-eastern North Sea in relation to habitat characteristics and fishing effort

NASA Astrophysics Data System (ADS)

Neumann, Hermann; Diekmann, Rabea; Kröncke, Ingrid

2016-02-01

Analysis of ecosystem functioning is essential to describe the ecological status of ecosystems and is therefore directly requested in international directives. There is a lack of knowledge regarding functional aspects of benthic communities and their environmental and anthropogenic driving forces in the southern North Sea. This study linked functional composition of epibenthic communities to environmental conditions and fishing effort and investigated spatial correlations between habitat characteristics to gain insight into potential synergistic and/or cumulative effects. Functional composition of epifauna was assessed by using biological trait analysis (BTA), which considered 15 ecological traits of 54 species. Functional composition was related to ten predictor variables derived from sediment composition, bottom temperature and salinity, hydrodynamics, annual primary production and fishing effort. Our results revealed significantly different functional composition between the Dogger Bank, the Oyster Ground, the West and North Frisian coast. Mobility, feeding type, size and adult longevity were the most important traits differentiating the communities. A high proportion of trait modalities related to an opportunistic life mode were obvious in coastal areas especially at the West Frisian coast and in the area of the Frisian Front indicating disturbed communities. In contrast, functional composition in the Dogger Bank area indicated undisturbed communities with prevalence of large, long-lived and permanently attached species being sensitive towards disturbance such as fishing. Tidal stress, mud content of sediments, salinity, stratification and fishing effort were found to be the most important habitat characteristics shaping functional composition. Strong correlations were found between variables, especially between those which changed gradually from the coast to offshore areas including fishing effort. Unfavourable extremes of these factors in coastal areas resulted in disturbed epibenthic communities, while the relative influence of a single factor on functional composition cannot be quantified. Coastal communities seemed to be well adapted to disturbance and the prevalence of opportunistic trait modalities not necessarily revealed a poor ecological status according to the Marine Strategy Framework Directive (MSFD). The integration of functional aspects into the assessment of ecosystem health is recommended, since widely used structural measures failed in naturally disturbed habitats.

Compositional stability and diversity of vascular plant communities following logging disturbance in Appalachian forests.

PubMed

Belote, R Travis; Jones, Robert H; Wieboldt, Thomas F

2012-03-01

Human-caused changes in disturbance regimes and introductions of nonnative species have the potential to result in widespread, directional changes in forest community structure. The degree that plant community composition persists or changes following disturbances depends on the balance between local extirpation and colonization by new species, including nonnatives. In this study, we examined species losses and gains, and entry of native vs. exotic species to determine how oak forests in the Appalachian Mountains might shift in species composition following a gradient of pulse disturbances (timber harvesting). We asked (1) how compositional stability of the plant community (resistance and resilience) was influenced by disturbance intensity, (2) whether community responses were driven by extirpation or colonization of species, and (3) how disturbance intensity influenced total and functional group diversity, including the nonnative proportion of the flora through time. We collected data at three spatial scales and three times, including just before, one year post-disturbance, and 10 years post-disturbance. Resistance was estimated using community distance measures between pre- and one year post-disturbance, and resilience using community distance between pre- and 10-year post-disturbance conditions. The number of colonizing and extirpated species between sampling times was analyzed for all species combined and for six functional groups. Resistance and resilience decreased with increasing timber-harvesting disturbance; compositional stability was lower in the most disturbed plots, which was driven by colonization, but not extirpation, of species. Colonization of species also led to increases in diversity after disturbance that was typically maintained after 10 years following disturbance. Most of the community-level responses were driven by post-disturbance colonization of native forbs and graminoids. The nonnative proportion of plant species tended to increase following disturbance, especially at large spatial scales in the most disturbed treatments, but tended to decrease through time following disturbance due to canopy development. The results of this study are consistent with the theory that resources released by disturbance have strong influences on species colonization and community composition. The effects of management activities tested in this study, which span a gradient of timber-harvesting disturbance, shift species composition largely via an increase in species colonization and diversity.

Are cattle surrogate wildlife? Savanna plant community composition explained by total herbivory more than herbivore type.

PubMed

Veblen, Kari E; Porensky, Lauren M; Riginos, Corinna; Young, Truman P

2016-09-01

The widespread replacement of wild ungulate herbivores by domestic livestock in African savannas is composed of two interrelated phenomena: (1) loss or reduction in numbers of individual wildlife species or guilds and (2) addition of livestock to the system. Each can have important implications for plant community dynamics. Yet very few studies have experimentally addressed the individual, combined, and potentially interactive effects of wild vs. domestic herbivore species on herbaceous plant communities within a single system. Additionally, there is little information about whether, and in which contexts, livestock might functionally replace native herbivore wildlife or, alternatively, have fundamentally different effects on plant species composition. The Kenya Long-term Exclosure Experiment, which has been running since 1995, is composed of six treatment combinations of mega-herbivores, meso-herbivore ungulate wildlife, and cattle. We sampled herbaceous vegetation 25 times between 1999 and 2013. We used partial redundancy analysis and linear mixed models to assess effects of herbivore treatments on overall plant community composition and key plant species. Plant communities in the six different herbivore treatments shifted directionally over time and diverged from each other substantially by 2013. Plant community composition was strongly related (R 2  = 0.92) to residual plant biomass, a measure of herbivore utilization. Addition of any single herbivore type (cattle, wildlife, or mega-herbivores) caused a shift in plant community composition that was proportional to its removal of plant biomass. These results suggest that overall herbivory pressure, rather than herbivore type or complex interactions among different herbivore types, was the main driver of changes in plant community composition. Individual plant species, however, did respond most strongly to either wild ungulates or cattle. Although these results suggest considerable functional similarity between a suite of native wild herbivores (which included grazers, browsers, and mixed feeders) and cattle (mostly grazers) with respect to understory plant community composition, responses of individual plant species demonstrate that at the plant-population-level impacts of a single livestock species are not functionally identical to those of a diverse group of native herbivores. © 2016 by the Ecological Society of America.

Divergent composition but similar function of soil food webs of individual plants: plant species and community effects.

PubMed

Bezemer, T M; Fountain, M T; Barea, J M; Christensen, S; Dekker, S C; Duyts, H; van Hal, R; Harvey, J A; Hedlund, K; Maraun, M; Mikola, J; Mladenov, A G; Robin, C; de Ruiter, P C; Scheu, S; Setälä, H; Smilauer, P; van der Putten, W H

2010-10-01

Soils are extremely rich in biodiversity, and soil organisms play pivotal roles in supporting terrestrial life, but the role that individual plants and plant communities play in influencing the diversity and functioning of soil food webs remains highly debated. Plants, as primary producers and providers of resources to the soil food web, are of vital importance for the composition, structure, and functioning of soil communities. However, whether natural soil food webs that are completely open to immigration and emigration differ underneath individual plants remains unknown. In a biodiversity restoration experiment we first compared the soil nematode communities of 228 individual plants belonging to eight herbaceous species. We included grass, leguminous, and non-leguminous species. Each individual plant grew intermingled with other species, but all plant species had a different nematode community. Moreover, nematode communities were more similar when plant individuals were growing in the same as compared to different plant communities, and these effects were most apparent for the groups of bacterivorous, carnivorous, and omnivorous nematodes. Subsequently, we analyzed the composition, structure, and functioning of the complete soil food webs of 58 individual plants, belonging to two of the plant species, Lotus corniculatus (Fabaceae) and Plantago lanceolata (Plantaginaceae). We isolated and identified more than 150 taxa/groups of soil organisms. The soil community composition and structure of the entire food webs were influenced both by the species identity of the plant individual and the surrounding plant community. Unexpectedly, plant identity had the strongest effects on decomposing soil organisms, widely believed to be generalist feeders. In contrast, quantitative food web modeling showed that the composition of the plant community influenced nitrogen mineralization under individual plants, but that plant species identity did not affect nitrogen or carbon mineralization or food web stability. Hence, the composition and structure of entire soil food webs vary at the scale of individual plants and are strongly influenced by the species identity of the plant. However, the ecosystem functions these food webs provide are determined by the identity of the entire plant community.

Microbial Community Composition of Polyhydroxyalkanoate-Accumulating Organisms in Full-Scale Wastewater Treatment Plants Operated in Fully Aerobic Mode

PubMed Central

Oshiki, Mamoru; Onuki, Motoharu; Satoh, Hiroyasu; Mino, Takashi

2013-01-01

The removal of biodegradable organic matter is one of the most important objectives in biological wastewater treatments. Polyhydroxyalkanoate (PHA)-accumulating organisms (PHAAOs) significantly contribute to the removal of biodegradable organic matter; however, their microbial community composition is mostly unknown. In the present study, the microbial community composition of PHAAOs was investigated at 8 full-scale wastewater treatment plants (WWTPs), operated in fully aerobic mode, by fluorescence in situ hybridization (FISH) analysis and post-FISH Nile blue A (NBA) staining techniques. Our results demonstrated that 1) PHAAOs were in the range of 11–18% in the total number of cells, and 2) the microbial community composition of PHAAOs was similar at the bacterial domain/phylum/class/order level among the 8 full-scale WWTPs, and dominant PHAAOs were members of the class Alphaproteobacteria and Betaproteobacteria. The microbial community composition of α- and β-proteobacterial PHAAOs was examined by 16S rRNA gene clone library analysis and further by applying a set of newly designed oligonucleotide probes targeting 16S rRNA gene sequences of α- or β-proteobacterial PHAAOs. The results demonstrated that the microbial community composition of PHAAOs differed in the class Alphaproteobacteria and Betaproteobacteria, which possibly resulted in a different PHA accumulation capacity among the WWTPs (8.5–38.2 mg-C g-VSS−1 h−1). The present study extended the knowledge of the microbial diversity of PHAAOs in full-scale WWTPs operated in fully aerobic mode. PMID:23257912

Modeling the interaction between sedimentary organic carbon and infaunal macrobenthos and their temporal (1980-2000) variation in the southern North Sea

NASA Astrophysics Data System (ADS)

Zhang, Wenyan; Daewel, Ute; Schrum, Corinna; Wirtz, Kai

2017-04-01

The mutual dependency between sedimentary total organic carbon (TOC) and benthic macrofauna is here for the first time quantified by a mechanistic model. The model describes (i) the vertical distribution of infaunal biomass resulting from a trade-off between nutritional benefit (quantity and quality of TOC) and the costs of burial (respiration), and (ii) the variable distribution of TOC being in turn shaped by bioturbation of local macrobenthos. In contrast to state-of-the-art diagenetic models, our approach resolves variations of bioturbation both in space and time, which depend on the macrobenthic community structure and biomass. Our implementation of the dynamic interaction between sedimentary organic carbon and infaunal macrobenthos is able to capture a real-time benthic response to both depositional and erosional events and provides improved estimates of the material exchange flux at the sediment-water interface. Applications to literature data for the North Sea demonstrate the robustness and accuracy of the model and its potential as an analysis tool for the status of TOC as well as benthic infauna in marine sediments. The model was coupled to two different 3D hydrodynamic-ecological models (ECOSMO and MOSSCO for 10 x 10 and 1 x 1 km setups, respectively) to evaluate the robustness of the estimates with respect to variable forcings on different spatial scales. Hindcast simulations of the benthic status in the southern North Sea from 1980 to 2000 indicate a relatively stable pattern at large temporal and spatial scales but significant variations at small scales.

Roles of epiphytes associated with macroalgae in benthic food web of a eutrophic coastal lagoon

NASA Astrophysics Data System (ADS)

Zheng, Xinqing; Huang, Lingfeng; Lin, Rongcheng; Du, Jianguo

2015-11-01

Macroalgae perform a significant function in the trophic dynamics in many coastal lagoons, and conventionally, they are the key trophic base that fuels the overall aquatic food web. However, few studies have considered the trophic contribution of epiphytes that attach to macroalgae in the diet of benthic primary consumers or their contribution to the trophic base of the aquatic food web. In this study, macrobenthic invertebrate biomass was combined with multiple-isotope-mixing models to distinguish the trophic importance of macroalgae and their associated epiphytic assemblages in the benthic food web during Ulva lactuca bloom in the Yundang Lagoon, a eutrophic coastal lagoon in Xiamen, China. Amphipods primarily dominated the zoobenthos, with the biomass varied from 40.9 g/m2 in January to 283.9 g/m2 in March. They mainly fed on U. lactuca and its associated epiphytes, which jointly contributed more than 60% to amphipod diets, but species-specific feeding habits were exhibited among amphipods. Using the zoobenthos biomass as a weighting factor, the contribution of U. lactuca and its epiphytes to total benthic communities during U. lactuca bloom exceeded 65%.The epiphytes were clearly utilized more than U. lactuca, with a median contribution ranging from 48.5% in January to 66.6% in March. Our findings demonstrate the trophic importance of the epiphytes in macroalgae-based coastal habitats, as found in many seagrass beds. Therefore, we propose that further food web studies of macroalgae-based ecosystems should pay greater attention to the role of epiphytes.

The role of local environment and geographical distance in determining community composition of arbuscular mycorrhizal fungi at the landscape scale.

PubMed

Hazard, Christina; Gosling, Paul; van der Gast, Christopher J; Mitchell, Derek T; Doohan, Fiona M; Bending, Gary D

2013-03-01

Arbuscular fungi have a major role in directing the functioning of terrestrial ecosystems yet little is known about their biogeographical distribution. The Baas-Becking hypothesis ('everything is everywhere, but, the environment selects') was tested by investigating the distribution of arbuscular mycorrhizal fungi (AMF) at the landscape scale and the influence of environmental factors and geographical distance in determining community composition. AMF communities in Trifolium repens and Lolium perenne roots were assessed in 40 geographically dispersed sites in Ireland representing different land uses and soil types. Field sampling and laboratory bioassays were used, with AMF communities characterised using 18S rRNA terminal-restriction fragment length polymorphism. Landscape-scale distribution of AMF was driven by the local environment. AMF community composition was influenced by abiotic variables (pH, rainfall and soil type), but not land use or geographical distance. Trifolium repens and L. perenne supported contrasting communities of AMF, and the communities colonising each plant species were consistent across pasture habitats and over distance. Furthermore, L. perenne AMF communities grouped by soil type within pasture habitats. This is the largest and most comprehensive study that has investigated the landscape-scale distribution of AMF. Our findings support the Baas-Becking hypothesis at the landscape scale and demonstrate the strong influence the local environment has on determining AMF community composition.

The role of local environment and geographical distance in determining community composition of arbuscular mycorrhizal fungi at the landscape scale

PubMed Central

Hazard, Christina; Gosling, Paul; van der Gast, Christopher J; Mitchell, Derek T; Doohan, Fiona M; Bending, Gary D

2013-01-01

Arbuscular fungi have a major role in directing the functioning of terrestrial ecosystems yet little is known about their biogeographical distribution. The Baas-Becking hypothesis (‘everything is everywhere, but, the environment selects') was tested by investigating the distribution of arbuscular mycorrhizal fungi (AMF) at the landscape scale and the influence of environmental factors and geographical distance in determining community composition. AMF communities in Trifolium repens and Lolium perenne roots were assessed in 40 geographically dispersed sites in Ireland representing different land uses and soil types. Field sampling and laboratory bioassays were used, with AMF communities characterised using 18S rRNA terminal-restriction fragment length polymorphism. Landscape-scale distribution of AMF was driven by the local environment. AMF community composition was influenced by abiotic variables (pH, rainfall and soil type), but not land use or geographical distance. Trifolium repens and L. perenne supported contrasting communities of AMF, and the communities colonising each plant species were consistent across pasture habitats and over distance. Furthermore, L. perenne AMF communities grouped by soil type within pasture habitats. This is the largest and most comprehensive study that has investigated the landscape-scale distribution of AMF. Our findings support the Baas-Becking hypothesis at the landscape scale and demonstrate the strong influence the local environment has on determining AMF community composition. PMID:23096401

Characterization of rumen ciliate community composition in domestic sheep, deer, and cattle, feeding on varying diets, by means of PCR-DGGE and clone libraries.

PubMed

Kittelmann, Sandra; Janssen, Peter H

2011-03-01

The structure and variability of ciliate protozoal communities in the rumens of domestic New Zealand ruminants feeding on different diets was investigated. The relative abundance of ciliates compared with bacteria was similar across all samples. However, molecular fingerprinting of communities showed ruminant-specific differences in species composition. Community compositions of cattle were significantly influenced by diet. In contrast, diet effects in deer and sheep were weaker than the animal-to-animal variation. Cloning and sequencing of almost-full-length 18S rRNA genes from representative samples revealed that New Zealand ruminants were colonized by at least nine genera of ciliates and allowed the assignment of samples to two distinct community types. Cattle contained A-type communities, with most sequences closely related to those of the genera Polyplastron and Ostracodinium. Deer and sheep (with one exception) harboured B-type communities, with the majority of sequences belonging to the genera Epidinium and Eudiplodinium. It has been suggested that species composition of ciliate communities may impact methane formation in ruminants, with the B-type producing more methane. Therefore, manipulation of ciliate communities may be a means of mitigating methane emissions from grazing sheep and deer in New Zealand. © 2011 Federation of European Microbiological Societies. Published by Blackwell Publishing Ltd. All rights reserved.

Predicting community composition from pairwise interactions

NASA Astrophysics Data System (ADS)

Friedman, Jonathan; Higgins, Logan; Gore, Jeff

The ability to predict the structure of complex, multispecies communities is crucial for understanding the impact of species extinction and invasion on natural communities, as well as for engineering novel, synthetic communities. Communities are often modeled using phenomenological models, such as the classical generalized Lotka-Volterra (gLV) model. While a lot of our intuition comes from such models, their predictive power has rarely been tested experimentally. To directly assess the predictive power of this approach, we constructed synthetic communities comprised of up to 8 soil bacteria. We measured the outcome of competition between all species pairs, and used these measurements to predict the composition of communities composed of more than 2 species. The pairwise competitions resulted in a diverse set of outcomes, including coexistence, exclusion, and bistability, and displayed evidence for both interference and facilitation. Most pair outcomes could be captured by the gLV framework, and the composition of multispecies communities could be predicted for communities composed solely of such pairs. Our results demonstrate the predictive ability and utility of simple phenomenology, which enables accurate predictions in the absence of mechanistic details.

Fungal community composition in soils subjected to long-term chemical fertilization is most influenced by the type of organic matter.

PubMed

Sun, Ruibo; Dsouza, Melissa; Gilbert, Jack A; Guo, Xisheng; Wang, Daozhong; Guo, Zhibin; Ni, Yingying; Chu, Haiyan

2016-12-01

Organic matter application is a widely used practice to increase soil carbon content and maintain soil fertility. However, little is known about the effect of different types of organic matter, or the input of exogenous species from these materials, on soil fungal communities. In this study, fungal community composition was characterized from soils amended with three types of organic matter over a 30-year fertilization experiment. Chemical fertilization significantly changed soil fungal community composition and structure, which was exacerbated by the addition of organic matter, with the direction of change influenced by the type of organic matter used. The addition of organic matter significantly increased soil fungal richness, with the greatest richness achieved in soils amended with pig manure. Importantly, following addition of cow and pig manure, fungal taxa associated with these materials could be found in the soil, suggesting that these exogenous species can augment soil fungal composition. Moreover, the addition of organic matter decreased the relative abundance of potential pathogenic fungi. Overall, these results indicate that organic matter addition influences the composition and structure of soil fungal communities in predictable ways. © 2016 Society for Applied Microbiology and John Wiley & Sons Ltd.

Functional homogenization of flower visitor communities with urbanization.

PubMed

Deguines, Nicolas; Julliard, Romain; de Flores, Mathieu; Fontaine, Colin

2016-04-01

Land-use intensification and resulting habitat loss are put forward as the main causes of flower visitor decline. However, the impact of urbanization, the prime driver of land-use intensification in Europe, is poorly studied. In particular, our understanding of whether and how it affects the composition and functioning of flower visitor assemblages is scant, yet required to cope with increasing urbanization worldwide. Here, we use a nation-wide dataset of plant-flower visitor (Coleoptera, Diptera, Hymenoptera, Lepidoptera) interactions sampled by citizen scientists following a standardized protocol to assess macroecological changes in richness and composition of flower visitor communities with urbanization. We measured the community composition by quantifying the relative occurrence of generalist and specialist flower visitors based on their specialisation on flowering plant families. We show that urbanization is associated with reduced flower visitor richness and a shift in community composition toward generalist insects, indicating a modification of the functional composition of communities. These results suggest that urbanization affects not only the richness of flower visitor assemblages but may also cause their large-scale functional homogenization. Future research should focus on designing measures to reconcile urban development with flower visitor conservation.

Linking environmental filtering and disequilibrium to biogeography with a community climate framework.

PubMed

Blonder, Benjamin; Nogués-Bravo, David; Borregaard, Michael K; Donoghue, John C; Jørgensen, Peter M; Kraft, Nathan J B; Lessard, Jean-Philippe; Morueta-Holme, Naia; Sandel, Brody; Svenning, Jens-Christian; Violle, Cyrille; Rahbek, Carsten; Enquist, Brian J

2015-04-01

We present a framework to measure the strength of environmental filtering and disequilibrium of the species composition of a local community across time, relative to past, current, and future climates. We demonstrate the framework by measuring the impact of climate change on New World forests, integrating data for climate niches of more than 14000 species, community composition of 471 New World forest plots, and observed climate across the most recent glacial-interglacial interval. We show that a majority of communities have species compositions that are strongly filtered and are more in equilibrium with current climate than random samples from the regional pool. Variation in the level of current community disequilibrium can be predicted from Last Glacial Maximum climate and will increase with near-future climate change.

Influence of lung CT changes in chronic obstructive pulmonary disease (COPD) on the human lung microbiome

PubMed Central

Schloter-Hai, Brigitte; Kublik, Susanne; Granitsiotis, Michael S.; Boschetto, Piera; Stendardo, Mariarita; Barta, Imre; Dome, Balazs; Deleuze, Jean-François; Boland, Anne; Müller-Quernheim, Joachim; Prasse, Antje; Welte, Tobias; Hohlfeld, Jens; Subramanian, Deepak; Parr, David; Gut, Ivo Glynne; Greulich, Timm; Koczulla, Andreas Rembert; Nowinski, Adam; Gorecka, Dorota; Singh, Dave; Gupta, Sumit; Brightling, Christopher E.; Hoffmann, Harald; Frankenberger, Marion; Hofer, Thomas P.; Burggraf, Dorothe; Heiss-Neumann, Marion; Ziegler-Heitbrock, Loems; Schloter, Michael; zu Castell, Wolfgang

2017-01-01

Background Changes in microbial community composition in the lung of patients suffering from moderate to severe COPD have been well documented. However, knowledge about specific microbiome structures in the human lung associated with CT defined abnormalities is limited. Methods Bacterial community composition derived from brush samples from lungs of 16 patients suffering from different CT defined subtypes of COPD and 9 healthy subjects was analyzed using a cultivation independent barcoding approach applying 454-pyrosequencing of 16S rRNA gene fragment amplicons. Results We could show that bacterial community composition in patients with changes in CT (either airway or emphysema type changes, designated as severe subtypes) was different from community composition in lungs of patients without visible changes in CT as well as from healthy subjects (designated as mild COPD subtype and control group) (PC1, Padj = 0.002). Higher abundance of Prevotella in samples from patients with mild COPD subtype and from controls and of Streptococcus in the severe subtype cases mainly contributed to the separation of bacterial communities of subjects. No significant effects of treatment with inhaled glucocorticoids on bacterial community composition were detected within COPD cases with and without abnormalities in CT in PCoA. Co-occurrence analysis suggests the presence of networks of co-occurring bacteria. Four communities of positively correlated bacteria were revealed. The microbial communities can clearly be distinguished by their associations with the CT defined disease phenotype. Conclusion Our findings indicate that CT detectable structural changes in the lung of COPD patients, which we termed severe subtypes, are associated with alterations in bacterial communities, which may induce further changes in the interaction between microbes and host cells. This might result in a changed interplay with the host immune system. PMID:28704452

Biodiversity and ecosystem functioning in dynamic landscapes

PubMed Central

Brose, Ulrich; Hillebrand, Helmut

2016-01-01

The relationship between biodiversity and ecosystem functioning (BEF) and its consequence for ecosystem services has predominantly been studied by controlled, short-term and small-scale experiments under standardized environmental conditions and constant community compositions. However, changes in biodiversity occur in real-world ecosystems with varying environments and a dynamic community composition. In this theme issue, we present novel research on BEF in such dynamic communities. The contributions are organized in three sections on BEF relationships in (i) multi-trophic diversity, (ii) non-equilibrium biodiversity under disturbance and varying environmental conditions, and (iii) large spatial and long temporal scales. The first section shows that multi-trophic BEF relationships often appear idiosyncratic, while accounting for species traits enables a predictive understanding. Future BEF research on complex communities needs to include ecological theory that is based on first principles of species-averaged body masses, stoichiometry and effects of environmental conditions such as temperature. The second section illustrates that disturbance and varying environments have direct as well as indirect (via changes in species richness, community composition and species' traits) effects on BEF relationships. Fluctuations in biodiversity (species richness, community composition and also trait dominance within species) can severely modify BEF relationships. The third section demonstrates that BEF at larger spatial scales is driven by different variables. While species richness per se and community biomass are most important, species identity effects and community composition are less important than at small scales. Across long temporal scales, mass extinctions represent severe changes in biodiversity with mixed effects on ecosystem functions. Together, the contributions of this theme issue identify new research frontiers and answer some open questions on BEF relationships in dynamic communities of real-world landscapes. PMID:27114570

Litter quality versus soil microbial community controls over decomposition: a quantitative analysis

USGS Publications Warehouse

Cleveland, Cory C.; Reed, Sasha C.; Keller, Adrienne B.; Nemergut, Diana R.; O'Neill, Sean P.; Ostertag, Rebecca; Vitousek, Peter M.

2014-01-01

The possible effects of soil microbial community structure on organic matter decomposition rates have been widely acknowledged, but are poorly understood. Understanding these relationships is complicated by the fact that microbial community structure and function are likely to both affect and be affected by organic matter quality and chemistry, thus it is difficult to draw mechanistic conclusions from field studies. We conducted a reciprocal soil inoculum × litter transplant laboratory incubation experiment using samples collected from a set of sites that have similar climate and plant species composition but vary significantly in bacterial community structure and litter quality. The results showed that litter quality explained the majority of variation in decomposition rates under controlled laboratory conditions: over the course of the 162-day incubation, litter quality explained nearly two-thirds (64 %) of variation in decomposition rates, and a smaller proportion (25 %) was explained by variation in the inoculum type. In addition, the relative importance of inoculum type on soil respiration increased over the course of the experiment, and was significantly higher in microcosms with lower litter quality relative to those with higher quality litter. We also used molecular phylogenetics to examine the relationships between bacterial community composition and soil respiration in samples through time. Pyrosequencing revealed that bacterial community composition explained 32 % of the variation in respiration rates. However, equal portions (i.e., 16 %) of the variation in bacterial community composition were explained by inoculum type and litter quality, reflecting the importance of both the meta-community and the environment in bacterial assembly. Taken together, these results indicate that the effects of changing microbial community composition on decomposition are likely to be smaller than the potential effects of climate change and/or litter quality changes in response to increasing atmospheric CO2 concentrations or atmospheric nutrient deposition.

Influence of lung CT changes in chronic obstructive pulmonary disease (COPD) on the human lung microbiome.

PubMed

Engel, Marion; Endesfelder, David; Schloter-Hai, Brigitte; Kublik, Susanne; Granitsiotis, Michael S; Boschetto, Piera; Stendardo, Mariarita; Barta, Imre; Dome, Balazs; Deleuze, Jean-François; Boland, Anne; Müller-Quernheim, Joachim; Prasse, Antje; Welte, Tobias; Hohlfeld, Jens; Subramanian, Deepak; Parr, David; Gut, Ivo Glynne; Greulich, Timm; Koczulla, Andreas Rembert; Nowinski, Adam; Gorecka, Dorota; Singh, Dave; Gupta, Sumit; Brightling, Christopher E; Hoffmann, Harald; Frankenberger, Marion; Hofer, Thomas P; Burggraf, Dorothe; Heiss-Neumann, Marion; Ziegler-Heitbrock, Loems; Schloter, Michael; Zu Castell, Wolfgang

2017-01-01

Changes in microbial community composition in the lung of patients suffering from moderate to severe COPD have been well documented. However, knowledge about specific microbiome structures in the human lung associated with CT defined abnormalities is limited. Bacterial community composition derived from brush samples from lungs of 16 patients suffering from different CT defined subtypes of COPD and 9 healthy subjects was analyzed using a cultivation independent barcoding approach applying 454-pyrosequencing of 16S rRNA gene fragment amplicons. We could show that bacterial community composition in patients with changes in CT (either airway or emphysema type changes, designated as severe subtypes) was different from community composition in lungs of patients without visible changes in CT as well as from healthy subjects (designated as mild COPD subtype and control group) (PC1, Padj = 0.002). Higher abundance of Prevotella in samples from patients with mild COPD subtype and from controls and of Streptococcus in the severe subtype cases mainly contributed to the separation of bacterial communities of subjects. No significant effects of treatment with inhaled glucocorticoids on bacterial community composition were detected within COPD cases with and without abnormalities in CT in PCoA. Co-occurrence analysis suggests the presence of networks of co-occurring bacteria. Four communities of positively correlated bacteria were revealed. The microbial communities can clearly be distinguished by their associations with the CT defined disease phenotype. Our findings indicate that CT detectable structural changes in the lung of COPD patients, which we termed severe subtypes, are associated with alterations in bacterial communities, which may induce further changes in the interaction between microbes and host cells. This might result in a changed interplay with the host immune system.

Top-down regulation, climate and multi-decadal changes in coastal zoobenthos communities in two Baltic Sea areas.

PubMed

Olsson, Jens; Bergström, Lena; Gårdmark, Anna

2013-01-01

The structure of many marine ecosystems has changed substantially during recent decades, as a result of overexploitation, climate change and eutrophication. Despite of the apparent ecological and economical importance of coastal areas and communities, this aspect has received relatively little attention in coastal systems. Here we assess the temporal development of zoobenthos communities in two areas on the Swedish Baltic Sea coast during 30 years, and relate their development to changes in climate, eutrophication and top-down regulation from fish. Both communities show substantial structural changes, with a decrease in marine polychaetes and species sensitive to increased water temperatures. Concurrently, opportunistic species tolerant to environmental perturbation have increased in abundance. Species composition show a similar temporal development in both communities and significant changes in species composition occurred in both data sets in the late 1980s and early 1990s. The change in species composition was associated with large scale changes in climate (salinity and water temperature) and to the structure of the local fish community, whereas we found no effects of nutrient loading or ambient nutrient concentrations. Our results suggest that these coastal zoobenthos communities have gone through substantial structural changes over the last 30 years, resulting in communities of different species composition with potentially different ecological functions. We hence suggest that the temporal development of coastal zoobenthos communities should be assessed in light of prevailing climatic conditions considering the potential for top-down effects exerted by local fish communities.

Top-Down Regulation, Climate and Multi-Decadal Changes in Coastal Zoobenthos Communities in Two Baltic Sea Areas

PubMed Central

Olsson, Jens; Bergström, Lena; Gårdmark, Anna

2013-01-01

The structure of many marine ecosystems has changed substantially during recent decades, as a result of overexploitation, climate change and eutrophication. Despite of the apparent ecological and economical importance of coastal areas and communities, this aspect has received relatively little attention in coastal systems. Here we assess the temporal development of zoobenthos communities in two areas on the Swedish Baltic Sea coast during 30 years, and relate their development to changes in climate, eutrophication and top-down regulation from fish. Both communities show substantial structural changes, with a decrease in marine polychaetes and species sensitive to increased water temperatures. Concurrently, opportunistic species tolerant to environmental perturbation have increased in abundance. Species composition show a similar temporal development in both communities and significant changes in species composition occurred in both data sets in the late 1980s and early 1990s. The change in species composition was associated with large scale changes in climate (salinity and water temperature) and to the structure of the local fish community, whereas we found no effects of nutrient loading or ambient nutrient concentrations. Our results suggest that these coastal zoobenthos communities have gone through substantial structural changes over the last 30 years, resulting in communities of different species composition with potentially different ecological functions. We hence suggest that the temporal development of coastal zoobenthos communities should be assessed in light of prevailing climatic conditions considering the potential for top-down effects exerted by local fish communities. PMID:23737998

The relationship between shellbed type and sequence architecture: examples from Japan and New Zealand

NASA Astrophysics Data System (ADS)

Kondo, Yasuo; Abbott, Stephen T.; Kitamura, Akihisa; Kamp, Peter J. J.; Naish, Tim R.; Kamataki, Takanobu; Saul, Gordon S.

1998-12-01

Examples of lithology, fossil content and taphonomic features of shellbeds and intervening less fossiliferous intervals are presented from four Plio-Pleistocene successions (Shimosa Group, Boso Peninsula, Omma Formation, Hokuriku area, Japan, and Okehu, Kai-iwi, and Shakespeare groups in Wanganui, and the Rangitikei Group along the Rangitikei River in New Zealand). As for pre-Pliocene 3rd- and 4th-order depositional sequences, Plio-Pleistocene 5th- to 7th-order depositional sequences contain a variety of shellbeds which are often associated with surfaces or intervals that are characterized by sedimentary condensation, omission or erosion (e.g. sequence boundaries, ravinement surfaces, downlap surfaces and condensed sections). Stratigraphic patterns of shellbed type tend to be similar and repetitive within a basin and a locality. This demonstrates that a specific palaeogeography played an important role in determining the nature of shellbeds. For example, shellbeds formed in the context of toplap are common only in the Shimosa Group, which was deposited in a moderately sheltered sea, the palaeo-Tokyo Bay. Toplap shellbeds are rare in other sequences formed in more open conditions. Despite the variability resulting from such basin characteristics, common styles of shellbeds can be recognized that formed under conditions of marine onlap, backlap, downlap and toplap. Each type of shellbed has a characteristic fossil composition and taphonomy. Onlap and toplap shellbeds contain low-diversity macrobenthic associations including Glycymeris, Mercenaria, Paphies or other bivalves having robust shells, which are often abraded or fragmented. Backlap shellbeds, which are equivalent to the condensed section formed at the maximum transgression, are characterized by dominance of epifaunal macrobenthos such as bryozoa, brachiopoda, pectinid and ostreid bivalves, preserved in a slightly cemented, glauconitic muddy matrix. In contrast to fossils in such condensed sections, the shell density and species diversity of downlap shellbed associations are rather low, and in a few examples the macrobenthic association was buried rapidly in a lower unit of the highstand systems tract (HST) stratigraphically located above the condensed sections. Variations in the stratigraphic distribution of shellbed types are reflected in symmetrical and asymmetrical sequence architectures. Symmetrical sequences have roughly the same thickness of transgressive systems tracts (TST) and highstand systems tracts (HST), and have well segregated shellbeds that were formed during marine onlap and backlap. Asymmetrical cycles have very thin TSTs and much thicker HSTs, and are characterized by the amalgamation of condensed onlap and backlap shellbeds. Such contrasting cycle architectures are interpreted to reflect inner (symmetrical) and outer (asymmetrical) shelf palaeodepositional settings. The amalgamated onlap/backlap shellbeds appear to be common in Plio-Pleistocene sequences. Owing to the short duration of glacio-eustatic sea-level changes with dominant frequencies of 20,000, 40,000 or 100,000 years, shellbeds in the Plio-Pleistocene are relatively simple and thin compared to those formed in ordinary third-order depositional sequences. Infauna-dominated benthic associations are generally more common than in third-order cycles, and epifaunal associations facilitated by taphonomic feedback on sediment-starved shell-gravel substrates occur only in the condensed section corresponding to maximum transgression in most Plio-Pleistocene sequences.

Microbial community structures in algae cultivation ponds for bioconversion of agricultural wastes from livestock industry for feed production

USDA-ARS?s Scientific Manuscript database

Dynamics of seasonal microbial community compositions in algae cultivation ponds are complex. There is very limited knowledge on community compositions that may play significant roles in the bioconversion of manure nu¬trients to animal feed. Algae production is an alternative where land area for pro...

Riparian-associated gastropods in western Washington: community composition and the effects of forest management

Treesearch

Alex D. Foster; Joan Ziegltrum

2013-01-01

We evaluated the abundance of riparian gastropod communities along headwater streams and their response to logging in southwestern Washington State. Terrestrial mollusks near logged streams with ~15 m fixed-width buffers were compared to logged streams with no buffers and to unlogged controls. Mollusk communities varied among sites relative to vegetative composition,...

Avian community composition and habitat importance in the Rio Grande corridor of New Mexico

Treesearch

David A. Leal; Raymond A. Meyer; Bruce C. Thompson

1996-01-01

We investigated avian species richness and abundance within vegetation communities of the Rio Grande Corridor of New Mexico during spring, summer, and fall 1992 and 1993. A subset of 64 transects, for which all bird and vegetation variables were available, representing 16 composite vegetation community types were subjected to canonical correlation analysis to...

Two centuries of fire in a southwestern Virginia Pinus pungens community

Treesearch

E. K. Sutherland; H. Grissino-Mayer; C. A. Woodhouse; W. W. Covington; S. Horn; L. Huckaby; R. Kerr; J. Kush; M. Moore; T. Plumb

1995-01-01

Fire exclusion in fire-dependent forest communities can alter stand structure and composition. The objective was to construct a fire history of two Pinus pungens Lamb. communities growing in southwestern Virgina. Treering analysis of fire-scarred P. pungens specimens and a tree survey were used to determine species composition and age distributions. From 1798-1944,...

Response of herbaceous plant community diversity and composition to overstorey harvest within riparian management zones in Northern Hardwoods

Treesearch

Eric K. Zenner; Michelle A. Martin; Brian J. Palik; Jerilynn E. Peck; Charles R. Blinn

2013-01-01

Partial timber harvest within riparian management zones (RMZs) may permit active management of riparian forests while protecting stream ecosystems, but impacts on herbaceous communities are poorly understood. We compared herbaceous plant community abundance, diversity and composition in RMZs along small streams in northern Minnesota, USA, among four treatments before...

Changes of soil prokaryotic communities after clear-cutting in a karst forest: evidences for cutting-based disturbance promoting deterministic processes.

PubMed

Zhang, Xiao; Liu, Shirong; Li, Xiangzhen; Wang, Jingxin; Ding, Qiong; Wang, Hui; Tian, Chao; Yao, Minjie; An, Jiaxing; Huang, Yongtao

2016-03-01

To understand the temporal responses of soil prokaryotic communities to clear-cutting disturbance, we examined the changes in soil bacterial and archaeal community composition, structure and diversity along a chronosequence of forest successional restoration using high-throughput 16S rRNA gene sequencing. Our results demonstrated that clear-cutting significantly altered soil bacterial community structure, while no significant shifts of soil archaeal communities were observed. The hypothesis that soil bacterial communities would become similar to those of surrounding intact primary forest with natural regeneration was supported by the shifts in the bacterial community composition and structure. Bacterial community diversity patterns induced by clear-cutting were consistent with the intermediate disturbance hypothesis. Dynamics of bacterial communities was mostly driven by soil properties, which collectively explained more than 70% of the variation in bacterial community composition. Community assembly data revealed that clear-cutting promoted the importance of the deterministic processes in shaping bacterial communities, coinciding with the resultant low resource environments. But assembly processes in the secondary forest returned a similar level compared to the intact primary forest. These findings suggest that bacterial community dynamics may be predictable during the natural recovery process. © FEMS 2016. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

A survey of biofilms on wastewater aeration diffusers suggests bacterial community composition and function vary by substrate type and time.

PubMed

Noble, Peter A; Park, Hee-Deung; Olson, Betty H; Asvapathanagul, Pitiporn; Hunter, M Colby; Garrido-Baserba, Manel; Lee, Sang-Hoon; Rosso, Diego

2016-07-01

Aeration diffusers in wastewater treatment plants generate air bubbles that promote mixing, distribution of dissolved oxygen, and microbial processing of dissolved and suspended matter in bulk solution. Biofouling of diffusers represents a significant problem to wastewater treatment plants because biofilms decrease oxygen transfer efficiency and increase backpressure on the blower. To better understand biofouling, we conducted a pilot study to survey the bacterial community composition and function of biofilms on different diffuser substrates and compare them to those in the bulk solution. DNA was extracted from the surface of ethylene-propylene-diene monomer (EPDM), polyurethane, and silicone diffusers operated for 15 months in a municipal treatment plant and sampled at 3 and 9 months. The bacterial community composition and function of the biofilms and bulk solution were determined by amplifying the 16S rRNA genes and pyrosequencing the amplicons and raw metagenomic DNA. The ordination plots and dendrograms of the 16S rRNA and functional genes showed that while the bacterial community composition and function of the bulk solution was independent of sampling time, the composition and function of the biofilms differed by diffuser type and testing time. For the EPDM and silicone diffusers, the biofilm communities were more similar in composition to the bulk solution at 3 months than 9 months. In contrast, the bacteria on the polyurethane diffusers were more dissimilar to the bulk solution at 3 months than 9 months. Taken together, the survey showed that the community composition and function of bacterial biofilms depend on the diffuser substrate and testing time, which warrants further elucidation.

Chemical similarity and local community assembly in the species rich tropical genus Piper.

PubMed

Salazar, Diego; Jaramillo, M Alejandra; Marquis, Robert J

2016-11-01

Community ecologists have strived to find mechanisms that mediate the assembly of natural communities. Recent evidence suggests that natural enemies could play an important role in the assembly of hyper-diverse tropical plant systems. Classic ecological theory predicts that in order for coexistence to occur, species differences must be maximized across biologically important niche dimensions. For plant-herbivore interactions, it has been recently suggested that, within a particular community, plant species that maximize the difference in chemical defense profiles compared to neighboring taxa will have a relative competitive advantage. Here we tested the hypothesis that plant chemical diversity can affect local community composition in the hyper-diverse genus Piper at a lowland wet forest location in Costa Rica. We first characterized the chemical composition of 27 of the most locally abundant species of Piper. We then tested whether species with different chemical compositions were more likely to coexist. Finally, we assessed the degree to which Piper phylogenetic relationships are related to differences in secondary chemical composition and community assembly. We found that, on average, co-occurring species were more likely to differ in chemical composition than expected by chance. Contrary to expectations, there was no phylogenetic signal for overall secondary chemical composition. In addition we found that species in local communities were, on average, more phylogenetically closely related than expected by chance, suggesting that functional traits other than those measured here also influence local assembly. We propose that selection by herbivores for divergent chemistries between closely related species facilitates the coexistence of a high diversity of congeneric taxa via apparent competition. © 2016 by the Ecological Society of America.

Bacterial Community Composition and Extracellular Enzyme Activity in Temperate Streambed Sediment during Drying and Rewetting

PubMed Central

Pohlon, Elisabeth; Ochoa Fandino, Adriana; Marxsen, Jürgen

2013-01-01

Droughts are among the most important disturbance events for stream ecosystems; they not only affect stream hydrology but also the stream biota. Although desiccation of streams is common in Mediterranean regions, phases of dryness in headwaters have been observed more often and for longer periods in extended temperate regions, including Central Europe, reflecting global climate change and enhanced water withdrawal. The effects of desiccation and rewetting on the bacterial community composition and extracellular enzyme activity, a key process in the carbon flow of streams and rivers, were investigated in a typical Central European stream, the Breitenbach (Hesse, Germany). Wet streambed sediment is an important habitat in streams. It was sampled and exposed in the laboratory to different drying scenarios (fast, intermediate, slow) for 13 weeks, followed by rewetting of the sediment from the fast drying scenario via a sediment core perfusion technique for 2 weeks. Bacterial community structure was analyzed using CARD-FISH and TGGE, and extracellular enzyme activity was assessed using fluorogenic model substrates. During desiccation the bacterial community composition shifted toward composition in soil, exhibiting increasing proportions of Actinobacteria and Alphaproteobacteria and decreasing proportions of Bacteroidetes and Betaproteobacteria. Simultaneously the activities of extracellular enzymes decreased, most pronounced with aminopeptidases and less pronounced with enzymes involved in the degradation of polymeric carbohydrates. After rewetting, the general ecosystem functioning, with respect to extracellular enzyme activity, recovered after 10 to 14 days. However, the bacterial community composition had not yet achieved its original composition as in unaffected sediments within this time. Thus, whether the bacterial community eventually recovers completely after these events remains unknown. Perhaps this community undergoes permanent changes, especially after harsh desiccation, followed by loss of the specialized functions of specific groups of bacteria. PMID:24386188

Fine Spatial Scale Variation of Soil Microbial Communities under European Beech and Norway Spruce

PubMed Central

Nacke, Heiko; Goldmann, Kezia; Schöning, Ingo; Pfeiffer, Birgit; Kaiser, Kristin; Castillo-Villamizar, Genis A.; Schrumpf, Marion; Buscot, François; Daniel, Rolf; Wubet, Tesfaye

2016-01-01

The complex interactions between trees and soil microbes in forests as well as their inherent seasonal and spatial variations are poorly understood. In this study, we analyzed the effects of major European tree species (Fagus sylvatica L. and Picea abies (L.) Karst) on soil bacterial and fungal communities. Mineral soil samples were collected from different depths (0–10, 10–20 cm) and at different horizontal distances from beech or spruce trunks (0.5, 1.5, 2.5, 3.5 m) in early summer and autumn. We assessed the composition of soil bacterial and fungal communities based on 16S rRNA gene and ITS DNA sequences. Community composition of bacteria and fungi was most strongly affected by soil pH and tree species. Different ectomycorrhizal fungi (e.g., Tylospora) known to establish mutualistic associations with plant roots showed a tree species preference. Moreover, bacterial and fungal community composition showed spatial and seasonal shifts in soil surrounding beech and spruce. The relative abundance of saprotrophic fungi was higher at a depth of 0–10 vs. 10–20 cm depth. This was presumably a result of changes in nutrient availability, as litter input and organic carbon content decreased with soil depth. Overall bacterial community composition showed strong variations under spruce with increasing distance from the tree trunks, which might be attributed in part to higher fine root biomass near spruce trunks. Furthermore, overall bacterial community composition was strongly affected by season under deciduous trees. PMID:28066384

Fine Spatial Scale Variation of Soil Microbial Communities under European Beech and Norway Spruce.

PubMed

Nacke, Heiko; Goldmann, Kezia; Schöning, Ingo; Pfeiffer, Birgit; Kaiser, Kristin; Castillo-Villamizar, Genis A; Schrumpf, Marion; Buscot, François; Daniel, Rolf; Wubet, Tesfaye

2016-01-01

The complex interactions between trees and soil microbes in forests as well as their inherent seasonal and spatial variations are poorly understood. In this study, we analyzed the effects of major European tree species ( Fagus sylvatica L. and Picea abies (L.) Karst) on soil bacterial and fungal communities. Mineral soil samples were collected from different depths (0-10, 10-20 cm) and at different horizontal distances from beech or spruce trunks (0.5, 1.5, 2.5, 3.5 m) in early summer and autumn. We assessed the composition of soil bacterial and fungal communities based on 16S rRNA gene and ITS DNA sequences. Community composition of bacteria and fungi was most strongly affected by soil pH and tree species. Different ectomycorrhizal fungi (e.g., Tylospora ) known to establish mutualistic associations with plant roots showed a tree species preference. Moreover, bacterial and fungal community composition showed spatial and seasonal shifts in soil surrounding beech and spruce. The relative abundance of saprotrophic fungi was higher at a depth of 0-10 vs. 10-20 cm depth. This was presumably a result of changes in nutrient availability, as litter input and organic carbon content decreased with soil depth. Overall bacterial community composition showed strong variations under spruce with increasing distance from the tree trunks, which might be attributed in part to higher fine root biomass near spruce trunks. Furthermore, overall bacterial community composition was strongly affected by season under deciduous trees.

Extractable nitrogen and microbial community structure respond to grassland restoration regardless of historical context and soil composition

PubMed Central

Dickens, Sara Jo M.; Allen, Edith B.; Santiago, Louis S.; Crowley, David

2015-01-01

Grasslands have a long history of invasion by exotic annuals, which may alter microbial communities and nutrient cycling through changes in litter quality and biomass turnover rates. We compared plant community composition, soil chemical and microbial community composition, potential soil respiration and nitrogen (N) turnover rates between invaded and restored plots in inland and coastal grasslands. Restoration increased microbial biomass and fungal : bacterial (F : B) ratios, but sampling season had a greater influence on the F : B ratio than did restoration. Microbial community composition assessed by phospholipid fatty acid was altered by restoration, but also varied by season and by site. Total soil carbon (C) and N and potential soil respiration did not differ between treatments, but N mineralization decreased while extractable nitrate and nitrification and N immobilization rate increased in restored compared with unrestored sites. The differences in soil chemistry and microbial community composition between unrestored and restored sites indicate that these soils are responsive, and therefore not resistant to feedbacks caused by changes in vegetation type. The resilience, or recovery, of these soils is difficult to assess in the absence of uninvaded control grasslands. However, the rapid changes in microbial and N cycling characteristics following removal of invasives in both grassland sites suggest that the soils are resilient to invasion. The lack of change in total C and N pools may provide a buffer that promotes resilience of labile pools and microbial community structure. PMID:25555522

Receding Water Line and Interspecific Competition Determines Plant Community Composition and Diversity in Wetlands in Beijing

PubMed Central

Wang, Zhengjun; Gong, Huili; Zhang, Jing

2015-01-01

Climate and human-induced wetland degradation has accelerated in recent years, not only resulting in reduced ecosystem services but also greatly affecting the composition and diversity of wetland plant communities. To date, the knowledge of the differences in community parameters and their successional trends in degraded wetlands remains scarce. Here based on remote sensing images, geographic information system technology, and statistical methods, we produced a successional gradient map of the Yeyahu Wetland Nature Reserve in Beijing, which has experienced a steady decline in water level in recent decades. In addition, we analyzed community composition and diversity along with each identified gradient. The results showed that community diversity decreases while dominance increases with the progress of succession, with the highest diversity occurring during the early stage of succession. Moreover, the community demonstrates greater similarity among subareas during later successional stages, and the similarity coefficients calculated from the important value (IV) of each species are more accurate. Correlation analysis showed that the impact of soil factors on diversity was not significant at a subarea scale, although these nutrients showed an increasing trend with the community succession. Furthermore, the IVs of the dominant species had a particularly significant impact on diversity, showing a significantly negative correlation with diversity indices and a significantly positive correlation with dominance indices. Further analysis showed that the retreat of water level resulted from sustained drought and local human activities was a major extrinsic driving force resulting in observed differences in the community successional stages, which resulted in differences in community composition and diversity. On the other hand, interspecific competition was the main intrinsic mechanism, which significantly influenced the IVs of the dominant species and community diversity. The results of this study could aid in improving the understanding of community composition, diversity, and its successional trends in degraded wetlands. PMID:25848799

Do temperate tree species diversity and identity influence soil microbial community function and composition?

PubMed

Khlifa, Rim; Paquette, Alain; Messier, Christian; Reich, Peter B; Munson, Alison D

2017-10-01

Studies of biodiversity-ecosystem function in treed ecosystems have generally focused on aboveground functions. This study investigates intertrophic links between tree diversity and soil microbial community function and composition. We examined how microbial communities in surface mineral soil responded to experimental gradients of tree species richness (SR), functional diversity (FD), community-weighted mean trait value (CWM), and tree identity. The site was a 4-year-old common garden experiment near Montreal, Canada, consisting of deciduous and evergreen tree species mixtures. Microbial community composition, community-level physiological profiles, and respiration were evaluated using phospholipid fatty acid (PLFA) analysis and the MicroResp ™ system, respectively. The relationship between tree species richness and glucose-induced respiration (GIR), basal respiration (BR), metabolic quotient (qCO 2 ) followed a positive but saturating shape. Microbial communities associated with species mixtures were more active (basal respiration [BR]), with higher biomass (glucose-induced respiration [GIR]), and used a greater number of carbon sources than monocultures. Communities associated with deciduous tree species used a greater number of carbon sources than those associated with evergreen species, suggesting a greater soil carbon storage capacity. There were no differences in microbial composition (PLFA) between monocultures and SR mixtures. The FD and the CWM of several functional traits affected both BR and GIR. In general, the CWM of traits had stronger effects than did FD, suggesting that certain traits of dominant species have more effect on ecosystem processes than does FD. Both the functions of GIR and BR were positively related to aboveground tree community productivity. Both tree diversity (SR) and identity (species and functional identity-leaf habit) affected soil microbial community respiration, biomass, and composition. For the first time, we identified functional traits related to life-history strategy, as well as root traits that influence another trophic level, soil microbial community function, via effects on BR and GIR.

Investigating the link between fish community structure and environmental state in deep-time

NASA Astrophysics Data System (ADS)

Sibert, E. C.

2017-12-01

In the modern ocean, a bottom-up ecological viewpoint posits that the composition of plankton communities is often a function of ambient oceanographic conditions, including nutrient concentrations and water temperature. Thus, certain plankton species or communities can be associated with specific oceanographic conditions, giving them potential as carriers of paleoceanographic information. Furthermore, consumer groups, such as fish, depend on the structure and composition of these plankton, and therefore different plankton communities will support different types of fish. In addition, fish have their own physiological constraints for surviving in particular environments, such as oxygen demand, and metabolic rate, causing certain clades to be selectively associated with different water mass characteristics. Thus, the relative or absolute abundances of different fish species or groups could shed light on shifting oxygen concentrations, temperature, or primary productivity in the past. To assess whether fish communities have sufficient environmental control to provide paleoceanographic insights, I use a variety of morphological, phylogenetic, and ecological statistical approaches, to correlate modern fish communities from around the world with environmental variables. I then apply these principles to a series of ichthyolith assemblages from the Cretaceous and Cenozoic, across both space and time, to assess whether fish community composition, abundance, or other characteristics can be predictive of ocean temperature or export productivity. I find that while the abundance of fish fossils in deep-sea cores is often, though not always, correlated with certain export production and temperature proxies, community composition appears to vary independently of these variables on long timescales, driven more by evolutionary processes. However, there are distinct differences in contemporary communities in different locations, suggesting that there is potential in using fish community composition in well-constrained systems. Furthermore, when fish community structure or abundance diverges from the expected state, this may provide significant insight into the structure and functioning of marine ecosystems.

Associations between retail food store exterior advertisements and community demographic and socioeconomic composition.

PubMed

Isgor, Zeynep; Powell, Lisa; Rimkus, Leah; Chaloupka, Frank

2016-05-01

This paper examines the association between the prevalence of various types of outdoor food and beverage advertising found on the building exteriors and properties of retail food outlets and community racial/ethnic and socioeconomic composition in a nationwide sample of food outlets in the U.S. Our major finding from multivariable analysis is that food stores in low-income communities have higher prevalence of all food and beverage ads, including those for unhealthy products such as regular soda, controlling for community racial/ethnic composition and other covariates. This adds to growing research pointing to socioeconomic disparities in food and beverage marketing exposure. Copyright © 2016 Elsevier Ltd. All rights reserved.

Metabarcoding of the kombucha microbial community grown in different microenvironments.

PubMed

Reva, Oleg N; Zaets, Iryna E; Ovcharenko, Leonid P; Kukharenko, Olga E; Shpylova, Switlana P; Podolich, Olga V; de Vera, Jean-Pierre; Kozyrovska, Natalia O

2015-12-01

Introducing of the DNA metabarcoding analysis of probiotic microbial communities allowed getting insight into their functioning and establishing a better control on safety and efficacy of the probiotic communities. In this work the kombucha poly-microbial probiotic community was analysed to study its flexibility under different growth conditions. Environmental DNA sequencing revealed a complex and flexible composition of the kombucha microbial culture (KMC) constituting more bacterial and fungal organisms in addition to those found by cultural method. The community comprised bacterial and yeast components including cultured and uncultivable microorganisms. Culturing the KMC under different conditions revealed the core part of the community which included acetobacteria of two genera Komagataeibacter (former Gluconacetobacter) and Gluconobacter, and representatives of several yeast genera among which Brettanomyces/Dekkera and Pichia (including former Issatchenkia) were dominant. Herbaspirillum spp. and Halomonas spp., which previously had not been described in KMC, were found to be minor but permanent members of the community. The community composition was dependent on the growth conditions. The bacterial component of KMC was relatively stable, but may include additional member-lactobacilli. The yeast species composition was significantly variable. High-throughput sequencing showed complexity and variability of KMC that may affect the quality of the probiotic drink. It was hypothesized that the kombucha core community might recruit some environmental bacteria, particularly lactobacilli, which potentially may contribute to the fermentative capacity of the probiotic drink. As many KMC-associated microorganisms cannot be cultured out of the community, a robust control for community composition should be provided by using DNA metabarcoding.

Soil microbial community response to precipitation change in a semi-arid ecosystem

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cregger, Melissa; Schadt, Christopher Warren; McDowell, Nathan

2012-01-01

Microbial communities regulate many belowground carbon cycling processes; thus, the impact of climate change on the struc- ture and function of soil microbial communities could, in turn, impact the release or storage of carbon in soils. Here we used a large-scale precipitation manipulation ( 18%, 50%, or ambient) in a pi on-juniper woodland (Pinus edulis-Juniperus mono- sperma) to investigate how changes in precipitation amounts altered soil microbial communities as well as what role seasonal variation in rainfall and plant composition played in the microbial community response. Seasonal variability in precipitation had a larger role in determining the composition of soilmore » microbial communities in 2008 than the direct effect of the experimental precipitation treatments. Bacterial and fungal communities in the dry, relatively moisture-limited premonsoon season were compositionally distinct from communities in the monsoon season, when soil moisture levels and periodicity varied more widely across treatments. Fungal abundance in the drought plots during the dry premonsoon season was particularly low and was 4.7 times greater upon soil wet-up in the monsoon season, suggesting that soil fungi were water limited in the driest plots, which may result in a decrease in fungal degradation of carbon substrates. Additionally, we found that both bacterial and fungal communities beneath pi on pine and juniper were distinct, suggesting that microbial functions beneath these trees are different. We conclude that predicting the response of microbial communities to climate change is highly dependent on seasonal dynam- ics, background climatic variability, and the composition of the associated aboveground community.« less

Impacts of environmental factors on the whole microbial communities in the rhizosphere of a metal-tolerant plant: Elsholtzia haichowensis Sun.

PubMed

Deng, Songqiang; Ke, Tan; Li, Longtai; Cai, Shenwen; Zhou, Yuyue; Liu, Yue; Guo, Limin; Chen, Lanzhou; Zhang, Dayi

2018-06-01

Rhizospheric microbes play important roles in plant growth and heavy metals (HMs) transformation, possessing great potential for the successful phytoremediation of environmental pollutants. In the present study, the rhizosphere of Elsholtzia haichowensis Sun was comprehensively studied to uncover the influence of environmental factors (EFs) on the whole microbial communities including bacteria, fungi and archaea, via quantitative polymerase chain reaction (qPCR) and high-throughput sequencing. By analyzing molecular ecological network and multivariate regression trees (MRT), we evaluated the distinct impacts of 37 EFs on soil microbial community. Of them, soil pH, HMs, soil texture and nitrogen were identified as the most influencing factors, and their roles varied across different domains. Soil pH was the main environmental variable on archaeal and bacterial community but not fungi, explaining 25.7%, 46.5% and 40.7% variation of bacterial taxonomic composition, archaeal taxonomic composition and a-diversity, respectively. HMs showed important roles in driving the whole microbial community and explained the major variation in different domains. Nitrogen (NH 4 -N, NO 3 -N, NO 2 -N and TN) explained 47.3% variation of microbial population composition and 15.9% of archaeal taxonomic composition, demonstrating its influence in structuring the rhizospheric microbiome, particularly archaeal and bacterial community. Soil texture accounted for 10.2% variation of population composition, 28.9% of fungal taxonomic composition, 19.2% of fungal a-diversity and 7.8% of archaeal a-diversity. Rhizosphere only showed strong impacts on fungi and bacteria, accounting for 14.7% and 4.9% variation of fungal taxonomic composition and bacterial a-diversity. Spatial distance had stronger influence on bacteria and archaea than fungi, but not as significant as other EFs. For the first time, our study provides a complete insight into key influential EFs on rhizospheric microbes and how their roles vary across microbial domains, giving a hand for understanding the construction of microbial communities in rhizosphere. Copyright © 2017 Elsevier Ltd. All rights reserved.

Analysis of bacterial communities and bacterial pathogens in a biogas plant by the combination of ethidium monoazide, PCR and Ion Torrent sequencing.

PubMed

Luo, Gang; Angelidaki, Irini

2014-09-01

The present study investigated the changes of bacterial community composition including bacterial pathogens along a biogas plant, i.e. from the influent, to the biogas reactor and to the post-digester. The effects of post-digestion temperature and time on the changes of bacterial community composition and bacterial pathogens were also studied. Microbial analysis was made by Ion Torrent sequencing of the PCR amplicons from ethidium monoazide treated samples, and ethidium monoazide was used to cleave DNA from dead cells and exclude it from PCR amplification. Both similarity and taxonomic analysis showed that the bacterial community composition in the influent was changed after anaerobic digestion. Firmicutes were dominant in all the samples, while Proteobacteria decreased in the biogas reactor compared with the influent. Variations of bacterial community composition in the biogas reactor with time were also observed. This could be attributed to varying composition of the influent. Batch experiments showed that the methane recovery from the digested residues (obtained from biogas reactor) was mainly related with post-digestion temperature. However, post-digestion time rather than temperature had a significant effect on the changes of bacterial community composition. The changes of bacterial community composition were also reflected in the changes of relative abundance of bacterial pathogens. The richness and relative abundance of bacterial pathogens were reduced after anaerobic digestion in the biogas reactor. It was found in batch experiments that bacterial pathogens showed the highest relative abundance and richness after 30 days' post-digestion. Streptococcus bovis was found in all the samples. Our results showed that special attention should be paid to the post-digestion since the increase in relative abundance of bacterial pathogens after post-digestion might reflect regrowth of bacterial pathogens and limit biosolids disposal vectors. Copyright © 2014 Elsevier Ltd. All rights reserved.

Interactive effects between plant functional types and soil factors on tundra species diversity and community composition.

PubMed

Iturrate-Garcia, Maitane; O'Brien, Michael J; Khitun, Olga; Abiven, Samuel; Niklaus, Pascal A; Schaepman-Strub, Gabriela

2016-11-01

Plant communities are coupled with abiotic factors, as species diversity and community composition both respond to and influence climate and soil characteristics. Interactions between vegetation and abiotic factors depend on plant functional types (PFT) as different growth forms will have differential responses to and effects on site characteristics. However, despite the importance of different PFT for community assembly and ecosystem functioning, research has mainly focused on vascular plants. Here, we established a set of observational plots in two contrasting habitats in northeastern Siberia in order to assess the relationship between species diversity and community composition with soil variables, as well as the relationship between vegetation cover and species diversity for two PFT (nonvascular and vascular). We found that nonvascular species diversity decreased with soil acidity and moisture and, to a lesser extent, with soil temperature and active layer thickness. In contrast, no such correlation was found for vascular species diversity. Differences in community composition were found mainly along soil acidity and moisture gradients. However, the proportion of variation in composition explained by the measured soil variables was much lower for nonvascular than for vascular species when considering the PFT separately. We also found different relationships between vegetation cover and species diversity according the PFT and habitat. In support of niche differentiation theory, species diversity and community composition were related to edaphic factors. The distinct relationships found for nonvascular and vascular species suggest the importance of considering multiple PFT when assessing species diversity and composition and their interaction with edaphic factors. Synthesis : Identifying vegetation responses to edaphic factors is a first step toward a better understanding of vegetation-soil feedbacks under climate change. Our results suggest that incorporating differential responses of PFT is important for predicting vegetation shifts, primary productivity, and in turn, ecosystem functioning in a changing climate.

COMPARISON OF ECOLOGICAL COMMUNITIES: THE PROBLEM OF SAMPLE REPRESENTATIVENESS

EPA Science Inventory

Obtaining an adequate, representative sample of ecological communities to make taxon richness (TR) or compositional comparisons among sites is a continuing challenge. Sample representativeness literally means the similarity in species composition and relative abundance between a ...

Biofouling community composition across a range of environmental conditions and geographical locations suitable for floating marine renewable energy generation.

PubMed

Macleod, Adrian K; Stanley, Michele S; Day, John G; Cook, Elizabeth J

2016-01-01

Knowledge of biofouling typical of marine structures is essential for engineers to define appropriate loading criteria in addition to informing other stakeholders about the ecological implications of creating novel artificial environments. There is a lack of information regarding biofouling community composition (including weight and density characteristics) on floating structures associated with future marine renewable energy generation technologies. A network of navigation buoys were identified across a range of geographical areas, environmental conditions (tidal flow speed, temperature and salinity), and deployment durations suitable for future developments. Despite the perceived importance of environmental and temporal factors, geographical location explained the greatest proportion of the observed variation in community composition, emphasising the importance of considering geography when assessing the impact of biofouling on device functioning and associated ecology. The principal taxa associated with variation in biofouling community composition were mussels (Mytilus edulis), which were also important when determining loading criteria.

Looking inside and out: the impact of employee and community demographic composition on organizational diversity climate.

PubMed

Pugh, S Douglas; Dietz, Joerg; Brief, Arthur P; Wiley, Jack W

2008-11-01

An organization's diversity climate refers to employees' shared perceptions of the policies and practices that communicate the extent to which fostering diversity and eliminating discrimination is a priority in the organization. The authors propose a salient element of the organizational context, the racial composition of the community where the organization is located, serves an important signaling function that shapes the formation of climate perceptions. In a study of 142 retail bank units in the United States, evidence is found for a relationship between the racial composition of an organization's workforce and diversity climate that is moderated by the racial composition of the community where the organization is located. The results suggest that when few racial minorities live in the community in which an organization is embedded, workforce diversity has an impact on employees' diversity climate perceptions. As racial minority popular share increases, workforce diversity tends to lose this signaling value.

Pollution-induced community tolerance (PICT) as a tool for monitoring Lake Geneva long-term in situ ecotoxic restoration from herbicide contamination.

PubMed

Larras, Floriane; Rimet, Frédéric; Gregorio, Vincent; Bérard, Annette; Leboulanger, Christophe; Montuelle, Bernard; Bouchez, Agnès

2016-03-01

Chemical monitoring revealed a regular decrease in herbicide concentration in Lake Geneva since last decades that may be linked to an ecotoxic restoration of nontarget phytoplanktonic communities. The Pollution-induced community tolerance (PICT) approach was tested as a tool to monitor the ecotoxic restoration of Lake Geneva for herbicides from 1999 to 2011. We conducted monthly assessments in 1999 and in 2011 for the tolerance of the phytoplankton communities to two herbicides (atrazine and copper), using PICT bioassays. The taxonomical composition of the communities was determined on the same collecting dates. The herbicide concentration decrease during the 12 years significantly influenced the composition of communities. The PICT monitoring indicated that a significant tolerance decrease in the community to both herbicides accompanied the herbicide concentration decrease. PICT measurements for atrazine and copper also changed at the intra-annual level. These variations were mainly due to community composition shifts linked to seasonal phosphorus and temperature changes. PICT monitoring on a seasonal basis is required to monitor the mean tolerance of communities. PICT appeared to be a powerful tool that reflected the toxic effects on environmental communities and to monitor ecotoxic ecosystem restoration.

Thalassiosira spp. community composition shifts in response to chemical and physical forcing in the northeast Pacific Ocean

PubMed Central

Chappell, P. Dreux; Whitney, LeAnn P.; Haddock, Traci L.; Menden-Deuer, Susanne; Roy, Eric G.; Wells, Mark L.; Jenkins, Bethany D.

2013-01-01

Diatoms are genetically diverse unicellular photosynthetic eukaryotes that are key primary producers in the ocean. Many of the over 100 extant diatom species in the cosmopolitan genus Thalassiosira are difficult to distinguish in mixed populations using light microscopy. Here, we examine shifts in Thalassiosira spp. composition along a coastal to open ocean transect that encountered a 3-month-old Haida eddy in the northeast Pacific Ocean. To quantify shifts in Thalassiosira species composition, we developed a targeted automated ribosomal intergenic spacer analysis (ARISA) method to identify Thalassiosira spp. in environmental samples. As many specific fragment lengths are indicative of individual Thalassiosira spp., the ARISA method is a useful screening tool to identify changes in the relative abundance and distribution of specific species. The method also enabled us to assess changes in Thalassiosira community composition in response to chemical and physical forcing. Thalassiosira spp. community composition in the core of a 3-month-old Haida eddy remained largely (>80%) similar over a 2-week period, despite moving 24 km southwestward. Shifts in Thalassiosira species correlated with changes in dissolved iron (Fe) and temperature throughout the sampling period. Simultaneously tracking community composition and relative abundance of Thalassiosira species within the physical and chemical context they occurred allowed us to identify quantitative linkages between environmental conditions and community response. PMID:24065961

Effects of transgenic cry1Ie maize on non-lepidopteran pest abundance, diversity and community composition.

PubMed

Guo, Jingfei; He, Kanglai; Bai, Shuxiong; Zhang, Tiantao; Liu, Yunjun; Wang, Fuxin; Wang, Zhenying

2016-12-01

Non-lepidopteran pests are exposed to, and may be influenced by, Bt toxins when feeding on Bt maize that express insecticidal Cry proteins derived from Bacillus thuringiensis (Bt). In order to assess the potential effects of transgenic cry1Ie maize on non-lepidopteran pest species and ecological communities, a 2-year field study was conducted to compare the non-lepidopteran pest abundance, diversity and community composition between transgenic cry1Ie maize (Event IE09S034, Bt maize) and its near isoline (Zong 31, non-Bt maize) by whole plant inspections. Results showed that Bt maize had no effects on non-lepidopteran pest abundance and diversity (Shannon-Wiener diversity index, Simpson's diversity index, species richness, and Pielou's index). There was a significant effect of year and sampling time on those indices analyzed. Redundancy analysis indicated maize type, sampling time and year totally explained 20.43 % of the variance in the non-lepidopteran pest community composition, but no association was presented between maize type (Bt maize and non-Bt maize) and the variance. Nonmetric multidimensional scaling analysis showed that sampling time and year, rather than maize type had close relationship with the non-lepidopteran pest community composition. These results corroborated the hypothesis that, at least in the short-term, the transgenic cry1Ie maize had negligible effects on the non-lepidopteran pest abundance, diversity and community composition.

Linking the Composition of Bacterial and Archaeal Communities to Characteristics of Soil and Flora Composition in the Atlantic Rainforest

PubMed Central

Lima-Perim, Julia Elidia; Romagnoli, Emiliana Manesco; Dini-Andreote, Francisco; Durrer, Ademir; Dias, Armando Cavalcante Franco; Andreote, Fernando Dini

2016-01-01

The description of microbiomes as intrinsic fractions of any given ecosystem is an important issue, for instance, by linking their compositions and functions with other biotic and abiotic components of natural systems and hosts. Here we describe the archaeal and bacterial communities from soils of the Atlantic Rainforest in Brazil. Based on the comparison of three areas located along an altitudinal gradient—namely, Santa Virginia, Picinguaba and Restinga—we detected the most abundant groups of Bacteria (Acidobacteria and Proteobacteria) and Archaea (Thaumarchaeota, Crenarchaeota and Euryarchaeota). The particular composition of such communities in each of these areas was first evidenced by PCR-DGGE patterns [determined for Bacteria, Archaea and ammonia-oxidizing organisms—ammonia-oxidizing archaea (AOA) and bacteria (AOB)]. Moreover, sequence-based analysis provided a better resolution of communities, which indicated distinct frequencies of archaeal phyla and bacterial OTUs across areas. We found, as indicated by the Mantel test and multivariate analyses, a potential effect of the flora composition that outpaces the effect of soil characteristics (either physical and chemical) influencing the assembly of these microbial communities in soils. Our results indicate a collective role of the ecosystem underlying observed differences in microbial communities in these soils. Particularly, we posit that rainforest preservation also needs to take into account the maintenance of the soil biodiversity, as this is prompted to influence major processes that affect ecosystem functioning. PMID:26752633

Abundance and composition of indigenous bacterial communities in a multi-step biofiltration-based drinking water treatment plant.

PubMed

Lautenschlager, Karin; Hwang, Chiachi; Ling, Fangqiong; Liu, Wen-Tso; Boon, Nico; Köster, Oliver; Egli, Thomas; Hammes, Frederik

2014-10-01

Indigenous bacterial communities are essential for biofiltration processes in drinking water treatment systems. In this study, we examined the microbial community composition and abundance of three different biofilter types (rapid sand, granular activated carbon, and slow sand filters) and their respective effluents in a full-scale, multi-step treatment plant (Zürich, CH). Detailed analysis of organic carbon degradation underpinned biodegradation as the primary function of the biofilter biomass. The biomass was present in concentrations ranging between 2-5 × 10(15) cells/m(3) in all filters but was phylogenetically, enzymatically and metabolically diverse. Based on 16S rRNA gene-based 454 pyrosequencing analysis for microbial community composition, similar microbial taxa (predominantly Proteobacteria, Planctomycetes, Acidobacteria, Bacteriodetes, Nitrospira and Chloroflexi) were present in all biofilters and in their respective effluents, but the ratio of microbial taxa was different in each filter type. This change was also reflected in the cluster analysis, which revealed a change of 50-60% in microbial community composition between the different filter types. This study documents the direct influence of the filter biomass on the microbial community composition of the final drinking water, particularly when the water is distributed without post-disinfection. The results provide new insights on the complexity of indigenous bacteria colonizing drinking water systems, especially in different biofilters of a multi-step treatment plant. Copyright © 2014 Elsevier Ltd. All rights reserved.

Root controls on soil microbial community structure in forest soils.

PubMed

Brant, Justin B; Myrold, David D; Sulzman, Elizabeth W

2006-07-01

We assessed microbial community composition as a function of altered above- and belowground inputs to soil in forest ecosystems of Oregon, Pennsylvania, and Hungary as part of a larger Detritus Input and Removal Treatment (DIRT) experiment. DIRT plots, which include root trenching, aboveground litter exclusion, and doubling of litter inputs, have been established in forested ecosystems in the US and Europe that vary with respect to dominant tree species, soil C content, N deposition rate, and soil type. This study used phospholipid fatty-acid (PLFA) analysis to examine changes in the soil microbial community size and composition in the mineral soil (0-10 cm) as a result of the DIRT treatments. At all sites, the PLFA profiles from the plots without roots were significantly different from all other treatments. PLFA analysis showed that the rootless plots generally contained larger quantities of actinomycete biomarkers and lower amounts of fungal biomarkers. At one of the sites in an old-growth coniferous forest, seasonal changes in PLFA profiles were also examined. Seasonal differences in soil microbial community composition were greater than treatment differences. Throughout the year, treatments without roots continued to have a different microbial community composition than the treatments with roots, although the specific PLFA biomarkers responsible for these differences varied by season. These data provide direct evidence that root C inputs exert a large control on microbial community composition in the three forested ecosystems studied.

Long-term agricultural fertilization alters arbuscular mycorrhizal fungal community composition and barley (Hordeum vulgare) mycorrhizal carbon and phosphorus exchange.

PubMed

Williams, Alwyn; Manoharan, Lokeshwaran; Rosenstock, Nicholas P; Olsson, Pål Axel; Hedlund, Katarina

2017-01-01

Agricultural fertilization significantly affects arbuscular mycorrhizal fungal (AMF) community composition. However, the functional implications of community shifts are unknown, limiting understanding of the role of AMF in agriculture. We assessed AMF community composition at four sites managed under the same nitrogen (N) and phosphorus (P) fertilizer regimes for 55 yr. We also established a glasshouse experiment with the same soils to investigate AMF-barley (Hordeum vulgare) nutrient exchange, using carbon ( 13 C) and 33 P isotopic labelling. N fertilization affected AMF community composition, reducing diversity; P had no effect. In the glasshouse, AMF contribution to plant P declined with P fertilization, but was unaffected by N. Barley C allocation to AMF also declined with P fertilization. As N fertilization increased, C allocation to AMF per unit of P exchanged increased. This occurred with and without P fertilization, and was concomitant with reduced barley biomass. AMF community composition showed no relationship with glasshouse experiment results. The results indicate that plants can reduce C allocation to AMF in response to P fertilization. Under N fertilization, plants allocate an increasing amount of C to AMF and receive relatively less P. This suggests an alteration in the terms of P-C exchange under N fertilization regardless of soil P status. © 2016 The Authors. New Phytologist © 2016 New Phytologist Trust.

High-Resolution Melt Analysis for Rapid Comparison of Bacterial Community Compositions

PubMed Central

Hjelmsø, Mathis Hjort; Hansen, Lars Hestbjerg; Bælum, Jacob; Feld, Louise; Holben, William E.

2014-01-01

In the study of bacterial community composition, 16S rRNA gene amplicon sequencing is today among the preferred methods of analysis. The cost of nucleotide sequence analysis, including requisite computational and bioinformatic steps, however, takes up a large part of many research budgets. High-resolution melt (HRM) analysis is the study of the melt behavior of specific PCR products. Here we describe a novel high-throughput approach in which we used HRM analysis targeting the 16S rRNA gene to rapidly screen multiple complex samples for differences in bacterial community composition. We hypothesized that HRM analysis of amplified 16S rRNA genes from a soil ecosystem could be used as a screening tool to identify changes in bacterial community structure. This hypothesis was tested using a soil microcosm setup exposed to a total of six treatments representing different combinations of pesticide and fertilization treatments. The HRM analysis identified a shift in the bacterial community composition in two of the treatments, both including the soil fumigant Basamid GR. These results were confirmed with both denaturing gradient gel electrophoresis (DGGE) analysis and 454-based 16S rRNA gene amplicon sequencing. HRM analysis was shown to be a fast, high-throughput technique that can serve as an effective alternative to gel-based screening methods to monitor microbial community composition. PMID:24610853

Linking the Composition of Bacterial and Archaeal Communities to Characteristics of Soil and Flora Composition in the Atlantic Rainforest.

PubMed

Lima-Perim, Julia Elidia; Romagnoli, Emiliana Manesco; Dini-Andreote, Francisco; Durrer, Ademir; Dias, Armando Cavalcante Franco; Andreote, Fernando Dini

2016-01-01

The description of microbiomes as intrinsic fractions of any given ecosystem is an important issue, for instance, by linking their compositions and functions with other biotic and abiotic components of natural systems and hosts. Here we describe the archaeal and bacterial communities from soils of the Atlantic Rainforest in Brazil. Based on the comparison of three areas located along an altitudinal gradient-namely, Santa Virginia, Picinguaba and Restinga-we detected the most abundant groups of Bacteria (Acidobacteria and Proteobacteria) and Archaea (Thaumarchaeota, Crenarchaeota and Euryarchaeota). The particular composition of such communities in each of these areas was first evidenced by PCR-DGGE patterns [determined for Bacteria, Archaea and ammonia-oxidizing organisms-ammonia-oxidizing archaea (AOA) and bacteria (AOB)]. Moreover, sequence-based analysis provided a better resolution of communities, which indicated distinct frequencies of archaeal phyla and bacterial OTUs across areas. We found, as indicated by the Mantel test and multivariate analyses, a potential effect of the flora composition that outpaces the effect of soil characteristics (either physical and chemical) influencing the assembly of these microbial communities in soils. Our results indicate a collective role of the ecosystem underlying observed differences in microbial communities in these soils. Particularly, we posit that rainforest preservation also needs to take into account the maintenance of the soil biodiversity, as this is prompted to influence major processes that affect ecosystem functioning.

Bacterial responses to environmental change on the Tibetan Plateau over the past half century.

PubMed

Liu, Yongqin; Priscu, John C; Yao, Tandong; Vick-Majors, Trista J; Xu, Baiqing; Jiao, Nianzhi; Santibáñez, Pamela; Huang, Sijun; Wang, Ninglian; Greenwood, Mark; Michaud, Alexander B; Kang, Shichang; Wang, Jianjun; Gao, Qun; Yang, Yunfeng

2016-06-01

Climate change and anthropogenic factors can alter biodiversity and can lead to changes in community structure and function. Despite the potential impacts, no long-term records of climatic influences on microbial communities exist. The Tibetan Plateau is a highly sensitive region that is currently undergoing significant alteration resulting from both climate change and increased human activity. Ice cores from glaciers in this region serve as unique natural archives of bacterial abundance and community composition, and contain concomitant records of climate and environmental change. We report high-resolution profiles of bacterial density and community composition over the past half century in ice cores from three glaciers on the Tibetan Plateau. Statistical analysis showed that the bacterial community composition in the three ice cores converged starting in the 1990s. Changes in bacterial community composition were related to changing precipitation, increasing air temperature and anthropogenic activities in the vicinity of the plateau. Collectively, our ice core data on bacteria in concert with environmental and anthropogenic proxies indicate that the convergence of bacterial communities deposited on glaciers across a wide geographical area and situated in diverse habitat types was likely induced by climatic and anthropogenic drivers. © 2015 Society for Applied Microbiology and John Wiley & Sons Ltd.

Temporal dynamics of hot desert microbial communities reveal structural and functional responses to water input

DOE Office of Scientific and Technical Information (OSTI.GOV)

Armstrong, Alacia; Valverde, Angel; Ramond, Jean-Baptiste

The temporal dynamics of desert soil microbial communities are poorly understood. Given the implications for ecosystem functioning under a global change scenario, a better understanding of desert microbial community stability is crucial. Here, we sampled soils in the central Namib Desert on sixteen different occasions over a one-year period. Using Illumina-based amplicon sequencing of the 16S rRNA gene, we found that α-diversity (richness) was more variable at a given sampling date (spatial variability) than over the course of one year (temporal variability). Community composition remained essentially unchanged across the first 10 months, indicating that spatial sampling might be more importantmore » than temporal sampling when assessing β-diversity patterns in desert soils. However, a major shift in microbial community composition was found following a single precipitation event. This shift in composition was associated with a rapid increase in CO2 respiration and productivity, supporting the view that desert soil microbial communities respond rapidly to re-wetting and that this response may be the result of both taxon-specific selection and changes in the availability or accessibility of organic substrates. Recovery to quasi pre-disturbance community composition was achieved within one month after rainfall.« less

Changes in ectomycorrhizal fungal community composition and declining diversity along a 2-million-year soil chronosequence.

PubMed

Albornoz, Felipe E; Teste, François P; Lambers, Hans; Bunce, Michael; Murray, Dáithí C; White, Nicole E; Laliberté, Etienne

2016-10-01

Ectomycorrhizal (ECM) fungal communities covary with host plant communities along soil fertility gradients, yet it is unclear whether this reflects changes in host composition, fungal edaphic specialization or priority effects during fungal community establishment. We grew two co-occurring ECM plant species (to control for host identity) in soils collected along a 2-million-year chronosequence representing a strong soil fertility gradient and used soil manipulations to disentangle the effects of edaphic properties from those due to fungal inoculum. Ectomycorrhizal fungal community composition changed and richness declined with increasing soil age; these changes were linked to pedogenesis-driven shifts in edaphic properties, particularly pH and resin-exchangeable and organic phosphorus. However, when differences in inoculum potential or soil abiotic properties among soil ages were removed while host identity was held constant, differences in ECM fungal communities and richness among chronosequence stages disappeared. Our results show that ECM fungal communities strongly vary during long-term ecosystem development, even within the same hosts. However, these changes could not be attributed to short-term fungal edaphic specialization or differences in fungal inoculum (i.e. density and composition) alone. Rather, they must reflect longer-term ecosystem-level feedback between soil, vegetation and ECM fungi during pedogenesis. © 2016 John Wiley & Sons Ltd.

Prolonged exposure does not increase soil microbial community compositional response to warming along geothermal gradients.

PubMed

Radujkovic, Dajana; Verbruggen, Erik; Sigurdsson, Bjarni D; Leblans, Niki I W; Janssens, Ivan A; Vicca, Sara; Weedon, James T

2018-02-01

Global change is expected to affect soil microbial communities through their responsiveness to temperature. It has been proposed that prolonged exposure to elevated temperatures may lead to progressively larger effects on soil microbial community composition. However, due to the relatively short-term nature of most warming experiments, this idea has been challenging to evaluate. The present study took the advantage of natural geothermal gradients (from +1°C to +19°C above ambient) in two subarctic grasslands to test the hypothesis that long-term exposure (>50 years) intensifies the effect of warming on microbial community composition compared to short-term exposure (5-7 years). Community profiles from amplicon sequencing of bacterial and fungal rRNA genes did not support this hypothesis: significant changes relative to ambient were observed only starting from the warming intensity of +9°C in the long term and +7°C/+3°C in the short term, for bacteria and fungi, respectively. Our results suggest that microbial communities in high-latitude grasslands will not undergo lasting shifts in community composition under the warming predicted for the coming 100 years (+2.2°C to +8.3°C). © FEMS 2017. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Abundance and community structure of ammonia-oxidizing Archaea and Bacteria in response to fertilization and mowing in a temperate steppe in Inner Mongolia.

PubMed

Chen, Yong-Liang; Hu, Hang-Wei; Han, Hong-Yan; Du, Yue; Wan, Shi-Qiang; Xu, Zhu-Wen; Chen, Bao-Dong

2014-07-01

Based on a 6-year field trial in a temperate steppe in Inner Mongolia, we investigated the effects of nitrogen (N) and phosphorus (P) fertilization and mowing on the abundance and community compositions of ammonia-oxidizing Bacteria (AOB) and Archaea (AOA) upon early (May) and peak (August) plant growth using quantitative PCR (qPCR), terminal-restriction fragment length polymorphism (T-RFLP), cloning and sequencing. The results showed that N fertilization changed AOB community composition and increased AOB abundance in both May and August, but significantly decreased AOA abundance in May. By contrast, P fertilization significantly influenced AOB abundance only in August. Mowing significantly decreased AOA abundance and had little effect on AOA community compositions in May, while significantly influencing AOB abundance in both May and August, Moreover, AOA and AOB community structures showed obvious seasonal variations between May and August. Phylogenetic analysis showed that all AOA sequences fell into the Nitrososphaera cluster, and the AOB community was dominated by Nitrosospira Cluster 3. The results suggest that fertilization and mowing play important roles in affecting the abundance and community compositions of AOA and AOB. © 2014 Federation of European Microbiological Societies. Published by John Wiley & Sons Ltd. All rights reserved.

Physical disturbance to ecological niches created by soil structure alters community composition of methanotrophs.

PubMed

Kumaresan, Deepak; Stralis-Pavese, Nancy; Abell, Guy C J; Bodrossy, Levente; Murrell, J Colin

2011-10-01

Aggregates of different sizes and stability in soil create a composite of ecological niches differing in terms of physico-chemical and structural characteristics. The aim of this study was to identify, using DNA-SIP and mRNA-based microarray analysis, whether shifts in activity and community composition of methanotrophs occur when ecological niches created by soil structure are physically perturbed. Landfill cover soil was subject to three treatments termed: 'control' (minimal structural disruption), 'sieved' (sieved soil using 2 mm mesh) and 'ground' (grinding using mortar and pestle). 'Sieved' and 'ground' soil treatments exhibited higher methane oxidation potentials compared with the 'control' soil treatment. Analysis of the active community composition revealed an effect of physical disruption on active methanotrophs. Type I methanotrophs were the most active methanotrophs in 'sieved' and 'ground' soil treatments, whereas both Type I and Type II methanotrophs were active in the 'control' soil treatment. The result emphasize that changes to a particular ecological niche may not result in an immediate change to the active bacterial composition and change in composition will depend on the ability of the bacterial communities to respond to the perturbation. © 2011 Society for Applied Microbiology and Blackwell Publishing Ltd.

Repeated disturbances affect functional but not compositional resistance and resilience in an aquatic bacterioplankton community.

PubMed

Sjöstedt, Johanna; Langenheder, Silke; Kritzberg, Emma; Karlsson, Christofer M G; Lindström, Eva S

2018-05-07

Disturbances are believed to be one of the main factors influencing variations in community diversity and functioning. Here we investigated if exposure to a pH press disturbance affected the composition and functional performance of a bacterial community and its resistance, recovery and resilience to a second press disturbance (salt addition). Lake bacterial assemblages were initially exposed to reduced pH in six mesocosms whereas another six mesocosms were kept as reference. Seven days after the pH disturbance, three tanks from each treatment were exposed to a salt disturbance. Both bacterial production and enzyme activity were negatively affected by the salt treatment, regardless if the communities had been subject to a previous disturbance or not. However, cell-specific enzyme activity had a higher resistance in communities pre-exposed to the pH disturbance compared to the reference treatment. In contrast, for cell-specific bacterial production resistance was not affected, but recovery was faster in the communities that had previously been exposed to the pH disturbance. Over time, bacterial community composition diverged among treatments, in response to both pH and salinity. The difference in functional recovery, resilience and resistance may depend on differences in community composition caused by the pH disturbance, niche breadth or acquired stress resistance. This article is protected by copyright. All rights reserved. © 2018 Society for Applied Microbiology and John Wiley & Sons Ltd.

Opposing resonses to ecological gradients structure amphibian and reptile communities across a temperate grassland-savanna-forest landscape

USGS Publications Warehouse

Grundel, Ralph; Beamer, David; Glowacki, Gary A.; Frohnapple, Krystal; Pavlovic, Noel B.

2014-01-01

Temperate savannas are threatened across the globe. If we prioritize savanna restoration, we should ask how savanna animal communities differ from communities in related open habitats and forests. We documented distribution of amphibian and reptile species across an open-savanna–forest gradient in the Midwest U.S. to determine how fire history and habitat structure affected herpetofaunal community composition. The transition from open habitats to forests was a transition from higher reptile abundance to higher amphibian abundance and the intermediate savanna landscape supported the most species overall. These differences warn against assuming that amphibian and reptile communities will have similar ecological responses to habitat structure. Richness and abundance also often responded in opposite directions to some habitat characteristics, such as cover of bare ground or litter. Herpetofaunal community species composition changed along a fire gradient from infrequent and recent fires to frequent but less recent fires. Nearby (200-m) wetland cover was relatively unimportant in predicting overall herpetofaunal community composition while fire history and fire-related canopy and ground cover were more important predictors of composition, diversity, and abundance. Increased developed cover was negatively related to richness and abundance. This indicates the importance of fire history and fire related landscape characteristics, and the negative effects of development, in shaping the upland herpetofaunal community along the native grassland–forest continuum.

Epiphytic Macrolichen Community Composition Database—epiphytic lichen synusiae in forested areas of the US

Treesearch

Sarah. Jovan

2012-01-01

The Forest Inventory and Analysis (FIA) Program's Lichen Communities Indicator is used for tracking epiphytic macrolichen diversity and is applied for monitoring air quality and climate change effects on forest health in the United States. Started in 1994, the Epiphytic Macrolichen Community Composition Database (GIVD ID NA-US-012) now has over 8,000 surveys of...

Fungal community composition and function after long-term exposure of northern forests to elevated atmospheric CO2 and tropospheric O3

Treesearch

Ivan P. Edwards; Donald R. Zak

2011-01-01

The long-term effects of rising atmospheric carbon dioxide (CO2) and tropospheric O3 concentrations on fungal communities in soil are not well understood. Here, we examine fungal community composition and the activities of cellobiohydrolase and N-acetylglucosaminidase (NAG) after 10 years of exposure to 1...

Vertical distribution and community composition of anammox bacteria in sediments of a eutrophic shallow lake.

PubMed

Qin, H; Han, C; Jin, Z; Wu, L; Deng, H; Zhu, G; Zhong, W

2018-07-01

The aim of this study was to explore the vertical distribution traits of anaerobic ammonium-oxidizing (anammox) bacterial relative abundance and community composition along the oxic/anoxic sediment profiles in a shallow lake. The Illumina Miseq-based sequencing and quantitative polymerase chain reactions were utilized to analyse relative abundance of anammox hydrazine synthase (hzsB) gene in comparison with bacterial 16S rRNA genes, anammox bacterial relative abundance (the number of anammox sequences divided by total number of sequences), community composition and diversity in sediments. The relative abundance of hzsB gene at the low-nitrogen (LN) site in the lake sediments showed that the vertical distribution of anammox bacteria increased to a peak, then decreased with increasing depth. Moreover, the relative abundance of hzsB gene at the high-nitrogen site was significantly lower than that at the LN site. Additionally, the community composition results showed that Candidatus Brocadia sp. was the dominant genus. In addition, the anammox bacterial diversity was also site specific. Redundancy analysis showed that the total N and the NH 4 + -N content might be the most important factors affecting anammox bacterial community composition in the studied sites. The results revealed the specific vertical variance of anammox bacterial distribution and community composition in oxic/anoxic sediments of a eutrophic shallow lake. This is the first study to demonstrate that anammox bacteria displayed the particular distribution in freshwater sediments, which implied a strong response to the anthropogenic eutrophication. © 2018 The Society for Applied Microbiology.

Suitability of the microbial community composition and function in a semiarid mine soil for assessing phytomanagement practices based on mycorrhizal inoculation and amendment addition.

PubMed

Kohler, J; Caravaca, F; Azcón, R; Díaz, G; Roldán, A

2016-03-15

The recovery of species composition and functions of soil microbial community of degraded lands is crucial in order to guarantee the long-term self-sustainability of the ecosystems. A field experiment was carried out to test the influence of combining fermented sugar beet residue (SBR) addition and inoculation with the arbuscular mycorrhizal (AM) fungus Funneliformis mosseae on the plant growth parameters and microbial community composition and function in the rhizosphere of two autochthonous plant species (Dorycnium pentaphyllum L. and Asteriscus maritimus L.) growing in a semiarid soil contaminated by heavy metals. We analysed the phospholipid fatty acids (PLFAs), neutral lipids fatty acids (NLFAs) and enzyme activities to study the soil microbial community composition and function, respectively. The combined treatment was not effective for increasing plant growth. The SBR promoted the growth of both plant species, whilst the AM fungus was effective only for D. pentaphyllum. The effect of the treatments on plant growth was linked to shifts in the rhizosphere microbial community composition and function. The highest increase in dehydrogenase and β-glucosidase activities was recorded in SBR-amended soil. The SBR increased the abundance of marker PLFAs for saprophytic fungi, Gram+ and Gram- bacteria and actinobacteria, whereas the AM fungus enhanced the abundance of AM fungi-related NLFA and marker PLFAs for Gram- bacteria. Measurement of the soil microbial community composition and function was useful to assess the success of phytomanagement technologies in a semiarid, contaminated soil. Copyright © 2016 Elsevier Ltd. All rights reserved.

Habitat generalists and specialists in microbial communities across a terrestrial-freshwater gradient

NASA Astrophysics Data System (ADS)

Monard, C.; Gantner, S.; Bertilsson, S.; Hallin, S.; Stenlid, J.

2016-11-01

Observations of distributions of microorganisms and their differences in community composition across habitats provide evidence of biogeographical patterns. However, little is known about the processes controlling transfers across habitat gradients. By analysing the overall microbial community composition (bacteria, fungi, archaea) across a terrestrial-freshwater gradient, the aim of this study was to understand the spatial distribution patterns of populations and identify taxa capable of crossing biome borders. Barcoded 454 pyrosequencing of taxonomic gene markers was used to describe the microbial communities in adjacent soil, freshwater and sediment samples and study the role of biotic and spatial factors in shaping their composition. Few habitat generalists but a high number of specialists were detected indicating that microbial community composition was mainly regulated by species sorting and niche partitioning. Biotic interactions within microbial groups based on an association network underlined the importance of Actinobacteria, Sordariomycetes, Agaricomycetes and Nitrososphaerales in connecting among biomes. Even if dispersion seemed limited, the shore of the lake represented a transition area, allowing populations to cross the biome boundaries. In finding few broadly distributed populations, our study points to biome specialization within microbial communities with limited potential for dispersal and colonization of new habitats along the terrestrial-freshwater continuum.

Storm-scale dynamics of bacterial community composition in throughfall and stemflow

NASA Astrophysics Data System (ADS)

Van Stan, J. T., II; Teachey, M. E.; Pound, P.; Ottesen, E. A.

2017-12-01

Transport of bacteria between ecosystem spheres can significantly affect microbially-mediated biogeochemical processes. During rainfall, there is a large, temporally-concentrated exchange of bacteria between the forest phyllosphere and the pedosphere by rain dripping from canopy surfaces, as throughfall (TF), and draining to the stem, as stemflow (SF). Many phyllosphere bacteria possibly transported by TF and SF have been linked to important litter and soil processes (like cyanobacteria and actinobacteria). Despite this, no work has applied high throughput DNA sequencing to assess the community composition of bacteria transported by TF and SF. We characterized bacterial community composition for TF and SF from an epiphyte-laden (Tillandsia usneoides L., Spanish moss) southern live oak (Quercus virginiana) forest in southeastern Georgia (USA) to address two hypotheses: that bacterial community composition will differ between (1) TF and SF, and (2) TF sampled beneath bare and epiphyte-laden canopy. Variability in family-level bacterial abundance, Bray-Curtis dissimilarity, and Shannon diversity index was greater between storms than between net rainfall fluxes. In fact, TF and SF bacterial communities were relatively similar for individual storms and may be driven by pre-storm atmospheric deposition rather than the communities affixed to leaves, bark, and epiphyte surfaces.

Activity and composition of the denitrifying bacterial community respond differently to long-term fertilization.

PubMed

Enwall, Karin; Philippot, Laurent; Hallin, Sara

2005-12-01

The objective of this study was to explore the long-term effects of different organic and inorganic fertilizers on activity and composition of the denitrifying and total bacterial communities in arable soil. Soil from the following six treatments was analyzed in an experimental field site established in 1956: cattle manure, sewage sludge, Ca(NO3)2, (NH4)2SO4, and unfertilized and unfertilized bare fallow. All plots but the fallow were planted with corn. The activity was measured in terms of potential denitrification rate and basal soil respiration. The nosZ and narG genes were used as functional markers of the denitrifying community, and the composition was analyzed using denaturing gradient gel electrophoresis of nosZ and restriction fragment length polymorphism of narG, together with cloning and sequencing. A fingerprint of the total bacterial community was assessed by ribosomal intergenic spacer region analysis (RISA). The potential denitrification rates were higher in plots treated with organic fertilizer than in those with only mineral fertilizer. The basal soil respiration rates were positively correlated to soil carbon content, and the highest rates were found in the plots with the addition of sewage sludge. Fingerprints of the nosZ and narG genes, as well as the RISA, showed significant differences in the corresponding communities in the plots treated with (NH4)2SO4 and sewage sludge, which exhibited the lowest pH. In contrast, similar patterns were observed among the other four treatments, unfertilized plots with and without crops and the plots treated with Ca(NO3)2 or with manure. This study shows that the addition of different fertilizers affects both the activity and the composition of the denitrifying communities in arable soil on a long-term basis. However, the treatments in which the denitrifying and bacterial community composition differed the most did not correspond to treatments with the most different activities, showing that potential activity was uncoupled to community composition.

Temporal dynamics of bird community composition: an analysis of baseline conditions from long-term data.

PubMed

Kampichler, Christian; Angeler, David G; Holmes, Richard T; Leito, Aivar; Svensson, Sören; van der Jeugd, Henk P; Wesołowski, Tomasz

2014-08-01

Numerous anthropogenic activities threaten the biodiversity found on earth. Because all ecological communities constantly experience temporal turnover due to natural processes, it is important to distinguish between change due to anthropogenic impact and the underlying natural rate of change. In this study, we used data sets on breeding bird communities that covered at least 20 consecutive years, from a variety of terrestrial ecosystems, to address two main questions. (1) How fast does the composition of bird communities change over time, and can we identify a baseline of natural change that distinguishes primeval systems from systems experiencing varying degrees of human impact? (2) How do patterns of temporal variation in composition vary among bird communities in ecosystems with different anthropogenic impacts? Time lag analysis (TLA) showed a pattern of increasing rate of temporal compositional change from large-scale primeval systems to disturbed and protected systems to distinctly successional systems. TLA slopes of <0.04 were typical for breeding bird communities with natural turnover, while communities subjected to anthropogenic impact were characterised by TLA slopes of >0.04. Most of the temporal variability of breeding bird communities was explained by slow changes occurring over decades, regardless of the intensity of human impact. In most of the time series, medium- and short-wave periodicity was not detected, with the exception of breeding bird communities subjected to periodic pulses (e.g. caterpillar outbreaks causing food resource peaks).

Effect of polybrominated diphenyl ether (PBDE) treatment on the composition and function of the bacterial community in the sponge Haliclona cymaeformis

PubMed Central

Tian, Ren-Mao; Lee, On On; Wang, Yong; Cai, Lin; Bougouffa, Salim; Chiu, Jill Man Ying; Wu, Rudolf Shiu Sun; Qian, Pei-Yuan

2014-01-01

Marine sponges play important roles in benthic environments and are sensitive to environmental stresses. Polybrominated diphenyl ethers (PBDEs) have been widely used as flame retardants since the 1970s and are cytotoxic and genotoxic to organisms. In the present study, we studied the short-period effect of PBDE-47 (2,2′,4,4′-tetrabromodiphenyl ether) treatment on the community structure and functional gene composition of the bacterial community inhabiting the marine sponge Haliclona cymaeformis. Our results showed that the bacterial community shifted from an autotrophic bacteria-dominated community to a heterotrophic bacteria-dominated community in response to PBDE-47 in a time- and concentration-dependent manner. A potentially symbiotic sulfur-oxidizing bacterium (SOB) was dominant (>80% in abundance) in the untreated sponge. However, exposure to a high concentration (1 μg/L) of PBDE-47 caused a substantial decrease in the potential symbiont and an enrichment of heterotrophic bacteria like Clostridium. A metagenomic analysis showed a selective effect of the high concentration treatment on the functional gene composition of the enriched heterotrophic bacteria, revealing an enrichment for the functions responsible for DNA repair, multidrug efflux pumping, and bacterial chemotaxis and motility. This study demonstrated that PBDE-47 induced a shift in the composition of the community and functional genes in the sponge-associated bacterial community, revealing the selective effect of PBDE-47 treatment on the functions of the bacterial community in the microenvironment of the sponge. PMID:25642227

Inference methods for spatial variation in species richness and community composition when not all species are detected

USGS Publications Warehouse

Nichols, J.D.; Boulinier, T.; Hines, J.E.; Pollock, K.H.; Sauer, J.R.

1998-01-01

Inferences about spatial variation in species richness and community composition are important both to ecological hypotheses about the structure and function of communities and to community-level conservation and management. Few sampling programs for animal communities provide censuses, and usually some species present. We present estimators useful for drawing inferences about comparative species richness and composition between different sampling locations when not all species are detected in sampling efforts. Based on capture-recapture models using the robust design, our methods estimate relative species richness, proportion of species in one location that are also found in another, and number of species found in one location but not in another. The methods use data on the presence or absence of each species at different sampling occasions (or locations) to estimate the number of species not detected at any occasions (or locations). This approach permits estimation of the number of species in the sampled community and in subsets of the community useful for estimating the fraction of species shared by two communities. We provide an illustration of our estimation methods by comparing bird species richness and composition in two locations sampled by routes of the North American Breeding Bird Survey. In this example analysis, the two locations (an associated bird communities) represented different levels of urbanization. Estimates of relative richness, proportion of shared species, and number of species present on one route but not the other indicated that the route with the smaller fraction of urban area had greater richness and a larer number of species that were not found on the more urban route than vice versa. We developed a software package, COMDYN, for computing estimates based on the methods. Because these estimation methods explicitly deal with sampling in which not all species are detected, we recommend their use for addressing questions about species richness and community composition.

Soil bacterial and fungal community responses to nitrogen addition across soil depth and microhabitat in an arid shrubland

DOE PAGES

Mueller, Rebecca C.; Belnap, Jayne; Kuske, Cheryl R.

2015-09-04

Arid shrublands are stressful environments, typified by alkaline soils low in organic matter, with biologically-limiting extremes in water availability, temperature, and UV radiation. The widely-spaced plants and interspace biological soil crusts in these regions provide soil nutrients in a localized fashion, creating a mosaic pattern of plant- or crust-associated microhabitats with distinct nutrient composition. With sporadic and limited rainfall, nutrients are primarily retained in the shallow surface soil, patterning biological activity. We examined soil bacterial and fungal community responses to simulated nitrogen (N) deposition in an arid Larrea tridentata-Ambrosia dumosa field experiment in southern Nevada, USA, using high-throughput sequencing ofmore » ribosomal RNA genes. To examine potential interactions among the N application, microhabitat and soil depth, we sampled soils associated with shrub canopies and interspace biological crusts at two soil depths (0–0.5 or 0–10 cm) across the N-amendment gradient (0, 7, and 15 kg ha –1 yr –1). We hypothesized that localized compositional differences in soil microbiota would constrain the impacts of N addition to a microhabitat distribution that would reflect highly localized geochemical conditions and microbial community composition. The richness and community composition of both bacterial and fungal communities differed significantly by microhabitat and with soil depth in each microhabitat. Only bacterial communities exhibited significant responses to the N addition. Community composition correlated with microhabitat and depth differences in soil geochemical features. As a result, given the distinct roles of soil bacteria and fungi in major nutrient cycles, the resilience of fungi and sensitivity of bacteria to N amendments suggests that increased N input predicted for many arid ecosystems could shift nutrient cycling toward pathways driven primarily by fungal communities.« less

Predator community composition is linked to soil carbon retention across a human land use gradient.

PubMed

Schmitz, Oswald J; Buchkowski, Robert W; Smith, Jeffrey R; Telthorst, Mark; Rosenblatt, Adam E

2017-05-01

Soil carbon (C) storage is a major component of the carbon cycle. Consensus holds that soil C uptake and storage is regulated by plant-microbe-soil interactions. However, the contribution of animals in aboveground food webs to this process has been overlooked. Using insights from prior long-term experimentation in an old-field ecosystem and mathematical modeling, we predicted that the amount of soil C retention within a field should increase with the proportion of active hunting predators comprising the aboveground community of active hunting and sit-and-wait predators. This comes about because predators with different hunting modes have different cascading effects on plants. Our test of the prediction revealed that the composition of the arthropod predator community and associated cascading effects on the plant community explained 41% of variation in soil C retention among 15 old fields across a human land use gradient. We also evaluated the potential for several other candidate factors to explain variation in soil C retention among fields, independent of among-field variation in the predator community. These included live plant biomass, insect herbivore community composition, soil arthropod decomposer community composition, degree of land use development around the fields, field age, and soil texture. None of these candidate variables significantly explained soil C retention among the fields. The study offers a generalizable understanding of the pathways through which arthropod predator community composition can contribute to old-field ecosystem carbon storage. This insight helps support ongoing efforts to understand and manage the effects of anthropogenic land use change on soil C storage. © 2017 by the Ecological Society of America.

Soil bacterial and fungal community responses to nitrogen addition across soil depth and microhabitat in an arid shrubland

USGS Publications Warehouse

Mueller, Rebecca C.; Belnap, Jayne; Kuske, Cheryl R.

2015-01-01

Arid shrublands are stressful environments, typified by alkaline soils low in organic matter, with biologically-limiting extremes in water availability, temperature, and UV radiation. The widely-spaced plants and interspace biological soil crusts in these regions provide soil nutrients in a localized fashion, creating a mosaic pattern of plant- or crust-associated microhabitats with distinct nutrient composition. With sporadic and limited rainfall, nutrients are primarily retained in the shallow surface soil, patterning biological activity. We examined soil bacterial and fungal community responses to simulated nitrogen (N) deposition in an arid Larrea tridentata-Ambrosia dumosa field experiment in southern Nevada, USA, using high-throughput sequencing of ribosomal RNA genes. To examine potential interactions among the N application, microhabitat and soil depth, we sampled soils associated with shrub canopies and interspace biological crusts at two soil depths (0–0.5 or 0–10 cm) across the N-amendment gradient (0, 7, and 15 kg ha−1 yr−1). We hypothesized that localized compositional differences in soil microbiota would constrain the impacts of N addition to a microhabitat distribution that would reflect highly localized geochemical conditions and microbial community composition. The richness and community composition of both bacterial and fungal communities differed significantly by microhabitat and with soil depth in each microhabitat. Only bacterial communities exhibited significant responses to the N addition. Community composition correlated with microhabitat and depth differences in soil geochemical features. Given the distinct roles of soil bacteria and fungi in major nutrient cycles, the resilience of fungi and sensitivity of bacteria to N amendments suggests that increased N input predicted for many arid ecosystems could shift nutrient cycling toward pathways driven primarily by fungal communities.

Species diversity and drivers of arbuscular mycorrhizal fungal communities in a semi-arid mountain in China

PubMed Central

Zhang, Zhiming; Yang, Jiantao; Zhu, Yiwei

2017-01-01

Arbuscular mycorrhizal fungi (AMF) play an essential role in complex ecosystems. However, the species diversity and composition of AMF communities remain unclear in semi-arid mountains. Further, it is not well understood if the characteristics of AMF community assemblies differ for different habitat types, e.g., agricultural arable land, artificial forest land, natural grassland, and bush/wood land. Here, using the high-throughput technology by Illumina sequencing on the MiSeq platform, we explored the species diversity and composition of soil AMF communities among different habitat types in a semi-arid mountain (Taihang Mountain, Mid-western region of China). Then, we analyzed the effect of nutrient composition and soil texture on AMF community assembly. Our results showed that members of the Glomus genera were predominated in all soil types. The distance-based redundancy analysis indicated that the content of water, available phosphorus, and available potassium were the most crucial geochemical factors that significantly affected AMF communities (p < 0.05). The analysis of the soil texture confirmed that AMF diversity was negatively correlated with soil clay content. The comparison of AMF diversity among the various habitat types revealed that the artificial forest land had the lowest AMF diversity in comparison with other land types. Our findings suggest that there were differences in species diversity and composition of soil AMF communities among different habitat types. These findings shed new light on the characteristics of community structure and drivers of community assembly in AMF in semi-arid mountains, and point to the potential importance of different habitat types on AMF communities. PMID:29230378

Re-Structuring of Marine Communities Exposed to Environmental Change: A Global Study on the Interactive Effects of Species and Functional Richness

PubMed Central

Wahl, Martin; Link, Heike; Alexandridis, Nicolaos; Thomason, Jeremy C.; Cifuentes, Mauricio; Costello, Mark J.; da Gama, Bernardo A. P.; Hillock, Kristina; Hobday, Alistair J.; Kaufmann, Manfred J.; Keller, Stefanie; Kraufvelin, Patrik; Krüger, Ina; Lauterbach, Lars; Antunes, Bruno L.; Molis, Markus; Nakaoka, Masahiro; Nyström, Julia; bin Radzi, Zulkamal; Stockhausen, Björn; Thiel, Martin; Vance, Thomas; Weseloh, Annika; Whittle, Mark; Wiesmann, Lisa; Wunderer, Laura; Yamakita, Takehisa; Lenz, Mark

2011-01-01

Species richness is the most commonly used but controversial biodiversity metric in studies on aspects of community stability such as structural composition or productivity. The apparent ambiguity of theoretical and experimental findings may in part be due to experimental shortcomings and/or heterogeneity of scales and methods in earlier studies. This has led to an urgent call for improved and more realistic experiments. In a series of experiments replicated at a global scale we translocated several hundred marine hard bottom communities to new environments simulating a rapid but moderate environmental change. Subsequently, we measured their rate of compositional change (re-structuring) which in the great majority of cases represented a compositional convergence towards local communities. Re-structuring is driven by mortality of community components (original species) and establishment of new species in the changed environmental context. The rate of this re-structuring was then related to various system properties. We show that availability of free substratum relates negatively while taxon richness relates positively to structural persistence (i.e., no or slow re-structuring). Thus, when faced with environmental change, taxon-rich communities retain their original composition longer than taxon-poor communities. The effect of taxon richness, however, interacts with another aspect of diversity, functional richness. Indeed, taxon richness relates positively to persistence in functionally depauperate communities, but not in functionally diverse communities. The interaction between taxonomic and functional diversity with regard to the behaviour of communities exposed to environmental stress may help understand some of the seemingly contrasting findings of past research. PMID:21611170

Modeling plant composition as community continua in a forest landscape with LiDAR and hyperspectral remote sensing.

PubMed

Hakkenberg, C R; Peet, R K; Urban, D L; Song, C

2018-01-01

In light of the need to operationalize the mapping of forest composition at landscape scales, this study uses multi-scale nested vegetation sampling in conjunction with LiDAR-hyperspectral remotely sensed data from the G-LiHT airborne sensor to map vascular plant compositional turnover in a compositionally and structurally complex North Carolina Piedmont forest. Reflecting a shift in emphasis from remotely sensing individual crowns to detecting aggregate optical-structural properties of forest stands, predictive maps reflect the composition of entire vascular plant communities, inclusive of those species smaller than the resolution of the remotely sensed imagery, intertwined with proximate taxa, or otherwise obscured from optical sensors by dense upper canopies. Stand-scale vascular plant composition is modeled as community continua: where discrete community-unit classes at different compositional resolutions provide interpretable context for continuous gradient maps that depict n-dimensional compositional complexity as a single, consistent RGB color combination. In total, derived remotely sensed predictors explain 71%, 54%, and 48% of the variation in the first three components of vascular plant composition, respectively. Among all remotely sensed environmental gradients, topography derived from LiDAR ground returns, forest structure estimated from LiDAR all returns, and morphological-biochemical traits determined from hyperspectral imagery each significantly correspond to the three primary axes of floristic composition in the study site. Results confirm the complementarity of LiDAR and hyperspectral sensors for modeling the environmental gradients constraining landscape turnover in vascular plant composition and hold promise for predictive mapping applications spanning local land management to global ecosystem modeling. © 2017 by the Ecological Society of America.

Community composition of soil bacteria nearly a decade after a fire in a tropical rainforest in East Kalimantan, Indonesia.

PubMed

Isobe, Kazuo; Otsuka, Shigeto; Sudiana, Imade; Nurkanto, Arif; Senoo, Keishi

2009-10-01

Soil bacterial community compositions in burnt and unburnt areas in a tropical rainforest in East Kalimantan, Indonesia, were investigated 8 and 9 years after a fire by denaturing gradient gel electrophoresis analysis targeting the 16S rRNA gene. Three study sites were set in the forest area devoid of fire damage (control), and in the lightly damaged and heavily damaged forest areas. Succession of aboveground vegetation in the two damaged areas had clearly proceeded after the fire, but the vegetation types still differed from the unburnt area at the time of this study. Community composition of total soil bacteria was similar among the three areas, and so was that of actinobacteria. However, the composition of ammonia oxidizing bacteria clearly differed depending on the presence or absence of past fire damage. These results indicate that even nearly a decade after the forest fire, impacts of the fire remained on the community composition of ammonia oxidizing bacteria, but not apparently on those of dominant bacteria and actinobacteria.

Variability of community interaction networks in marine reserves and adjacent exploited areas

USGS Publications Warehouse

Montano-Moctezuma, G.; Li, H.W.; Rossignol, P.A.

2008-01-01

Regional and small-scale local oceanographic conditions can lead to high variability in community structure even among similar habitats. Communities with identical species composition can depict distinct networks due to different levels of disturbance as well as physical and biological processes. In this study we reconstruct community networks in four different areas off the Oregon Coast by matching simulated communities with observed dynamics. We compared reserves with harvested areas. Simulations suggested that different community networks, but with the same species composition, can represent each study site. Differences were found in predator-prey interactions as well as non-predatory interactions between community members. In addition, each site can be represented as a set of models, creating alternative stages among sites. The set of alternative models that characterize each study area depicts a sequence of functional responses where each specific model or interaction structure creates different species composition patterns. Different management practices, either in the past or of the present, may lead to alternative communities. Our findings suggest that management strategies should be analyzed at a community level that considers the possible consequences of shifting from one community scenario to another. This analysis provides a novel conceptual framework to assess the consequences of different management options for ecological communities. ?? 2008 Elsevier B.V. All rights reserved.

Changes in fungal community composition in response to experimental soil warming at the alpine treeline

NASA Astrophysics Data System (ADS)

Solly, Emily; Lindahl, Bjorn; Dawes, Melissa; Peter, Martina; Souza, Romulo; Rixen, Christian; Hagedorn, Frank

2017-04-01

Increased CO2 emissions and global warming may alter the composition of fungal communities through the reduction of low temperature limitation in the plant-soil system, faster nitrogen cycling and changes in the carbon allocation of host plants to the rhizosphere. Shifts in fungal community composition due to global changes are likely to affect the routes of carbon and nitrogen flows in the plant-soil system and alter the rates at which organic matter is decomposed. The main aim of our study was to estimate the effects of multiple years of free air CO2 enrichment (ambient concentration +200 ppm) and soil warming (+ 4°C) on the fungal community structure and composition. At an alpine treeline in Switzerland featuring two key high-elevation tree species, Larix decidua and Pinus uncinata, fungal communities within different organic horizons were analysed by high-throughput 454-pyrosequencing of ITS2 amplicons. In addition, we assessed the ectomycorrhizal community composition on root tips and monitored changes in sporocarp productivity of fungal species during the course of the experiment. Three years of experimental warming at the alpine treeline altered the composition of the fungal community in the organic horizons, whereas nine years of CO2 enrichment had only weak effects. Tree species influenced the composition of the fungal community and the magnitude of the responses of fungal functional groups to soil warming differed between plots with Larix and those with Pinus. The abundance of ectomycorrhizal fungi was positively correlated with nitrogen availability, and ectomycorrhizal taxa specialized for conditions of high nitrogen availability proliferated with warming, corresponding to considerable increases in extractable inorganic nitrogen in warmed soils. Changes in productivity of specific fungal fruiting bodies in response to soil warming (e.g. more Lactarius rufus sporocarps and less Hygrophorus speciousus sporocarps) were consistent with the 454-sequencing data and the colonization of ectomycorrhizal root tips. Several fungal taxa known to be involved in needle degradation responded positively to the warming treatment by increasing in their relative abundance. These findings provide novel insights into the spatial distribution of functional groups of fungi both vertically in the soil and between different rhizospheres of trees. Moreover, they indicate that traits related to nitrogen utilization are important in determining responses of ectomycorrhizal fungi to warming in cold regions, such as high-elevation ecosystems, with low N availability. Shifts in the overall fungal community composition in response to higher temperatures may alter fungal-driven processes with potential feedbacks on ecosystem nitrogen cycling and carbon storage at the alpine treeline.

Spatial and temporal dependence on sea ice algae in the Chukchi Sea, Arctic Ocean, inferred from bivalve stable isotopic composition

NASA Astrophysics Data System (ADS)

Nguyen, H. M.; Black, B.; Dunton, K. H.; von Biela, V. R.

2017-12-01

The Chukchi Sea is one of the most productive Arctic seas in the world. Around 10% of its net primary production originates from sea ice algae, much of which falls ungrazed to a relatively shallow (40-50m) shelf. The chlorophyll a derived from sinking ice algae is thought to supports a robust macrobenthic faunal community, dominated by bivalves, which in turn supports higher trophic organisms such as Pacific walrus (Odibenus rosmarus divergens), and bearded seal (Erignathus barbatus). However, recent reductions in ice extent and thickness could shift primary production from under-ice to open-water environment, thus reducing ice algal production and delivery to benthic biota. We used stable isotope analyses on benthic bivalve samples, collected in summer between 2002 and 2015, to identify contributions of ice algal production to benthic organisms and track their spatial and temporal variations. Ice algae contributions were indicated by δ13C values in bivalves, as ice algae are isotopically heavy compared to phytoplankton and would be reflected in consumers. This 14-yr period was marked by an 8%, decrease in Arctic ice extent, which was especially pronounced and spatially variable in the Chukchi Sea. We examined variability in the δ13C values in the common bivalves Astarte spp., Ennucula tenuis and Macoma spp. over space and time using one-way ANOVAs with Bonferroni correction to consider the potential for variation in ice algae contributions. All bivalve δ13C values were within a range (-21.84‰ to -17.62‰) that suggests some ice algal contribution. Among stations, E. tenuis and Astarte spp. did not significantly differ in their individual δ13C values. In contrast, Macoma spp. had significantly enriched δ13C values at one station south of Point Hope (δ13C = -17.75‰, F5,8 = 1.211, P < 0.05) in 2015. There were no significant (P > 0.05) differences in δ13C values from year to year for samples pooled across stations within a taxon. As the only taxon collected at the station south of Point Hope, Macoma spp. δ13C values indicate that this station may have assimilated a higher proportion of ice algae in comparison to other stations. Nevertheless, the overall lack of variation in δ13C values across space and time suggests that variation in ice conditions might not strongly influence the relative carbon contributions.

Macro and Microelements Drive Diversity and Composition of Prokaryotic and Fungal Communities in Hypersaline Sediments and Saline-Alkaline Soils.

PubMed

Liu, Kaihui; Ding, Xiaowei; Tang, Xiaofei; Wang, Jianjun; Li, Wenjun; Yan, Qingyun; Liu, Zhenghua

2018-01-01

Understanding the effects of environmental factors on microbial communities is critical for microbial ecology, but it remains challenging. In this study, we examined the diversity (alpha diversity) and community compositions (beta diversity) of prokaryotes and fungi in hypersaline sediments and salinized soils from northern China. Environmental variables were highly correlated, but they differed significantly between the sediments and saline soils. The compositions of prokaryotic and fungal communities in the hypersaline sediments were different from those in adjacent saline-alkaline soils, indicating a habitat-specific microbial distribution pattern. The macroelements (S, P, K, Mg, and Fe) and Ca were, respectively, correlated closely with the alpha diversity of prokaryotes and fungi, while the macronutrients (e.g., Na, S, P, and Ca) were correlated with the prokaryotic and fungal beta-diversity ( P ≤ 0.05). And, the nine microelements (e.g., Al, Ba, Co, Hg, and Mn) and micronutrients (Ba, Cd, and Sr) individually shaped the alpha diversity of prokaryotes and fungi, while the six microelements (e.g., As, Ba, Cr, and Ge) and only the trace elements (Cr and Cu), respectively, influenced the beta diversity of prokaryotes and fungi ( P < 0.05). Variation-partitioning analysis (VPA) showed that environmental variables jointly explained 55.49% and 32.27% of the total variation for the prokaryotic and fungal communities, respectively. Together, our findings demonstrate that the diversity and community composition of the prokaryotes and fungi were driven by different macro and microelements in saline habitats, and that geochemical elements could more widely regulate the diversity and community composition of prokaryotes than these of fungi.

Influences of Species Interactions With Aggressive Ants and Habitat Filtering on Nest Colonization and Community Composition of Arboreal Twig-Nesting Ants.

PubMed

Philpott, Stacy M; Serber, Zachary; De la Mora, Aldo

2018-04-05

Ant community assembly is driven by many factors including species interactions (e.g., competition, predation, parasitism), habitat filtering (e.g., vegetation differences, microclimate, food and nesting resources), and dispersal. Canopy ant communities, including dominant and twig-nesting ants, are structured by all these different factors, but we know less about the impacts of species interactions and habitat filters acting at the colonization or recruitment stage. We examined occupation of artificial twig nests placed in shade trees in coffee agroecosystems. We asked whether species interactions-aggression from the dominant canopy ant, Azteca sericeasur Longino (Hymenoptera: Formicidae)-or habitat filtering-species of tree where nests were placed or surrounding vegetation-influence colonization, species richness, and community composition of twig-nesting ants. We found 20 species of ants occupying artificial nests. Nest occupation was lower on trees with A. sericeasur, but did not differ depending on tree species or surrounding vegetation. Yet, there were species-specific differences in occupation depending on A. sericeasur presence and tree species. Ant species richness did not vary with A. sericeasur presence or tree species. Community composition varied with A. sericeasur presence and surrounding vegetation. Our results suggest that species interactions with dominant ants are important determinants of colonization and community composition of twig-nesting ants. Habitat filtering at the level of tree species did not have strong effects on twig-nesting ants, but changes in coffee management may contribute to differences in community composition with important implications for ant conservation in agricultural landscapes, as well as biological control of coffee pests.

Impacts of Fertilization Regimes on Arbuscular Mycorrhizal Fungal (AMF) Community Composition Were Correlated with Organic Matter Composition in Maize Rhizosphere Soil

PubMed Central

Zhu, Chen; Ling, Ning; Guo, Junjie; Wang, Min; Guo, Shiwei; Shen, Qirong

2016-01-01

The understanding of the response of arbuscular mycorrhizal fungi (AMF) community composition to fertilization is of great significance in sustainable agriculture. However, how fertilization influences AMF diversity and composition is not well-established yet. A field experiment located in northeast China in typical black soil (Chernozem) was conducted and high-throughput sequencing approach was used to investigate the effects of different fertilizations on the variation of AMF community in the rhizosphere soil of maize crop. The results showed that AMF diversity in the maize rhizosphere was significantly altered by different fertilization regimes. As revealed by redundancy analysis, the application of organic manure was the most important factor impacting AMF community composition between samples with and without organic manure, followed by N fertilizer and P fertilizer inputs. Moreover, the organic matter composition in the rhizosphere, determined by GC–MS, was significantly altered by the organic manure amendment. Many of the chemical components displayed significant relationships with the AMF community composition according to the Mantel test, among those, 2-ethylnaphthalene explained the highest percentage (54.2%) of the variation. The relative contents of 2-ethylnaphthalene and 2, 6, 10-trimethyltetradecane had a negative correlation with Glomus relative abundance, while the relative content of 3-methylbiphenyl displayed a positive correlation with Rhizophagus. The co-occurrence patterns in treatments with and without organic manure amendment were analyzed, and more hubs were detected in the network of soils with organic manure amendment. Additionally, three operational taxonomic units (OTUs) belonging to Glomerales were identified as hubs in all treatments, indicating these OTUs likely occupied broad ecological niches and were always active for mediating AMF species interaction in the maize rhizosphere. Taken together, impacts of fertilization regimes on AMF community composition were correlated with organic matter composition in maize rhizosphere soil and the application of manure could activate more AMF species to interact with other species in the maize rhizosphere. This knowledge can be valuable in regulating the symbiotic system of plants and AMF, maintaining the health and high yields of crops and providing a primary basis for rational fertilization. PMID:27899920

Relationships Between Bird Communities and Forest Age, Structure, Species Composition and Fragmentation in the West Gulf Coastal Plain

Treesearch

Richard N. Conner; James G. Dickson

1997-01-01

Bird communities of the West Gulf Coastal Plain are strongly influenced by the stage of forest succession, species composition of understory and overstory vegetation, and forest structure. Alteration of plant communities through forest management and natural disturbances typically does not eliminate birds as a fauna1 group from the area affected, but will replace some...

Impact of livestock on a mosquito community (Diptera: Culicidae) in a Brazilian tropical dry forest.

PubMed

Santos, Cleandson Ferreira; Borges, Magno

2015-01-01

This study evaluated the effects of cattle removal on the Culicidae mosquito community structure in a tropical dry forest in Brazil. Culicidae were collected during dry and wet seasons in cattle presence and absence between August 2008 and October 2010 and assessed using multivariate statistical models. Cattle removal did not significantly alter Culicidae species richness and abundance. However, alterations were noted in Culicidae community composition. This is the first study to evaluate the impact of cattle removal on Culicidae community structure in Brazil and demonstrates the importance of assessing ecological parameters such as community species composition.

Biodiversity increases functional and compositional resistance, but decreases resilience in phytoplankton communities.

PubMed

Baert, Jan M; De Laender, Frederik; Sabbe, Koen; Janssen, Colin R

2016-12-01

There is now ample evidence that biodiversity stabilizes aggregated ecosystem functions, such as primary production, in changing environments. In primary producer systems, this stabilizing effect is found to be driven by higher functional resistance (i.e., reduced changes in functions by environmental changes) rather than through higher functional resilience (i.e., rapid recovery following environmental changes) in more diverse systems. The stability of aggregated ecosystem functions directly depends on changes in species composition and by consequence their functional contributions to ecosystem functions. Still, it remains only theoretically explored how biodiversity can stabilize ecosystem functions by affecting compositional stability. Here, we demonstrate how biodiversity effects on compositional stability drive biodiversity effects on functional stability in diatom communities. In a microcosm experiment, we exposed 39 communities of five different levels of species richness (1, 2, 4, 6, and 8 species) to three concentrations of a chemical stressor (0, 25, and 250 μg/L atrazine) for four weeks, after which all communities were transferred to atrazine-free medium for three more weeks. Biodiversity simultaneously increased, increasing functional and compositional resistance, but decreased functional and compositional resilience. These results confirm the theoretically proposed link between biodiversity effects on functional and compositional stability in primary producer systems, and provide a mechanistic underpinning for observed biodiversity-stability relationships. Finally, we discuss how higher compositional stability can be expected to become increasingly important in stabilizing ecosystem functions under field conditions when multiple environmental stressors fluctuate simultaneously. © 2016 by the Ecological Society of America.

Response of soil bacterial community to repeated applications of carbendazim.

PubMed

Wang, Xiuguo; Song, Min; Wang, Yiqi; Gao, Chunming; Zhang, Qun; Chu, Xiaoqiang; Fang, Hua; Yu, Yunlong

2012-01-01

The effect of repeated carbendazim applications on functional diversity of culturable microorganisms and bacterial community composition was studied under field conditions. The functional diversity of soil culturable microbial community (Shannon index, H') reduced significantly (P<0.05) after the first introduction of carbendazim at levels of 0.94, 1.88 and 4.70 kg active ingredient (a.i.)ha(-1) and then recovered to that in the control with subsequent applications. An evident (P<0.01) difference in the bacterial community composition was observed after the second carbendazim application by Temperature Gradient Gel Electrophoresis (TGGE) analysis of 16S rRNA genes amplified from treated and control soils, which remained after the third and fourth treatments. Our results indicated that repeated carbendazim applications have a transient harmful effect on functional diversity of soil culturable microbial community and result in an alteration in bacterial community composition largely due to one species within the γ-proteobacterium. Copyright © 2011 Elsevier Inc. All rights reserved.

Connectivity between surface and deep waters determines prokaryotic diversity in the North Atlantic Deep Water

PubMed Central

Frank, Alexander H.; Garcia, Juan A. L.; Herndl, Gerhard J.

2016-01-01

Summary To decipher the influence of depth stratification and surface provincialism on the dark ocean prokaryotic community composition, we sampled the major deep‐water masses in the eastern North Atlantic covering three biogeographic provinces. Their diversity was evaluated using ordination and canonical analysis of 454 pyrotag sequences. Variance partitioning suggested that 16% of the variation in the bacterial community composition was based on depth stratification while 9% of the variation was due to geographic location. General linear mixed effect models showed that the community of the subsurface waters was connected to the dark ocean prokaryotic communities in different biogeographic provinces. Cluster analysis indicated that some prokaryotic taxa are specific to distinct regions in bathypelagic water masses. Taken together, our data suggest that the dark ocean prokaryotic community composition of the eastern North Atlantic is primed by the formation and the horizontal transport of water masses. PMID:26914787

[Epiphytic communities of arboreal formations in Southern Vietnam: an analysis of species composition and synusias structure in dependence on the extent of anthropogenic impact].

PubMed

Es'kov, A K

2013-01-01

Species composition of epiphytic communities within different formations of Phú Quôc Island (Southern Vietnam) is studied. The dependence of species composition and structural complexity of epiphytic communities on formation quality is demonstrated. Representatives of different families differ notably in their sensitivity to disturbances. Most vulnerable are Orchidaceae which represent the dominant group in epiphytic community of rain forest and which drop out almost completely under anthropogenic impacts. In less disturbed forests, epiphyte species diversity increases mainly at the expense of "lower" synusias and directly depends on the formation layering. Diminishing of layering numbers leads to dropping out of species belonging to "lower" synusias. Among epiphytes, the indicators of disturbed communities can be detected, namely species of ruderal strategy (explerents). In primal rain forest, they are absent or barely noticeable. An index is proposed for estimation of epiphytic communitiy complexity.

Night-time lighting alters the composition of marine epifaunal communities

PubMed Central

Davies, Thomas W.; Coleman, Matthew; Griffith, Katherine M.; Jenkins, Stuart R.

2015-01-01

Marine benthic communities face multiple anthropogenic pressures that compromise the future of some of the most biodiverse and functionally important ecosystems in the world. Yet one of the pressures these ecosystems face, night-time lighting, remains unstudied. Light is an important cue in guiding the settlement of invertebrate larvae, and altering natural regimes of nocturnal illumination could modify patterns of recruitment among sessile epifauna. We present the first evidence of night-time lighting changing the composition of temperate epifaunal marine invertebrate communities. Illuminating settlement surfaces with white light-emitting diode lighting at night, to levels experienced by these communities locally, both inhibited and encouraged the colonization of 39% of the taxa analysed, including three sessile and two mobile species. Our results indicate that ecological light pollution from coastal development, shipping and offshore infrastructure could be changing the composition of marine epifaunal communities. PMID:25926694

Influence of environmental variables on the structure and composition of soil bacterial communities in natural and constructed wetlands.

PubMed

Arroyo, Paula; Sáenz de Miera, Luis E; Ansola, Gemma

2015-02-15

Bacteria are key players in wetland ecosystems, however many essential aspects regarding the ecology of wetland bacterial communities remain unknown. The present study characterizes soil bacterial communities from natural and constructed wetlands through the pyrosequencing of 16S rDNA genes in order to evaluate the influence of wetland variables on bacterial community composition and structure. The results show that the composition of soil bacterial communities was significantly associated with the wetland type (natural or constructed wetland), the type of environment (lagoon, Typha or Salix) and three continuous parameters (SOM, COD and TKN). However, no clear associations were observed with soil pH. Bacterial diversity values were significantly lower in the constructed wetland with the highest inlet nutrient concentrations. The abundances of particular metabolic groups were also related to wetland characteristics. Copyright © 2014 Elsevier B.V. All rights reserved.

Effects of plant diversity, community composition and environmental parameters on productivity in montane European grasslands.

PubMed

Kahmen, Ansgar; Perner, Jörg; Audorff, Volker; Weisser, Wolfgang; Buchmann, Nina

2005-02-01

In the past years, a number of studies have used experimental plant communities to test if biodiversity influences ecosystem functioning such as productivity. It has been argued, however, that the results achieved in experimental studies may have little predictive value for species loss in natural ecosystems. Studies in natural ecosystems have been equivocal, mainly because in natural ecosystems differences in diversity are often confounded with differences in land use history or abiotic parameters. In this study, we investigated the effect of plant diversity on ecosystem functioning in semi-natural grasslands. In an area of 10x20 km, we selected 78 sites and tested the effects of various measures of diversity and plant community composition on productivity. We separated the effects of plant diversity on ecosystem functioning from potentially confounding effects of community composition, management or environmental parameters, using multivariate statistical analyses. In the investigated grasslands, simple measures of biodiversity were insignificant predictors of productivity. However, plant community composition explained productivity very well (R2=0.31) and was a better predictor than environmental variables (soil and site characteristics) or management regime. Thus, complex measures such as community composition and structure are important drivers for ecosystem functions in semi-natural grasslands. Furthermore, our data show that it is difficult to extrapolate results from experimental studies to semi-natural ecosystems, although there is a need to investigate natural ecosystems to fully understand the relationship of biodiversity and ecosystem functioning.

Contrasting outcomes of species- and community-level analyses of the temporal consistency of functional composition.

PubMed

Katabuchi, Masatoshi; Wright, S Joseph; Swenson, Nathan G; Feeley, Kenneth J; Condit, Richard; Hubbell, Stephen P; Davies, Stuart J

2017-09-01

Multiple anthropogenic drivers affect every natural community, and there is broad interest in using functional traits to understand and predict the consequences for future biodiversity. There is, however, no consensus regarding the choice of analytical methods. We contrast species- and community-level analyses of change in the functional composition for four traits related to drought tolerance using three decades of repeat censuses of trees in the 50-ha Forest Dynamics Plot on Barro Colorado Island, Panama. Community trait distributions shifted significantly through time, which may indicate a shift toward more drought tolerant species. However, at the species level, changes in abundance were unrelated to trait values. To reconcile these seemingly contrasting results, we evaluated species-specific contributions to the directional shifts observed at the community level. Abundance changes of just one to six of 312 species were responsible for the community-level shifts observed for each trait. Our results demonstrate that directional changes in community-level functional composition can result from idiosyncratic change in a few species rather than widespread community-wide changes associated with functional traits. Future analyses of directional change in natural communities should combine community-, species-, and possibly individual-level analyses to uncover relationships with function that can improve understanding and enable prediction. © 2017 by the Ecological Society of America.

A Greenhouse Assay on the Effect of Applied Urea Amount on the Rhizospheric Soil Bacterial Communities.

PubMed

Shang, Shuanghua; Yi, Yanli

2015-12-01

The rhizospheric bacteria play key role in plant nutrition and growth promotion. The effects of increased nitrogen inputs on plant rhizospheric soils also have impacted on whole soil microbial communities. In this study, we analyzed the effects of applied nitrogen (urea) on rhizospheric bacterial composition and diversity in a greenhouse assay using the high-throughput sequencing technique. To explore the environmental factors driving the abundance, diversity and composition of soil bacterial communities, the relationship between soil variables and the bacterial communities were also analyzed using the mantel test as well as the redundancy analysis. The results revealed significant bacterial diversity changes at different amounts of applied urea, especially between the control treatment and the N fertilized treatments. Mantel tests showed that the bacterial communities were significantly correlated with the soil nitrate nitrogen, available nitrogen, soil pH, ammonium nitrogen and total organic carbon. The present study deepened the understanding about the rhizospheric soil microbial communities under different amounts of applied urea in greenhouse conditions, and our work revealed the environmental factors affecting the abundance, diversity and composition of rhizospheric bacterial communities.

Integrated analysis of bacterial and microeukaryotic communities from differentially active mud volcanoes in the Gulf of Cadiz

NASA Astrophysics Data System (ADS)

Coelho, Francisco J. R. C.; Louvado, António; Domingues, Patrícia M.; Cleary, Daniel F. R.; Ferreira, Marina; Almeida, Adelaide; Cunha, Marina R.; Cunha, Ângela; Gomes, Newton C. M.

2016-10-01

The present study assesses the diversity and composition of sediment bacterial and microeukaryotic communities from deep-sea mud volcanoes (MVs) associated with strike-slip faults in the South-West Iberian Margin (SWIM). We used a 16S/18S rRNA gene based pyrosequencing approach to characterize and correlate the sediment bacterial and microeukaryotic communities from MVs with differing gas seep regimes and from an additional site with no apparent seeping activity. In general, our results showed significant compositional changes of bacterial and microeukaryotic communities in sampling sites with different seepage regimes. Sediment bacterial communities were enriched with Methylococcales (putative methanotrophs) but had lower abundances of Rhodospirillales, Nitrospirales and SAR202 in the more active MVs. Within microeukaryotic communities, members of the Lobosa (lobose amoebae) were enriched in more active MVs. We also showed a strong correlation between Methylococcales populations and lobose amoeba in active MVs. This study provides baseline information on the diversity and composition of bacterial and microeukaryotic communities in deep-sea MVs associated with strike-slip faults.

Seasonal Patterns in Microbial Community Composition in Denitrifying Bioreactors Treating Subsurface Agricultural Drainage.

PubMed

Porter, Matthew D; Andrus, J Malia; Bartolerio, Nicholas A; Rodriguez, Luis F; Zhang, Yuanhui; Zilles, Julie L; Kent, Angela D

2015-10-01

Denitrifying bioreactors, consisting of water flow control structures and a woodchip-filled trench, are a promising approach for removing nitrate from agricultural subsurface or tile drainage systems. To better understand the seasonal dynamics and the ecological drivers of the microbial communities responsible for denitrification in these bioreactors, we employed microbial community "fingerprinting" techniques in a time-series examination of three denitrifying bioreactors over 2 years, looking at bacteria, fungi, and the denitrifier functional group responsible for the final step of complete denitrification. Our analysis revealed that microbial community composition responds to depth and seasonal variation in moisture content and inundation of the bioreactor media, as well as temperature. Using a geostatistical analysis approach, we observed recurring temporal patterns in bacterial and denitrifying bacterial community composition in these bioreactors, consistent with annual cycling. The fungal communities were more stable, having longer temporal autocorrelations, and did not show significant annual cycling. These results suggest a recurring seasonal cycle in the denitrifying bioreactor microbial community, likely due to seasonal variation in moisture content.

Integrated analysis of bacterial and microeukaryotic communities from differentially active mud volcanoes in the Gulf of Cadiz

PubMed Central

Coelho, Francisco J. R. C.; Louvado, António; Domingues, Patrícia M.; Cleary, Daniel F. R.; Ferreira, Marina; Almeida, Adelaide; Cunha, Marina R.; Cunha, Ângela; Gomes, Newton C. M.

2016-01-01

The present study assesses the diversity and composition of sediment bacterial and microeukaryotic communities from deep-sea mud volcanoes (MVs) associated with strike-slip faults in the South-West Iberian Margin (SWIM). We used a 16S/18S rRNA gene based pyrosequencing approach to characterize and correlate the sediment bacterial and microeukaryotic communities from MVs with differing gas seep regimes and from an additional site with no apparent seeping activity. In general, our results showed significant compositional changes of bacterial and microeukaryotic communities in sampling sites with different seepage regimes. Sediment bacterial communities were enriched with Methylococcales (putative methanotrophs) but had lower abundances of Rhodospirillales, Nitrospirales and SAR202 in the more active MVs. Within microeukaryotic communities, members of the Lobosa (lobose amoebae) were enriched in more active MVs. We also showed a strong correlation between Methylococcales populations and lobose amoeba in active MVs. This study provides baseline information on the diversity and composition of bacterial and microeukaryotic communities in deep-sea MVs associated with strike-slip faults. PMID:27762306

Integrated analysis of bacterial and microeukaryotic communities from differentially active mud volcanoes in the Gulf of Cadiz.

PubMed

Coelho, Francisco J R C; Louvado, António; Domingues, Patrícia M; Cleary, Daniel F R; Ferreira, Marina; Almeida, Adelaide; Cunha, Marina R; Cunha, Ângela; Gomes, Newton C M

2016-10-20

The present study assesses the diversity and composition of sediment bacterial and microeukaryotic communities from deep-sea mud volcanoes (MVs) associated with strike-slip faults in the South-West Iberian Margin (SWIM). We used a 16S/18S rRNA gene based pyrosequencing approach to characterize and correlate the sediment bacterial and microeukaryotic communities from MVs with differing gas seep regimes and from an additional site with no apparent seeping activity. In general, our results showed significant compositional changes of bacterial and microeukaryotic communities in sampling sites with different seepage regimes. Sediment bacterial communities were enriched with Methylococcales (putative methanotrophs) but had lower abundances of Rhodospirillales, Nitrospirales and SAR202 in the more active MVs. Within microeukaryotic communities, members of the Lobosa (lobose amoebae) were enriched in more active MVs. We also showed a strong correlation between Methylococcales populations and lobose amoeba in active MVs. This study provides baseline information on the diversity and composition of bacterial and microeukaryotic communities in deep-sea MVs associated with strike-slip faults.

Divergent environmental filters drive functional segregation of European peatlands

NASA Astrophysics Data System (ADS)

Robroek, B.; Jassey, V.; Bragazza, L.; Buttler, A.

2015-12-01

Plant communities are largely shaped by prevailing climatic conditions. As a result, environmental change is expected to alter the (functional) composition in plant communities. Because plants, and particularly the composition of plant species, play an important role in driving ecosystem processes, it is crucial that we improve our understanding on which environmental factors are most important in shaping plant communities. Here we presnt the results for a cross-Eurpean study, were we assessed the role of environmnetal conditions on plant community composition in 56 peatlands. We show that plant species richness and diversity are relatively stable across the main environmental gradients. Nevertheless, we observe large changes in the plant community structure. In other words, species turnover increased with increasing differences in environmental viariables. Such turnover in the community composition is largely associated to gradients temperature and precipitation, whilst nutrients -often reported as major driver for changes in peatland ecosystems- were only important at the end of the gradient of current deposition levels in Europe. Using a combination of species distribution modelling and species co-occurence patterns, we identified two spatially non-exclusive groups of plant species. Species within a distinct group responded similarly to bioclimatic variables and nutrient deposition levels, whilst between group response was mirrored. These results suggest that these two groups of plants are subjected to divergent environmental filters. Additionally, European peatlands aggregate into two distinct clusters based on plant functional trait composition. Each cluster was dominated by plant species from either one of the two co-response groups. Overall, our results demonstrate that environmental change results in a gradual replacement of plant species from two divergent groups, consequently affecting the functional trait composition in peatlands.

Soil drying procedure affects the DNA quantification of Lactarius vinosus but does not change the fungal community composition.

PubMed

Castaño, Carles; Parladé, Javier; Pera, Joan; Martínez de Aragón, Juan; Alday, Josu G; Bonet, José Antonio

2016-11-01

Drying soil samples before DNA extraction is commonly used for specific fungal DNA quantification and metabarcoding studies, but the impact of different drying procedures on both the specific fungal DNA quantity and the fungal community composition has not been analyzed. We tested three different drying procedures (freeze-drying, oven-drying, and room temperature) on 12 different soil samples to determine (a) the soil mycelium biomass of the ectomycorrhizal species Lactarius vinosus using qPCR with a specifically designed TaqMan® probe and (b) the fungal community composition and diversity using the PacBio® RS II sequencing platform. Mycelium biomass of L. vinosus was significantly greater in the freeze-dried soil samples than in samples dried at oven and room temperature. However, drying procedures had no effect on fungal community composition or on fungal diversity. In addition, there were no significant differences in the proportions of fungi according to their functional roles (moulds vs. mycorrhizal species) in response to drying procedures. Only six out of 1139 operational taxonomic units (OTUs) had increased their relative proportions after soil drying at room temperature, with five of these OTUs classified as mould or yeast species. However, the magnitude of these changes was small, with an overall increase in relative abundance of these OTUs of approximately 2 %. These results suggest that DNA degradation may occur especially after drying soil samples at room temperature, but affecting equally nearly all fungi and therefore causing no significant differences in diversity and community composition. Despite the minimal effects caused by the drying procedures at the fungal community composition, freeze-drying resulted in higher concentrations of L. vinosus DNA and prevented potential colonization from opportunistic species.

Dissolved organic matter (DOM) in pore water of Arctic Ocean sediments: linking DOM molecular composition with microbial community structure

NASA Astrophysics Data System (ADS)

Rossel, P. E.; Bienhold, C.; Boetius, A.; Dittmar, T.

2016-02-01

Marine organic matter (OM) that sinks from surface waters to the seafloor is the energy and carbon source for benthic communities. These communities produce dissolved organic matter (DOM) in the process of remineralization, enriching the sediment porewater with fresh DOM compounds. In the Arctic Ocean, primary production is limited by nutrients and light and is thus strongly influenced by sea ice cover. Ice cover is expected to further decrease due to global warming, which may have important consequences for primary production and the quantity and quality of OM exported to the seafloor. This study focused on: 1) the molecular composition of the DOM in sediment pore waters of the deep Eurasian Arctic basins, 2) whether there is any relation between Arctic Ocean ice cover and DOM composition and 3) whether the DOM composition correlates with microbial community structure. Molecular data, obtained via 15 Tesla Fourier transform ion cyclotron resonance mass spectrometry, were statistically correlated with environmental parameters. The productive ice margin stations showed higher abundances of molecular formulae of peptides, unsaturated aliphatics and saturated fatty acids. This molecular trend is indicative of fresh OM and phytodetritus deposition, compared to the northernmost, ice-covered stations which had stronger aromatic signals. Benthic bacterial community structure, as assessed with the fingerprinting method ARISA, was significantly correlated with DOM molecular composition. Further analyses using Illumina next-generation sequencing will enable the taxonomic identification of specific bacterial groups and their interdependence with DOM compounds. This study contributes to the understanding of the coupling between Arctic Ocean productivity and its depositional regime, and provides first insights into potential links between microbial community structure and DOM molecular composition in Arctic sediments

Field-based evaluation of two herbaceous plant community composition sampling methods for long-term monitoring in Northern Great Plains National Parks

USGS Publications Warehouse

Symstad, Amy J.; Wienk, Cody L.; Thorstenson, Andy

2006-01-01

The Northern Great Plains Inventory & Monitoring (I&M) Network (Network) of the National Park Service (NPS) consists of 13 NPS units in North Dakota, South Dakota, Nebraska, and eastern Wyoming. The Network is in the planning phase of a long-term program to monitor the health of park ecosystems. Plant community composition is one of the 'Vital Signs,' or indicators, that will be monitored as part of this program for three main reasons. First, plant community composition is information-rich; a single sampling protocol can provide information on the diversity of native and non-native species, the abundance of individual dominant species, and the abundance of groups of plants. Second, plant community composition is of specific management concern. The abundance and diversity of exotic plants, both absolute and relative to native species, is one of the greatest management concerns in almost all Network parks (Symstad 2004). Finally, plant community composition reflects the effects of a variety of current or anticipated stressors on ecosystem health in the Network parks including invasive exotic plants, large ungulate grazing, lack of fire in a fire-adapted system, chemical exotic plant control, nitrogen deposition, increased atmospheric carbon dioxide concentrations, and climate change. Before the Network begins its Vital Signs monitoring, a detailed plan describing specific protocols used for each of the Vital Signs must go through rigorous development and review. The pilot study on which we report here is one of the components of this protocol development. The goal of the work we report on here was to determine a specific method to use for monitoring plant community composition of the herb layer (< 2 m tall).

Niche partitioning in arbuscular mycorrhizal communities in temperate grasslands: a lesson from adjacent serpentine and nonserpentine habitats.

PubMed

Kohout, Petr; Doubková, Pavla; Bahram, Mohammad; Suda, Jan; Tedersoo, Leho; Voříšková, Jana; Sudová, Radka

2015-04-01

Arbuscular mycorrhizal fungi (AMF) represent an important soil microbial group playing a fundamental role in many terrestrial ecosystems. We explored the effects of deterministic (soil characteristics, host plant life stage, neighbouring plant communities) and stochastic processes on AMF colonization, richness and community composition in roots of Knautia arvensis (Dipsacaceae) plants from three serpentine grasslands and adjacent nonserpentine sites. Methodically, the study was based on 454-sequencing of the ITS region of rDNA. In total, we detected 81 molecular taxonomical operational units (MOTUs) belonging to the Glomeromycota. Serpentine character of the site negatively influenced AMF root colonization, similarly as higher Fe concentration. AMF MOTUs richness linearly increased along a pH gradient from 3.5 to 5.8. Contrary, K and Cr soil concentration had a negative influence on AMF MOTUs richness. We also detected a strong relation between neighbouring plant community composition and AMF MOTUs richness. Although spatial distance between the sampled sites (c. 0.3-3 km) contributed to structuring AMF communities in K. arvensis roots, environmental parameters were key factors in this respect. In particular, the composition of AMF communities was shaped by the complex of serpentine conditions, pH and available soil Ni concentration. The composition of AMF communities was also dependent on host plant life stage (vegetative vs. generative). Our study supports the dominance of deterministic factors in structuring AMF communities in heterogeneous environment composed of an edaphic mosaic of serpentine and nonserpentine soils. © 2015 John Wiley & Sons Ltd.

Identification of Cellulose-Responsive Bacterial and Fungal Communities in Geographically and Edaphically Different Soils by Using Stable Isotope Probing

PubMed Central

Eichorst, Stephanie A.

2012-01-01

Many bacteria and fungi are known to degrade cellulose in culture, but their combined response to cellulose in different soils is unknown. Replicate soil microcosms amended with [13C]cellulose were used to identify bacterial and fungal communities responsive to cellulose in five geographically and edaphically different soils. The diversity and composition of the cellulose-responsive communities were assessed by DNA-stable isotope probing combined with Sanger sequencing of small-subunit and large-subunit rRNA genes for the bacterial and fungal communities, respectively. In each soil, the 13C-enriched, cellulose-responsive communities were of distinct composition compared to the original soil community or 12C-nonenriched communities. The composition of cellulose-responsive taxa, as identified by sequence operational taxonomic unit (OTU) similarity, differed in each soil. When OTUs were grouped at the bacterial order level, we found that members of the Burkholderiales, Caulobacteriales, Rhizobiales, Sphingobacteriales, Xanthomonadales, and the subdivision 1 Acidobacteria were prevalent in the 13C-enriched DNA in at least three of the soils. The cellulose-responsive fungi were identified as members of the Trichocladium, Chaetomium, Dactylaria, and Arthrobotrys genera, along with two novel Ascomycota clusters, unique to one soil. Although similarities were identified in higher-level taxa among some soils, the composition of cellulose-responsive bacteria and fungi was generally unique to a certain soil type, suggesting a strong potential influence of multiple edaphic factors in shaping the community. PMID:22287013

Defoliation and arbuscular mycorrhizal fungi shape plant communities in overgrazed semi-arid grasslands.

PubMed

Yang, Xin; Shen, Yue; Liu, Nan; Wilson, Gail W T; Cobb, Adam B; Zhang, Yingjun

2018-05-30

Overgrazing substantially contributes to global grassland degradation by decreasing plant community productivity and diversity through trampling, defoliation, and removal of nutrients. Arbuscular mycorrhizal (AM) fungi also play a critical role in plant community diversity, composition, and primary productivity, maintaining ecosystem functions. However, interactions between grazing disturbances, such as trampling and defoliation, and AM fungi in grassland communities are not well known. We examined influences of trampling, defoliation, and AM fungi on semi-arid grassland plant community composition for three years, by comparing all combinations of these factors. Benomyl fungicide was applied to reduce AM fungal abundance. Overgrazing typically resulted in reduced dominance of Stipa Krylovii, contributing to degradation of typical steppe grasslands. Our results indicated trampling generally had little effect on plant community composition, unless combined with defoliation or AM fungal suppression. Defoliation was the main component of grazing that promoted dominance of Potentilla acaulis over Stipa krylovii and Artemisia frigida, presumably by alleviating light limitation. In non-defoliated plots, AM fungi promoted A. frigida, with a concomitant reduction in S. krylovii growth compared to corresponding AM suppressed plots. Our results indicate AM fungi and defoliation jointly suppress S. krylovii biomass; however, prolonged defoliation weakens mycorrhizal influence on plant community composition. These findings give new insight into dominant plant species shifts in degraded semi-arid grasslands. This article is protected by copyright. All rights reserved. This article is protected by copyright. All rights reserved.

Composition and development of oral bacterial communities.

PubMed

Palmer, Robert J

2014-02-01

The oral bacterial microbiome encompasses approximately 700 commonly occurring phylotypes, approximately half of which can be present at any time in any individual. These bacteria are largely indigenous to the oral cavity; this limited habitat range suggests that interactions between the various phylotypes, and between the phylotypes and their environment, are crucial for their existence. Molecular cataloging has confirmed many basic observations on the composition of the oral microbiome that were formulated well before ribosomal RNA-based systematics, but the power and the scope of molecular taxonomy have resulted in the discovery of new phylotypes and, more importantly, have made possible a level of bacterial community analysis that was unachievable with classical methods. Bacterial community structure varies with location within the mouth, and changes in community structure are related to disease initiation and disease progression. Factors that influence the formation and the evolution of communities include selective adherence to epithelial or tooth surfaces, specific cell-to-cell binding as a driver of early community composition, and interorganismal interaction leading to alteration of the local environment, which represents the first step on the road to oral disease. A comprehensive understanding of how these factors interact to drive changes in the composition of the oral microbial community can lead to new strategies for the inhibition of periodontal diseases and dental caries. Published 2013. This article is a US Government work and is in the public domain in the USA.

Successional and seasonal variations in soil and litter microbial community structure and function during tropical postagricultural forest regeneration: a multiyear study.

PubMed

Smith, A Peyton; Marín-Spiotta, Erika; Balser, Teri

2015-09-01

Soil microorganisms regulate fundamental biochemical processes in plant litter decomposition and soil organic matter (SOM) transformations. Understanding how microbial communities respond to changes in vegetation is critical for improving predictions of how land-cover change affects belowground carbon storage and nutrient availability. We measured intra- and interannual variability in soil and forest litter microbial community composition and activity via phospholipid fatty acid analysis (PLFA) and extracellular enzyme activity across a well-replicated, long-term chronosequence of secondary forests growing on abandoned pastures in the wet subtropical forest life zone of Puerto Rico. Microbial community PLFA structure differed between young secondary forests and older secondary and primary forests, following successional shifts in tree species composition. These successional patterns held across seasons, but the microbial groups driving these patterns differed over time. Microbial community composition from the forest litter differed greatly from those in the soil, but did not show the same successional trends. Extracellular enzyme activity did not differ with forest succession, but varied by season with greater rates of potential activity in the dry seasons. We found few robust significant relationships among microbial community parameters and soil pH, moisture, carbon, and nitrogen concentrations. Observed inter- and intrannual variability in microbial community structure and activity reveal the importance of a multiple, temporal sampling strategy when investigating microbial community dynamics with land-use change. Successional control over microbial composition with forest recovery suggests strong links between above and belowground communities. © 2015 John Wiley & Sons Ltd.

Pycnoscelus surinamensis cockroach gut microbiota respond consistently to a fungal diet without mirroring those of fungus-farming termites.

PubMed

Richards, Callum; Otani, Saria; Mikaelyan, Aram; Poulsen, Michael

2017-01-01

The gut microbiotas of cockroaches and termites play important roles in the symbiotic digestion of dietary components, such as lignocellulose. Diet has been proposed as a primary determinant of community structure within the gut, acting as a selection force to shape the diversity observed within this "bioreactor", and as a key factor for the divergence of the termite gut microbiota from the omnivorous cockroach ancestor. The gut microbiota in most termites supports primarily the breakdown of lignocellulose, but the fungus-farming sub-family of higher termites has become similar in gut microbiota to the ancestral omnivorous cockroaches. To assess the importance of a fungus diet as a driver of community structure, we compare community compositions in the guts of experimentally manipulated Pycnoscelus surinamensis cockroaches fed on fungus cultivated by fungus-farming termites. MiSeq amplicon analysis of gut microbiotas from 49 gut samples showed a step-wise gradient pattern in community similarity that correlated with an increase in the proportion of fungal material provided to the cockroaches. Comparison of the taxonomic composition of manipulated communities to that of gut communities of a fungus-feeding termite species showed that although some bacteria OTUs shared by P. surinamensis and the farming termites increased in the guts of cockroaches on a fungal diet, cockroach communities remained distinct from those of termites. These results demonstrate that a fungal diet can play a role in structuring gut community composition, but at the same time exemplifies how original community compositions constrain the magnitude of such change.

Microbial legacies alter decomposition in response to simulated global change

DOE Office of Scientific and Technical Information (OSTI.GOV)

Martiny, Jennifer B. H.; Martiny, Adam C.; Weihe, Claudia

Terrestrial ecosystem models assume that microbial communities respond instantaneously, or are immediately resilient, to environmental change. Here we tested this assumption by quantifying the resilience of a leaf litter community to changes in precipitation or nitrogen availability. By manipulating composition within a global change experiment, we decoupled the legacies of abiotic parameters versus that of the microbial community itself. After one rainy season, more variation in fungal composition could be explained by the original microbial inoculum than the litterbag environment (18% versus 5.5% of total variation). This compositional legacy persisted for 3 years, when 6% of the variability in fungalmore » composition was still explained by the microbial origin. In contrast, bacterial composition was generally more resilient than fungal composition. Microbial functioning (measured as decomposition rate) was not immediately resilient to the global change manipulations; decomposition depended on both the contemporary environment and rainfall the year prior. Finally, using metagenomic sequencing, we showed that changes in precipitation, but not nitrogen availability, altered the potential for bacterial carbohydrate degradation, suggesting why the functional consequences of the two experiments may have differed. Predictions of how terrestrial ecosystem processes respond to environmental change may thus be improved by considering the legacies of microbial communities.« less

Microbial legacies alter decomposition in response to simulated global change

DOE PAGES

Martiny, Jennifer B. H.; Martiny, Adam C.; Weihe, Claudia; ...

2016-10-14

Terrestrial ecosystem models assume that microbial communities respond instantaneously, or are immediately resilient, to environmental change. Here we tested this assumption by quantifying the resilience of a leaf litter community to changes in precipitation or nitrogen availability. By manipulating composition within a global change experiment, we decoupled the legacies of abiotic parameters versus that of the microbial community itself. After one rainy season, more variation in fungal composition could be explained by the original microbial inoculum than the litterbag environment (18% versus 5.5% of total variation). This compositional legacy persisted for 3 years, when 6% of the variability in fungalmore » composition was still explained by the microbial origin. In contrast, bacterial composition was generally more resilient than fungal composition. Microbial functioning (measured as decomposition rate) was not immediately resilient to the global change manipulations; decomposition depended on both the contemporary environment and rainfall the year prior. Finally, using metagenomic sequencing, we showed that changes in precipitation, but not nitrogen availability, altered the potential for bacterial carbohydrate degradation, suggesting why the functional consequences of the two experiments may have differed. Predictions of how terrestrial ecosystem processes respond to environmental change may thus be improved by considering the legacies of microbial communities.« less

Characterization of Unexplored Deadwood Mycobiome in Highly Diverse Subtropical Forests Using Culture-independent Molecular Technique.

PubMed

Purahong, Witoon; Pietsch, Katherina A; Lentendu, Guillaume; Schöps, Ricardo; Bruelheide, Helge; Wirth, Christian; Buscot, François; Wubet, Tesfaye

2017-01-01

The deadwood mycobiome, also known as wood-inhabiting fungi (WIF), are among the key players in wood decomposition, having a large impact on nutrient cycling in forest soils. However, our knowledge of WIF richness and distribution patterns in different forest biomes is limited. Here, we used pyrotag sequencing of the fungal internal transcribed spacer (ITS2) region to characterize the deadwood mycobiome of two tree species with greatly different wood characteristics ( Schima superba and Pinus massoniana ) in a Chinese subtropical forest ecosystem. Specifically, we tested (i) the effects of tree species and wood quality properties on WIF OTU richness and community composition; (ii) the role of biotic and abiotic factors in shaping the WIF communities; and (iii) the relationship between WIF OTU richness, community composition and decomposition rates. Due to different wood chemical properties, we hypothesized that the WIF communities derived from the two tree species would be correlated differently with biotic and abiotic factors. Our results show that deadwood in subtropical forests harbors diverse fungal communities comprising six ecological functional groups. We found interesting colonization patterns for this subtropical biome, where Resinicium spp. were highly detected in both broadleaved and coniferous deadwood. In addition, the members of Xylariales were frequently found in Schima . The two deadwood species differed significantly in WIF OTU richness ( Pinus > Schima ) and community composition ( P < 0.001). Variations in WIF community composition of both tree species were significantly explained by wood pH and ecological factors (biotic: deadwood species, basal area and abiotic: soil pH), but the WIF communities derived from each tree species correlated differently with abiotic factors. Interestingly, we found that deadwood decomposition rate significantly correlated with WIF communities and negatively correlated with WIF OTU richness. We conclude that the pattern of WIF OTU richness and community composition are controlled by multiple interacting biotic and abiotic factors. Overall, our study provides an in-depth picture of the deadwood mycobiome in this subtropical forest. Furthermore, by comparing our results to results from temperate and boreal forests we contribute to a better understanding of patterns of WIF communities across different biomes and geographic locations.

Characterization of Unexplored Deadwood Mycobiome in Highly Diverse Subtropical Forests Using Culture-independent Molecular Technique

PubMed Central

Purahong, Witoon; Pietsch, Katherina A.; Lentendu, Guillaume; Schöps, Ricardo; Bruelheide, Helge; Wirth, Christian; Buscot, François; Wubet, Tesfaye

2017-01-01

The deadwood mycobiome, also known as wood-inhabiting fungi (WIF), are among the key players in wood decomposition, having a large impact on nutrient cycling in forest soils. However, our knowledge of WIF richness and distribution patterns in different forest biomes is limited. Here, we used pyrotag sequencing of the fungal internal transcribed spacer (ITS2) region to characterize the deadwood mycobiome of two tree species with greatly different wood characteristics (Schima superba and Pinus massoniana) in a Chinese subtropical forest ecosystem. Specifically, we tested (i) the effects of tree species and wood quality properties on WIF OTU richness and community composition; (ii) the role of biotic and abiotic factors in shaping the WIF communities; and (iii) the relationship between WIF OTU richness, community composition and decomposition rates. Due to different wood chemical properties, we hypothesized that the WIF communities derived from the two tree species would be correlated differently with biotic and abiotic factors. Our results show that deadwood in subtropical forests harbors diverse fungal communities comprising six ecological functional groups. We found interesting colonization patterns for this subtropical biome, where Resinicium spp. were highly detected in both broadleaved and coniferous deadwood. In addition, the members of Xylariales were frequently found in Schima. The two deadwood species differed significantly in WIF OTU richness (Pinus > Schima) and community composition (P < 0.001). Variations in WIF community composition of both tree species were significantly explained by wood pH and ecological factors (biotic: deadwood species, basal area and abiotic: soil pH), but the WIF communities derived from each tree species correlated differently with abiotic factors. Interestingly, we found that deadwood decomposition rate significantly correlated with WIF communities and negatively correlated with WIF OTU richness. We conclude that the pattern of WIF OTU richness and community composition are controlled by multiple interacting biotic and abiotic factors. Overall, our study provides an in-depth picture of the deadwood mycobiome in this subtropical forest. Furthermore, by comparing our results to results from temperate and boreal forests we contribute to a better understanding of patterns of WIF communities across different biomes and geographic locations. PMID:28469600

Spatial heterogeneity in species composition constrains plant community responses to herbivory and fertilization

USDA-ARS?s Scientific Manuscript database

Changing environmental conditions result in substantial shifts in the composition of communities. The associated immigration and extinction events are likely constrained by the spatial distribution of species. Still, most studies on environmental change quantify the biotic responses at single spat...

Phytoplankton community composition in nearshore coastal waters of Louisiana

EPA Science Inventory

Phytoplankton community compositions within near-shore coastal and estuarine waters of Louisiana were characterized by relative abundance, biovolume, and taxonomic identification to genus and species when possible. The range of total nitrogen was 0.5 to 1.3 mg L-1 and total phos...

FORAGE FISH AND ZOOPLANKTON COMMUNITY COMPOSITION IN WESTERN LAKE SUPERIOR

EPA Science Inventory

We assessed the abundance, size, and species composition of the fish and zooplankton communities of western Lake Superior during 1996 and 1997. Data were analyzed for 3 ecoregions (Duluth-Superior (1), Apostle Islands (2), Minnesota coast (3) differing in lake bathymetry, phsiodo...

COMMUNITY SCALE STREAM TAXA SENSITIVITIES TO DIFFERENT COMPOSITIONS OF EXCESS TOTAL DISSOLVED SOLIDS

EPA Science Inventory

Model stream chronic dosing studies (42 d) were conducted with three total dissolved solids (TDS) recipes. The recipes differed in composition of major ions. Community scale emergence was compared with single-species responses conducted simultaneously using the whole effluent tox...

Effects of long-term drainage on microbial community composition vary between peatland types

NASA Astrophysics Data System (ADS)

Urbanová, Zuzana; Barta, Jiri

2016-04-01

Peatlands represent an important reservoir of carbon, but their functioning can be threatened by water level drawdown caused by climate or land use change. Knowledge of how microbial communities respond to long-term drainage in different peatland types could help improve predictions of the effect of climate change on these ecosystems. We investigated the effect of long-term drainage on microbial community composition in bog, fen and spruce swamp forests (SSF) in the Sumava Mountains (Czech Republic), using high-throughput barcoded sequencing, in relation to peat biochemical properties. Longterm drainage had substantial effects, which depended strongly on peatland type, on peat biochemical properties and microbial community composition. The effect of drainage was most apparent on fen, followed by SSF, and lowest on bog. Long-term drainage led to lower pH, reduced peat decomposability and increased bulk density, which was reflected by reduced microbial activity. Bacterial diversity decreased and Acidobacteria became the dominant phylum on drained sites, reflecting a convergence in bacterial community composition across peatlands after long-term drainage. The archaeal communities changed very strongly and became similar across drained peatlands. Overall, the characteristic differences between distinct peatland types under natural conditions were diminished by long-term drainage. Bog represented a relatively resilient system while fen seemed to be very sensitive to environmental changes.

The effects of forest-savanna-grassland gradients on bird communities of Chiquitano Dry Forests domain, in western Brazil.

PubMed

Godoi, Mauricio N; Souza, Edivaldo O DE

2016-01-01

Different vegetation types are distributed in mountains according to altitude, topography and soil. The composition and structure of bird communities in these areas can change in relation to the vegetation gradient, with particular communities occupying each habitat type. In this study we present the changes in composition, species richness and bird abundance over the gradient of forests, savannas and altitudinal grasslands of Maciço do Urucum, a mountainous region located in the Chiquitano Dry Forests domain in western Brazil. We recorded 165 bird species through qualitative and quantitative methods. Forested savannas, riparian forests and submontane forests presented the highest richness and abundance of birds, while arboreal savannas and altitudinal grasslands had intermediate and low values, respectively. The bird composition was similar between riparian and submontane forests, while other vegetation types present more dissimilar bird communities. Our results show differences in composition, richness and bird abundance among the vegetation types present at Maciço do Urucum, and highlight an important function of vegetation gradients for the conservation of bird communities in mountains. Additionally, this is the first study of the bird communities in the Brazilian Chiquitano Dry Forests, an important domain in the west of Brazil which has been poorly studied.

Long-term experimental warming alters community composition of ascomycetes in Alaskan moist and dry arctic tundra.

PubMed

Semenova, Tatiana A; Morgado, Luis N; Welker, Jeffrey M; Walker, Marilyn D; Smets, Erik; Geml, József

2015-01-01

Arctic tundra regions have been responding to global warming with visible changes in plant community composition, including expansion of shrubs and declines in lichens and bryophytes. Even though it is well known that the majority of arctic plants are associated with their symbiotic fungi, how fungal community composition will be different with climate warming remains largely unknown. In this study, we addressed the effects of long-term (18 years) experimental warming on the community composition and taxonomic richness of soil ascomycetes in dry and moist tundra types. Using deep Ion Torrent sequencing, we quantified how OTU assemblage and richness of different orders of Ascomycota changed in response to summer warming. Experimental warming significantly altered ascomycete communities with stronger responses observed in the moist tundra compared with dry tundra. The proportion of several lichenized and moss-associated fungi decreased with warming, while the proportion of several plant and insect pathogens and saprotrophic species was higher in the warming treatment. The observed alterations in both taxonomic and ecological groups of ascomycetes are discussed in relation to previously reported warming-induced shifts in arctic plant communities, including decline in lichens and bryophytes and increase in coverage and biomass of shrubs. © 2014 John Wiley & Sons Ltd.

Soil ecosystem functioning under climate change: plant species and community effects

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kardol, Paul; Cregger, Melissa; Campany, Courtney E

2010-01-01

Feedbacks of terrestrial ecosystems to climate change depend on soil ecosystem dynamics. Soil ecosystems can directly and indirectly respond to climate change. For example, warming directly alters microbial communities by increasing their activity. Climate change may also alter plant community composition, thus indirectly altering the microbial communities that feed on their inputs. To better understand how climate change may directly and indirectly alter soil ecosystem functioning, we investigated old-field plant community and soil ecosystem responses to single and combined effects of elevated [CO2], warming, and water availability. Specifically, we collected soils at the plot level (plant community soils), and beneathmore » dominant plant species (plant-specific soils). We used microbial enzyme activities and soil nematodes as indicators for soil ecosystem functioning. Our study resulted in two main findings: 1) Overall, while there were some interactions, water, relative to increases in [CO2] and warming, had the largest impact on plant community composition, soil enzyme activities, and soil nematodes. Multiple climate change factors can interact to shape ecosystems, but in this case, those interactions were largely driven by changes in water availability. 2) Indirect effects of climate change, via changes in plant communities, had a significant impact on soil ecosystem functioning and this impact was not obvious when looking at plant community soils. Climate change effects on enzyme activities and soil nematode abundance and community structure strongly differed between plant community soils and plant-specific soils, but also within plant-specific soils. In sum, these results indicate that accurate assessments of climate change impacts on soil ecosystem functioning require incorporating the concurrent changes in plant function and plant community composition. Climate change-induced shifts in plant community composition will likely modify or counteract the direct impact of climate change on soil ecosystem functioning, and hence, these indirect effects should be taken into account when predicting how climate change will alter ecosystem functioning.« less

The Interplay between Environmental Filtering and Spatial Processes in Structuring Communities: The Case of Neotropical Snake Communities

PubMed Central

Cavalheri, Hamanda; Both, Camila; Martins, Marcio

2015-01-01

Both habitat filters and spatial processes can influence community structure. Space alone affects species immigration from the regional species pool, whereas habitat filters affect species distribution and inter-specific interactions. This study aimed to understand how the interplay between environmental and geographical processes influenced the structure of Neotropical snake communities in different habitat types. We selected six studies that sampled snakes in forests, four conducted in savannas and two in grasslands (the latter two are grouped in a non-forest category). We used the net relatedness and nearest taxon indices to assess phylogenetic structure within forest and non-forest areas. We also used the phylogenetic fuzzy-weighting algorithm to characterize phylogenetic structure across communities and the relation of phylogenetic composition patterns to habitat type, structure, and latitude. Finally, we tested for morphological trait convergence and phylogenetic niche conservatism using four forest and four non-forest areas for which morphological data were available. Community phylogenetic composition changed across forest and non-forest areas suggesting that environmental filtering influences community structure. Species traits were affected by habitat type, indicating convergence at the metacommunity level. Tail length, robustness, and number of ventral scales maximized community convergence among forest and non-forest areas. The observed patterns suggested environmental filtering, indicating that less vertically structured habitats represent a strong filter. Despite the fact that phylogenetic structure was not detected individually for each community, we observed a trend towards communities composed by more closely related species in higher latitudes and more overdispersed compositions in lower latitudes. Such pattern suggests that the limited distribution of major snake lineages constrained species distributions. Structure indices for each community were also related to habitat type, showing that communities from non-forest areas tend to be more clustered. Our study showed that both environmental filtering and spatial gradients play important roles in shaping the composition of Neotropical snake communities. PMID:26061038

Soil ecosystem functioning under climate change: plant species and community effects.

PubMed

Kardol, Paul; Cregger, Melissa A; Campany, Courtney E; Classen, Aimee T

2010-03-01

Feedbacks of terrestrial ecosystems to atmospheric and climate change depend on soil ecosystem dynamics. Soil ecosystems can directly and indirectly respond to climate change. For example, warming directly alters microbial communities by increasing their activity. Climate change may also alter plant community composition, thus indirectly altering the soil communities that depend on their inputs. To better understand how climate change may directly and indirectly alter soil ecosystem functioning, we investigated old-field plant community and soil ecosystem responses to single and combined effects of elevated [CO2], warming, and precipitation in Tennessee (USA). Specifically, we collected soils at the plot level (plant community soils) and beneath dominant plant species (plant-specific soils). We used microbial enzyme activities and soil nematodes as indicators for soil ecosystem functioning. Our study resulted in two main findings: (1) Overall, while there were some interactions, water, relative to increases in [CO2] and warming, had the largest impact on plant community composition, soil enzyme activity, and soil nematodes. Multiple climate-change factors can interact to shape ecosystems, but in our study, those interactions were largely driven by changes in water. (2) Indirect effects of climate change, via changes in plant communities, had a significant impact on soil ecosystem functioning, and this impact was not obvious when looking at plant community soils. Climate-change effects on enzyme activities and soil nematode abundance and community structure strongly differed between plant community soils and plant-specific soils, but also within plant-specific soils. These results indicate that accurate assessments of climate-change impacts on soil ecosystem functioning require incorporating the concurrent changes in plant function and plant community composition. Climate-change-induced shifts in plant community composition will likely modify or counteract the direct impact of atmospheric and climate change on soil ecosystem functioning, and hence, these indirect effects should be taken into account when predicting the manner in which global change will alter ecosystem functioning.

Predicting effects of climate change on the composition and function of soil microbial communities

NASA Astrophysics Data System (ADS)

Dubinsky, E.; Brodie, E.; Myint, C.; Ackerly, D.; van Nostrand, J.; Bird, J.; Zhou, J.; Andersen, G.; Firestone, M.

2008-12-01

Complex soil microbial communities regulate critical ecosystem processes that will be altered by climate change. A critical step towards predicting the impacts of climate change on terrestrial ecosystems is to determine the primary controllers of soil microbial community composition and function, and subsequently evaluate climate change scenarios that alter these controllers. We surveyed complex soil bacterial and archaeal communities across a range of climatic and edaphic conditions to identify critical controllers of soil microbial community composition in the field and then tested the resulting predictions using a 2-year manipulation of precipitation and temperature using mesocosms of California annual grasslands. Community DNA extracted from field soils sampled from six different ecosystems was assayed for bacterial and archaeal communities using high-density phylogenetic microarrays as well as functional gene arrays. Correlations among the relative abundances of thousands of microbial taxa and edaphic factors such as soil moisture and nutrient content provided a basis for predicting community responses to changing soil conditions. Communities of soil bacteria and archaea were strongly structured by single environmental predictors, particularly variables related to soil water. Bacteria in the Actinomycetales and Bacilli consistently demonstrated a strong negative response to increasing soil moisture, while taxa in a greater variety of lineages responded positively to increasing soil moisture. In the climate change experiment, overall bacterial community structure was impacted significantly by total precipitation but not by plant species. Changes in soil moisture due to decreased rainfall resulted in significant and predictable alterations in community structure. Over 70% of the bacterial taxa in common with the cross-ecosystem study responded as predicted to altered precipitation, with the most conserved response from Actinobacteria. The functional consequences of these predictable changes in community composition were measured with functional arrays that detect genes involved in the metabolism of carbon, nitrogen and other elements. The response of soil microbial communities to altered precipitation can be predicted from the distribution of microbial taxa across moisture gradients.

Relationships among plants, soils and microbial communities along a hydrological gradient in the New Jersey Pinelands, USA

PubMed Central

Yu, Shen; Ehrenfeld, Joan G.

2010-01-01

Background and Aims Understanding the role of different components of hydrology in structuring wetland communities is not well developed. A sequence of adjacent wetlands located on a catenary sequence of soils and receiving the same sources and qualities of water is used to examine specifically the role of water-table median position and variability in affecting plant and microbial community composition and soil properties. Methods Two replicates of three types of wetland found adjacent to each other along a hydrological gradient in the New Jersey Pinelands (USA) were studied. Plant-community and water-table data were obtained within a 100-m2 plot in each community (pine swamp, maple swamp and Atlantic-white-cedar swamp). Monthly soil samples from each plot were analysed for soil moisture, organic matter, extractable nitrogen fractions, N mineralization rate and microbial community composition. Multivariate ordination methods were used to compare patterns among sites within and between data sets. Key Results The maple and pine wetlands were more similar to each other in plant community composition, soil properties and microbial community composition than either was to the cedar swamps. However, maple and pine wetlands differed from each other in water-table descriptors as much as they differed from the cedar swamps. All microbial communities were dominated by Gram-positive bacteria despite hydrologic differences among the sites. Water-table variability was as important as water-table level in affecting microbial communities. Conclusions Water tables affect wetland communities through both median level and variability. Differentiation of both plant and microbial communities are not simple transforms of differences in water-table position, even when other hydrologic factors are kept constant. Rather, soil genesis, a result of both water-table position and geologic history, appears to be the main factor affecting plant and microbial community similarities. PMID:19643908

The Interplay between Environmental Filtering and Spatial Processes in Structuring Communities: The Case of Neotropical Snake Communities.

PubMed

Cavalheri, Hamanda; Both, Camila; Martins, Marcio

2015-01-01

Both habitat filters and spatial processes can influence community structure. Space alone affects species immigration from the regional species pool, whereas habitat filters affect species distribution and inter-specific interactions. This study aimed to understand how the interplay between environmental and geographical processes influenced the structure of Neotropical snake communities in different habitat types. We selected six studies that sampled snakes in forests, four conducted in savannas and two in grasslands (the latter two are grouped in a non-forest category). We used the net relatedness and nearest taxon indices to assess phylogenetic structure within forest and non-forest areas. We also used the phylogenetic fuzzy-weighting algorithm to characterize phylogenetic structure across communities and the relation of phylogenetic composition patterns to habitat type, structure, and latitude. Finally, we tested for morphological trait convergence and phylogenetic niche conservatism using four forest and four non-forest areas for which morphological data were available. Community phylogenetic composition changed across forest and non-forest areas suggesting that environmental filtering influences community structure. Species traits were affected by habitat type, indicating convergence at the metacommunity level. Tail length, robustness, and number of ventral scales maximized community convergence among forest and non-forest areas. The observed patterns suggested environmental filtering, indicating that less vertically structured habitats represent a strong filter. Despite the fact that phylogenetic structure was not detected individually for each community, we observed a trend towards communities composed by more closely related species in higher latitudes and more overdispersed compositions in lower latitudes. Such pattern suggests that the limited distribution of major snake lineages constrained species distributions. Structure indices for each community were also related to habitat type, showing that communities from non-forest areas tend to be more clustered. Our study showed that both environmental filtering and spatial gradients play important roles in shaping the composition of Neotropical snake communities.

Species- and community-level responses combine to drive phenology of lake phytoplankton

USGS Publications Warehouse

Walters, Annika; Sagrario, María de los Ángeles González; Schindler, Daniel E.

2013-01-01

Global change is leading to shifts in the seasonal timing of growth and maturation for primary producers. Remote sensing is increasingly used to measure the timing of primary production in both aquatic and terrestrial ecosystems, but there is often a poor correlation between these results and direct observations of life-history responses of individual species. One explanation may be that in addition to phenological shifts, global change is also causing shifts in community composition among species with different seasonal timing of growth and maturation. We quantified how shifts in species phenology and in community composition translated into phenological change in a diverse phytoplankton community from 1962-2000. During this time the aggregate community spring-summer phytoplankton peak has shifted 63 days earlier. The mean taxon shift was only 3 days earlier and shifts in taxa phenology explained only 40% of the observed community phenological shift. The remaining community shift was attributed to dominant early season taxa increasing in abundance while a dominant late season taxon decreased in abundance. In diverse producer communities experiencing multiple stressors, changes in species composition must be considered to fully understand and predict shifts in the seasonal timing of primary production.

Top-down and bottom-up control on bacterial diversity in a western Norwegian deep-silled fjord.

PubMed

Storesund, Julia E; Erga, Svein Rune; Ray, Jessica L; Thingstad, T Frede; Sandaa, Ruth-Anne

2015-07-01

We investigated the relationship between viruses and co-occurring bacterial communities in the Sognefjord, a deep-silled fjord in Western Norway. A combination of flow cytometry and automated ribosomal intergenic spacer analysis (ARISA) was used to assess prokaryote and viral abundances, and bacterial diversity and community composition, respectively, in depth profiles and at two different sampling seasons (November and May). With one exception, bacterial diversity did not vary between samples regardless of depth or season. The virus and prokaryote abundances as well as bacterial community composition, however, varied significantly with season and depth, suggesting a link between the Sognefjord viral community and potential bacterial host community diversity. To our knowledge, these findings provide the first description of microbial communities in the unique Sognefjord ecosystem, and in addition are in agreement with the simple model version of the 'Killing the Winner' theory (KtW), which postulates that microbial community diversity is a feature that is essentially top-down controlled by viruses, while community composition is bottom-up controlled by competition for limiting growth substrates. © FEMS 2015. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Falling palm fronds structure amazonian rainforest sapling communities.

PubMed

Peters, Halton A; Pauw, Anton; Silman, Miles R; Terborgh, John W

2004-08-07

The senescence and loss of photosynthetic and support structures is a nearly universal aspect of tree life history, and can be a major source of disturbance in forest understoreys, but the ability of falling canopy debris in determining the stature and composition of understorey communities seems not to have been documented. In this study, we show that senescent fronds of the palm Iriartea deltoidea cause substantial disturbance in tropical forest sapling communities. This disturbance influences the species composition of the canopy and subcanopy by acting as an ecological filter, favouring sapling species with characteristics conducive to recovery after physical damage. The scale of this dominance suggests that falling I. deltoidea debris may be influencing sapling community structure and species composition in Amazonian rainforests over very large spatial scales.

Biogeography and Biodiversity in Sulfide Structures of Active and Inactive Vents at Deep-Sea Hydrothermal Fields of the Southern Mariana Trough▿ †

PubMed Central

Kato, Shingo; Takano, Yoshinori; Kakegawa, Takeshi; Oba, Hironori; Inoue, Kazuhiko; Kobayashi, Chiyori; Utsumi, Motoo; Marumo, Katsumi; Kobayashi, Kensei; Ito, Yuki; Ishibashi, Jun-ichiro; Yamagishi, Akihiko

2010-01-01

The abundance, diversity, activity, and composition of microbial communities in sulfide structures both of active and inactive vents were investigated by culture-independent methods. These sulfide structures were collected at four hydrothermal fields, both on- and off-axis of the back-arc spreading center of the Southern Mariana Trough. The microbial abundance and activity in the samples were determined by analyzing total organic content, enzymatic activity, and copy number of the 16S rRNA gene. To assess the diversity and composition of the microbial communities, 16S rRNA gene clone libraries including bacterial and archaeal phylotypes were constructed from the sulfide structures. Despite the differences in the geological settings among the sampling points, phylotypes related to the Epsilonproteobacteria and cultured hyperthermophilic archaea were abundant in the libraries from the samples of active vents. In contrast, the relative abundance of these phylotypes was extremely low in the libraries from the samples of inactive vents. These results suggest that the composition of microbial communities within sulfide structures dramatically changes depending on the degree of hydrothermal activity, which was supported by statistical analyses. Comparative analyses suggest that the abundance, activity and diversity of microbial communities within sulfide structures of inactive vents are likely to be comparable to or higher than those in active vent structures, even though the microbial community composition is different between these two types of vents. The microbial community compositions in the sulfide structures of inactive vents were similar to those in seafloor basaltic rocks rather than those in marine sediments or the sulfide structures of active vents, suggesting that the microbial community compositions on the seafloor may be constrained by the available energy sources. Our findings provide helpful information for understanding the biogeography, biodiversity and microbial ecosystems in marine environments. PMID:20228114

Foliar fungal communities strongly differ between habitat patches in a landscape mosaic

PubMed Central

Robin, Cécile; Capdevielle, Xavier; Delière, Laurent; Vacher, Corinne

2016-01-01

Background Dispersal events between habitat patches in a landscape mosaic can structure ecological communities and influence the functioning of agrosystems. Here we investigated whether short-distance dispersal events between vineyard and forest patches shape foliar fungal communities. We hypothesized that these communities homogenize between habitats over the course of the growing season, particularly along habitat edges, because of aerial dispersal of spores. Methods We monitored the richness and composition of foliar and airborne fungal communities over the season, along transects perpendicular to edges between vineyard and forest patches, using Illumina sequencing of the Internal Transcribed Spacer 2 (ITS2) region. Results In contrast to our expectation, foliar fungal communities in vineyards and forest patches increasingly differentiate over the growing season, even along habitat edges. Moreover, the richness of foliar fungal communities in grapevine drastically decreased over the growing season, in contrast to that of forest trees. The composition of airborne communities did not differ between habitats. The composition of oak foliar fungal communities change between forest edge and centre. Discussion These results suggest that dispersal events between habitat patches are not major drivers of foliar fungal communities at the landscape scale. Selective pressures exerted in each habitat by the host plant, the microclimate and the agricultural practices play a greater role, and might account for the differentiation of foliar fugal communities between habitats. PMID:27833817

The impact of failure: unsuccessful bacterial invasions steer the soil microbial community away from the invader's niche.

PubMed

Mallon, C A; Le Roux, X; van Doorn, G S; Dini-Andreote, F; Poly, F; Salles, J F

2018-03-01

Although many environments like soils are constantly subjected to invasion by alien microbes, invaders usually fail to succeed, succumbing to the robust diversity often found in nature. So far, only successful invasions have been explored, and it remains unknown to what extent an unsuccessful invasion can impact resident communities. Here we hypothesized that unsuccessful invasions can cause impacts to soil functioning by decreasing the diversity and niche breadth of resident bacterial communities, which could cause shifts to community composition and niche structure-an effect that is likely exacerbated when diversity is compromised. To examine this question, diversity gradients of soil microbial communities were subjected to invasion by the frequent, yet oft-unsuccessful soil invader, Escherichia coli, and evaluated for changes to diversity, bacterial community composition, niche breadth, and niche structure. Contrary to expectations, diversity and niche breadth increased across treatments upon invasion. Community composition and niche structure were also altered, with shifts of niche structure revealing an escape by the resident community away from the invader's resources. Importantly, the extent of the escape varied in response to the community's diversity, where less diverse communities experienced larger shifts. Thus, although transient and unsuccessful, the invader competed for resources with resident species and caused tangible impacts that modified both the diversity and functioning of resident communities, which can likely generate a legacy effect that influences future invasion attempts.

Plant community influence on soil microbial response after a wildfire in Sierra Nevada National Park (Spain).

PubMed

Bárcenas-Moreno, Gema; García-Orenes, Fuensanta; Mataix-Solera, Jorge; Mataix-Beneyto, Jorge

2016-12-15

Plant community influence on microbial response after fire has been studied in a Sierra Nevada National Park area affected by a wildfire in 2005. Two different plant communities adapted to different altitudes were selected to analyse possible differences on soil microbial recolonisation process after fire, in oak forest and high mountain shrub communities. Microbial abundance, activity and community composition were monitored to evaluate medium-term changes. Microbial abundance was studied by mean of microbial biomass carbon and plate count methods; microbial activity was analysed by microbial respiration and bacterial growth while microbial community composition was determined by analysing phospholipid fatty acid pattern. Under unburnt conditions oak forest showed higher nutrient content, pH and microbial abundance and activity values than the high mountain shrubs community. Different parameters studied showed different trends with time, highlighting important changes in microbial community composition in high mountain shrubs from first sampling to the second one. Post-fire recolonisation process was different depending on plant community studied. Highlighting fungal response and microbial activity were stimulated in burnt high mountain shrubs community whilst it was negatively affected in oak forest. Fire induced changes in oak forest were almost neutralized 20months after the fire, while high mountain shrubs community still showed fire-induced changes at the end of the study. Copyright © 2016 Elsevier B.V. All rights reserved.

Macro and Microelements Drive Diversity and Composition of Prokaryotic and Fungal Communities in Hypersaline Sediments and Saline–Alkaline Soils

PubMed Central

Liu, Kaihui; Ding, Xiaowei; Tang, Xiaofei; Wang, Jianjun; Li, Wenjun; Yan, Qingyun; Liu, Zhenghua

2018-01-01

Understanding the effects of environmental factors on microbial communities is critical for microbial ecology, but it remains challenging. In this study, we examined the diversity (alpha diversity) and community compositions (beta diversity) of prokaryotes and fungi in hypersaline sediments and salinized soils from northern China. Environmental variables were highly correlated, but they differed significantly between the sediments and saline soils. The compositions of prokaryotic and fungal communities in the hypersaline sediments were different from those in adjacent saline–alkaline soils, indicating a habitat-specific microbial distribution pattern. The macroelements (S, P, K, Mg, and Fe) and Ca were, respectively, correlated closely with the alpha diversity of prokaryotes and fungi, while the macronutrients (e.g., Na, S, P, and Ca) were correlated with the prokaryotic and fungal beta-diversity (P ≤ 0.05). And, the nine microelements (e.g., Al, Ba, Co, Hg, and Mn) and micronutrients (Ba, Cd, and Sr) individually shaped the alpha diversity of prokaryotes and fungi, while the six microelements (e.g., As, Ba, Cr, and Ge) and only the trace elements (Cr and Cu), respectively, influenced the beta diversity of prokaryotes and fungi (P < 0.05). Variation-partitioning analysis (VPA) showed that environmental variables jointly explained 55.49% and 32.27% of the total variation for the prokaryotic and fungal communities, respectively. Together, our findings demonstrate that the diversity and community composition of the prokaryotes and fungi were driven by different macro and microelements in saline habitats, and that geochemical elements could more widely regulate the diversity and community composition of prokaryotes than these of fungi. PMID:29535703

Dynamic Succession of Groundwater Functional Microbial Communities in Response to Emulsified Vegetable Oil Amendment during Sustained In Situ U(VI) Reduction.

PubMed

Zhang, Ping; Wu, Wei-Min; Van Nostrand, Joy D; Deng, Ye; He, Zhili; Gihring, Thomas; Zhang, Gengxin; Schadt, Chris W; Watson, David; Jardine, Phil; Criddle, Craig S; Brooks, Scott; Marsh, Terence L; Tiedje, James M; Arkin, Adam P; Zhou, Jizhong

2015-06-15

A pilot-scale field experiment demonstrated that a one-time amendment of emulsified vegetable oil (EVO) reduced groundwater U(VI) concentrations for 1 year in a fast-flowing aquifer. However, little is known about how EVO amendment stimulates the functional gene composition, structure, and dynamics of groundwater microbial communities toward prolonged U(VI) reduction. In this study, we hypothesized that EVO amendment would shift the functional gene composition and structure of groundwater microbial communities and stimulate key functional genes/groups involved in EVO biodegradation and reduction of electron acceptors in the aquifer. To test these hypotheses, groundwater microbial communities after EVO amendment were analyzed using a comprehensive functional gene microarray. Our results showed that EVO amendment stimulated sequential shifts in the functional composition and structure of groundwater microbial communities. Particularly, the relative abundance of key functional genes/groups involved in EVO biodegradation and the reduction of NO3 (-), Mn(IV), Fe(III), U(VI), and SO4 (2-) significantly increased, especially during the active U(VI) reduction period. The relative abundance for some of these key functional genes/groups remained elevated over 9 months. Montel tests suggested that the dynamics in the abundance, composition, and structure of these key functional genes/groups were significantly correlated with groundwater concentrations of acetate, NO3 (-), Mn(II), Fe(II), U(VI), and SO4 (2-). Our results suggest that EVO amendment stimulated dynamic succession of key functional microbial communities. This study improves our understanding of the composition, structure, and function changes needed for groundwater microbial communities to sustain a long-term U(VI) reduction. Copyright © 2015, American Society for Microbiology. All Rights Reserved.

Dynamic Succession of Groundwater Functional Microbial Communities in Response to Emulsified Vegetable Oil Amendment during Sustained In Situ U(VI) Reduction

PubMed Central

Zhang, Ping; Wu, Wei-Min; Van Nostrand, Joy D.; Deng, Ye; He, Zhili; Gihring, Thomas; Zhang, Gengxin; Schadt, Chris W.; Watson, David; Jardine, Phil; Criddle, Craig S.; Brooks, Scott; Marsh, Terence L.; Tiedje, James M.; Arkin, Adam P.

2015-01-01

A pilot-scale field experiment demonstrated that a one-time amendment of emulsified vegetable oil (EVO) reduced groundwater U(VI) concentrations for 1 year in a fast-flowing aquifer. However, little is known about how EVO amendment stimulates the functional gene composition, structure, and dynamics of groundwater microbial communities toward prolonged U(VI) reduction. In this study, we hypothesized that EVO amendment would shift the functional gene composition and structure of groundwater microbial communities and stimulate key functional genes/groups involved in EVO biodegradation and reduction of electron acceptors in the aquifer. To test these hypotheses, groundwater microbial communities after EVO amendment were analyzed using a comprehensive functional gene microarray. Our results showed that EVO amendment stimulated sequential shifts in the functional composition and structure of groundwater microbial communities. Particularly, the relative abundance of key functional genes/groups involved in EVO biodegradation and the reduction of NO3−, Mn(IV), Fe(III), U(VI), and SO42− significantly increased, especially during the active U(VI) reduction period. The relative abundance for some of these key functional genes/groups remained elevated over 9 months. Montel tests suggested that the dynamics in the abundance, composition, and structure of these key functional genes/groups were significantly correlated with groundwater concentrations of acetate, NO3−, Mn(II), Fe(II), U(VI), and SO42−. Our results suggest that EVO amendment stimulated dynamic succession of key functional microbial communities. This study improves our understanding of the composition, structure, and function changes needed for groundwater microbial communities to sustain a long-term U(VI) reduction. PMID:25862231

Dynamic Succession of Groundwater Functional Microbial Communities in Response to Emulsified Vegetable Oil Amendment during Sustained In Situ U(VI) Reduction

DOE PAGES

Zhang, Ping; Wu, Wei-Min; Van Nostrand, Joy D.; ...

2015-04-10

A pilot-scale field experiment demonstrated that a one-time amendment of emulsified vegetable oil (EVO) reduced groundwater U(VI) concentrations for 1 year in a fast-flowing aquifer. However, little is known about how EVO amendment stimulates the functional gene composition, structure, and dynamics of groundwater microbial communities toward prolonged U(VI) reduction. In this paper, we hypothesized that EVO amendment would shift the functional gene composition and structure of groundwater microbial communities and stimulate key functional genes/groups involved in EVO biodegradation and reduction of electron acceptors in the aquifer. To test these hypotheses, groundwater microbial communities after EVO amendment were analyzed using amore » comprehensive functional gene microarray. Our results showed that EVO amendment stimulated sequential shifts in the functional composition and structure of groundwater microbial communities. Particularly, the relative abundance of key functional genes/groups involved in EVO biodegradation and the reduction of NO 3 -, Mn(IV), Fe(III), U(VI), and SO 4 2- significantly increased, especially during the active U(VI) reduction period. The relative abundance for some of these key functional genes/groups remained elevated over 9 months. Montel tests suggested that the dynamics in the abundance, composition, and structure of these key functional genes/groups were significantly correlated with groundwater concentrations of acetate, NO 3 -, Mn(II), Fe(II), U(VI), and SO 4 2-. Our results suggest that EVO amendment stimulated dynamic succession of key functional microbial communities. Finally, this study improves our understanding of the composition, structure, and function changes needed for groundwater microbial communities to sustain a long-term U(VI) reduction.« less

Dynamic Succession of Groundwater Functional Microbial Communities in Response to Emulsified Vegetable Oil Amendment during Sustained In Situ U(VI) Reduction

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zhang, Ping; Wu, Wei-Min; Van Nostrand, Joy D.

A pilot-scale field experiment demonstrated that a one-time amendment of emulsified vegetable oil (EVO) reduced groundwater U(VI) concentrations for 1 year in a fast-flowing aquifer. However, little is known about how EVO amendment stimulates the functional gene composition, structure, and dynamics of groundwater microbial communities toward prolonged U(VI) reduction. In this paper, we hypothesized that EVO amendment would shift the functional gene composition and structure of groundwater microbial communities and stimulate key functional genes/groups involved in EVO biodegradation and reduction of electron acceptors in the aquifer. To test these hypotheses, groundwater microbial communities after EVO amendment were analyzed using amore » comprehensive functional gene microarray. Our results showed that EVO amendment stimulated sequential shifts in the functional composition and structure of groundwater microbial communities. Particularly, the relative abundance of key functional genes/groups involved in EVO biodegradation and the reduction of NO 3 -, Mn(IV), Fe(III), U(VI), and SO 4 2- significantly increased, especially during the active U(VI) reduction period. The relative abundance for some of these key functional genes/groups remained elevated over 9 months. Montel tests suggested that the dynamics in the abundance, composition, and structure of these key functional genes/groups were significantly correlated with groundwater concentrations of acetate, NO 3 -, Mn(II), Fe(II), U(VI), and SO 4 2-. Our results suggest that EVO amendment stimulated dynamic succession of key functional microbial communities. Finally, this study improves our understanding of the composition, structure, and function changes needed for groundwater microbial communities to sustain a long-term U(VI) reduction.« less

Spatio-Temporal Interdependence of Bacteria and Phytoplankton during a Baltic Sea Spring Bloom

PubMed Central

Bunse, Carina; Bertos-Fortis, Mireia; Sassenhagen, Ingrid; Sildever, Sirje; Sjöqvist, Conny; Godhe, Anna; Gross, Susanna; Kremp, Anke; Lips, Inga; Lundholm, Nina; Rengefors, Karin; Sefbom, Josefin; Pinhassi, Jarone; Legrand, Catherine

2016-01-01

In temperate systems, phytoplankton spring blooms deplete inorganic nutrients and are major sources of organic matter for the microbial loop. In response to phytoplankton exudates and environmental factors, heterotrophic microbial communities are highly dynamic and change their abundance and composition both on spatial and temporal scales. Yet, most of our understanding about these processes comes from laboratory model organism studies, mesocosm experiments or single temporal transects. Spatial-temporal studies examining interactions of phytoplankton blooms and bacterioplankton community composition and function, though being highly informative, are scarce. In this study, pelagic microbial community dynamics (bacteria and phytoplankton) and environmental variables were monitored during a spring bloom across the Baltic Proper (two cruises between North Germany to Gulf of Finland). To test to what extent bacterioplankton community composition relates to the spring bloom, we used next generation amplicon sequencing of the 16S rRNA gene, phytoplankton diversity analysis based on microscopy counts and population genotyping of the dominating diatom Skeletonema marinoi. Several phytoplankton bloom related and environmental variables were identified to influence bacterial community composition. Members of Bacteroidetes and Alphaproteobacteria dominated the bacterial community composition but the bacterial groups showed no apparent correlation with direct bloom related variables. The less abundant bacterial phyla Actinobacteria, Planctomycetes, and Verrucomicrobia, on the other hand, were strongly associated with phytoplankton biomass, diatom:dinoflagellate ratio, and colored dissolved organic matter (cDOM). Many bacterial operational taxonomic units (OTUs) showed high niche specificities. For example, particular Bacteroidetes OTUs were associated with two distinct genetic clusters of S. marinoi. Our study revealed the complexity of interactions of bacterial taxa with inter- and intraspecific genetic variation in phytoplankton. Overall, our findings imply that biotic and abiotic factors during spring bloom influence bacterial community dynamics in a hierarchical manner. PMID:27148206

Land Cover and Rainfall Interact to Shape Waterbird Community Composition

PubMed Central

Studds, Colin E.; DeLuca, William V.; Baker, Matthew E.; King, Ryan S.; Marra, Peter P.

2012-01-01

Human land cover can degrade estuaries directly through habitat loss and fragmentation or indirectly through nutrient inputs that reduce water quality. Strong precipitation events are occurring more frequently, causing greater hydrological connectivity between watersheds and estuaries. Nutrient enrichment and dissolved oxygen depletion that occur following these events are known to limit populations of benthic macroinvertebrates and commercially harvested species, but the consequences for top consumers such as birds remain largely unknown. We used non-metric multidimensional scaling (MDS) and structural equation modeling (SEM) to understand how land cover and annual variation in rainfall interact to shape waterbird community composition in Chesapeake Bay, USA. The MDS ordination indicated that urban subestuaries shifted from a mixed generalist-specialist community in 2002, a year of severe drought, to generalist-dominated community in 2003, of year of high rainfall. The SEM revealed that this change was concurrent with a sixfold increase in nitrate-N concentration in subestuaries. In the drought year of 2002, waterbird community composition depended only on the direct effect of urban development in watersheds. In the wet year of 2003, community composition depended both on this direct effect and on indirect effects associated with high nitrate-N inputs to northern parts of the Bay, particularly in urban subestuaries. Our findings suggest that increased runoff during periods of high rainfall can depress water quality enough to alter the composition of estuarine waterbird communities, and that this effect is compounded in subestuaries dominated by urban development. Estuarine restoration programs often chart progress by monitoring stressors and indicators, but rarely assess multivariate relationships among them. Estuarine management planning could be improved by tracking the structure of relationships among land cover, water quality, and waterbirds. Unraveling these complex relationships may help managers identify and mitigate ecological thresholds that occur with increasing human land cover. PMID:22558286

Land cover and rainfall interact to shape waterbird community composition.

PubMed

Studds, Colin E; DeLuca, William V; Baker, Matthew E; King, Ryan S; Marra, Peter P

2012-01-01

Human land cover can degrade estuaries directly through habitat loss and fragmentation or indirectly through nutrient inputs that reduce water quality. Strong precipitation events are occurring more frequently, causing greater hydrological connectivity between watersheds and estuaries. Nutrient enrichment and dissolved oxygen depletion that occur following these events are known to limit populations of benthic macroinvertebrates and commercially harvested species, but the consequences for top consumers such as birds remain largely unknown. We used non-metric multidimensional scaling (MDS) and structural equation modeling (SEM) to understand how land cover and annual variation in rainfall interact to shape waterbird community composition in Chesapeake Bay, USA. The MDS ordination indicated that urban subestuaries shifted from a mixed generalist-specialist community in 2002, a year of severe drought, to generalist-dominated community in 2003, of year of high rainfall. The SEM revealed that this change was concurrent with a sixfold increase in nitrate-N concentration in subestuaries. In the drought year of 2002, waterbird community composition depended only on the direct effect of urban development in watersheds. In the wet year of 2003, community composition depended both on this direct effect and on indirect effects associated with high nitrate-N inputs to northern parts of the Bay, particularly in urban subestuaries. Our findings suggest that increased runoff during periods of high rainfall can depress water quality enough to alter the composition of estuarine waterbird communities, and that this effect is compounded in subestuaries dominated by urban development. Estuarine restoration programs often chart progress by monitoring stressors and indicators, but rarely assess multivariate relationships among them. Estuarine management planning could be improved by tracking the structure of relationships among land cover, water quality, and waterbirds. Unraveling these complex relationships may help managers identify and mitigate ecological thresholds that occur with increasing human land cover.

Food of freshwater drum in western Lake Erie

USGS Publications Warehouse

Bur, Michael T.

1982-01-01

The abundance of freshwater drum (Aplodinotus grunniens) suggests they play an important role in the Lake Erie ecosystem. Our analysis of freshwater drum digestive tracts and macrobenthic samples collected from western Lake Erie indicates that drum were selective feeders. Planktonic cladocerans and larval midges (Chironomidae) were the primary prey organisms eaten by drum. Young-of-the-year fed mostly on cladocerans, while yearling and older drum ate both cladocerans and midge larvae. Decapods, pelecypods, and fish were found only in the digestive tracts of drum longer than 250 mm. While the most abundant organisms in benthic samples were cladocerans (ephippial) and oligochaetes (89.5% by number), they constituted less than 1% of the diet. An evaluation of food selectivity, using Ivlev's index of electivity for benthic organisms, indicated that adult drum preferred midges to any other benthic food.

Bacterial community structure and function shift along a successional series of tidal flats in the Yellow River Delta

PubMed Central

Lv, Xiaofei; Ma, Bin; Yu, Junbao; Chang, Scott X.; Xu, Jianming; Li, Yunzhao; Wang, Guangmei; Han, Guangxuan; Bo, Guan; Chu, Xiaojing

2016-01-01

Coastal ecosystems play significant ecological and economic roles but are threatened and facing decline. Microbes drive various biogeochemical processes in coastal ecosystems. Tidal flats are critical components of coastal ecosystems; however, the structure and function of microbial communities in tidal flats are poorly understood. Here we investigated the seasonal variations of bacterial communities along a tidal flat series (subtidal, intertidal and supratidal flats) and the factors affecting the variations. Bacterial community composition and diversity were analyzed over four seasons by 16S rRNA genes using the Ion Torrent PGM platform. Bacterial community composition differed significantly along the tidal flat series. Bacterial phylogenetic diversity increased while phylogenetic turnover decreased from subtidal to supratidal flats. Moreover, the bacterial community structure differed seasonally. Canonical correspondence analysis identified salinity as a major environmental factor structuring the microbial community in the sediment along the successional series. Meanwhile, temperature and nitrite concentration were major drivers of seasonal microbial changes. Despite major compositional shifts, nitrogen, methane and energy metabolisms predicted by PICRUSt were inhibited in the winter. Taken together, this study indicates that bacterial community structure changed along the successional tidal flat series and provides new insights on the characteristics of bacterial communities in coastal ecosystems. PMID:27824160

Bacterial community structure and function shift along a successional series of tidal flats in the Yellow River Delta.

PubMed

Lv, Xiaofei; Ma, Bin; Yu, Junbao; Chang, Scott X; Xu, Jianming; Li, Yunzhao; Wang, Guangmei; Han, Guangxuan; Bo, Guan; Chu, Xiaojing

2016-11-08

Coastal ecosystems play significant ecological and economic roles but are threatened and facing decline. Microbes drive various biogeochemical processes in coastal ecosystems. Tidal flats are critical components of coastal ecosystems; however, the structure and function of microbial communities in tidal flats are poorly understood. Here we investigated the seasonal variations of bacterial communities along a tidal flat series (subtidal, intertidal and supratidal flats) and the factors affecting the variations. Bacterial community composition and diversity were analyzed over four seasons by 16S rRNA genes using the Ion Torrent PGM platform. Bacterial community composition differed significantly along the tidal flat series. Bacterial phylogenetic diversity increased while phylogenetic turnover decreased from subtidal to supratidal flats. Moreover, the bacterial community structure differed seasonally. Canonical correspondence analysis identified salinity as a major environmental factor structuring the microbial community in the sediment along the successional series. Meanwhile, temperature and nitrite concentration were major drivers of seasonal microbial changes. Despite major compositional shifts, nitrogen, methane and energy metabolisms predicted by PICRUSt were inhibited in the winter. Taken together, this study indicates that bacterial community structure changed along the successional tidal flat series and provides new insights on the characteristics of bacterial communities in coastal ecosystems.

Shifts in microbial communities in soil, rhizosphere and roots of two major crop systems under elevated CO2 and O3.

PubMed

Wang, Peng; Marsh, Ellen L; Ainsworth, Elizabeth A; Leakey, Andrew D B; Sheflin, Amy M; Schachtman, Daniel P

2017-11-03

Rising atmospheric concentrations of CO 2 and O 3 are key features of global environmental change. To investigate changes in the belowground bacterial community composition in response to elevated CO 2 and O 3 (eCO 2 and eO 3 ) the endosphere, rhizosphere and soil were sampled from soybeans under eCO 2 and maize under eO 3 . The maize rhizosphere and endosphere α-diversity was higher than soybean, which may be due to a high relative abundance of Rhizobiales. Only the rhizosphere microbiome composition of the soybeans changed in response to eCO 2 , associated with an increased abundance of nitrogen fixing microbes. In maize, the microbiome composition was altered by the genotype and linked to differences in root exudate profiles. The eO 3 treatment did not change the microbial communities in the rhizosphere, but altered the soil communities where hybrid maize was grown. In contrast to previous studies that focused exclusively on the soil, this study provides new insights into the effects of plant root exudates on the composition of the belowground microbiome in response to changing atmospheric conditions. Our results demonstrate that plant species and plant genotype were key factors driving the changes in the belowground bacterial community composition in agroecosystems that experience rising levels of atmospheric CO 2 and O 3 .

Effects of pyrite and sphalerite on population compositions, dynamics and copper extraction efficiency in chalcopyrite bioleaching process.

PubMed

Xiao, Yunhua; Liu, Xueduan; Dong, Weiling; Liang, Yili; Niu, Jiaojiao; Gu, Yabing; Ma, Liyuan; Hao, Xiaodong; Zhang, Xian; Xu, Zhen; Yin, Huaqun

2017-07-01

This study used an artificial microbial community with four known moderately thermophilic acidophiles (three bacteria including Acidithiobacillus caldus S1, Sulfobacillus thermosulfidooxidans ST and Leptospirillum ferriphilum YSK, and one archaea, Ferroplasma thermophilum L1) to explore the variation of microbial community structure, composition, dynamics and function (e.g., copper extraction efficiency) in chalcopyrite bioleaching (C) systems with additions of pyrite (CP) or sphalerite (CS). The community compositions and dynamics in the solution and on the ore surface were investigated by real-time quantitative PCR (qPCR). The results showed that the addition of pyrite or sphalerite changed the microbial community composition and dynamics dramatically during the chalcopyrite bioleaching process. For example, A. caldus (above 60%) was the dominant species at the initial stage in three groups, and at the middle stage, still dominated C group (above 70%), but it was replaced by L. ferriphilum (above 60%) in CP and CS groups; at the final stage, L. ferriphilum dominated C group, while F. thermophilum dominated CP group on the ore surface. Furthermore, the additions of pyrite or sphalerite both made the increase of redox potential (ORP) and the concentrations of Fe 3+ and H + , which would affect the microbial community compositions and copper extraction efficiency. Additionally, pyrite could enhance copper extraction efficiency (e.g., improving around 13.2% on day 6) during chalcopyrite bioleaching; on the contrary, sphalerite restrained it.

Bathymetric distribution patterns of Southern Ocean macrofaunal taxa: Bivalvia, Gastropoda, Isopoda and Polychaeta

NASA Astrophysics Data System (ADS)

Brandt, Angelika; Linse, Katrin; Schüller, Myriam

2009-11-01

The aim of this study is to compare the depth distributions of four major Southern Ocean macrobenthic epi- and infaunal taxa, the Bivalvia, Gastropoda, Isopoda, and Polychaeta, from subtidal to abyssal depth. All literature data up to summer 2008, as well as the unpublished data from the most recent ANDEEP I-III (Antarctic benthic deep-sea biodiversity: colonisation history and recent community patterns) expeditions to the Southern Ocean deep sea are included in the analysis. Benthic invertebrates in the Southern Ocean are known for their wide bathymetric ranges. We analysed the distributions of four of the most abundant and species-rich taxa from intertidal to abyssal (5200 m) depths in depth zones of 100 m. The depth distributions of three macrofaunal classes (Bivalvia, Gastropoda, Polychaeta) and one order (Isopoda) showed distinct differences. In the case of bivalves, gastropods and polychaetes, the number of species per depth zone decreased from the shelf to the slope at around 1000 m depth and then showed stable low numbers. The isopods showed the opposite trend; they were less species rich in the upper 1000 m but increased in species numbers from the slope to bathyal and abyssal depths. Depth ranges of families of the studied taxa (Bivalvia: 31 families, Gastropoda: 60, Isopoda: 32, and Polychaeta: 46 families) were compiled and illustrated. At present vast areas of the deep sea in the Southern Ocean remain unexplored and species accumulation curves showed that only a fraction of the species have been discovered to date. We anticipate that further investigations will greatly increase the number of species known in the Southern Ocean deep sea.

An integrated approach to the assessment of the eastern Gulf of Finland health: A case study of coastal habitats

NASA Astrophysics Data System (ADS)

Berezina, Nadezhda A.; Gubelit, Yulia I.; Polyak, Yulia M.; Sharov, Andrey N.; Kudryavtseva, Valentina A.; Lubimtsev, Vasily A.; Petukhov, Vasily A.; Shigaeva, Tatyana D.

2017-07-01

Eutrophication and chemical pollution are typical threats to the ecosystem of the Gulf of Finland. This paper aims to make a comprehensive assessment of the environmental status of coastal habitats in the easternmost Gulf of Finland (Neva River estuary) by using different physical, chemical and biotic variables to find cost-effective indicators for further monitoring. During summers of 2014 and 2015 we measured water salinity, phosphorus (eutrophication marker), biomass of harmful filamentous macroalgae (coastline hypoxia inductor), sediment hazardous substances (trace metals, polycyclic aromatic hydrocarbons) and other concomitant characters at 12 sites in the gulf. Also, we analyzed responses of the phytoplankton and benthic organisms, including metal-tolerant and hydrocarbon-oxidizing bacteria, meio- and macrofauna, to these factors. We compared the indicative sensitivity and efficiency of several well-known biotic indices and methods, including a Saprobity system (basing on phytoplankton), Raffaelli and Mason index (meiobenthos), and two macrobenthic derived indices (Goodnight-Whitley Index and Benthic Quality Index). Also, we applied a new index - the embryo malformation frequency in benthic amphipods. To estimate the level of bottom hypoxia induced by the macroalgae blooms, we measured the algal cover and thickness of the algal mats. To verify our assessment, we tested correlations between all used variables. Biotic communities of these areas are subjected to high phosphorus and macroalgae blooms, toxic pollution, water salinity and other factors. We concluded that environmental state of coastal habitats at several southern sites (in Koporskaya Bay and near the developing port Bronka) and near port Primorsk in the north was bad, while the state of the rest of sites was moderate or good. The integrated approach for the assessment may be recommended for monitoring programs as an important tool for studying human-mediated and other effects on brackishwater coastal environments.

Sensitivity of macrobenthic secondary production to trawling in the English sector of the Greater North Sea: A biological trait approach

NASA Astrophysics Data System (ADS)

Bolam, S. G.; Coggan, R. C.; Eggleton, J.; Diesing, M.; Stephens, D.

2014-01-01

Demersal trawling constitutes the most significant human impact on both the structure and functioning of coastal seabed fauna. While a number of studies have assessed the impacts of trawling on faunal community structure and the degree to which different taxa are vulnerable to trawling, few have focused on how these impacts affect important ecological functions of the seabed. In this study, we use biological trait analysis (BTA) to assess the relative sensitivity of benthic macrofauna to trawling, in both the short- and long-term, and use this information to describe the spatial variation in sensitivity of secondary production for the Greater North Sea (GNS). Within the GNS, estimates of total production varied by almost three orders of magnitude, from 1.66 kJ m- 2 y- 1 to 968.9 kJ m- 2 y- 1. Large-scale patterns were observed in the proportion of secondary production derived from trawling-sensitive taxa. In the southern North Sea, total production is predominantly governed by taxa with low sensitivity to trawling, whereas production is relatively trawling-sensitive in the northern North Sea and western English Channel. In general, the more sensitive and productive regions are associated with poorly-sorted, gravelly or muddy sediments, while the less sensitive and less productive regions are associated with well-sorted, sandy substrates. These relationships between production sensitivity and environmental features are primarily due to variations in long-term recovery; total production of most assemblages is highly sensitive to the direct impacts of trawling. We discuss the implications of these findings for management 1decisions to improve the environmental sustainability of trawling.

Diptera community composition and succession following habitat disturbance by wildfire

Treesearch

Michael A. Patten; Jutta C. Burger; Thomas R. Prentice; John T. Rotenberry; Richard A. Redak

2005-01-01

Both biogeographic (for example, latitude) and local (for example, soil) processes determine composition and succession of biotic communities. Postfire succession of vegetation has been studied intensively in chaparral and coastal sage scrub. Fewer studies have examined postfire succession of animals, even though fires can drastically alter their abundance and...

Composition Instructors' Interactions with Classroom Discourse Communities: A Qualitative Study

ERIC Educational Resources Information Center

Winterberg, Sarah Griffith

2017-01-01

This study offered insight on the intermingling of discourse communities in the learning environment by examining experiences of composition instructors from a regional Southern university and their reflections of teaching students who struggled to navigate from home discourse to academic discourse. Merriam's basic qualitative research design…

Sensitivity of grassland plant community composition to spatial vs. temporal variation in precipitation

USDA-ARS?s Scientific Manuscript database

Climate gradients shape spatial variation in the richness and composition of plant communities. Given future predicted changes in climate means and variability, and likely regional variation in the magnitudes of these changes, it is important to determine how temporal variation in climate influences...

SIMILARITY OF PARTICLE-ASSOCIATED AND FREE-LIVING BACTERIAL COMMUNITIES IN NORTHERN SAN FRANCISCO BAY, CALIFORNIA

EPA Science Inventory

We used denaturing gradient gel electrophoresis (DGGE) of 16S rDNA PCR amplicons to analyze the composition of Bacteria communities in samples collected during the summer, low flow season from northern San Francisco Bay, California. There were clear compositional differences in ...

Competition from below for light and nutrients shifts productivity among tropical species

Treesearch

J. J. Ewel; M. J. Mazzarino

2008-01-01

Chance events such as seed dispersal determine the potential composition of plant communities, but the eventual assemblage is determined in large part by subsequent interactions among species. Postcolonization sorting also affects the ultimate composition of communities assembled by people for restoration, horticulture, or conservation. Thus,...

Influence of fertilisation regimes on a nosZ-containing denitrifying community in a rice paddy soil.

PubMed

Chen, Zhe; Hou, Haijun; Zheng, Yan; Qin, Hongling; Zhu, Yijun; Wu, Jinshui; Wei, Wenxue

2012-03-30

Denitrification is a microbial process that has received considerable attention during the past decade since it can result in losses of added nitrogen fertilisers from agricultural soils. Paddy soil has been known to have strong denitrifying activity, but the denitrifying microorganisms responsible for fertilisers in paddy soil are not well known. The objective of this study was to explore the impacts of 17-year application of inorganic and organic fertiliser (rice straw) on the abundance and composition of a nosZ-denitrifier community in paddy soil. Soil samples were collected from CK plots (no fertiliser), N (nitrogen fertiliser), NPK (nitrogen, phosphorus and potassium fertilisers) and NPK + OM (NPK plus organic matter). The nitrous oxide reductase gene (nosZ) community composition was analysed using terminal restriction fragment length polymorphism, and the abundance was determined by quantitative PCR. Both the largest abundance of nosZ-denitrifier and the highest potential denitrifying activity (PDA) occurred in the NPK + OM treatment with about four times higher than that in the CK and two times higher than that in the N and NPK treatments (no significant difference). Denitrifying community composition differed significantly among fertilisation treatments except for the comparison between CK and N treatments. Of the measured abiotic factors, total organic carbon was significantly correlated with the observed differences in community composition and abundance (P < 0.01 by Monte Carlo permutation). This study shows that the addition of different fertilisers affects the size and composition of the nosZ-denitrifier community in paddy soil. Copyright © 2011 Society of Chemical Industry.

Site and plant species are important determinants of the Methylobacterium community composition in the plant phyllosphere.

PubMed

Knief, Claudia; Ramette, Alban; Frances, Lisa; Alonso-Blanco, Carlos; Vorholt, Julia A

2010-06-01

The plant phyllosphere constitutes a habitat for numerous microorganisms; among them are members of the genus Methylobacterium. Owing to the ubiquitous occurrence of methylobacteria on plant leaves, they represent a suitable target for studying plant colonization patterns. The influence of the factor site, host plant species, time and the presence of other phyllosphere bacteria on Methylobacterium community composition and population size were evaluated in this study. Leaf samples were collected from Arabidopsis thaliana or Medicago truncatula plants and from the surrounding plant species at several sites. The abundance of cultivable Methylobacterium clearly correlated with the abundance of other phyllosphere bacteria, suggesting that methylobacteria constitute a considerable and rather stable fraction of the phyllosphere microbiota under varying environmental conditions. Automated ribosomal intergenic spacer analysis (ARISA) was applied to characterize the Methylobacterium community composition and showed the presence of similar communities on A. thaliana plants at most sites in 2 consecutive years of sampling. A substantial part of the observed variation in the community composition was explained by site and plant species, especially in the case of the plants collected at the Arabidopsis sites (50%). The dominating ARISA peaks that were detected on A. thaliana plants were found on other plant species grown at the same site, whereas some different peaks were detected on A. thaliana plants from other sites. This indicates that site-specific factors had a stronger impact on the Methylobacterium community composition than did plant-specific factors and that the Methylobacterium-plant association is not highly host plant species specific.

Comparison of microbial taxonomic and functional shift pattern along contamination gradient.

PubMed

Ren, Youhua; Niu, Jiaojiao; Huang, Wenkun; Peng, Deliang; Xiao, Yunhua; Zhang, Xian; Liang, Yili; Liu, Xueduan; Yin, Huaqun

2016-06-14

The interaction mechanism between microbial communities and environment is a key issue in microbial ecology. Microbial communities usually change significantly under environmental stress, which has been studied both phylogenetically and functionally, however which method is more effective in assessing the relationship between microbial communities shift and environmental changes still remains controversial. By comparing the microbial taxonomic and functional shift pattern along heavy metal contamination gradient, we found that both sedimentary composition and function shifted significantly along contamination gradient. For example, the relative abundance of Geobacter and Fusibacter decreased along contamination gradient (from high to low), while Janthinobacterium and Arthrobacter increased their abundances. Most genes involved in heavy metal resistance (e.g., metc, aoxb and mer) showed higher intensity in sites with higher concentration of heavy metals. Comparing the two shift patterns, there were correlations between them, because functional and phylogenetic β-diversities were significantly correlated, and many heavy metal resistance genes were derived from Geobacter, explaining their high abundance in heavily contaminated sites. However, there was a stronger link between functional composition and environmental drivers, while stochasticity played an important role in formation and succession of phylogenetic composition demonstrated by null model test. Overall our research suggested that the responses of functional traits depended more on environmental changes, while stochasticity played an important role in formation and succession of phylogenetic composition for microbial communities. So profiling microbial functional composition seems more appropriate to study the relationship between microbial communities and environment, as well as explore the adaptation and remediation mechanism of microbial communities to heavy metal contamination.

Changes in soil bacterial community structure with increasing disturbance frequency.

PubMed

Kim, Mincheol; Heo, Eunjung; Kang, Hojeong; Adams, Jonathan

2013-07-01

Little is known of the responsiveness of soil bacterial community structure to disturbance. In this study, we subjected a soil microcosm to physical disturbance, sterilizing 90 % of the soil volume each time, at a range of frequencies. We analysed the bacterial community structure using 454 pyrosequencing of the 16S rRNA gene. Bacterial diversity was found to decline with the increasing disturbance frequencies. Total bacterial abundance was, however, higher at intermediate and high disturbance frequencies, compared to low and no-disturbance treatments. Changing disturbance frequency also led to changes in community composition, with changes in overall species composition and some groups becoming abundant at the expense of others. Some phylogenetic groups were found to be relatively more disturbance-sensitive or tolerant than others. With increasing disturbance frequency, phylogenetic species variability (an index of community composition) itself became more variable from one sample to another, suggesting a greater role of chance in community composition. Compared to the tightly clustered community of the original undisturbed soil, in all the aged disturbed soils the lists of most abundant operational taxonomic units (OTUs) in each replicate were very different, suggesting a possible role of stochasticity in resource colonization and exploitation in the aged and disturbed soils. For example, colonization may be affected by whichever localized concentrations of bacterial populations happen to survive the last disturbance and be reincorporated in abundance into each pot. Overall, it appears that the soil bacterial community is very sensitive to physical disturbance, losing diversity, and that certain groups have identifiable 'high disturbance' vs. 'low disturbance' niches.

Community composition of ammonia-oxidizing archaea from surface and anoxic depths of oceanic oxygen minimum zones.

PubMed

Peng, Xuefeng; Jayakumar, Amal; Ward, Bess B

2013-01-01

Ammonia-oxidizing archaea (AOA) have been reported at high abundance in much of the global ocean, even in environments, such as pelagic oxygen minimum zones (OMZs), where conditions seem unlikely to support aerobic ammonium oxidation. Due to the lack of information on any potential alternative metabolism of AOA, the AOA community composition might be expected to differ between oxic and anoxic environments. This hypothesis was tested by evaluating AOA community composition using a functional gene microarray that targets the ammonia monooxygenase gene subunit A (amoA). The relationship between environmental parameters and the biogeography of the Arabian Sea and the Eastern Tropical South Pacific (ETSP) AOA assemblages was investigated using principal component analysis (PCA) and redundancy analysis (RDA). In both the Arabian Sea and the ETSP, AOA communities within the core of the OMZ were not significantly different from those inhabiting the oxygenated surface waters above the OMZ. The AOA communities in the Arabian Sea were significantly different from those in the ETSP. In both oceans, the abundance of archaeal amoA gene in the core of the OMZ was higher than that in the surface waters. Our results indicate that AOA communities are distinguished by their geographic origin. RDA suggested that temperature (higher in the Arabian Sea than in the ETSP) was the main factor that correlated with the differences between the AOA communities. Physicochemical properties that characterized the different environments of the OMZ and surface waters played a less important role, than did geography, in shaping the AOA community composition.

Does Tropical Forest Fragmentation Increase Long-Term Variability of Butterfly Communities?

PubMed Central

Leidner, Allison K.; Haddad, Nick M.; Lovejoy, Thomas E.

2010-01-01

Habitat fragmentation is a major driver of biodiversity loss. Yet, the overall effects of fragmentation on biodiversity may be obscured by differences in responses among species. These opposing responses to fragmentation may be manifest in higher variability in species richness and abundance (termed hyperdynamism), and in predictable changes in community composition. We tested whether forest fragmentation causes long-term hyperdynamism in butterfly communities, a taxon that naturally displays large variations in species richness and community composition. Using a dataset from an experimentally fragmented landscape in the central Amazon that spanned 11 years, we evaluated the effect of fragmentation on changes in species richness and community composition through time. Overall, adjusted species richness (adjusted for survey duration) did not differ between fragmented forest and intact forest. However, spatial and temporal variation of adjusted species richness was significantly higher in fragmented forests relative to intact forest. This variation was associated with changes in butterfly community composition, specifically lower proportions of understory shade species and higher proportions of edge species in fragmented forest. Analysis of rarefied species richness, estimated using indices of butterfly abundance, showed no differences between fragmented and intact forest plots in spatial or temporal variation. These results do not contradict the results from adjusted species richness, but rather suggest that higher variability in butterfly adjusted species richness may be explained by changes in butterfly abundance. Combined, these results indicate that butterfly communities in fragmented tropical forests are more variable than in intact forest, and that the natural variability of butterflies was not a buffer against the effects of fragmentation on community dynamics. PMID:20224772

Shifts in the bacterial community composition along deep soil profiles in monospecific and mixed stands of Eucalyptus grandis and Acacia mangium.

PubMed

Pereira, Arthur Prudêncio de Araujo; Andrade, Pedro Avelino Maia de; Bini, Daniel; Durrer, Ademir; Robin, Agnès; Bouillet, Jean Pierre; Andreote, Fernando Dini; Cardoso, Elke Jurandy Bran Nogueira

2017-01-01

Our knowledge of the rhizosphere bacterial communities in deep soils and the role of Eucalyptus and Acacia on the structure of these communities remains very limited. In this study, we targeted the bacterial community along a depth profile (0 to 800 cm) and compared community structure in monospecific or mixed plantations of Acacia mangium and Eucalyptus grandis. We applied quantitative PCR (qPCR) and sequence the V6 region of the 16S rRNA gene to characterize composition of bacterial communities. We identified a decrease in bacterial abundance with soil depth, and differences in community patterns between monospecific and mixed cultivations. Sequence analysis indicated a prevalent effect of soil depth on bacterial communities in the mixed plant cultivation system, and a remarkable differentiation of bacterial communities in areas solely cultivated with Eucalyptus. The groups most influenced by soil depth were Proteobacteria and Acidobacteria (more frequent in samples between 0 and 300 cm). The predominant bacterial groups differentially displayed in the monospecific stands of Eucalyptus were Firmicutes and Proteobacteria. Our results suggest that the addition of an N2-fixing tree in a monospecific cultivation system modulates bacterial community composition even at a great depth. We conclude that co-cultivation systems may represent a key strategy to improve soil resources and to establish more sustainable cultivation of Eucalyptus in Brazil.

Bacterial diversity and community composition from seasurface to subseafloor.

PubMed

Walsh, Emily A; Kirkpatrick, John B; Rutherford, Scott D; Smith, David C; Sogin, Mitchell; D'Hondt, Steven

2016-04-01

We investigated compositional relationships between bacterial communities in the water column and those in deep-sea sediment at three environmentally distinct Pacific sites (two in the Equatorial Pacific and one in the North Pacific Gyre). Through pyrosequencing of the v4-v6 hypervariable regions of the 16S ribosomal RNA gene, we characterized 450,104 pyrotags representing 29,814 operational taxonomic units (OTUs, 97% similarity). Hierarchical clustering and non-metric multidimensional scaling partition the samples into four broad groups, regardless of geographic location: a photic-zone community, a subphotic community, a shallow sedimentary community and a subseafloor sedimentary community (⩾1.5 meters below seafloor). Abundance-weighted community compositions of water-column samples exhibit a similar trend with depth at all sites, with successive epipelagic, mesopelagic, bathypelagic and abyssopelagic communities. Taxonomic richness is generally highest in the water-column O2 minimum zone and lowest in the subseafloor sediment. OTUs represented by abundant tags in the subseafloor sediment are often present but represented by few tags in the water column, and represented by moderately abundant tags in the shallow sediment. In contrast, OTUs represented by abundant tags in the water are generally absent from the subseafloor sediment. These results are consistent with (i) dispersal of marine sedimentary bacteria via the ocean, and (ii) selection of the subseafloor sedimentary community from within the community present in shallow sediment.

Shifts in the bacterial community composition along deep soil profiles in monospecific and mixed stands of Eucalyptus grandis and Acacia mangium

PubMed Central

de Andrade, Pedro Avelino Maia; Bini, Daniel; Durrer, Ademir; Robin, Agnès; Bouillet, Jean Pierre; Andreote, Fernando Dini; Cardoso, Elke Jurandy Bran Nogueira

2017-01-01

Our knowledge of the rhizosphere bacterial communities in deep soils and the role of Eucalyptus and Acacia on the structure of these communities remains very limited. In this study, we targeted the bacterial community along a depth profile (0 to 800 cm) and compared community structure in monospecific or mixed plantations of Acacia mangium and Eucalyptus grandis. We applied quantitative PCR (qPCR) and sequence the V6 region of the 16S rRNA gene to characterize composition of bacterial communities. We identified a decrease in bacterial abundance with soil depth, and differences in community patterns between monospecific and mixed cultivations. Sequence analysis indicated a prevalent effect of soil depth on bacterial communities in the mixed plant cultivation system, and a remarkable differentiation of bacterial communities in areas solely cultivated with Eucalyptus. The groups most influenced by soil depth were Proteobacteria and Acidobacteria (more frequent in samples between 0 and 300 cm). The predominant bacterial groups differentially displayed in the monospecific stands of Eucalyptus were Firmicutes and Proteobacteria. Our results suggest that the addition of an N2-fixing tree in a monospecific cultivation system modulates bacterial community composition even at a great depth. We conclude that co-cultivation systems may represent a key strategy to improve soil resources and to establish more sustainable cultivation of Eucalyptus in Brazil. PMID:28686690

Top predators affect the composition of naive protist communities, but only in their early-successional stage.

PubMed

Zander, Axel; Gravel, Dominique; Bersier, Louis-Félix; Gray, Sarah M

2016-02-01

Introduced top predators have the potential to disrupt community dynamics when prey species are naive to predation. The impact of introduced predators may also vary depending on the stage of community development. Early-succession communities are likely to have small-bodied and fast-growing species, but are not necessarily good at defending against predators. In contrast, late-succession communities are typically composed of larger-bodied species that are more predator resistant relative to small-bodied species. Yet, these aspects are greatly neglected in invasion studies. We therefore tested the effect of top predator presence on early- and late-succession communities that were either naive or non-naive to top predators. We used the aquatic community held within the leaves of Sarracenia purpurea. In North America, communities have experienced the S. purpurea top predator and are therefore non-naive. In Europe, this predator is not present and its niche has not been filled, making these communities top-predator naive. We collected early- and late-succession communities from two non-naive and two naive sites, which are climatically similar. We then conducted a common-garden experiment, with and without the presence of the top predator, in which we recorded changes in community composition, body size spectra, bacterial density, and respiration. We found that the top predator had no statistical effect on global measures of community structure and functioning. However, it significantly altered protist composition, but only in naive, early-succession communities, highlighting that the state of community development is important for understanding the impact of invasion.

Use of in-field bioreactors demonstrate groundwater filtration influences planktonic bacterial community assembly, but not biofilm composition

DOE PAGES

Christensen, Geoffrey A.; Moon, Ji Won; Veach, Allison M.; ...

2018-03-20

Using in-field bioreactors, we investigated the influence of exogenous microorganisms in groundwater planktonic and biofilm microbial communities as part of the Integrated Field Research Challenge (IFRC). After an acclimation period with source groundwater, bioreactors received either filtered (0.22 μM filter) or unfiltered well groundwater in triplicate and communities were tracked routinely for 23 days after filtration was initiated. To address geochemical influences, the planktonic phase was assayed periodically for protein, organic acids, physico-/geochemical measurements and bacterial community (via 16S rRNA gene sequencing), while biofilms (i.e. microbial growth on sediment coupons) were targeted for bacterial community composition at the completion ofmore » the experiment (23 d). Based on Bray-Curtis distance, planktonic bacterial community composition varied temporally and between treatments (filtered, unfiltered bioreactors). Notably, filtration led to an increase in the dominant genus, Zoogloea relative abundance over time within the planktonic community, while remaining relatively constant when unfiltered. At day 23, biofilm communities were more taxonomically and phylogenetically diverse and substantially different from planktonic bacterial communities; however, the biofilm bacterial communities were similar regardless of filtration. These results suggest that although planktonic communities were sensitive to groundwater filtration, bacterial biofilm communities were stable and resistant to filtration. Bioreactors are useful tools in addressing questions pertaining to microbial community assembly and succession. These data provide a first step in understanding how an extrinsic factor, such as a groundwater inoculation and flux of microbial colonizers, impact how microbial communities assemble in environmental systems.« less

Use of in-field bioreactors demonstrate groundwater filtration influences planktonic bacterial community assembly, but not biofilm composition

PubMed Central

Moon, JiWon; Veach, Allison M.; Mosher, Jennifer J.; Wymore, Ann M.; van Nostrand, Joy D.; Zhou, Jizhong; Hazen, Terry C.; Arkin, Adam P.; Elias, Dwayne A.

2018-01-01

Using in-field bioreactors, we investigated the influence of exogenous microorganisms in groundwater planktonic and biofilm microbial communities as part of the Integrated Field Research Challenge (IFRC). After an acclimation period with source groundwater, bioreactors received either filtered (0.22 μM filter) or unfiltered well groundwater in triplicate and communities were tracked routinely for 23 days after filtration was initiated. To address geochemical influences, the planktonic phase was assayed periodically for protein, organic acids, physico-/geochemical measurements and bacterial community (via 16S rRNA gene sequencing), while biofilms (i.e. microbial growth on sediment coupons) were targeted for bacterial community composition at the completion of the experiment (23 d). Based on Bray-Curtis distance, planktonic bacterial community composition varied temporally and between treatments (filtered, unfiltered bioreactors). Notably, filtration led to an increase in the dominant genus, Zoogloea relative abundance over time within the planktonic community, while remaining relatively constant when unfiltered. At day 23, biofilm communities were more taxonomically and phylogenetically diverse and substantially different from planktonic bacterial communities; however, the biofilm bacterial communities were similar regardless of filtration. These results suggest that although planktonic communities were sensitive to groundwater filtration, bacterial biofilm communities were stable and resistant to filtration. Bioreactors are useful tools in addressing questions pertaining to microbial community assembly and succession. These data provide a first step in understanding how an extrinsic factor, such as a groundwater inoculation and flux of microbial colonizers, impact how microbial communities assemble in environmental systems. PMID:29558522

Use of in-field bioreactors demonstrate groundwater filtration influences planktonic bacterial community assembly, but not biofilm composition

DOE Office of Scientific and Technical Information (OSTI.GOV)

Christensen, Geoffrey A.; Moon, Ji Won; Veach, Allison M.

Using in-field bioreactors, we investigated the influence of exogenous microorganisms in groundwater planktonic and biofilm microbial communities as part of the Integrated Field Research Challenge (IFRC). After an acclimation period with source groundwater, bioreactors received either filtered (0.22 μM filter) or unfiltered well groundwater in triplicate and communities were tracked routinely for 23 days after filtration was initiated. To address geochemical influences, the planktonic phase was assayed periodically for protein, organic acids, physico-/geochemical measurements and bacterial community (via 16S rRNA gene sequencing), while biofilms (i.e. microbial growth on sediment coupons) were targeted for bacterial community composition at the completion ofmore » the experiment (23 d). Based on Bray-Curtis distance, planktonic bacterial community composition varied temporally and between treatments (filtered, unfiltered bioreactors). Notably, filtration led to an increase in the dominant genus, Zoogloea relative abundance over time within the planktonic community, while remaining relatively constant when unfiltered. At day 23, biofilm communities were more taxonomically and phylogenetically diverse and substantially different from planktonic bacterial communities; however, the biofilm bacterial communities were similar regardless of filtration. These results suggest that although planktonic communities were sensitive to groundwater filtration, bacterial biofilm communities were stable and resistant to filtration. Bioreactors are useful tools in addressing questions pertaining to microbial community assembly and succession. These data provide a first step in understanding how an extrinsic factor, such as a groundwater inoculation and flux of microbial colonizers, impact how microbial communities assemble in environmental systems.« less

Carbon availability structures microbial community composition and function in soil aggregate fractions

NASA Astrophysics Data System (ADS)

Hofmockel, K. S.; Bach, E.; Williams, R.; Howe, A.

2014-12-01

Identifying the microbial metabolic pathways that most strongly influence ecosystem carbon (C) cycling requires a deeper understanding of the availability and accessibility of microbial substrates. A first step towards this goal is characterizing the relationships between microbial community function and soil C chemistry in a field context. For this perspective, soil aggregate fractions can be used as model systems that scale between microbe-substrate interactions and ecosystem C cycling and storage. The present study addresses how physicochemical variation among soil aggregate fractions influences the composition and functional potential of C cycling microbial communities. We report variation across soil aggregates using plot scale biological replicates from biofuel agroecosystems (fertilized, reconstructed, tallgrass prairie). Our results suggest that C and nitrogen (N) chemistry significantly differ among aggregate fractions. This leads to variation in microbial community composition, which was better characterized among aggregates than by using the whole soil. In fact by considering soil aggregation, we were able to characterize almost 2000 more taxa than whole soil alone, resulting in 65% greater community richness. Availability of C and N strongly influenced the composition of microbial communities among soil aggregate fractions. The normalized abundance of microbial functional guilds among aggregate fractions correlated with C and N chemistry, as did functional potential, measured by extracellular enzyme activity. Metagenomic results suggest that soil aggregate fractions select for functionally distinct microbial communities, which may significantly influence decomposition and soil C storage. Our study provides support for the premise that integration of soil aggregate chemistry, especially microaggregates that have greater microbial richness and occur at spatial scales relevant to microbial community functioning, may be necessary to understand the role of microbial communities on terrestrial C and N cycling.

Ecosystem and Community Responses to Rainfall Manipulations in Shrublands Depends on Dominant Vegetation Cover

NASA Astrophysics Data System (ADS)

Esch, E. H.; Lipson, D.; Kim, J. B.; Cleland, E. E.

2014-12-01

Southern California is predicted to face decreasing precipitation with increased interannual variability in the coming century. Native shrublands in this area are increasingly invaded by exotic annual grasses, though invasion dynamics can vary by rainfall scenario, with wet years generally associated with high invasion pressure. Interplay between rainfall and invasion scenarios can influence carbon stocks and community composition. Here we asked how invasion alters ecosystem and community responses in drought versus high rainfall scenarios, as quantified by community identity, biomass production, and the normalized difference vegetation index (NDVI). To do this, we performed a rainfall manipulation experiment with paired plots dominated either by native shrubs or exotic herbaceous species, subjected to treatments of 50%, 100%, or 150% of ambient rainfall. The study site was located in a coastal sage scrub ecosystem, with patches dominated by native shrubs and exotic grasses located in San Diego County, USA. During two growing seasons, we found that native, herbaceous biomass production was significantly affected by rainfall treatment (p<0.05 for both years), though was not affected by dominant community composition. Photosynthetic biomass production of shrub species also varied by treatment (p=0.035). Exotic biomass production showed a significant interaction between dominant community composition and rainfall treatment, and both individual effects (p<0.001 for all). NDVI showed similar results, but also indicated the importance of rainfall timing on overall biomass production between years. Community composition data showed certain species, of both native and exotic identities, segregating by treatment. These results indicate that exotic species are more sensitive to rainfall, and that increased rainfall may promote greater carbon storage in annual dominated communities when compared to shrub dominated communities in high rainfall years, but with drought, this trend is reversed.

Successive DNA extractions improve characterization of soil microbial communities

PubMed Central

de Hollander, Mattias; Smidt, Hauke; van Veen, Johannes A.

2017-01-01

Currently, characterization of soil microbial communities relies heavily on the use of molecular approaches. Independently of the approach used, soil DNA extraction is a crucial step, and success of downstream procedures will depend on how well DNA extraction was performed. Often, studies describing and comparing soil microbial communities are based on a single DNA extraction, which may not lead to a representative recovery of DNA from all organisms present in the soil. The use of successive DNA extractions might improve soil microbial characterization, but the benefit of this approach has only been limitedly studied. To determine whether successive DNA extractions of the same soil sample would lead to different observations in terms of microbial abundance and community composition, we performed three successive extractions, with two widely used commercial kits, on a range of clay and sandy soils. Successive extractions increased DNA yield considerably (1–374%), as well as total bacterial and fungal abundances in most of the soil samples. Analysis of the 16S and 18S ribosomal RNA genes using 454-pyrosequencing, revealed that microbial community composition (taxonomic groups) observed in the successive DNA extractions were similar. However, successive DNA extractions did reveal several additional microbial groups. For some soil samples, shifts in microbial community composition were observed, mainly due to shifts in relative abundance of a number of microbial groups. Our results highlight that performing successive DNA extractions optimize DNA yield, and can lead to a better picture of overall community composition. PMID:28168105

Shifts in microbial community composition following surface application of dredged river sediments.

PubMed

Baniulyte, Dovile; Favila, Emmanuel; Kelly, John J

2009-01-01

Sediment input to the Illinois River has drastically decreased river depth and reduced habitats for aquatic organisms. Dredging is being used to remove sediment from the Illinois River, and the dredged sediment is being applied to the surface of a brownfield site in Chicago with the goal of revegetating the site. In order to determine the effects of this drastic habitat change on sediment microbial communities, we examined sediment physical, chemical, and microbial characteristics at the time of sediment application to the soil surface as well as 1 and 2 years after application. Microbial community biomass was determined by measurement of lipid phosphate. Microbial community composition was assessed using phospholipid fatty acid (PLFA) analysis, terminal restriction fragment length polymorphism (T-RFLP) analysis of 16S rRNA genes, and clone library sequencing of 16S rRNA genes. Results indicated that the moisture content, organic carbon, and total nitrogen content of the sediment all decreased over time. Total microbial biomass did not change over the course of the study, but there were significant changes in the composition of the microbial communities. PLFA analysis revealed relative increases in fungi, actinomycetes, and Gram positive bacteria. T-RFLP analysis indicated a significant shift in bacterial community composition within 1 year of application, and clone library analysis revealed relative increases in Proteobacteria, Gemmatimonadetes, and Bacteriodetes and relative decreases in Acidobacteria, Spirochaetes, and Planctomycetes. These results provide insight into microbial community shifts following land application of dredged sediment.

Microbial biodiversity in glacier-fed streams

PubMed Central

Wilhelm, Linda; Singer, Gabriel A; Fasching, Christina; Battin, Tom J; Besemer, Katharina

2013-01-01

While glaciers become increasingly recognised as a habitat for diverse and active microbial communities, effects of their climate change-induced retreat on the microbial ecology of glacier-fed streams remain elusive. Understanding the effect of climate change on microorganisms in these ecosystems is crucial given that microbial biofilms control numerous stream ecosystem processes with potential implications for downstream biodiversity and biogeochemistry. Here, using a space-for-time substitution approach across 26 Alpine glaciers, we show how microbial community composition and diversity, based on 454-pyrosequencing of the 16S rRNA gene, in biofilms of glacier-fed streams may change as glaciers recede. Variations in streamwater geochemistry correlated with biofilm community composition, even at the phylum level. The most dominant phyla detected in glacial habitats were Proteobacteria, Bacteroidetes, Actinobacteria and Cyanobacteria/chloroplasts. Microorganisms from ice had the lowest α diversity and contributed marginally to biofilm and streamwater community composition. Rather, streamwater apparently collected microorganisms from various glacial and non-glacial sources forming the upstream metacommunity, thereby achieving the highest α diversity. Biofilms in the glacier-fed streams had intermediate α diversity and species sorting by local environmental conditions likely shaped their community composition. α diversity of streamwater and biofilm communities decreased with elevation, possibly reflecting less diverse sources of microorganisms upstream in the catchment. In contrast, β diversity of biofilms decreased with increasing streamwater temperature, suggesting that glacier retreat may contribute to the homogenisation of microbial communities among glacier-fed streams. PMID:23486246

Land-use history alters contemporary insect herbivore community composition and decouples plant-herbivore relationships

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hahn, Philip G.; Orrock, John L.

1. Past land use can create altered soil conditions and plant communities that persist for decades, although the effects of these altered conditions on consumers are rarely investigated. 2. Using a large-scale field study at 36 sites in longleaf pine (Pinus palustris) woodlands, we examined whether historic agricultural land use leads to differences in the abundance and community composition of insect herbivores (grasshoppers, families Acrididae and Tettigoniidae). 3. We measured the cover of six plant functional groups and several environmental variables to determine whether historic agricultural land use affects the relationships between plant cover or environmental conditions and grasshopper assemblages.more » 4. Land-use history had taxa-specific effects and interacted with herbaceous plant cover to alter grasshopper abundances, leading to significant changes in community composition. Abundance of most grasshopper taxa increased with herbaceous cover in woodlands with no history of agriculture, but there was no relationship in post-agricultural woodlands. We also found that grasshopper abundance was negatively correlated with leaf litter cover. Soil hardness was greater in post-agricultural sites (i.e. more compacted) and was associated with grasshopper community composition. Both herbaceous cover and leaf litter cover are influenced by fire frequency, suggesting a potential indirect role of fire on grasshopper assemblages. 5. Our results demonstrate that historic land use may create persistent differences in the composition of grasshopper assemblages, while contemporary disturbances (e.g. prescribed fire) may be important for determining the abundance of grasshoppers, largely through the effect of fire on plants and leaf litter. Therefore, our results suggest that changes in the contemporary management regimes (e.g. increasing prescribed fire) may not be sufficient to shift the structure of grasshopper communities in post-agricultural sites towards communities in nonagricultural habitats. Rather, repairing degraded soil conditions and restoring plant communities are likely necessary for restoring grasshopper assemblages in post-agricultural woodlands.« less

Land-use history alters contemporary insect herbivore community composition and decouples plant-herbivore relationships

DOE PAGES

Hahn, Philip G.; Orrock, John L.

2014-11-23

1. Past land use can create altered soil conditions and plant communities that persist for decades, although the effects of these altered conditions on consumers are rarely investigated. 2. Using a large-scale field study at 36 sites in longleaf pine (Pinus palustris) woodlands, we examined whether historic agricultural land use leads to differences in the abundance and community composition of insect herbivores (grasshoppers, families Acrididae and Tettigoniidae). 3. We measured the cover of six plant functional groups and several environmental variables to determine whether historic agricultural land use affects the relationships between plant cover or environmental conditions and grasshopper assemblages.more » 4. Land-use history had taxa-specific effects and interacted with herbaceous plant cover to alter grasshopper abundances, leading to significant changes in community composition. Abundance of most grasshopper taxa increased with herbaceous cover in woodlands with no history of agriculture, but there was no relationship in post-agricultural woodlands. We also found that grasshopper abundance was negatively correlated with leaf litter cover. Soil hardness was greater in post-agricultural sites (i.e. more compacted) and was associated with grasshopper community composition. Both herbaceous cover and leaf litter cover are influenced by fire frequency, suggesting a potential indirect role of fire on grasshopper assemblages. 5. Our results demonstrate that historic land use may create persistent differences in the composition of grasshopper assemblages, while contemporary disturbances (e.g. prescribed fire) may be important for determining the abundance of grasshoppers, largely through the effect of fire on plants and leaf litter. Therefore, our results suggest that changes in the contemporary management regimes (e.g. increasing prescribed fire) may not be sufficient to shift the structure of grasshopper communities in post-agricultural sites towards communities in nonagricultural habitats. Rather, repairing degraded soil conditions and restoring plant communities are likely necessary for restoring grasshopper assemblages in post-agricultural woodlands.« less

Unraveling the drivers of community dissimilarity and species extinction in fragmented landscapes.

PubMed

Banks-Leite, Cristina; Ewers, Robert M; Metzger, Jean Paul

2012-12-01

Communities in fragmented landscapes are often assumed to be structured by species extinction due to habitat loss, which has led to extensive use of the species-area relationship (SAR) in fragmentation studies. However, the use of the SAR presupposes that habitat loss leads species to extinction but does not allow for extinction to be offset by colonization of disturbed-habitat specialists. Moreover, the use of SAR assumes that species richness is a good proxy of community changes in fragmented landscapes. Here, we assessed how communities dwelling in fragmented landscapes are influenced by habitat loss at multiple scales; then we estimated the ability of models ruled by SAR and by species turnover in successfully predicting changes in community composition, and asked whether species richness is indeed an informative community metric. To address these issues, we used a data set consisting of 140 bird species sampled in 65 patches, from six landscapes with different proportions of forest cover in the Atlantic Forest of Brazil. We compared empirical patterns against simulations of over 8 million communities structured by different magnitudes of the power-law SAR and with species-specific rules to assign species to sites. Empirical results showed that, while bird community composition was strongly influenced by habitat loss at the patch and landscape scale, species richness remained largely unaffected. Modeling results revealed that the compositional changes observed in the Atlantic Forest bird metacommunity were only matched by models with either unrealistic magnitudes of the SAR or by models ruled by species turnover, akin to what would be observed along natural gradients. We show that, in the presence of such compositional turnover, species richness is poorly correlated with species extinction, and z values of the SAR strongly underestimate the effects of habitat loss. We suggest that the observed compositional changes are driven by each species reaching its individual extinction threshold: either a threshold of forest cover for species that disappear with habitat loss, or of matrix cover for species that benefit from habitat loss.

Dispersal rates affect species composition in metacommunities of Sarracenia purpurea inquilines.

PubMed

Kneitel, Jamie M; Miller, Thomas E

2003-08-01

Dispersal among local communities can have a variety of effects on species composition and diversity at local and regional scales. Local conditions (e.g., resource and predator densities) can have independent effects, as well as interact with dispersal, to alter these patterns. Based on metacommunity models, we predicted that local diversity would show a unimodal relationship with dispersal frequency. We manipulated dispersal frequencies, resource levels, and the presence of predators (mosquito larvae) among communities found in the water-filled leaves of the pitcher plant Sarracenia purpurea. Diversity and abundance of species of the middle trophic level, protozoa and rotifers, were measured. Increased dispersal frequencies significantly increased regional species richness and protozoan abundance while decreasing the variance among local communities. Dispersal frequency interacted with predation at the local community scale to produce patterns of diversity consistent with the model. When predators were absent, we found a unimodal relationship between dispersal frequency and diversity, and when predators were present, there was a flat relationship. Intermediate dispersal frequencies maintained some species in the inquiline communities by offsetting extinction rates. Local community composition and the degree of connectivity between communities are both important for understanding species diversity patterns at local and regional scales.

Changes in community structure of active protistan assemblages from the lower Pearl River to coastal Waters of the South China Sea.

PubMed

Li, Ran; Jiao, Nianzhi; Warren, Alan; Xu, Dapeng

2018-04-01

Protists make up an important component of aquatic ecosystems, playing crucial roles in biogeochemical processes on local and global scales. To reveal the changes of diversity and community structure of protists along the salinity gradients, community compositions of active protistan assemblages were characterized along a transect from the lower Pearl River estuary to the open waters of the South China Sea (SCS), using high-throughput sequencing of the hyper-variable V9 regions of 18S rRNA. This study showed that the alpha diversity of protists, both in the freshwater and in the coastal SCS stations was higher than that in the estuary. The protist community structure also changed along the salinity gradient. The relative sequence abundance of Stramenopiles was highest at stations with lower salinity and decreased with the increasing of salinity. By contrast, the contributions of Alveolata, Hacrobia and Rhizaria to the protistan communities generally increased with the increasing of salinity. The composition of the active protistan community was strongly correlated with salinity, indicating that salinity was the dominant factor among measured environmental parameters affecting protistan community composition and structure. Copyright © 2018 Elsevier GmbH. All rights reserved.

Experimental insights into the importance of aquatic bacterial community composition to the degradation of dissolved organic matter

PubMed Central

Logue, Jürg B; Stedmon, Colin A; Kellerman, Anne M; Nielsen, Nikoline J; Andersson, Anders F; Laudon, Hjalmar; Lindström, Eva S; Kritzberg, Emma S

2016-01-01

Bacteria play a central role in the cycling of carbon, yet our understanding of the relationship between the taxonomic composition and the degradation of dissolved organic matter (DOM) is still poor. In this experimental study, we were able to demonstrate a direct link between community composition and ecosystem functioning in that differently structured aquatic bacterial communities differed in their degradation of terrestrially derived DOM. Although the same amount of carbon was processed, both the temporal pattern of degradation and the compounds degraded differed among communities. We, moreover, uncovered that low-molecular-weight carbon was available to all communities for utilisation, whereas the ability to degrade carbon of greater molecular weight was a trait less widely distributed. Finally, whereas the degradation of either low- or high-molecular-weight carbon was not restricted to a single phylogenetic clade, our results illustrate that bacterial taxa of similar phylogenetic classification differed substantially in their association with the degradation of DOM compounds. Applying techniques that capture the diversity and complexity of both bacterial communities and DOM, our study provides new insight into how the structure of bacterial communities may affect processes of biogeochemical significance. PMID:26296065

Competitive and demographic leverage points of community shifts under climate warming

PubMed Central

Sorte, Cascade J. B.; White, J. Wilson

2013-01-01

Accelerating rates of climate change and a paucity of whole-community studies of climate impacts limit our ability to forecast shifts in ecosystem structure and dynamics, particularly because climate change can lead to idiosyncratic responses via both demographic effects and altered species interactions. We used a multispecies model to predict which processes and species' responses are likely to drive shifts in the composition of a space-limited benthic marine community. Our model was parametrized from experimental manipulations of the community. Model simulations indicated shifts in species dominance patterns as temperatures increase, with projected shifts in composition primarily owing to the temperature dependence of growth, mortality and competition for three critical species. By contrast, warming impacts on two other species (rendering them weaker competitors for space) and recruitment rates of all species were of lesser importance in determining projected community changes. Our analysis reveals the importance of temperature-dependent competitive interactions for predicting effects of changing climate on such communities. Furthermore, by identifying processes and species that could disproportionately leverage shifts in community composition, our results contribute to a mechanistic understanding of climate change impacts, thereby allowing more insightful predictions of future biodiversity patterns. PMID:23658199

Diversity and composition of vaginal microbiota of pregnant women at risk for transmitting Group B Streptococcus treated with intrapartum penicillin.

PubMed

Roesch, Luiz Fernando Wurdig; Silveira, Rita C; Corso, Andréa L; Dobbler, Priscila Thiago; Mai, Volker; Rojas, Bruna S; Laureano, Álvaro M; Procianoy, Renato S

2017-01-01

Administering intravenous antibiotics during labor to women at risk for transmitting Group B Streptococcus (GBS) can prevent infections in newborns. However, the impact of intrapartum antibiotic prophylaxis on mothers' microbial community composition is largely unknown. We compared vaginal microbial composition in pregnant women experiencing preterm birth at ≤ 32 weeks gestation that received intrapartum antibiotic prophylaxis with that in controls. Microbiota in vaginal swabs collected shortly before delivery from GBS positive women that received penicillin intravenously during labor or after premature rupture of membranes was compared to controls. Microbiota was analyzed by 16S rRNA sequencing using the PGM Ion Torrent to determine the effects of penicillin use during hospitalization and GBS status on its composition. Penicillin administration was associated with an altered vaginal microbial community composition characterized by increased microbial diversity. Lactobacillus sp. contributed only 13.1% of the total community in the women that received penicillin compared to 88.1% in the controls. Streptococcus sp. were present in higher abundance in GBS positive woman compared to controls, with 60% of the total vaginal microbiota in severe cases identified as Streptococcus sp. Vaginal communities of healthy pregnant women were dominated by Lactobacillus sp. and contained low diversity, while Group B Streptococcus positive women receiving intrapartum antibiotic prophylaxis had a modified vaginal microbiota composition with low abundance of Lactobacillus but higher microbial diversity.

Bacterial Community Composition and Dynamics Spanning Five Years in Freshwater Bog Lakes

DOE PAGES

Linz, Alexandra M.; Crary, Benjamin C.; Shade, Ashley; ...

2017-06-28

Bacteria play a key role in freshwater biogeochemical cycling, but long-term trends in freshwater bacterial community composition and dynamics are not yet well characterized. We used a multiyear time series of 16S rRNA gene amplicon sequencing data from eight bog lakes to census the freshwater bacterial community and observe annual and seasonal trends in abundance. The sites that we studied encompassed a range of water column mixing frequencies, which we hypothesized would be associated with trends in alpha and beta diversity. Each lake and layer contained a distinct bacterial community, with distinct levels of richness and indicator taxa that likelymore » reflected the environmental conditions of each lake type sampled, including Actinobacteria in polymictic lakes (i.e., lakes with multiple mixing events per year), Methylophilales in dimictic lakes (lakes with two mixing events per year, usually in spring and fall), and “CandidatusOmnitrophica” in meromictic lakes (lakes with no recorded mixing events). The community present during each year at each site was also surprisingly unique. Despite unexpected interannual variability in community composition, we detected a core community of taxa found in all lakes and layers, including Actinobacteria tribe acI-B2 and Betaprotobacteria lineage PnecC. Although trends in abundance did not repeat annually, each freshwater lineage within the communities had a consistent lifestyle, defined by persistence, abundance, and variability. The results of our analysis emphasize the importance of long-term multisite observations, as analyzing only a single year of data or one lake would not have allowed us to describe the dynamics and composition of these freshwater bacterial communities to the extent presented here. Lakes are excellent systems for investigating bacterial community dynamics because they have clear boundaries and strong environmental gradients. The results of our research demonstrate that bacterial community composition varies by year, a finding which likely applies to other ecosystems and has implications for study design and interpretation. Understanding the drivers and controls of bacterial communities on long time scales would improve both our knowledge of fundamental properties of bacterial communities and our ability to predict community states. In this specific ecosystem, bog lakes play a disproportionately large role in global carbon cycling, and the information presented here may ultimately help refine carbon budgets for these lakes. Finally, all data and code in this study are publicly available. We hope that this will serve as a resource for anyone seeking to answer their own microbial ecology questions using a multiyear time series.« less

Bacterial Community Composition and Dynamics Spanning Five Years in Freshwater Bog Lakes

DOE Office of Scientific and Technical Information (OSTI.GOV)

Linz, Alexandra M.; Crary, Benjamin C.; Shade, Ashley

Bacteria play a key role in freshwater biogeochemical cycling, but long-term trends in freshwater bacterial community composition and dynamics are not yet well characterized. We used a multiyear time series of 16S rRNA gene amplicon sequencing data from eight bog lakes to census the freshwater bacterial community and observe annual and seasonal trends in abundance. The sites that we studied encompassed a range of water column mixing frequencies, which we hypothesized would be associated with trends in alpha and beta diversity. Each lake and layer contained a distinct bacterial community, with distinct levels of richness and indicator taxa that likelymore » reflected the environmental conditions of each lake type sampled, including Actinobacteria in polymictic lakes (i.e., lakes with multiple mixing events per year), Methylophilales in dimictic lakes (lakes with two mixing events per year, usually in spring and fall), and “CandidatusOmnitrophica” in meromictic lakes (lakes with no recorded mixing events). The community present during each year at each site was also surprisingly unique. Despite unexpected interannual variability in community composition, we detected a core community of taxa found in all lakes and layers, including Actinobacteria tribe acI-B2 and Betaprotobacteria lineage PnecC. Although trends in abundance did not repeat annually, each freshwater lineage within the communities had a consistent lifestyle, defined by persistence, abundance, and variability. The results of our analysis emphasize the importance of long-term multisite observations, as analyzing only a single year of data or one lake would not have allowed us to describe the dynamics and composition of these freshwater bacterial communities to the extent presented here. Lakes are excellent systems for investigating bacterial community dynamics because they have clear boundaries and strong environmental gradients. The results of our research demonstrate that bacterial community composition varies by year, a finding which likely applies to other ecosystems and has implications for study design and interpretation. Understanding the drivers and controls of bacterial communities on long time scales would improve both our knowledge of fundamental properties of bacterial communities and our ability to predict community states. In this specific ecosystem, bog lakes play a disproportionately large role in global carbon cycling, and the information presented here may ultimately help refine carbon budgets for these lakes. Finally, all data and code in this study are publicly available. We hope that this will serve as a resource for anyone seeking to answer their own microbial ecology questions using a multiyear time series.« less

Triclosan alterations of estuarine phytoplankton community structure.

PubMed

Pinckney, James L; Thompson, Laura; Hylton, Sarah

2017-06-15

Antimicrobial additives in pharmaceutical and personal care products are a major environmental concern due to their potential ecological impacts on aquatic ecosystems. Triclosan (TCS) has been used as an antiseptic, disinfectant, and preservative in various media. The sublethal and lethal effects of TCS on estuarine phytoplankton community composition were investigated using bioassays of natural phytoplankton communities to measure phytoplankton responses to different concentrations of TCS ranging from 1 to 200μgl -1 . The EC 50 (the concentration of an inhibitor where the growth is reduced by half) for phytoplankton groups (diatoms, chlorophytes, cryptophytes) examined in this ranged from 10.7 to 113.8μg TCS l -1 . Exposures resulted in major shifts in phytoplankton community composition at concentrations as low as 1.0μg TCS l -1 . This study demonstrates estuarine ecosystem sensitivity to TCS exposure and highlights potential alterations in phytoplankton community composition at what are typically environmental concentrations of TCS in urbanized estuaries. Copyright © 2017 Elsevier Ltd. All rights reserved.

Connectivity between surface and deep waters determines prokaryotic diversity in the North Atlantic Deep Water.

PubMed

Frank, Alexander H; Garcia, Juan A L; Herndl, Gerhard J; Reinthaler, Thomas

2016-06-01

To decipher the influence of depth stratification and surface provincialism on the dark ocean prokaryotic community composition, we sampled the major deep-water masses in the eastern North Atlantic covering three biogeographic provinces. Their diversity was evaluated using ordination and canonical analysis of 454 pyrotag sequences. Variance partitioning suggested that 16% of the variation in the bacterial community composition was based on depth stratification while 9% of the variation was due to geographic location. General linear mixed effect models showed that the community of the subsurface waters was connected to the dark ocean prokaryotic communities in different biogeographic provinces. Cluster analysis indicated that some prokaryotic taxa are specific to distinct regions in bathypelagic water masses. Taken together, our data suggest that the dark ocean prokaryotic community composition of the eastern North Atlantic is primed by the formation and the horizontal transport of water masses. © 2016 Society for Applied Microbiology and John Wiley & Sons Ltd.

Succession in a microbial mat community: A gaian perspective

NASA Astrophysics Data System (ADS)

Stolz, J. F.

The Gaia hypothesis originally proposed by James E. Lovelock states that the composition, oxidation-reduction state and temperature of the troposphere are actively regulated by the activities of the biota. The gaian concept has been extrapolated to include the composition of surface sediments through the process of biomineralization. The stratified microbial community dominated by the cyanobacterium Microcoleus chthonoplastes is actively involved in the deposition of laminated sediments at Laguna Figueroa, Baja California, Mexico. Unusually heavy rains in the winters of 1979 and 1980 flooded the evaporite flat with up to 3 meters of meteoric water and deposited 5 - 10 cm of allocthonous sediment. The composition of the microbial community changed as a succession of dominating microbial species ensued, ultimately leading to the recolonization of the surface sediment by the original Microcoleus-dominated community. The resiliency of bacterial communities is suggested to be an important mechanism of gaian control systems. Present address: Control and Energy Conversion Division, Jet Propulsion Laboratory, California Institute of Technology, Pasadena, CA 91109, U.S.A.

Bacterial community compositions of coking wastewater treatment plants in steel industry revealed by Illumina high-throughput sequencing.

PubMed

Ma, Qiao; Qu, Yuanyuan; Shen, Wenli; Zhang, Zhaojing; Wang, Jingwei; Liu, Ziyan; Li, Duanxing; Li, Huijie; Zhou, Jiti

2015-03-01

In this study, Illumina high-throughput sequencing was used to reveal the community structures of nine coking wastewater treatment plants (CWWTPs) in China for the first time. The sludge systems exhibited a similar community composition at each taxonomic level. Compared to previous studies, some of the core genera in municipal wastewater treatment plants such as Zoogloea, Prosthecobacter and Gp6 were detected as minor species. Thiobacillus (20.83%), Comamonas (6.58%), Thauera (4.02%), Azoarcus (7.78%) and Rhodoplanes (1.42%) were the dominant genera shared by at least six CWWTPs. The percentages of autotrophic ammonia-oxidizing bacteria and nitrite-oxidizing bacteria were unexpectedly low, which were verified by both real-time PCR and fluorescence in situ hybridization analyses. Hierarchical clustering and canonical correspondence analysis indicated that operation mode, flow rate and temperature might be the key factors in community formation. This study provides new insights into our understanding of microbial community compositions and structures of CWWTPs. Copyright © 2014 Elsevier Ltd. All rights reserved.

Microbial responses to changes in flow status in temporary headwater streams: a cross-system comparison

PubMed Central

Febria, Catherine M.; Hosen, Jacob D.; Crump, Byron C.; Palmer, Margaret A.; Williams, D. Dudley

2015-01-01

Microbial communities are responsible for the bulk of biogeochemical processing in temporary headwater streams, yet there is still relatively little known about how community structure and function respond to periodic drying. Moreover, the ability to sample temporary habitats can be a logistical challenge due to the limited capability to measure and predict the timing, intensity and frequency of wet-dry events. Unsurprisingly, published datasets on microbial community structure and function are limited in scope and temporal resolution and vary widely in the molecular methods applied. We compared environmental and microbial community datasets for permanent and temporary tributaries of two different North American headwater stream systems: Speed River (Ontario, Canada) and Parkers Creek (Maryland, USA). We explored whether taxonomic diversity and community composition were altered as a result of flow permanence and compared community composition amongst streams using different 16S microbial community methods (i.e., T-RFLP and Illumina MiSeq). Contrary to our hypotheses, and irrespective of method, community composition did not respond strongly to drying. In both systems, community composition was related to site rather than drying condition. Additional network analysis on the Parkers Creek dataset indicated a shift in the central microbial relationships between temporary and permanent streams. In the permanent stream at Parkers Creek, associations of methanotrophic taxa were most dominant, whereas associations with taxa from the order Nitrospirales were more dominant in the temporary stream, particularly during dry conditions. We compared these results with existing published studies from around the world and found a wide range in community responses to drying. We conclude by proposing three hypotheses that may address contradictory results and, when tested across systems, may expand understanding of the responses of microbial communities in temporary streams to natural and human-induced fluctuations in flow-status and permanence. PMID:26089816

Progressive biogeochemical transformation of placer gold particles drives compositional changes in associated biofilm communities.

PubMed

Rea, Maria Angelica; Standish, Christopher D; Shuster, Jeremiah; Bissett, Andrew; Reith, Frank

2018-05-03

Biofilms on placer gold (Au)-particle surfaces drive Au solubilization and re-concentration thereby progressively transforming the particles. Gold solubilization induces Au-toxicity; however, Au-detoxifying community members ameliorates Au-toxicity by precipitating soluble Au to metallic Au. We hypothesize that Au-dissolution and re-concentration (precipitation) places selective pressures on associated microbial communities, leading to compositional changes and subsequent Au-particle transformation. We analyzed Au-particles from eight United Kingdom sites using next generation sequencing, electron microscopy and micro-analyses. Gold particles contained biofilms composed of prokaryotic cells and extracellular polymeric substances intermixed with (bio)minerals. Across all sites communities were dominated by Proteobacteria (689, 97% Operational Taxonomic Units, 59.3% of total reads), with β-Proteobacteria being the most abundant. A wide range of Au-morphotypes including nanoparticles, micro-crystals, sheet-like Au and secondary rims, indicated that dissolution and re-precipitation occurred, and from this transformation indices were calculated. Multivariate statistical analyses showed a significant relationship between the extent of Au-particle transformation and biofilm community composition, with putative metal-resistant Au-cycling taxa linked to progressive Au transformation. These included the genera Pseudomonas, Leptothrix and Acinetobacter. Additionally, putative exoelectrogenic genera Rhodoferax and Geobacter were highly abundant. In conclusion, biogeochemical Au-cycling and Au-particle transformation occurred at all sites and exerted a strong influence on biofilm community composition.

Host Genotype and Nitrogen Form Shape the Root Microbiome of Pinus radiata.

PubMed

Gallart, Marta; Adair, Karen L; Love, Jonathan; Meason, Dean F; Clinton, Peter W; Xue, Jianming; Turnbull, Matthew H

2018-02-01

A central challenge in community ecology is understanding the role that phenotypic variation among genotypes plays in structuring host-associated communities. While recent studies have investigated the relationship between plant genotype and the composition of soil microbial communities, the effect of genotype-by-environment interactions on the plant microbiome remains unclear. In this study, we assessed the influence of tree genetics (G), nitrogen (N) form and genotype-by-environment interaction (G x N) on the composition of the root microbiome. Rhizosphere communities (bacteria and fungi) and root-associated fungi (including ectomycorrhizal and saprotrophic guilds) were characterised in two genotypes of Pinus radiata with contrasting physiological responses to exogenous organic or inorganic N supply. Genotype-specific responses to N form influenced the composition of the root microbiome. Specifically, (1) diversity and composition of rhizosphere bacterial and root-associated fungal communities differed between genotypes that had distinct responses to N form, (2) shifts in the relative abundance of individual taxa were driven by the main effects of N form or host genotype and (3) the root microbiome of the P. radiata genotype with the most divergent growth responses to organic and inorganic N was most sensitive to differences in N form. Our results show that intraspecific variation in tree response to N form has significant consequences for the root microbiome of P. radiata, demonstrating the importance of genotype-by-environment interactions in shaping host-associated communities.

A comparative study of AMF diversity in annual and perennial plant species from semiarid gypsum soils.

NASA Astrophysics Data System (ADS)

Alguacil, M. M.; Torrecillas, E.; Roldán, A.; Díaz, G.; Torres, P.

2012-04-01

The arbuscular mycorrhizal fungi (AMF) communities composition regulate plant interactions and determine the structure of plant communities. In this study we analysed the diversity of AMF in the roots of two perennial gypsophyte plant species, Herniaria fruticosa and Senecio auricula, and an annual herbaceous species, Bromus rubens, growing in a gypsum soil from a semiarid area. The objective was to determine whether perennial and annual host plants support different AMF communities in their roots and whether there are AMF species that might be indicators of specific functional plant roles in these ecosystems. The roots were analysed by nested PCR, cloning, sequencing of the ribosomal DNA small subunit region and phylogenetic analysis. Twenty AMF sequence types, belonging to the Glomus group A, Glomus group B, Diversisporaceae, Acaulosporaceae, Archaeosporaceae and Paraglomeraceae, were identified. Both gypsophyte perennial species had differing compositions of the AMF community and higher diversity when compared with the annual species, showing preferential selection by specific AMF sequences types. B. rubens did not show host specificity, sharing the full composition of its AMF community with both perennial plant species. Seasonal variations in the competitiveness of AM fungi could explain the observed differences in AMF community composition, but this is still a working hypothesis that requires the analysis of further data obtained from a higher number of both annual and perennial plant species in order to be fully tested.

The Influence of Exotic Lady Beetle (Coleoptera: Coccinellidae) Establishment on the Species Composition of the Native Lady Beetle Community in Missouri.

PubMed

Diepenbrock, Lauren M; Fothergill, Kent; Tindall, Kelly V; Losey, John E; Smyth, Rebecca R; Finke, Deborah L

2016-08-01

The diversity and abundance of native lady beetles (Coccinellidae) in North America has declined in recent decades. This decline is often correlated with the introduction and establishment of exotic lady beetle species, including Coccinella septempunctata L. and Harmonia axyridis Pallas, suggesting that exotic species precipitated the decline of native lady beetles. We examined species records of native coccinellids in Missouri over 118 yr and asked whether the species composition of the community experienced a shift following the establishment of the exotic species. We found that the contemporary native coccinellid community is different from the community that was present nearly a century ago. However, there was no evidence for a recent abrupt shift in composition triggered by the establishment of exotic species. Instead, our data suggest that the native lady beetle community has been undergoing consistent and gradual change over time, with some species decreasing in abundance and others increasing. While not excluding exotic species as a factor contributing to the decline of native lady beetle species, our findings suggest that other continuous factors, like land use change, may have played a more influential role in determining the composition of the native coccinellid communities within our region. © The Authors 2016. Published by Oxford University Press on behalf of Entomological Society of America. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

The influence of in situ chemical oxidation on microbial community composition in groundwater contaminated with chlorinated solvents.

PubMed

Sercu, Bram; Jones, Antony D G; Wu, Cindy H; Escobar, Mauricio H; Serlin, Carol L; Knapp, Timothy A; Andersen, Gary L; Holden, Patricia A

2013-01-01

In situ chemical oxidation with permanganate has become an accepted remedial treatment for groundwater contaminated with chlorinated solvents. This study focuses on the immediate and short-term effects of sodium permanganate (NaMnO(4)) on the indigenous subsurface microbial community composition in groundwater impacted by trichloroethylene (TCE). Planktonic and biofilm microbial communities were studied using groundwater grab samples and reticulated vitreous carbon passive samplers, respectively. Microbial community composition was analyzed by terminal restriction fragment length polymorphism and a high-density phylogenetic microarray (PhyloChip). Significant reductions in microbial diversity and biomass were shown during NaMnO(4) exposure, followed by recovery within several weeks after the oxidant concentrations decreased to <1 mg/L. Bray-Curtis similarities and nonmetric multidimensional scaling showed that microbial community composition before and after NaMnO(4) was similar, when taking into account the natural variation of the microbial communities. Also, 16S rRNA genes of two reductive dechlorinators (Desulfuromonas spp. and Sulfurospirillum spp.) and diverse taxa capable of cometabolic TCE oxidation were detected in similar quantities by PhyloChip across all monitoring wells, irrespective of NaMnO(4) exposure and TCE concentrations. However, minimal biodegradation of TCE was observed in this study, based on oxidized conditions, concentration patterns of chlorinated and nonchlorinated hydrocarbons, geochemistry, and spatiotemporal distribution of TCE-degrading bacteria.

Flowering and floral visitation predict changes in community structure provided that mycorrhizas remain intact.

PubMed

Bennett, Jonathan A; Cahill, James F

2018-06-01

Pollination is critical for plant fitness and population dynamics, yet little attention is paid to the role of flowering and plant-pollinator interactions in structuring plant communities, including community responses to environmental change. Changes in arbuscular mycorrhizal fungi (AMF), nutrient abundances, and plant litter all affect plant access to different resources, and are known regulators of community structure. Each factor can also affect flowering and plant-pollinator interactions, potentially contributing to changes in community structure. To test whether AMF, nutrients, and litter influenced the relationship between pollination and community structure, we conducted a 5-yr field experiment applying fungicide, adding fertilizer, and removing plant litter in native grassland. We measured the distribution of flowers and floral visits among species in year three and linked these measures to changes in plant composition and species richness between years three and five. We hypothesized that an uneven distribution of flowers and visits among species would lead to greater community change, but that the treatments would disrupt this relationship by altering sexual allocation and recruitment. Consistent with our hypothesis, communities with uneven flower distributions exhibited greater changes in community composition and richness under ambient conditions. However, AMF suppression neutralized this relationship and regulated the other treatment effects, highlighting the potential importance of AMF for stabilizing recruitment dynamics. Combined, AMF suppression and nutrient addition caused species losses when few species flowered, likely by compounding stresses for those species. The treatment effects on the relationship between flowering and community composition were more nuanced, but were likely driven by increased competition and altered flowering among species. By contrast, community composition was more stable when visitation rates were uneven among species, irrespective of any treatments. This suggests that some species require high visitation rates to maintain their populations due to greater dependence on sexual reproduction. Combined, these results highlight the importance of flowering and floral visitation to the dynamics of grassland communities. They also suggest that altered recruitment dynamics is a major, yet understudied, mechanism by which environmental change affects communities. Consequently, understanding the effects of environmental change on plant communities will require study of both plant growth and sexual reproduction. © 2018 by the Ecological Society of America.

Dynamics of phytoplankton community composition in the western Gulf of Maine

NASA Astrophysics Data System (ADS)

Moore, Timothy S.

This dissertation is founded on the importance of phytoplankton community composition to marine biogeochemistry and ecosystem processes and motivated by the need to understand their distributions on regional to global scales. The ultimate goal was to predict surface phytoplankton communities using satellite remote sensing by relating marine habitats--defined through a statistical description of environmental properties--to different phytoplankton communities. While phytoplankton community composition is governed by the interplay of abiotic and biotic interactions, the strategy adopted here was to focus on the physical abiotic factors. This allowed for the detection of habitats from ocean satellites based on abiotic factors that were linked to associated phytoplankton communities. The research entailed three studies that addressed different aspects of the main goal using a dataset collected in the western Gulf of Maine over a 3-year period. The first study evaluated a chemotaxonomic method that quantified phytoplankton composition from pigment data. This enabled the characterization of three phytoplankton communities, which were defined by the relative abundance of diatoms and flagellates. The second study examined the cycles of these communities along with environmental variables, and the results revealed that the three phytoplankton communities exhibited an affinity to different hydrographic regimes. The third study focused on the implementation of a classifier that predicted phytoplankton communities from environmental variables. Its ability to differentiate communities dominated by diatoms versus flagellates was shown to be high. However, the increase in data imprecision when using satellite data led to lowered performance and favored an approach that incorporated fuzzy logic. The fuzzy method is well suited to characterize the uncertainties in phytoplankton community prediction, and provides a measure of confidence on predicted communities. The final product of the overall dissertation was a time series of maps generated from satellite observations depicting the likelihood of three phytoplankton communities. This dissertation reached the main goal and, moreover, demonstrated that improvements in the predictive power of the method can be achieved with increased precision and more advanced satellite-derived products. The results of this research can benefit present bio-optical and primary productivity models, and ecosystem-based models of the marine environment.

Fitness trade-offs modify community composition under contrasting disturbance regimes in Pseudomonas fluorescens microcosms.

PubMed

Engelmoer, Daniel J P; Rozen, Daniel E

2009-11-01

Disturbance is thought to be a major factor influencing patterns of biodiversity. In addition, disturbance can modify community composition if there are species specific trade-offs between fitness and disturbance tolerance. Here, we examine the role of disturbance on the evolution of coexisting biofilm-forming morphotypes of Pseudomonas fluorescens maintained in spatially structured laboratory microcosms. We identified four heritably stable ecotypes that varied significantly in their competitiveness under different disturbance treatments. Furthermore, we identified significant trade-offs in competitiveness across disturbance treatments for three of four of these ecotypes. These trade-offs modified dominance relationships between strains and thus altered community composition, with a peak of ecotype diversity occurring at intermediate disturbance frequencies.

Mechanisms shaping size structure and functional diversity of phytoplankton communities in the ocean

PubMed Central

Acevedo-Trejos, Esteban; Brandt, Gunnar; Bruggeman, Jorn; Merico, Agostino

2015-01-01

The factors regulating phytoplankton community composition play a crucial role in structuring aquatic food webs. However, consensus is still lacking about the mechanisms underlying the observed biogeographical differences in cell size composition of phytoplankton communities. Here we use a trait-based model to disentangle these mechanisms in two contrasting regions of the Atlantic Ocean. In our model, the phytoplankton community can self-assemble based on a trade-off emerging from relationships between cell size and (1) nutrient uptake, (2) zooplankton grazing, and (3) phytoplankton sinking. Grazing ‘pushes’ the community towards larger cell sizes, whereas nutrient uptake and sinking ‘pull’ the community towards smaller cell sizes. We find that the stable environmental conditions of the tropics strongly balance these forces leading to persistently small cell sizes and reduced size diversity. In contrast, the seasonality of the temperate region causes the community to regularly reorganize via shifts in species composition and to exhibit, on average, bigger cell sizes and higher size diversity than in the tropics. Our results raise the importance of environmental variability as a key structuring mechanism of plankton communities in the ocean and call for a reassessment of the current understanding of phytoplankton diversity patterns across latitudinal gradients. PMID:25747280

Limited Effects of Variable-Retention Harvesting on Fungal Communities Decomposing Fine Roots in Coastal Temperate Rainforests.

PubMed

Philpott, Timothy J; Barker, Jason S; Prescott, Cindy E; Grayston, Sue J

2018-02-01

Fine root litter is the principal source of carbon stored in forest soils and a dominant source of carbon for fungal decomposers. Differences in decomposer capacity between fungal species may be important determinants of fine-root decomposition rates. Variable-retention harvesting (VRH) provides refuge for ectomycorrhizal fungi, but its influence on fine-root decomposers is unknown, as are the effects of functional shifts in these fungal communities on carbon cycling. We compared fungal communities decomposing fine roots (in litter bags) under VRH, clear-cut, and uncut stands at two sites (6 and 13 years postharvest) and two decay stages (43 days and 1 year after burial) in Douglas fir forests in coastal British Columbia, Canada. Fungal species and guilds were identified from decomposed fine roots using high-throughput sequencing. Variable retention had short-term effects on β-diversity; harvest treatment modified the fungal community composition at the 6-year-postharvest site, but not at the 13-year-postharvest site. Ericoid and ectomycorrhizal guilds were not more abundant under VRH, but stand age significantly structured species composition. Guild composition varied by decay stage, with ruderal species later replaced by saprotrophs and ectomycorrhizae. Ectomycorrhizal abundance on decomposing fine roots may partially explain why fine roots typically decompose more slowly than surface litter. Our results indicate that stand age structures fine-root decomposers but that decay stage is more important in structuring the fungal community than shifts caused by harvesting. The rapid postharvest recovery of fungal communities decomposing fine roots suggests resiliency within this community, at least in these young regenerating stands in coastal British Columbia. IMPORTANCE Globally, fine roots are a dominant source of carbon in forest soils, yet the fungi that decompose this material and that drive the sequestration or respiration of this carbon remain largely uncharacterized. Fungi vary in their capacity to decompose plant litter, suggesting that fungal community composition is an important determinant of decomposition rates. Variable-retention harvesting is a forestry practice that modifies fungal communities by providing refuge for ectomycorrhizal fungi. We evaluated the effects of variable retention and clear-cut harvesting on fungal communities decomposing fine roots at two sites (6 and 13 years postharvest), at two decay stages (43 days and 1 year), and in uncut stands in temperate rainforests. Harvesting impacts on fungal community composition were detected only after 6 years after harvest. We suggest that fungal community composition may be an important factor that reduces fine-root decomposition rates relative to those of above-ground plant litter, which has important consequences for forest carbon cycling. Copyright © 2018 American Society for Microbiology.

Species distribution modelling for plant communities: Stacked single species or multivariate modelling approaches?

Treesearch

Emilie B. Henderson; Janet L. Ohmann; Matthew J. Gregory; Heather M. Roberts; Harold S.J. Zald

2014-01-01

Landscape management and conservation planning require maps of vegetation composition and structure over large regions. Species distribution models (SDMs) are often used for individual species, but projects mapping multiple species are rarer. We compare maps of plant community composition assembled by stacking results from many SDMs with multivariate maps constructed...

SEDIMENT TOXICITY AND COMMUNITY COMPOSITION OF BENTHOS AND COLONIZED PERIPHYTON IN THE EVERGLADES - FLORIDA BAY TRANSITIONAL ZONE.

EPA Science Inventory

Lewis, Michael A., Larry R. Goodman, John M. Macauley and James C. Moore. 2004. Sediment Toxicity and Community Composition of Benthos and Colonized Periphyton in the Everglades-Florida Bay Transitional Zone. Ecotoxicology. 13(3):231-244. (ERL,GB 1164).

This survey provid...

Nitrogen fertilizer rate affects root exudation, the rhizosphere microbiome and nitrogen-use-efficiency of maize

USDA-ARS?s Scientific Manuscript database

The composition and function of microbial communities present in the rhizosphere of crops has been linked to edaphic factors and root exudate composition. In this paper, we examined the effect of N fertilizer rate on maize root exudation, the associated rhizosphere community, and nitrogen-use-effici...

DCERP Defense Coastal/Estuarine Research Program Workshop Proceedings

DTIC Science & Technology

2005-02-01

indicators, both in terms of ecological health and human impacts. • Phytoplankton and benthic microalgae species, especially bloom-forming ones that...composition) Chlorophyll a and other diagnostic photopigments Phytoplankton /zooplankton community composition Primary production (Photosynthesis...Satellite imagery for phytoplankton and higher plant communities Aerial sensors for submerged aquatic vegetation, salt marshes, ocean color 22 IR

Evaluation of the Community Multiscale Air Quality (CMAQ) modeling system against size-resolved measurements of inorganic particle composition across sites in North America

EPA Science Inventory

This work evaluates particle size-composition distributions simulated by the Community Multiscale Air Quality (CMAQ) model using Micro-Orifice Uniform Deposit Impactor (MOUDI) measurements at 18 sites across North America. Size-resolved measurements of particulate SO₄<...

Nutrient addition shifts plant community composition towards earlier flowering species in some prairie ecoregions in the U.S. Central Plains

USDA-ARS?s Scientific Manuscript database

The distribution of flowering across the growing season is governed by each species’ evolutionary history and climatic variability. However, global change factors, such as eutrophication and exotic species invasion, can alter plant community composition and thus change flowering distribution. We ex...

Makiguchi Tsunesaburo and Language, Value-Creative Composition Instruction, and the Geography of Identity in Community Studies: A Response to Politicized Imagining and Ineffective Critical Approaches

ERIC Educational Resources Information Center

Goulah, Jason

2013-01-01

In this article, the author examines Makiguchi Tsunesaburo's philosophy and practice of human geography ("jinsei chirigaku"), community studies ("kyodoka"), and composition instruction based on "value-creating pedagogy" ("soka kyoikugaku") for thinking through and responding to two competing trends…

INFLUENCE OF THE SEAGRASS THALASSIA TESTUDINUM ON THE COMMUNITY COMPOSITION AND ACTIVITY OF SULFATE-REDUCING BACTERIA IN AN ESSENTIAL COAST MARINE HABITAT

EPA Science Inventory

Biogeochemical cycling of nutrients and sulfate reduction rates (SRR) were studied in relation to the community composition of sulfate-reducing bacteria SRB) in a Thalassia testudinum bed and in adjacent unvegetated areas. Sampling took place in Santa Rosa Sound, Pensacola, Flori...

Microbial community composition affects soil fungistasis.

PubMed

de Boer, Wietse; Verheggen, Patrick; Klein Gunnewiek, Paulien J A; Kowalchuk, George A; van Veen, Johannes A

2003-02-01

Most soils inhibit fungal germination and growth to a certain extent, a phenomenon known as soil fungistasis. Previous observations have implicated microorganisms as the causal agents of fungistasis, with their action mediated either by available carbon limitation (nutrient deprivation hypothesis) or production of antifungal compounds (antibiosis hypothesis). To obtain evidence for either of these hypotheses, we measured soil respiration and microbial numbers (as indicators of nutrient stress) and bacterial community composition (as an indicator of potential differences in the composition of antifungal components) during the development of fungistasis. This was done for two fungistatic dune soils in which fungistasis was initially fully or partly relieved by partial sterilization treatment or nutrient addition. Fungistasis development was measured as restriction of the ability of the fungi Chaetomium globosum, Fusarium culmorum, Fusarium oxysporum, and Trichoderma harzianum to colonize soils. Fungistasis did not always reappear after soil treatments despite intense competition for carbon, suggesting that microbial community composition is important in the development of fungistasis. Both microbial community analysis and in vitro antagonism tests indicated that the presence of pseudomonads might be essential for the development of fungistasis. Overall, the results lend support to the antibiosis hypothesis.

Complexity of Bacterial Communities in a River-Floodplain System (Danube, Austria)

PubMed Central

Besemer, Katharina; Moeseneder, Markus M.; Arrieta, Jesus M.; Herndl, Gerhard J.; Peduzzi, Peter

2005-01-01

Natural floodplains play an essential role in the processing and decomposition of organic matter and in the self-purification ability of rivers, largely due to the activity of bacteria. Knowledge about the composition of bacterial communities and its impact on organic-matter cycling is crucial for the understanding of ecological processes in river-floodplain systems. Particle-associated and free-living bacterial assemblages from the Danube River and various floodplain pools with different hydrological characteristics were investigated using terminal restriction fragment length polymorphism analysis. The particle-associated bacterial community exhibited a higher number of operational taxonomic units (OTUs) and was more heterogeneous in time and space than the free-living community. The temporal dynamics of the community structure were generally higher in isolated floodplain pools. The community structures of the river and the various floodplain pools, as well as those of the particle-associated and free-living bacteria, differed significantly. The compositional dynamics of the planktonic bacterial communities were related to changes in the algal biomass, temperature, and concentrations of organic and inorganic nutrients. The OTU richness of the free-living community was correlated with the concentration and origin of organic matter and the concentration of inorganic nutrients, while no correlation with the OTU richness of the particle-associated assemblage was found. Our results demonstrate the importance of the river-floodplain interactions and the influence of damming and regulation on the bacterial-community composition. PMID:15691909

Bacterial community composition in the water column of a lake formed by a former uranium open pit mine.

PubMed

Edberg, Frida; Andersson, Anders F; Holmström, Sara J M

2012-11-01

Mining of pyrite minerals is a major environmental issue involving both biological and geochemical processes. Here we present a study of an artificial lake of a former uranium open pit mine with the aim to connect the chemistry and bacterial community composition (454-pyrosequencing of 16S rRNA genes) in the stratified water column. A shift in the water chemistry from oxic conditions in the epilimnion to anoxic, alkaline, and metal and sulfide-rich conditions in the hypolimnion was corresponded by a strong shift in the bacterial community, with few shared operational taxonomic units (OTU) between the water layers. The epilimnetic bacterial community of the lake (~20 years old) showed similarities to other temperate freshwater lakes, while the hypolimnetic bacterial community showed similarity to extreme chemical environments. The epilimnetic bacterial community had dominance of Actinobacteria and Betaproteobacteria. The hypolimnion displayed a higher bacterial diversity and was dominated by the phototrophic green sulphur bacterium of the genus Chlorobium (ca. 40 % of the total community). Deltaproteobacteria were only represented in the hypolimnion and the most abundant OTUs were affiliated with ferric iron and sulfate reducers of the genus Geobacter and Desulfobulbus, respectively. The chemistry is clearly controlling, especially the hypolimnetic, bacterial community but the community composition also indicates that the bacteria are involved in metal cycling in the lake.