Changes in Microbial Plankton Assemblages Induced by Mesoscale Oceanographic Features in the Northern Gulf of Mexico

PubMed Central

Williams, Alicia K.; McInnes, Allison S.; Rooker, Jay R.; Quigg, Antonietta

2015-01-01

Mesoscale circulation generated by the Loop Current in the Northern Gulf of Mexico (NGOM) delivers growth-limiting nutrients to the microbial plankton of the euphotic zone. Consequences of physicochemically driven community shifts on higher order consumers and subsequent impacts on the biological carbon pump remain poorly understood. This study evaluates microbial plankton <10 μm abundance and community structure across both cyclonic and anti-cyclonic circulation features in the NGOM using flow cytometry (SYBR Green I and autofluorescence parameters). Non-parametric multivariate hierarchical cluster analyses indicated that significant spatial variability in community structure exists such that stations that clustered together were defined as having a specific ‘microbial signature’ (i.e. statistically homogeneous community structure profiles based on relative abundance of microbial groups). Salinity and a combination of sea surface height anomaly and sea surface temperature were determined by distance based linear modeling to be abiotic predictor variables significantly correlated to changes in microbial signatures. Correlations between increased microbial abundance and availability of nitrogen suggest nitrogen-limitation of microbial plankton in this open ocean area. Regions of combined coastal water entrainment and mesoscale convergence corresponded to increased heterotrophic prokaryote abundance relative to autotrophic plankton. The results provide an initial assessment of how mesoscale circulation potentially influences microbial plankton abundance and community structure in the NGOM. PMID:26375709

Millennial-scale plankton regime shifts in the subtropical North Pacific Ocean.

PubMed

McMahon, Kelton W; McCarthy, Matthew D; Sherwood, Owen A; Larsen, Thomas; Guilderson, Thomas P

2015-12-18

Climate change is predicted to alter marine phytoplankton communities and affect productivity, biogeochemistry, and the efficacy of the biological pump. We reconstructed high-resolution records of changing plankton community composition in the North Pacific Ocean over the past millennium. Amino acid-specific δ(13)C records preserved in long-lived deep-sea corals revealed three major plankton regimes corresponding to Northern Hemisphere climate periods. Non-dinitrogen-fixing cyanobacteria dominated during the Medieval Climate Anomaly (950-1250 Common Era) before giving way to a new regime in which eukaryotic microalgae contributed nearly half of all export production during the Little Ice Age (~1400-1850 Common Era). The third regime, unprecedented in the past millennium, began in the industrial era and is characterized by increasing production by dinitrogen-fixing cyanobacteria. This picoplankton community shift may provide a negative feedback to rising atmospheric carbon dioxide concentrations. Copyright © 2015, American Association for the Advancement of Science.

Role of efflux pumps in the antibiotic resistance of bacteria embedded in a biofilm.

PubMed

Soto, Sara M

2013-04-01

Biofilms are complex microbial associations anchored to abiotic or biotic surfaces, embedded in extracellular matrix produced by the biofilms themselves where they interact with each other and the environment. One of the main properties of biofilms is their capacity to be more resistant to antimicrobial agents than planktonic cells. Efflux pumps have been reported as one of the mechanisms responsible for the antimicrobial resistance in biofilm structures. Evidence of the role of efflux pump in biofilm resistance has been found in several microorganisms such as Pseudomonas aeruginosa, Escherichia coli and Candida albicans. However, in spite of the studies on the importance of efflux pumps in biofilm growth and about their relevance in antimicrobial resistance forming biofilm, the exact role of these efflux systems has not been determined as yet.

Revealing and analyzing networks of environmental systems

NASA Astrophysics Data System (ADS)

Eveillard, D.; Bittner, L.; Chaffron, S.; Guidi, L.; Raes, J.; Karsenti, E.; Bowler, C.; Gorsky, G.

2015-12-01

Understanding the interactions between microbial communities and their environment well enough to be able to predict diversity on the basis of physicochemical parameters is a fundamental pursuit of microbial ecology that still eludes us. However, modeling microbial communities is a complicated task, because (i) communities are complex, (ii) most are described qualitatively, and (iii) quantitative understanding of the way communities interacts with their surroundings remains incomplete. Within this seminar, we will illustrate two complementary approaches that aim to overcome these points in different manners. First, we will present a network analysis that focus on the biological carbon pump in the global ocean. The biological carbon pump is the process by which photosynthesis transforms CO2 to organic carbon sinking to the deep-ocean as particles where it is sequestered. While the intensity of the pump correlate to plankton community composition, the underlying ecosystem structure and interactions driving this process remain largely uncharacterized Here we use environmental and metagenomic data gathered during the Tara Oceans expedition to improve understanding of these drivers. We show that specific plankton communities correlate with carbon export and highlight unexpected and overlooked taxa such as Radiolaria, alveolate parasites and bacterial pathogens, as well as Synechococcus and their phages, as key players in the biological pump. Additionally, we show that the abundances of just a few bacterial and viral genes predict most of the global ocean carbon export's variability. Together these findings help elucidate ecosystem drivers of the biological carbon pump and present a case study for scaling from genes-to-ecosystems. Second, we will show preliminary results on a probabilistic modeling that predicts microbial community structure across observed physicochemical data, from a putative network and partial quantitative knowledge. This modeling shows that, despite distinct quantitative environmental perturbations, the constraints on community structure could remain stable.

Physical-property, water-quality, plankton, and bottom-material data for Devils Lake and East Devils Lake, North Dakota, September 1988 through October 1990

USGS Publications Warehouse

Sando, Steven K.; Sether, Bradley A.

1993-01-01

Physical-properties were measured and water-quality, plankton, and bottom-material samples were collected at 10 sites in Devils Lake and East Devils Lake during September 1988 through October 1990 to study water-quality variability and water-quality and plankton relations in Devils Lake and East Devils Lake. Physical properties measured include specific conductance, pH, water temperature, dissolved-oxygen concentration, water transparency, and light transmission. Water-quality samples were analyzed for concentrations of major ions, selected nutrients, and selected trace elements. Plankton samples were examined for identification and enumeration of phytoplankton and zooplankton species, and bottom-material samples were analyzed for concentrations of selected nutrients. Data-collection procedures are discussed and the data are presented in tabular form.

Diversity dynamics of marine planktonic diatoms across the Cenozoic.

PubMed

Rabosky, Daniel L; Sorhannus, Ulf

2009-01-08

Diatoms are the dominant group of phytoplankton in the modern ocean. They account for approximately 40% of oceanic primary productivity and over 50% of organic carbon burial in marine sediments. Owing to their role as a biological carbon pump and effects on atmospheric CO(2) levels, there is great interest in elucidating factors that influenced the rapid rise in diatom diversity during the past 40 million years. Two biotic controls on diversification have been proposed to explain this diversity increase: (1) geochemical coupling between terrestrial grasslands and marine ecosystems through the global silicon cycle; and (2) competitive displacement of other phytoplankton lineages. However, these hypotheses have not been tested using sampling-standardized fossil data. Here we show that reconstructions of species diversity in marine phytoplankton reject these proposed controls and suggest a new pattern for oceanic diatom diversity across the Cenozoic. Peak species diversity in marine planktonic diatoms occurred at the Eocene-Oligocene boundary and was followed by a pronounced decline, from which diversity has not recovered. Although the roles of abiotic and biotic drivers of diversification remain unclear, major features of oceanic diatom evolution are decoupled from both grassland expansion and competition among phytoplankton groups.

Progress Towards a Global Understanding of Plankton Dynamics: The Global Alliance of CPR Surveys (GACS)

NASA Astrophysics Data System (ADS)

Batten, S.; Richardson, A.; Melrose, C.; Muxagata, E.; Hosie, G.; Verheye, H.; Hall, J.; Edwards, M.; Koubbi, P.; Abu-Alhaija, R.; Chiba, S.; Wilson, W.; Nagappa, R.; Takahashi, K.

2016-02-01

The Continuous Plankton Recorder (CPR) was first used in 1931 to routinely sample plankton and its continued deployment now sustains the longest-running, and spatially most extensive marine biological sampling programme in the world. Towed behind, for the most part commercial, ships it collects plankton samples from the surface waters that are subsequently analysed to provide taxonomically-resolved abundance data on a broad range of planktonic organisms from the size of coccolithophores to euphausiids. Plankton appear to integrate changes in the physical environment and by underpinning most marine food-webs, pass on this variability to higher trophic levels which have societal value. CPRs are deployed increasingly around the globe in discrete regional surveys that until recently interacted in an informal way. In 2011 the Global Alliance of CPR Surveys (GACS) was launched to bring these surveys together to collaborate more productively and address issues such as: methodological standardization, data integration, capacity building, and data analysis. Early products include a combined global database and regularly-released global marine ecological status reports. There are, of course, limitations to the exploitation of CPR data as well as the current geographic coverage. A current focus of GACS is integration of the data with models to meaningfully extrapolate across time and space. In this way the output could be used to provide more robust synoptic representations of key plankton variables. Recent years have also seen the CPR used as a platform in itself with the inclusion of additional sensors and water samplers that can sample the microplankton. The archive of samples has already been used for some molecular investigations and curation of samples is maintained for future studies. Thus the CPR is a key element of any regional to global ocean observing system of biodiversity.

On the occurrence of caligids (Copepoda: Siphonostomatoida) in the marine plankton: a review and checklist.

PubMed

Maran, Balu Alagar Venmathi; Suárez-Morales, Eduardo; Ohtsuka, Susumu; Soh, Ho Young; Hwang, Ui Wook

2016-10-11

Members of the copepod genus Caligus Müller, 1785 (Siphonostomatoida: Caligidae) are commonly referred to as sea lice. Virtually all of the more than 450 species utilize marine fishes as hosts, however, an increasing number of records from marine plankton samples shows that at least some species reside in the water column during their adult phase. Members of three different genera, Caligus, Lepeophtheirus von Nordmann, 1832, and Metacaligus Thomsen, 1949 have been reported from plankton samples off eastern Asia and in the north-western Atlantic. Thirteen species have so far been consistently reported from the plankton only with no information on their hosts. Here we review the various hypotheses previously proposed to explain the presence of caligids in the water column, i.e. accidental occurrence, behavioral detachment from the host during mate location, and host-switching. The discovery of adults of two species of Caligus with no other developmental stages on their teleost hosts, suggests an ontogenetic host-switching after the final molt since both species also occurred in plankton samples. A checklist of all caligid records from the marine plankton, including known host data, is presented.

Modulation of frontogenetic plankton production along a meandering jet by zonal wind forcing: An application to the Alboran Sea

NASA Astrophysics Data System (ADS)

Oguz, Temel; Mourre, Baptiste; Tintoré, Joaquin

2017-08-01

We present a coupled physical-biological modeling study to elucidate the changes in ageostrophic frontal dynamics and the frontogenetic plankton production characteristics of a meandering jet under the impacts of successive westerly/easterly wind events combined with seasonal variations in the upstream transport and buoyancy flux characteristics of the jet, using a case study for the Alboran Sea (Western Mediterranean). Their nonlinear coupling is shown to result in different forms of physical and biological characteristics of the background jet structure that follows a meandering path around two anticyclonic gyres in the western and eastern basins and a cyclonic eddy in between. The westerly, downfront wind events broaden the jet, and result in stronger cross-frontal density contrast and intensify ageostrophic cross-frontal secondary circulation. Thus, they improve the frontogenetic plankton production with respect to the no-wind case. They also support higher production along the northern coast in response to wind-induced coastal upwelling and spreading of resulting nutrient-rich, productive water by mesoscale stirring. These features weaken gradually as the jet transport reduces. In contrast, stronger and longer-lasting easterlies during the reduced jet transport phase weaken the currents and frontal density structure, change the circular Western Alboran Gyre to an elongated form, and shift the main axis of the jet towards the southern basin. Then, frontogenesis fails to contribute to phytoplankton production that becomes limited to the eddy pumping within cyclones. Apart from the frontogenetic production, eddy pumping, mesoscale stirring, and diapycnal mixing of nutrients support intermittent and localized phytoplankton patches over the basin.

Simulated Sampling of Estuary Plankton

ERIC Educational Resources Information Center

Fortner, Rosanne W.; Jenkins, Deborah Bainer

2009-01-01

To find out about the microscopic life in the valuable estuary environment, it is usually necessary to be near the water. This dry lab offers an alternative, using authentic data and a simulation of plankton sampling. From the types of organisms found in the sample, middle school students can infer relationships in the biological and physical…

Benthos and plankton community data for selected rivers and harbors along Wisconsin's Lake Michigan shoreline, 2012

USGS Publications Warehouse

Scudder Eikenberry, Barbara C.; Bell, Amanda H.; Burns, Daniel J.; Olds, Hayley T.

2014-01-01

Four river systems on the Wisconsin shoreline of Lake Michigan are designated Areas of Concern (AOCs) because of severe environmental degradation: the Lower Menominee River, Lower Green Bay and Fox River, Sheboygan River, and Milwaukee Estuary. Each AOC has one or more Beneficial Use Impairments (BUIs) that form the basis of the AOC designation and that must be remediated or otherwise addressed before the AOC designation can be removed. All four of these AOCs have BUIs for benthos (bottom-dwelling or benthic invertebrates), and all but the Menominee River have a BUI for plankton (free-floating algae and invertebrates, or phytoplankton and zooplankton, respectively). The U.S. Geological Survey collected samples in 2012 at these four AOCs and at six non-AOCs to support the evaluation of the status of aquatic communities in the benthos and plankton at the AOCs. Samples were collected during three periods representing spring, summer, and fall. Benthos samples were collected using a dredge grab sampler and artificial substrates; plankton samples were collected using a tow net for zooplankton and a vertical water sampler for phytoplankton. Benthos and plankton were identified to the lowest possible taxonomic category and counted; samples for documenting water temperature, pH, and specific conductance, as well as sediment particle size and organic carbon were also collected during biological sampling.

Diversity of Pico- to Mesoplankton along the 2000 km Salinity Gradient of the Baltic Sea

PubMed Central

Hu, Yue O. O.; Karlson, Bengt; Charvet, Sophie; Andersson, Anders F.

2016-01-01

Microbial plankton form the productive base of both marine and freshwater ecosystems and are key drivers of global biogeochemical cycles of carbon and nutrients. Plankton diversity is immense with representations from all major phyla within the three domains of life. So far, plankton monitoring has mainly been based on microscopic identification, which has limited sensitivity and reproducibility, not least because of the numerical majority of plankton being unidentifiable under the light microscope. High-throughput sequencing of taxonomic marker genes offers a means to identify taxa inaccessible by traditional methods; thus, recent studies have unveiled an extensive previously unknown diversity of plankton. Here, we conducted ultra-deep Illumina sequencing (average 105 sequences/sample) of rRNA gene amplicons of surface water eukaryotic and bacterial plankton communities sampled in summer along a 2000 km transect following the salinity gradient of the Baltic Sea. Community composition was strongly correlated with salinity for both bacterial and eukaryotic plankton assemblages, highlighting the importance of salinity for structuring the biodiversity within this ecosystem. In contrast, no clear trends in alpha-diversity for bacterial or eukaryotic communities could be detected along the transect. The distribution of major planktonic taxa followed expected patterns as observed in monitoring programs, but groups novel to the Baltic Sea were also identified, such as relatives to the coccolithophore Emiliana huxleyi detected in the northern Baltic Sea. This study provides the first ultra-deep sequencing-based survey on eukaryotic and bacterial plankton biogeography in the Baltic Sea. PMID:27242706

Spatial and temporal variations of total and methylmercury concentrations in plankton from a mercury-contaminated and eutrophic reservoir in Guizhou Province, China.

PubMed

Wang, Qing; Feng, Xinbin; Yang, Yufeng; Yan, Haiyu

2011-12-01

Total mercury (THg) and methylmercury (MeHg) concentrations in four size fractions of plankton from three sampling stations in the Hg-contaminated and eutrophic Baihua Reservoir, Guizhou, China, were investigated for biomagnification and trophic transfer of Hg at different sites with various proximity to the major point sources of nutrients and metals. Total Hg concentrations in plankton of the various size fractions varied from 49 to 5,504 ng g(-1) and MeHg concentrations ranged from 3 to 101 ng g(-1). The percentage of Hg as MeHg varied from 0.16 to 70%. Total Hg and MeHg concentrations in plankton samples differed among the three sampling stations with different proximities from the major point sources. The plankton from the site closest to the dam contained the highest concentrations of MeHg. The successive increase of the ratios of MeHg to Hg from seston to macroplankton at all sites indicated that biomagnification is occurring along the plankton food web. However, biomagnification factors (BMF) for MeHg were low (1.5-2.0) between trophic levels. Concentrations of THg in seston decreased with an increase of chlorophyll concentrations, suggesting a significant dilution effect by the algae bloom for Hg. Eutrophication dilution may be a reason for lower MeHg accumulation by the four size classes of plankton in this Hg-contaminated reservoir. Copyright © 2011 SETAC.

Planktonic foraminifera as proxies of Upper Quaternary sedimentation in The Okhotsk sea

NASA Astrophysics Data System (ADS)

Romanova, Alexandra

2013-04-01

Analyzing planktonic foraminifera in marine sediments assists us in reconstructing historical maps of climatic changes. The object of the study is the Okhotsk Sea, largest Russian Far East sea. Okhotsk sea, like other marginal seas, is very sensitive to global and regional climate changes. Planktonic foraminifera are poorly investigated in Okhotsk sea. Studying of planktonic foraminifera in Okhotsk sea has some problems: low quantity of species, one taxon domination, low percents of another species, influence of dissolution. These facts don't allow us to use standard approaches for paleotemperature reconstructions using planktonic foraminifera. This research explores the response of this group of microorganisms to main paleoclimatic events in Okhotsk region and attempt to reveal the special characteristics of this proxy for interpreting the paleoodata. The research was based on samples from 4 cores in the central part of the sea and 67 sediment stations from north to south (total of about 270 samples). As a result of studying sediment stations we created a map of biogeographycal distribution of planktonic foraminifera and distinguished five provinces. Each province has specific quantitive and qualative characteristics of foraminifera assemblages that give us information about their modern distribution and ecological preferences. This information is necessary for comparison with cores data. By correlating data from other analysis (radiocarbon dating, benthic and planktonic δ18O records, geochemical, pollen, diatom analyses) with discovered foraminifera sample data (core 936), we established certain climatic patterns and defined 5 criteria to apply to all of the other cores that did not have the same depth of climate information. We find that variation in abundance of different morhpotypes allows determining period of cooling and warming, which is confirmed by the variation in abundance across all of foraminifera species. These criteria might be a solution for paleotemerature reconstruction using planktonic foraminifera.

Marine plankton as an indicator of low-level radionuclide contamination in the Southern Ocean

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

Marsh, K.V.; Buddemeier, R.W.

1984-07-01

We have initiated an investigation of the utility of marine plankton as bioconcentrating samplers of low-level marine radioactivity in the southern hemisphere. A literature review shows that both freshwater and marine plankton have trace element and radionuclide concentration factors (relative to water) of up to 10/sup 4/. In the years 1956-1958, considerable work was done on the accumulation and distribution of a variety of fission and activation products produced by the nuclear tests in the Marshall Islands. Since then, studies have largely been confined to a few selected radionuclides, and by far most of this work has been done inmore » the northern hemisphere. We participated in Operation Deepfreeze 1981, collecting 32 plankton samples from the U.S. Coast Guard Cutter Glacier on its Antarctic cruise, while Battelle Pacific Northwest Laboratories concurrently sampled air, water, rain and fallout. We were able to measure concentrations of the naturally occurring radionuclides /sup 7/Be, /sup 40/K and the U and th series, and we believe that we have detected low levels of /sup 144/Ce and /sup 95/Nb in seven samples ranging as far south as 68/sup 0/. There is a definite association between the radionuclide content of plankton and air filters, suggesting that aerosol resuspension of marine radioactivity may be occurring. Biological identification of the plankton suggests a possible correlation between radionuclide concentration and foraminifera content of the samples. 38 references, 7 figures, 3 tables.« less

Spatial distribution of plankton in Riau islands province, Indonesia

NASA Astrophysics Data System (ADS)

Ayu, I. P.; Pratiwi, N. T. M.; Iswantari, A.; Hariyadi, S.; Mulyawati, D.; Subhan, B.; Arafat, D.; Santoso, P.; Sastria, M.

2017-01-01

Riau Islands which is located at 4ºLU - 1ºLS and 104ºBT - 107ºBT, consist of around 3200 islands. It has high marine biodiversity, especially micro-plankton. Biodiversity of marine phytoplankton is usually dominated by diatom and zooplankton by micro-crustacean and early stage of marine biota. Nowadays, biodiversity of micro-plankton is an important study to identify their origin and potential as alien and invasive species. The aim of this research was to determine the biodiversity of marine micro-plankton in Riau Islands. This research was conducted in 14 small islands (Karanggerih, Pemping, Panjang, Melur, Palantuah, Dendun, Mantang, Bunut, Kelong, Mercusuar, Tokong Hiu Kecil, Tokong Hiu Besar, Karimun, Penyengat) in Riau Islands Province. Samples of micro-plankton were collected from surface water using plankton net. Samples were observed under light microscope and identified morphologically. Biodiversity index was calculated. There were found 20-34 taxa of phytoplankton and 10-17 taxa of zooplankton in all sites. Phytoplankton was dominated by Bacillariophyceae group and zooplankton by Crustacean and Protozoa groups. This result is expected for biodiversity bank information and further research.

Cenozoic planktonic marine diatom diversity and correlation to climate change

USGS Publications Warehouse

Lazarus, David; Barron, John; Renaudie, Johan; Diver, Patrick; Türke, Andreas

2014-01-01

Marine planktonic diatoms export carbon to the deep ocean, playing a key role in the global carbon cycle. Although commonly thought to have diversified over the Cenozoic as global oceans cooled, only two conflicting quantitative reconstructions exist, both from the Neptune deep-sea microfossil occurrences database. Total diversity shows Cenozoic increase but is sample size biased; conventional subsampling shows little net change. We calculate diversity from a separately compiled new diatom species range catalog, and recalculate Neptune subsampled-in-bin diversity using new methods to correct for increasing Cenozoic geographic endemism and decreasing Cenozoic evenness. We find coherent, substantial Cenozoic diversification in both datasets. Many living cold water species, including species important for export productivity, originate only in the latest Miocene or younger. We make a first quantitative comparison of diatom diversity to the global Cenozoic benthic ∂18O (climate) and carbon cycle records (∂13C, and 20-0 Ma pCO2). Warmer climates are strongly correlated with lower diatom diversity (raw: rho = .92, p2 were only moderately higher than today. Diversity is strongly correlated to both ∂13C and pCO2 over the last 15 my (for both: r>.9, detrended r>.6, all p<.001), but only weakly over the earlier Cenozoic, suggesting increasingly strong linkage of diatom and climate evolution in the Neogene. Our results suggest that many living marine planktonic diatom species may be at risk of extinction in future warm oceans, with an unknown but potentially substantial negative impact on the ocean biologic pump and oceanic carbon sequestration. We cannot however extrapolate our my-scale correlations with generic climate proxies to anthropogenic time-scales of warming without additional species-specific information on proximate ecologic controls.

Ocean plankton. Environmental characteristics of Agulhas rings affect interocean plankton transport.

PubMed

Villar, Emilie; Farrant, Gregory K; Follows, Michael; Garczarek, Laurence; Speich, Sabrina; Audic, Stéphane; Bittner, Lucie; Blanke, Bruno; Brum, Jennifer R; Brunet, Christophe; Casotti, Raffaella; Chase, Alison; Dolan, John R; d'Ortenzio, Fabrizio; Gattuso, Jean-Pierre; Grima, Nicolas; Guidi, Lionel; Hill, Christopher N; Jahn, Oliver; Jamet, Jean-Louis; Le Goff, Hervé; Lepoivre, Cyrille; Malviya, Shruti; Pelletier, Eric; Romagnan, Jean-Baptiste; Roux, Simon; Santini, Sébastien; Scalco, Eleonora; Schwenck, Sarah M; Tanaka, Atsuko; Testor, Pierre; Vannier, Thomas; Vincent, Flora; Zingone, Adriana; Dimier, Céline; Picheral, Marc; Searson, Sarah; Kandels-Lewis, Stefanie; Acinas, Silvia G; Bork, Peer; Boss, Emmanuel; de Vargas, Colomban; Gorsky, Gabriel; Ogata, Hiroyuki; Pesant, Stéphane; Sullivan, Matthew B; Sunagawa, Shinichi; Wincker, Patrick; Karsenti, Eric; Bowler, Chris; Not, Fabrice; Hingamp, Pascal; Iudicone, Daniele

2015-05-22

Agulhas rings provide the principal route for ocean waters to circulate from the Indo-Pacific to the Atlantic basin. Their influence on global ocean circulation is well known, but their role in plankton transport is largely unexplored. We show that, although the coarse taxonomic structure of plankton communities is continuous across the Agulhas choke point, South Atlantic plankton diversity is altered compared with Indian Ocean source populations. Modeling and in situ sampling of a young Agulhas ring indicate that strong vertical mixing drives complex nitrogen cycling, shaping community metabolism and biogeochemical signatures as the ring and associated plankton transit westward. The peculiar local environment inside Agulhas rings may provide a selective mechanism contributing to the limited dispersal of Indian Ocean plankton populations into the Atlantic. Copyright © 2015, American Association for the Advancement of Science.

Planktonic benthonic foraminiferal ratios: Modern patterns and Tertiary applicability

USGS Publications Warehouse

Gibson, T.G.

1989-01-01

The abundance of planktonic specimens in foraminiferal assemblages was determined in numerous bottom samples from inner neritic to deep oceanic depths along the Atlantic margin of the northeastern United States. The results augment previous studies in other areas that have shown a general increase in percentage of planktonic specimens in total foraminiferal bottom assemblages as water depth increases. The patterns found in this area of complex shelf bathymetry and hydrography illustrate the influence on the planktonic-benthonic percentages of water depth, distance from shore, different water mass properties and downslope movement of tests in high energy areas. The patterns found in the 661 samples from the Atlantic margin were compared with results from 795 stations in the Gulf of Mexico, Pacific Ocean and Red Sea. The relative abundance of planktonic specimens and water depth correlates positively in all open oceanic areas even though taxonomic composition and diversity of the faunas from different areas is variable. The variation of planktonic percentages in bottom samples within most depth intervals is large so that a precise depth determination cannot be made for any given value. However, an approximate upper depth limit for given percentages can be estimated for open ocean environments. A decrease in planktonic percentages is seen in the lower salinity and higher turbidity coastal waters of the Gulf of Maine. Planktonic percentages intermediate between the lower values in the less saline coastal waters and the higher values in the normal open oceanic conditions occur in the transitional area between the Gulf of Maine and the open marine Atlantic Ocean to the east. Similarly lowered values in another area of restricted oceanic circulation occur in the high salinity, clear, but nutrient-poor waters of the Gulf of Aqaba off the Red Sea. A comparison of the similarity of modern planktonic percentage values to those found in earlier Tertiary assemblages was made to confirm the usefulness of this measure in the fossil record. In some stratigraphic sections in upper Paleocene and lower Eocene strata of the eastern Gulf Coastal Plain, water depths inferred from trends and values of planktonic percentages consistently match paleobathymetry constructed from physical stratigraphic characteristics and paleogeographic relationships. ?? 1989.

Norwegian deep-water coral reefs: cultivation and molecular analysis of planktonic microbial communities.

PubMed

Jensen, Sigmund; Lynch, Michael D J; Ray, Jessica L; Neufeld, Josh D; Hovland, Martin

2015-10-01

Deep-sea coral reefs do not receive sunlight and depend on plankton. Little is known about the plankton composition at such reefs, even though they constitute habitats for many invertebrates and fish. We investigated plankton communities from three reefs at 260-350 m depth at hydrocarbon fields off the mid-Norwegian coast using a combination of cultivation and small subunit (SSU) rRNA gene and transcript sequencing. Eight months incubations of a reef water sample with minimal medium, supplemented with carbon dioxide and gaseous alkanes at in situ-like conditions, enabled isolation of mostly Alphaproteobacteria (Sulfitobacter, Loktanella), Gammaproteobacteria (Colwellia) and Flavobacteria (Polaribacter). The relative abundance of isolates in the original sample ranged from ∼ 0.01% to 0.80%. Comparisons of bacterial SSU sequences from filtered plankton of reef and non-reef control samples indicated high abundance and metabolic activity of primarily Alphaproteobacteria (SAR11 Ia), Gammaproteobacteria (ARCTIC96BD-19), but also of Deltaproteobacteria (Nitrospina, SAR324). Eukaryote SSU sequences indicated metabolically active microalgae and animals, including codfish, at the reef sites. The plankton community composition varied between reefs and differed between DNA and RNA assessments. Over 5000 operational taxonomic units were detected, some indicators of reef sites (e.g. Flavobacteria, Cercozoa, Demospongiae) and some more active at reef sites (e.g. Gammaproteobacteria, Ciliophora, Copepoda). © 2014 Society for Applied Microbiology and John Wiley & Sons Ltd.

Benthos and plankton community data for selected rivers and harbors along the western Lake Michigan shoreline, 2014

USGS Publications Warehouse

Scudder Eikenberry, Barbara C.; Burns, Daniel J.; Olds, Hayley T.; Bell, Amanda H.; Mapel, Kassidy T.

2016-06-15

Benthos (benthic invertebrates) and plankton (zooplankton and phytoplankton) communities were sampled in 2014 at 10 Wisconsin rivers and harbors, including 4 sites in Great Lakes Areas of Concern and 6 less degraded comparison sites with similar physical and chemical characteristics, including climate, latitude, geology, and land use. Previous U.S. Geological Survey sampling was completed in 2012, but because of ongoing sediment remediation at three of the Areas of Concern (AOCs) and unusually hot and dry conditions in many areas during 2012, additional sampling was added in 2014. Comparable sampling methods were used in 2012 and 2014. Benthos were collected by using Hester-Dendy artificial substrate samplers and composite Ponar grab samples of bottom sediment; zooplankton were collected by using tows from depth to the surface with a 63-micrometer mesh plankton net; phytoplankton were collected by using whole water samples composited from set depth intervals. This report describes the study areas and field sampling methods for 2014, and it presents data on taxonomic identification and abundance of benthos and plankton that can serve as a basis for evaluation of related Beneficial Use Impairments (BUIs) at the AOCs. Physical and chemical data were sampled concurrently (specific conductance, temperature, pH, dissolved oxygen, chlorophyll a, total and volatile suspended solids in water samples; particle size and volatile-on-ignition of sediment in benthic grab samples). The results of field quality assurance-quality control are also presented.

Limited impact of ocean acidification on phytoplankton community structure and carbon export in an oligotrophic environment: Results from two short-term mesocosm studies in the Mediterranean Sea

NASA Astrophysics Data System (ADS)

Gazeau, F.; Sallon, A.; Pitta, P.; Tsiola, A.; Maugendre, L.; Giani, M.; Celussi, M.; Pedrotti, M. L.; Marro, S.; Guieu, C.

2017-02-01

Modifications in the strength of the biological pump as a consequence of ocean acidification, whether positive or negative, have the potential to impact atmospheric CO2 and therefore climate. So far, most plankton community perturbation studies have been performed in nutrient-rich areas although there are some indications that CO2-dependent growth could differ in nutrient-replete vs. -limited regions and with different community compositions. Two in situ mesocosm experiments were performed in the NW Mediterranean Sea during two seasons with contrasted environmental conditions: summer oligotrophic stratified waters in the Bay of Calvi vs. winter mesotrophic well-mixed waters in the Bay of Villefranche. Nine mesocosms were deployed for 20 and 12 d, respectively, and subjected to seven CO2 levels (3 controls, 6 elevated levels). Both phytoplankton assemblages were dominated by pico- and nano-phytoplankton cells. Although haptophyceae and dinoflagellates benefited from short-term CO2 enrichment in summer, their response remained small with no consequences on organic matter export due to strong environmental constraints (nutrient availability). In winter, most of the plankton growth and associated nutrient consumption occurred during the 4-day acidification period (before the experimental phase). During the remaining experimental period, characterized by low nutrient availability, plankton growth was minimal and no clear CO2-dependency was found for any of the tested parameters. While there is a strong confidence on the absence of significant effect of short-term CO2 addition under oligotrophic conditions, more investigations are needed to assess the response of plankton communities in winter when vertical mixing and weather conditions are major factors controlling plankton dynamics.

Surface ocean metabarcoding confirms limited diversity in planktonic foraminifera but reveals unknown hyper-abundant lineages.

PubMed

Morard, Raphaël; Garet-Delmas, Marie-José; Mahé, Frédéric; Romac, Sarah; Poulain, Julie; Kucera, Michal; de Vargas, Colomban

2018-02-07

Since the advent of DNA metabarcoding surveys, the planktonic realm is considered a treasure trove of diversity, inhabited by a small number of abundant taxa, and a hugely diverse and taxonomically uncharacterized consortium of rare species. Here we assess if the apparent underestimation of plankton diversity applies universally. We target planktonic foraminifera, a group of protists whose known morphological diversity is limited, taxonomically resolved and linked to ribosomal DNA barcodes. We generated a pyrosequencing dataset of ~100,000 partial 18S rRNA foraminiferal sequences from 32 size fractioned photic-zone plankton samples collected at 8 stations in the Indian and Atlantic Oceans during the Tara Oceans expedition (2009-2012). We identified 69 genetic types belonging to 41 morphotaxa in our metabarcoding dataset. The diversity saturated at local and regional scale as well as in the three size fractions and the two depths sampled indicating that the diversity of foraminifera is modest and finite. The large majority of the newly discovered lineages occur in the small size fraction, neglected by classical taxonomy. These unknown lineages dominate the bulk [>0.8 µm] size fraction, implying that a considerable part of the planktonic foraminifera community biomass has its origin in unknown lineages.

The biomass of the deep-sea benthopelagic plankton

NASA Astrophysics Data System (ADS)

Wishner, K. F.

1980-04-01

Deep-sea benthopelagic plankton samples were collected with a specially designed opening-closing net system 10 to 100 m above the bottom in five different oceanic regions at depths from 1000 to 4700 m. Benthopelagic plankton biomasses decrease exponentially with depth. At 1000 m the biomass is about 1% that of the surface zooplankton, at 5000 m about 0.1%. Effects of differences in surface primary productivity on deep-sea plankton biomass are much less than the effect of depth and are detectable only in a few comparisons of extreme oceanic regions. The biomass at 10 m above the bottom is greater than that at 100 m above the bottom (in a three-sample comparison), which could be a consequence of an enriched near-bottom environment. The deep-sea plankton biomass in the Red Sea is anomalously low. This may be due to increased decomposition rates in the warm (22°C) deep Red Sea water, which prevent much detritus from reaching the deep sea. A model of organic carbon utilization in the benthic boundary layer (bottom 100 m), incorporating results from deep-sea sediment trap and respiration studies, indicates that the benthopelagic plankton use only a small amount of the organic carbon flux. A large fraction of the flux is unaccounted for by present estimates of benthic and benthopelagic respiration.

In Vitro Activity of Miltefosine against Candida albicans under Planktonic and Biofilm Growth Conditions and In Vivo Efficacy in a Murine Model of Oral Candidiasis

PubMed Central

Chaturvedi, Ashok K.; Rozental, Sonia

2015-01-01

The generation of a new antifungal against Candida albicans biofilms has become a major priority, since biofilm formation by this opportunistic pathogenic fungus is usually associated with an increased resistance to azole antifungal drugs and treatment failures. Miltefosine is an alkyl phospholipid with promising antifungal activity. Here, we report that, when tested under planktonic conditions, miltefosine displays potent in vitro activity against multiple fluconazole-susceptible and -resistant C. albicans clinical isolates, including isolates overexpressing efflux pumps and/or with well-characterized Erg11 mutations. Moreover, miltefosine inhibits C. albicans biofilm formation and displays activity against preformed biofilms. Serial passage experiments confirmed that miltefosine has a reduced potential to elicit resistance, and screening of a library of C. albicans transcription factor mutants provided additional insight into the activity of miltefosine against C. albicans growing under planktonic and biofilm conditions. Finally, we demonstrate the in vivo efficacy of topical treatment with miltefosine in the murine model of oropharyngeal candidiasis. Overall, our results confirm the potential of miltefosine as a promising antifungal drug candidate, in particular for the treatment of azole-resistant and biofilm-associated superficial candidiasis. PMID:26416861

Biofilm and planktonic lifestyles differently support the resistance of the desert cyanobacterium Chroococcidiopsis under space and Martian simulations.

PubMed

Baqué, Mickael; Scalzi, Giuliano; Rabbow, Elke; Rettberg, Petra; Billi, Daniela

2013-10-01

When Chroococcidiopsis sp. strain CCMEE 057 from the Sinai Desert and strain CCMEE 029 from the Negev Desert were exposed to space and Martian simulations in the dried status as biofilms or multilayered planktonic samples, the biofilms exhibited an enhanced rate of survival. Compared to strain CCMEE 029, biofilms of strain CCME 057 better tolerated UV polychromatic radiation (5 × 10(5) kJ/m(2) attenuated with a 0.1% neutral density filter) combined with space vacuum or Martian atmosphere of 780 Pa. CCMEE 029, on the other hand, failed to survive UV polychromatic doses higher than 1.5 × 10(3) kJ/m(2). The induced damage to genomic DNA, plasma membranes and photosynthetic apparatus was quantified and visualized by means of PCR-based assays and CLSM imaging. Planktonic samples of both strains accumulated a higher amount of damage than did the biofilms after exposure to each simulation; CLSM imaging showed that photosynthetic pigment bleaching, DNA fragmentation and damaged plasma membranes occurred in the top 3-4 cell layers of both biofilms and of multilayered planktonic samples. Differences in the EPS composition were revealed by molecular probe staining as contributing to the enhanced endurance of biofilms compared to that of planktonic samples. Our results suggest that compared to strain CCMEE 029, biofilms of strain CCMEE 057 might better tolerate 1 year's exposure in space during the next EXPOSE-R2 mission.

Biofilm and Planktonic Lifestyles Differently Support the Resistance of the Desert Cyanobacterium Chroococcidiopsis Under Space and Martian Simulations

NASA Astrophysics Data System (ADS)

Baqué, Mickael; Scalzi, Giuliano; Rabbow, Elke; Rettberg, Petra; Billi, Daniela

2013-10-01

When Chroococcidiopsis sp. strain CCMEE 057 from the Sinai Desert and strain CCMEE 029 from the Negev Desert were exposed to space and Martian simulations in the dried status as biofilms or multilayered planktonic samples, the biofilms exhibited an enhanced rate of survival. Compared to strain CCMEE 029, biofilms of strain CCME 057 better tolerated UV polychromatic radiation (5 × 105 kJ/m2 attenuated with a 0.1 % neutral density filter) combined with space vacuum or Martian atmosphere of 780 Pa. CCMEE 029, on the other hand, failed to survive UV polychromatic doses higher than 1.5 × 103 kJ/m2. The induced damage to genomic DNA, plasma membranes and photosynthetic apparatus was quantified and visualized by means of PCR-based assays and CLSM imaging. Planktonic samples of both strains accumulated a higher amount of damage than did the biofilms after exposure to each simulation; CLSM imaging showed that photosynthetic pigment bleaching, DNA fragmentation and damaged plasma membranes occurred in the top 3-4 cell layers of both biofilms and of multilayered planktonic samples. Differences in the EPS composition were revealed by molecular probe staining as contributing to the enhanced endurance of biofilms compared to that of planktonic samples. Our results suggest that compared to strain CCMEE 029, biofilms of strain CCMEE 057 might better tolerate 1 year's exposure in space during the next EXPOSE-R2 mission.

Determination of Domoic Acid in Plankton Net Samples from Golden Horn Estuary, Turkey, Using HPLC with Fluorescence Detection.

PubMed

Dursun, Fuat; Ünlü, Selma; Yurdun, Türkan

2018-03-01

This study focused on the fluctuations of domoic acid (DA) levels in plankton net samples collected from the Golden Horn Estuary (GHE), Turkey, between August 2011 and July 2012. DA concentrations were determined by high-performance liquid chromatography (HPLC), using a fluorenylmethoxycarbonyl (FMOC) derivatization technique. Monthly and biweekly data were evaluated with environmental variables, and their influence on DA production is discussed. DA levels in plankton net samples varied between 0.36 and 94.34 µg L - 1 . DA levels showed remarkable seasonal variation and they were generally higher in May, 2012, but no DA was detected between February and April, 2012. DA production was mostly controlled by temperature, with nitrate and silicate limitations being secondary factors that influenced DA concentrations.

PFR²: a curated database of planktonic foraminifera 18S ribosomal DNA as a resource for studies of plankton ecology, biogeography and evolution.

PubMed

Morard, Raphaël; Darling, Kate F; Mahé, Frédéric; Audic, Stéphane; Ujiié, Yurika; Weiner, Agnes K M; André, Aurore; Seears, Heidi A; Wade, Christopher M; Quillévéré, Frédéric; Douady, Christophe J; Escarguel, Gilles; de Garidel-Thoron, Thibault; Siccha, Michael; Kucera, Michal; de Vargas, Colomban

2015-11-01

Planktonic foraminifera (Rhizaria) are ubiquitous marine pelagic protists producing calcareous shells with conspicuous morphology. They play an important role in the marine carbon cycle, and their exceptional fossil record serves as the basis for biochronostratigraphy and past climate reconstructions. A major worldwide sampling effort over the last two decades has resulted in the establishment of multiple large collections of cryopreserved individual planktonic foraminifera samples. Thousands of 18S rDNA partial sequences have been generated, representing all major known morphological taxa across their worldwide oceanic range. This comprehensive data coverage provides an opportunity to assess patterns of molecular ecology and evolution in a holistic way for an entire group of planktonic protists. We combined all available published and unpublished genetic data to build PFR(2), the Planktonic foraminifera Ribosomal Reference database. The first version of the database includes 3322 reference 18S rDNA sequences belonging to 32 of the 47 known morphospecies of extant planktonic foraminifera, collected from 460 oceanic stations. All sequences have been rigorously taxonomically curated using a six-rank annotation system fully resolved to the morphological species level and linked to a series of metadata. The PFR(2) website, available at http://pfr2.sb-roscoff.fr, allows downloading the entire database or specific sections, as well as the identification of new planktonic foraminiferal sequences. Its novel, fully documented curation process integrates advances in morphological and molecular taxonomy. It allows for an increase in its taxonomic resolution and assures that integrity is maintained by including a complete contingency tracking of annotations and assuring that the annotations remain internally consistent. © 2015 John Wiley & Sons Ltd.

Persistence and Growth of the Fecal Indicator Bacteria Enterococci in Detritus and Natural Estuarine Plankton Communities

PubMed Central

Mote, Beth L.; Turner, Jeffrey W.

2012-01-01

Enterococci are used to evaluate recreational-water quality and health risks in marine environments. In addition to their occurrence in feces of warm blooded animals, they are also common epiphytes. We investigated the contribution of plankton- or particle-associated enterococci in estuarine and coastal water. Seven water and size-fractionated plankton samples were collected monthly between April 2008 and January 2009 in the tidal reaches of the Skidaway River (Georgia, USA). Each size fraction, along with filtered (<30 μm) and bulk estuarine water, was processed according to U.S. Environmental Protection Agency method 1600. Presumptive enterococci were selected and species were identified using carbon substrate utilization patterns. The highest average densities occurred within the 30-, 63-, 105-, and 150-μm size fractions, which also represented the majority (>99%) of the particles within the sampled water. Particle-associated enterococci accounted for as little as 1% of enterococci in bulk water in April to as much as 95% in July. Enterococcus faecalis was the most commonly isolated species from both water and plankton and represented 31% (16/51) and 35% (6/17) of the identified Enterococcus species from water and plankton, respectively. Enterococcus casseliflavus represented 29% of the selected isolates from plankton and 16% from water. Both E. faecalis and E. casseliflavus were able to survive and grow in plankton suspensions significantly longer than in artificial seawater. Enterococcus spp. may be highly concentrated in plankton and associated particles, especially during summer and fall months. These findings could have implications for the effectiveness of enterococci as an indicator of coastal water quality, especially in particle-rich environments. PMID:22327586

[Comparative analysis between diatom nitric acid digestion method and plankton 16S rDNA PCR method].

PubMed

Han, Jun-ge; Wang, Cheng-bao; Li, Xing-biao; Fan, Yan-yan; Feng, Xiang-ping

2013-10-01

To compare and explore the application value of diatom nitric acid digestion method and plankton 16S rDNA PCR method for drowning identification. Forty drowning cases from 2010 to 2011 were collected from Department of Forensic Medicine of Wenzhou Medical University. Samples including lung, kidney, liver and field water from each case were tested with diatom nitric acid digestion method and plankton 16S rDNA PCR method, respectively. The Diatom nitric acid digestion method and plankton 16S rDNA PCR method required 20 g and 2 g of each organ, and 15 mL and 1.5 mL of field water, respectively. The inspection time and detection rate were compared between the two methods. Diatom nitric acid digestion method mainly detected two species of diatoms, Centriae and Pennatae, while plankton 16S rDNA PCR method amplified a length of 162 bp band. The average inspection time of each case of the Diatom nitric acid digestion method was (95.30 +/- 2.78) min less than (325.33 +/- 14.18) min of plankton 16S rDNA PCR method (P < 0.05). The detection rates of two methods for field water and lung were both 100%. For liver and kidney, the detection rate of plankton 16S rDNA PCR method was both 80%, higher than 40% and 30% of diatom nitric acid digestion method (P < 0.05), respectively. The laboratory testing method needs to be appropriately selected according to the specific circumstances in the forensic appraisal of drowning. Compared with diatom nitric acid digestion method, plankton 16S rDNA PCR method has practice values with such advantages as less quantity of samples, huge information and high specificity.

A molecular method for the detection of sally lightfoot crab larvae (Grapsus grapsus, Brachyura, Grapsidae) in plankton samples

PubMed Central

Ströher, Patrícia R.; Firkowski, Carina R.; Freire, Andrea S.; Pie, Marcio R.

2011-01-01

The decapod Grapsus grapsus is commonly found on oceanic islands of the Pacific and Atlantic coasts of the Americas. In this study, a simple, quick and reliable method for detecting its larvae in plankton samples is described, which makes it ideal for large-scale studies of larval dispersal patterns in the species. PMID:21931530

Modeling the distribution of colonial species to improve estimation of plankton concentration in ballast water

NASA Astrophysics Data System (ADS)

Rajakaruna, Harshana; VandenByllaardt, Julie; Kydd, Jocelyn; Bailey, Sarah

2018-03-01

The International Maritime Organization (IMO) has set limits on allowable plankton concentrations in ballast water discharge to minimize aquatic invasions globally. Previous guidance on ballast water sampling and compliance decision thresholds was based on the assumption that probability distributions of plankton are Poisson when spatially homogenous, or negative binomial when heterogeneous. We propose a hierarchical probability model, which incorporates distributions at the level of particles (i.e., discrete individuals plus colonies per unit volume) and also within particles (i.e., individuals per particle) to estimate the average plankton concentration in ballast water. We examined the performance of the models using data for plankton in the size class ≥ 10 μm and < 50 μm, collected from five different depths of a ballast tank of a commercial ship in three independent surveys. We show that the data fit to the negative binomial and the hierarchical probability models equally well, with both models performing better than the Poisson model at the scale of our sampling. The hierarchical probability model, which accounts for both the individuals and the colonies in a sample, reduces the uncertainty associated with the concentration estimation, and improves the power of rejecting the decision on ship's compliance when a ship does not truly comply with the standard. We show examples of how to test ballast water compliance using the above models.

Seasonal variation of plankton communities influenced by environmental factors in an artificial lake

NASA Astrophysics Data System (ADS)

Li, Xuemei; Yu, Yuhe; Zhang, Tanglin; Feng, Weisong; Ao, Hongyi; Yan, Qingyun

2012-05-01

We evaluated the seasonal variation in plankton community composition in an artificial lake. We conducted microscopic analysis and denaturing gradient gel electrophoresis (DGGE) of PCR-amplified partial 16S rRNA and 18S rRNA genes to characterize the plankton community. The clustering of unweighted pair group method with arithmetic mean (UPGMA) was then used to investigate the similarity of these plankton communities. DGGE fingerprinting revealed that samples collected at the different sites within a season shared high similarity and were generally grouped together. In contrast, we did not observe any seasonal variation based on microscopic analysis. Redundancy analysis (RDA) of the plankton operational taxonomic units (OTUs) in relation to environmental factors revealed that transparency was negatively correlated with the first axis ( R=-0.931), and temperature and total phosphorus (TP) were positively correlated with the first axis ( R=0.736 and R=0.660, respectively). In conclusion, plankton communities in the artificial lake exhibited significant seasonal variation. Transparency, phosphorus and temperature appear to be the major factors driving the differences in plankton composition.

Sub-minimum inhibitory concentrations of colistin and polymyxin B promote Acinetobacter baumannii biofilm formation

PubMed Central

Unno, Yuka; Ubagai, Tsuneyuki; Ono, Yasuo

2018-01-01

We investigated the numbers of planktonic and biofilm cells and the expression levels of genes encoding efflux pumps and biofilm-related proteins in 10 clinical isolates of multi-drug resistant Acinetobacter baumannii (MDRA) as well as in its standard strain ATCC 19606 in the presence of colistin (CST), polymyxin B (PMB), minomycin (MIN), and tigecycline (TGC) at their respective sub-MICs. The number of planktonic and biofilm cells of ATCC 19606 decreased in the presence of all aforementioned antibiotics in a dose-dependent manner. Cell number also decreased in two representative MDRA strains, R2 and R3, in the presence of MIN and TGC in a dose-dependent manner. In contrast, the number of biofilm cells in these two strains increased in the presence of CST, while they increased significantly in the presence of PMB in R2 only. Pearson correlation analysis revealed that the number of biofilm cells was positively and significantly correlated with the mRNA levels of genes encoding efflux pumps (adeB and adeG) and autoinducer synthase (abaI) in strain R2 and adeB, adeG, adeJ, poly-acetyl-glucosamine-porin (pgaA), and abaI in strain R3 in the presence of CST. It was positively and significantly correlated with the mRNA levels of genes encoding adeB in strain R2 and an outer membrane protein A (ompA) and biofilm-associated protein (bap) in strain R3 in the presence of PMB. These results provide valuable insights into the biofilm formation potency of clinical isolates of MDRA that depends on efflux pumps and biofilm-related genes and its regulation by antibiotics. PMID:29554105

How well does the Continuous Plankton Recorder (CPR) sample zooplankton? A comparison with the Longhurst Hardy Plankton Recorder (LHPR) in the northeast Atlantic

NASA Astrophysics Data System (ADS)

Richardson, Anthony J.; John, Eurgain H.; Irigoien, Xabier; Harris, Roger P.; Hays, Graeme C.

2004-09-01

The Continuous Plankton Recorder (CPR) survey has collected data on basin-scale zooplankton abundance in the North Atlantic since the 1930s. These data have been used in many studies to elucidate seasonal patterns and long-term change in plankton populations, as well as more recently to validate ecosystem models. There has, however, been relatively little comparison of the data from the CPR with that from other samplers. In this study we compare zooplankton abundance estimated from the CPR in the northeast Atlantic with near-surface samples collected by a Longhurst-Hardy Plankton Recorder (LHPR) at Ocean Weather Station India (59°N, 19°W) between 1971 and 1975. Comparisons were made for six common copepods in the region: Acartia clausi, Calanus finmarchicus, Euchaeta norvegica, Metridia lucens, Oithona sp., and Pleuromamma robusta. Seasonal cycles based on CPR data were similar to those recorded by the LHPR. Differences in absolute abundances were apparent, however, with the CPR underestimating abundances by a factor of between 5 and 40, with the exception of A. clausi. Active avoidance by zooplankton is thought to be responsible. This avoidance is species specific, so that care must be taken describing communities, as the CPR emphasises those species that are preferentially caught, a problem common to many plankton samplers.

Methanogenic activity in plankton samples and fish intestines A mechanism for in situ methanogenesis in oceanic surface waters

USGS Publications Warehouse

Oremland, Ronald S.

1979-01-01

When plankton samples were incubated anaerobically with a cysteine-sulfide reducing agent, pronounced methane evolution occurred. This activity was inhibited by air, CHCl3, C2H2, and 2-bromoethanesulfonic acid. Adding [14C]CO32− resulted in accumulation of [14C]CH4. Portions of the digestive tracts of three fishes were incubated in methanogenic media, and two of the samples showed the presence of methanogenic bacteria.

Spatial and Temporal Water Quality Dynamics in the Lake Maumelle Reservoir (Arkansas): Geochemical and Planktonic Variance in a Drinking Water Source

NASA Astrophysics Data System (ADS)

Carey, M. D.; Ruhl, L. S.

2017-12-01

The Lake Maumelle reservoir is Central Arkansas's main water supply. Maintaining a high standard of water quality is important to the over 400,000 residents of this area whom rely on this mesotrophic waterbody for drinking water. Lake Maumelle is also a scenic attraction for recreational boating and fishing. Past research has focused primarily on watershed management with land use/land cover modeling and quarterly water sampling of the 13.91mi2 reservoir. The surrounding land within the watershed is predominately densely forested, with timber farms and the Ouachita National Forest. This project identifies water quality changes spatially and temporally, which have not been as frequently observed, over a 6-month timespan. Water samples were collected vertically throughout the water column and horizontally throughout the lake following reservoir zonation. Parameters collected vertically for water quality profiles are temperature, dissolved oxygen, electrical conductivity, salinity, and pH. Soft sediment samples were collected and pore water was extracted by centrifuge. Cation and anion concentrations in the water samples were determined using ion chromatography, and trace element concentrations were determined using ICPMS. Planktonic abundances were determined using an inverted microscope and a 5ml counting chamber. Trace element, cation, and anion concentrations have been compared with planktonic abundance and location to determine microorganismal response to geochemical variance. During June 2017 sampling, parameters varied throughout the water column (temperature decreased 4 degrees Celsius and dissolved oxygen decreased from 98% to 30% from surface to bottom depths), revealing that the reservoir was becoming stratified. Collected plankton samples revealed the presence of copepod, daphnia, and dinoflagellate algae. Utricularia gibba was present in the littoral zone. Low electrical conductivity readings and high water clarity are consistent with the lake's mesotrophic state index classification. The results will be compared to previous sampling events, used to calculate enrichment factors of geochemical constituents, and used to create a geochemical and planktonic map of the lake through time.

The Trace Element Composition of Plankton and Dust in the Qatari EEZ

NASA Astrophysics Data System (ADS)

Turner, J.; Murray, J. W.; Yigiterhan, O.; Al-Ansari, I. S.; Al-Ansi, M.; Abdel-Moati, M.; Paul, B.; Nelson, A.

2015-12-01

We present data on elemental concentrations of plankton net tow samples from the Exclusive Economic Zone (EEZ) of Qatar in the Arabian Gulf as part of a broader study of biogenic and lithogenic influences on particulate trace metal concentrations in the surface ocean. There are relatively few analyses of planktonic trace metals and their associated role in the biogeochemical system. We had the opportunity to investigate the composition of plankton in a region heavily affected by dust, a significant factor for phytoplankton growth. Our samples were collected from 2012 to 2015 using trace metal clean net tows with mesh sizes of 50 and 200 microns for measurements of phytoplankton and zooplankton, respectively. Samples were totally digested and analyzed by inductively coupled plasma-mass spectroscopy (ICP-MS). The biogenic portion was determined by subtracting the lithogenic portion from the total concentration. The lithogenic fraction was defined as the concentration of aluminum in the sample multiplied by a [Me]/Al ratio. Using average Qatari dust for these ratios generated a significant amount of overcorrection, so ratios were established using average upper continental crust (UCC). This method still caused some overcorrection for the lithogenic portion resulting in negative excess values for barium, molybdenum, and lead. These same elements showed the least consistency between measurements. For the other elements, a relative stoichiometry for plankton was determined as Fe > Cu ≈ Zn > As ≈ Cr ≈ Mn ≈ Ni ≈ V > Cd ≈ Co. We also found a significant near shore enrichment for 9 out of 13 elements analyzed, indicative of a possible influence of coastal processes.

Dynamic genetic features of eukaryotic plankton diversity in the Nakdong River estuary of Korea

NASA Astrophysics Data System (ADS)

Lee, Jee Eun; Chung, Ik Kyo; Lee, Sang-Rae

2017-07-01

Estuaries are environments where freshwater and seawater mix and they display various salinity profiles. The construction of river barrages and dams has rapidly changed these environments and has had a wide range of impacts on plankton communities. To understand the dynamics of such communities, researchers need accurate and rapid techniques for detecting plankton species. We evaluated the diversity of eukaryotic plankton over a salinity gradient by applying a metagenomics tool at the Nakdong River estuary in Korea. Environmental samples were collected on three dates during summer and autumn of 2011 at the Eulsukdo Bridge at the mouth of that river. Amplifying the 18S rDNA allowed us to analyze 456 clones and 122 phylotypes. Metagenomic sequences revealed various taxonomic groups and cryptic genetic variations at the intra- and inter-specific levels. By analyzing the same station at each sampling date, we observed that the phylotypes presented a salinity-related pattern of diversity in assemblages. The variety of species within freshwater samples reflected the rapid environmental changes caused by freshwater inputs. Dinophyceae phylotypes accounted for the highest proportion of overall diversity in the seawater samples. Euryhaline diatoms and dinoflagellates were observed in the freshwater, brackish and seawater samples. The biological data for species composition demonstrate the transitional state between freshwater and seawater. Therefore, this metagenomics information can serve as a biological indicator for tracking changes in aquatic environments.

Cenozoic Planktonic Marine Diatom Diversity and Correlation to Climate Change

PubMed Central

Lazarus, David; Barron, John; Renaudie, Johan; Diver, Patrick; Türke, Andreas

2014-01-01

Marine planktonic diatoms export carbon to the deep ocean, playing a key role in the global carbon cycle. Although commonly thought to have diversified over the Cenozoic as global oceans cooled, only two conflicting quantitative reconstructions exist, both from the Neptune deep-sea microfossil occurrences database. Total diversity shows Cenozoic increase but is sample size biased; conventional subsampling shows little net change. We calculate diversity from a separately compiled new diatom species range catalog, and recalculate Neptune subsampled-in-bin diversity using new methods to correct for increasing Cenozoic geographic endemism and decreasing Cenozoic evenness. We find coherent, substantial Cenozoic diversification in both datasets. Many living cold water species, including species important for export productivity, originate only in the latest Miocene or younger. We make a first quantitative comparison of diatom diversity to the global Cenozoic benthic ∂18O (climate) and carbon cycle records (∂13C, and 20-0 Ma pCO2). Warmer climates are strongly correlated with lower diatom diversity (raw: rho = .92, p<.001; detrended, r = .6, p = .01). Diatoms were 20% less diverse in the early late Miocene, when temperatures and pCO2 were only moderately higher than today. Diversity is strongly correlated to both ∂13C and pCO2 over the last 15 my (for both: r>.9, detrended r>.6, all p<.001), but only weakly over the earlier Cenozoic, suggesting increasingly strong linkage of diatom and climate evolution in the Neogene. Our results suggest that many living marine planktonic diatom species may be at risk of extinction in future warm oceans, with an unknown but potentially substantial negative impact on the ocean biologic pump and oceanic carbon sequestration. We cannot however extrapolate our my-scale correlations with generic climate proxies to anthropogenic time-scales of warming without additional species-specific information on proximate ecologic controls. PMID:24465441

Cenozoic planktonic marine diatom diversity and correlation to climate change.

PubMed

Lazarus, David; Barron, John; Renaudie, Johan; Diver, Patrick; Türke, Andreas

2014-01-01

Marine planktonic diatoms export carbon to the deep ocean, playing a key role in the global carbon cycle. Although commonly thought to have diversified over the Cenozoic as global oceans cooled, only two conflicting quantitative reconstructions exist, both from the Neptune deep-sea microfossil occurrences database. Total diversity shows Cenozoic increase but is sample size biased; conventional subsampling shows little net change. We calculate diversity from a separately compiled new diatom species range catalog, and recalculate Neptune subsampled-in-bin diversity using new methods to correct for increasing Cenozoic geographic endemism and decreasing Cenozoic evenness. We find coherent, substantial Cenozoic diversification in both datasets. Many living cold water species, including species important for export productivity, originate only in the latest Miocene or younger. We make a first quantitative comparison of diatom diversity to the global Cenozoic benthic ∂(18)O (climate) and carbon cycle records (∂(13)C, and 20-0 Ma pCO2). Warmer climates are strongly correlated with lower diatom diversity (raw: rho = .92, p<.001; detrended, r = .6, p = .01). Diatoms were 20% less diverse in the early late Miocene, when temperatures and pCO2 were only moderately higher than today. Diversity is strongly correlated to both ∂(13)C and pCO2 over the last 15 my (for both: r>.9, detrended r>.6, all p<.001), but only weakly over the earlier Cenozoic, suggesting increasingly strong linkage of diatom and climate evolution in the Neogene. Our results suggest that many living marine planktonic diatom species may be at risk of extinction in future warm oceans, with an unknown but potentially substantial negative impact on the ocean biologic pump and oceanic carbon sequestration. We cannot however extrapolate our my-scale correlations with generic climate proxies to anthropogenic time-scales of warming without additional species-specific information on proximate ecologic controls.

Influence of top-down control in the plankton food web on vertical carbon flux: a mesocosm study in the Chesapeake Bay

NASA Astrophysics Data System (ADS)

Stone, J.; Steinberg, D. K.

2016-02-01

The effects of predation on carbon export in planktonic food webs are poorly known, but likely play a key role in the biological pump. Gelatinous zooplankton (GZ) dominate the zooplankton community in the Chesapeake Bay during summer months, exerting considerable top-down control on the planktonic food web. The medusa Chrysaora quinquecirrha preys upon the ctenophore Mnemiopsis leidyi, which in turn is a major predator of the omnivorous copepod Acartia tonsa. This trophic cascade is known to significantly affect copepod abundance in Chesapeake Bay, but the resulting changes to particulate organic carbon (POC) flux are unknown. We hypothesized that additions or exclusions of GZ predators would result in changes in both total POC flux and the composition of exported particles (e.g., phytoplankton aggregates, fecal pellets). We conducted mesocosm experiments in the York River tributary of Chesapeake Bay during summer and fall, 2015 to quantify the cascading effects of GZ blooms on POC flux. The mesocosms contained a natural assemblage of phytoplankton and microzooplankton, and A. tonsa copepods, and received one of four treatments of GZ: 1) a control with no GZ added, 2) addition of ctenophores, 3) addition of medusae, and 4) addition of both ctenophores and medusae. POC flux from each mesocosm was measured over multiple 2-day experimental runs and grazing rates of GZ on each other and on copepods were calculated. There were no significant differences in total POC flux between treatments, but the composition of both the final zooplankton assemblage and exported organic matter differed between treatments. As a result of grazing on copepods by ctenophores, treatments which included GZ had lower final copepod abundances and a corresponding decrease in flux of copepod fecal pellets. We discuss how this change in composition of exported material as a result of cascading trophic interactions may affect the efficiency of the biological pump and benthic processes.

Diversity of Somatic Coliphages in Coastal Regions with Different Levels of Anthropogenic Activity in São Paulo State, Brazil ▿

PubMed Central

Burbano-Rosero, E. M.; Ueda-Ito, M.; Kisielius, J. J.; Nagasse-Sugahara, T. K.; Almeida, B. C.; Souza, C. P.; Markman, C.; Martins, G. G.; Albertini, L.; Rivera, I. N. G.

2011-01-01

Bacteriophages are the most abundant and genetically diverse viruses on Earth, with complex ecology in both quantitative and qualitative terms. Somatic coliphages (SC) have been reported to be good indicators of fecal pollution in seawater. This study focused on determining the concentration of SC and their diversity by electron microscopy of seawater, plankton, and bivalve samples collected at three coastal regions in São Paulo, Brazil. The SC counts varied from <1 to 3.4 × 103 PFU/100 ml in seawater (73 samples tested), from <1 to 4.7 × 102 PFU/g in plankton (46 samples tested), and from <1 to 2.2 × 101 PFU/g in bivalves (11 samples tested). In seawater samples, a relationship between the thermotolerant coliforms and Escherichia coli and SC was observed at the three regions (P = 0.0001) according to the anthropogenic activities present at each region. However, SC were found in plankton samples from three regions: Baixada Santista (17/20), Canal de São Sebastião (6/14), and Ubatuba (3/12). In seawater samples collected from Baixada Santista, four morphotypes were observed: A1 (4.5%), B1 (50%), C1 (36.4%), and D1 (9.1%). One coliphage, Siphoviridae type T1, had the longest tail: between 939 and 995 nm. In plankton samples, Siphoviridae (65.8%), Podoviridae (15.8%), Microviridae (15.8%), and Myoviridae (2.6%) were found. In bivalves, only the morphotype B1 was observed. These SC were associated with enteric hosts: enterobacteria, E. coli, Proteus, Salmonella, and Yersinia. Baixada Santista is an area containing a high level of fecal pollution compared to those in the Canal de São Sebastião and Ubatuba. This is the first report of coliphage diversity in seawater, plankton, and bivalve samples collected from São Paulo coastal regions. A better characterization of SC diversity in coastal environments will help with the management and evaluation of the microbiological risks for recreation, seafood cultivation, and consumption. PMID:21531842

Comparative metagenomics of bathypelagic plankton and bottom sediment from the Sea of Marmara

PubMed Central

Quaiser, Achim; Zivanovic, Yvan; Moreira, David; López-García, Purificación

2011-01-01

To extend comparative metagenomic analyses of the deep-sea, we produced metagenomic data by direct 454 pyrosequencing from bathypelagic plankton (1000 m depth) and bottom sediment of the Sea of Marmara, the gateway between the Eastern Mediterranean and the Black Seas. Data from small subunit ribosomal RNA (SSU rRNA) gene libraries and direct pyrosequencing of the same samples indicated that Gamma- and Alpha-proteobacteria, followed by Bacteroidetes, dominated the bacterial fraction in Marmara deep-sea plankton, whereas Planctomycetes, Delta- and Gamma-proteobacteria were the most abundant groups in high bacterial-diversity sediment. Group I Crenarchaeota/Thaumarchaeota dominated the archaeal plankton fraction, although group II and III Euryarchaeota were also present. Eukaryotes were highly diverse in SSU rRNA gene libraries, with group I (Duboscquellida) and II (Syndiniales) alveolates and Radiozoa dominating plankton, and Opisthokonta and Alveolates, sediment. However, eukaryotic sequences were scarce in pyrosequence data. Archaeal amo genes were abundant in plankton, suggesting that Marmara planktonic Thaumarchaeota are ammonia oxidizers. Genes involved in sulfate reduction, carbon monoxide oxidation, anammox and sulfatases were over-represented in sediment. Genome recruitment analyses showed that Alteromonas macleodii ‘surface ecotype', Pelagibacter ubique and Nitrosopumilus maritimus were highly represented in 1000 m-deep plankton. A comparative analysis of Marmara metagenomes with ALOHA deep-sea and surface plankton, whale carcasses, Peru subsurface sediment and soil metagenomes clustered deep-sea Marmara plankton with deep-ALOHA plankton and whale carcasses, likely because of the suboxic conditions in the deep Marmara water column. The Marmara sediment clustered with the soil metagenome, highlighting the common ecological role of both types of microbial communities in the degradation of organic matter and the completion of biogeochemical cycles. PMID:20668488

Plankton Biomass Models Based on GIS and Remote Sensing Technique for Predicting Marine Megafauna Hotspots in the Solor Waters

NASA Astrophysics Data System (ADS)

Putra, MIH; Lewis, SA; Kurniasih, EM; Prabuning, D.; Faiqoh, E.

2016-11-01

Geographic information system and remote sensing techniques can be used to assist with distribution modelling; a useful tool that helps with strategic design and management plans for MPAs. This study built a pilot model of plankton biomass and distribution in the waters off Solor and Lembata, and is the first study to identify marine megafauna foraging areas in the region. Forty-three samples of zooplankton were collected every 4 km according to the range time and station of aqua MODIS. Generalized additive model (GAM) we used to modelling zooplankton biomass response from environmental properties.Thirty one samples were used to build a model of inverse distance weighting (IDW) (cell size 0.01°) and 12 samples were used as a control to verify the models accuracy. Furthermore, Getis-Ord Gi was used to identify the significance of the hotspot and cold-spot for foraging area. The GAM models was explain 88.1% response of zooplankton biomass and percent to full moon, phytopankton biomassbeing strong predictors. The sampling design was essential in order to build highly accurate models. Our models 96% accurate for phytoplankton and 88% accurate for zooplankton. The foraging behaviour was significantly related to plankton biomass hotspots, which were two times higher compared to plankton cold-spots. In addition, extremely steep slopes of the Lamakera strait support strong upwelling with highly productive waters that affect the presence of marine megafauna. This study detects that the Lamakera strait provides the planktonic requirements for marine megafauna foraging, helping to explain why this region supports such high diversity and abundance of marine megafauna.

Potential ballast water transfer of organisms from the west to the east coast of India: Insights through on board sampling

NASA Astrophysics Data System (ADS)

Desai, Dattesh V.; Narale, Dhiraj; Khandeparker, Lidita; Anil, Arga Chandrashekar

2018-03-01

The possibility of translocation of organisms via ship's ballast water (BW) during a voyage from Hazira on the west coast to Visakhapatnam on the east coast of India was assessed. Samples of BW during the voyage and discharge and sediment collected subsequent to discharge of BW were collected and analyzed for different abiotic and biotic components. It was observed that the salinity did not change, whereas temperature and pH of BW increased marginally during the voyage. A marginal increase in the dissolved oxygen is observed during rough-very rough sea conditions. A sharp decline in the phytoplankton and zooplankton abundance observed in the initial ballast tank sample compared to natural seawater indicates the impact of ballast water pumping on the plankton community. Changes in the sea state during the voyage (slight-moderate to rough-very rough) resulted in a higher sediment suspension rate and suspended particulate matter and this coincided with higher bacterial abundance followed by increase in phytoplankton. An increase in the phytoplankton abundance in the discharge water could be attributed to the inoculum from the sediment. The abundance of zooplankton decreased from the start till the end of the voyage, with high numbers of dead zooplankton in the discharge sample.

The Berlin Exoplanet Search Telescope

NASA Astrophysics Data System (ADS)

Rauer, H.; Erikson, A.; Voss, H.; Hatzes, A.; Eisloeffel, J.

Several authors have suggested that nonlinear internal waves (solitary waves) can transport plankton over considerable distances. In this talk we present a preliminary analysis of the data collected during a 10-day long experiment in Massachusetts Bay that was specifically designed to test this hipothesys. We sampled over 15 trains of solitary waves, collecting current data with the shipboard ADCP while at the same time sampling the concentration and taxonomic distribution of plankton in the water column by means of a towed Video Plankton Recorder, which also collected hydro- graphic data. In the analisys, we compare the current data with the data from the towed instrument to test wether the waves act as concentrator. We have also devel- oped a model to asses the effect of particular behavioral responses with regard to the ability to surf the waves.

Viral to metazoan marine plankton nucleotide sequences from the Tara Oceans expedition

PubMed Central

Alberti, Adriana; Poulain, Julie; Engelen, Stefan; Labadie, Karine; Romac, Sarah; Ferrera, Isabel; Albini, Guillaume; Aury, Jean-Marc; Belser, Caroline; Bertrand, Alexis; Cruaud, Corinne; Da Silva, Corinne; Dossat, Carole; Gavory, Frédérick; Gas, Shahinaz; Guy, Julie; Haquelle, Maud; Jacoby, E'krame; Jaillon, Olivier; Lemainque, Arnaud; Pelletier, Eric; Samson, Gaëlle; Wessner, Mark; Bazire, Pascal; Beluche, Odette; Bertrand, Laurie; Besnard-Gonnet, Marielle; Bordelais, Isabelle; Boutard, Magali; Dubois, Maria; Dumont, Corinne; Ettedgui, Evelyne; Fernandez, Patricia; Garcia, Espérance; Aiach, Nathalie Giordanenco; Guerin, Thomas; Hamon, Chadia; Brun, Elodie; Lebled, Sandrine; Lenoble, Patricia; Louesse, Claudine; Mahieu, Eric; Mairey, Barbara; Martins, Nathalie; Megret, Catherine; Milani, Claire; Muanga, Jacqueline; Orvain, Céline; Payen, Emilie; Perroud, Peggy; Petit, Emmanuelle; Robert, Dominique; Ronsin, Murielle; Vacherie, Benoit; Acinas, Silvia G.; Royo-Llonch, Marta; Cornejo-Castillo, Francisco M.; Logares, Ramiro; Fernández-Gómez, Beatriz; Bowler, Chris; Cochrane, Guy; Amid, Clara; Hoopen, Petra Ten; De Vargas, Colomban; Grimsley, Nigel; Desgranges, Elodie; Kandels-Lewis, Stefanie; Ogata, Hiroyuki; Poulton, Nicole; Sieracki, Michael E.; Stepanauskas, Ramunas; Sullivan, Matthew B.; Brum, Jennifer R.; Duhaime, Melissa B.; Poulos, Bonnie T.; Hurwitz, Bonnie L.; Acinas, Silvia G.; Bork, Peer; Boss, Emmanuel; Bowler, Chris; De Vargas, Colomban; Follows, Michael; Gorsky, Gabriel; Grimsley, Nigel; Hingamp, Pascal; Iudicone, Daniele; Jaillon, Olivier; Kandels-Lewis, Stefanie; Karp-Boss, Lee; Karsenti, Eric; Not, Fabrice; Ogata, Hiroyuki; Pesant, Stéphane; Raes, Jeroen; Sardet, Christian; Sieracki, Michael E.; Speich, Sabrina; Stemmann, Lars; Sullivan, Matthew B.; Sunagawa, Shinichi; Wincker, Patrick; Pesant, Stéphane; Karsenti, Eric; Wincker, Patrick

2017-01-01

A unique collection of oceanic samples was gathered by the Tara Oceans expeditions (2009–2013), targeting plankton organisms ranging from viruses to metazoans, and providing rich environmental context measurements. Thanks to recent advances in the field of genomics, extensive sequencing has been performed for a deep genomic analysis of this huge collection of samples. A strategy based on different approaches, such as metabarcoding, metagenomics, single-cell genomics and metatranscriptomics, has been chosen for analysis of size-fractionated plankton communities. Here, we provide detailed procedures applied for genomic data generation, from nucleic acids extraction to sequence production, and we describe registries of genomics datasets available at the European Nucleotide Archive (ENA, www.ebi.ac.uk/ena). The association of these metadata to the experimental procedures applied for their generation will help the scientific community to access these data and facilitate their analysis. This paper complements other efforts to provide a full description of experiments and open science resources generated from the Tara Oceans project, further extending their value for the study of the world’s planktonic ecosystems. PMID:28763055

Viral to metazoan marine plankton nucleotide sequences from the Tara Oceans expedition.

PubMed

Alberti, Adriana; Poulain, Julie; Engelen, Stefan; Labadie, Karine; Romac, Sarah; Ferrera, Isabel; Albini, Guillaume; Aury, Jean-Marc; Belser, Caroline; Bertrand, Alexis; Cruaud, Corinne; Da Silva, Corinne; Dossat, Carole; Gavory, Frédérick; Gas, Shahinaz; Guy, Julie; Haquelle, Maud; Jacoby, E'krame; Jaillon, Olivier; Lemainque, Arnaud; Pelletier, Eric; Samson, Gaëlle; Wessner, Mark; Acinas, Silvia G; Royo-Llonch, Marta; Cornejo-Castillo, Francisco M; Logares, Ramiro; Fernández-Gómez, Beatriz; Bowler, Chris; Cochrane, Guy; Amid, Clara; Hoopen, Petra Ten; De Vargas, Colomban; Grimsley, Nigel; Desgranges, Elodie; Kandels-Lewis, Stefanie; Ogata, Hiroyuki; Poulton, Nicole; Sieracki, Michael E; Stepanauskas, Ramunas; Sullivan, Matthew B; Brum, Jennifer R; Duhaime, Melissa B; Poulos, Bonnie T; Hurwitz, Bonnie L; Pesant, Stéphane; Karsenti, Eric; Wincker, Patrick

2017-08-01

A unique collection of oceanic samples was gathered by the Tara Oceans expeditions (2009-2013), targeting plankton organisms ranging from viruses to metazoans, and providing rich environmental context measurements. Thanks to recent advances in the field of genomics, extensive sequencing has been performed for a deep genomic analysis of this huge collection of samples. A strategy based on different approaches, such as metabarcoding, metagenomics, single-cell genomics and metatranscriptomics, has been chosen for analysis of size-fractionated plankton communities. Here, we provide detailed procedures applied for genomic data generation, from nucleic acids extraction to sequence production, and we describe registries of genomics datasets available at the European Nucleotide Archive (ENA, www.ebi.ac.uk/ena). The association of these metadata to the experimental procedures applied for their generation will help the scientific community to access these data and facilitate their analysis. This paper complements other efforts to provide a full description of experiments and open science resources generated from the Tara Oceans project, further extending their value for the study of the world's planktonic ecosystems.

Visualization and Enumeration of Marine Planktonic Archaea and Bacteria by Using Polyribonucleotide Probes and Fluorescent In Situ Hybridization

PubMed Central

DeLong, Edward F.; Taylor, Lance Trent; Marsh, Terence L.; Preston, Christina M.

1999-01-01

Fluorescent in situ hybridization (FISH) using rRNA-specific oligonucleotide probes has emerged as a popular technique for identifying individual microbial cells. In natural samples, however, the signal derived from fluor-labeled oligonucleotide probes often is undetectable above background fluorescence in many cells. To circumvent this difficulty, we applied fluorochrome-labeled polyribonucleotide probes to identify and enumerate marine planktonic archaea and bacteria. The approach greatly enhanced the sensitivity and applicability of FISH with seawater samples, allowing confident identification and enumeration of planktonic cells to ocean depths of 3,400 m. Quantitative whole-cell hybridization experiments using these probes accounted for 90 to 100% of the total 4′,6-diamidino-2-phenylindole (DAPI)-stained cells in most samples. As predicted in a previous study (R. Massana, A. E. Murray, C. M. Preston, and E. F. DeLong, Appl. Environ. Microbiol. 63:50–56, 1997), group I and II marine archaea predominate in different zones in the water column, with maximal cell densities of 105/ml. The high cell densities of archaea, extending from surface waters to abyssal depths, suggest that they represent a large and significant fraction of the total picoplankton biomass in coastal ocean waters. The data also show that the vast majority of planktonic prokaryotes contain significant numbers of ribosomes, rendering them easily detectable with polyribonucleotide probes. These results imply that the majority of planktonic cells visualized by DAPI do not represent lysed cells or “ghosts,” as was suggested in a previous report. PMID:10584017

The microbial plankton of Lake Fryxell, southern Victoria Land, Antarctica during the summers of 1992 and 1994

USGS Publications Warehouse

Laybourn-Parry, J.; James, M.R.; McKnight, Diane M.; Priscu, J.; Spaulding, S.A.; Shiel, R.

1997-01-01

Samples collected from Lake Fryxell, southern Victoria Land, Antarctica in January 1992 and 1994 were analysed for the abundance of bacterioplankton and the diversity and abundance of protistan plankton. At the times of sampling, 14 ciliate species and 10 species of autotrophic flagellate were recorded. The samples contained two species of rotifer (Philodina spp.), which formed the first record of planktonic metazoans in the Dry Valley lakes of this region of Antarctica. Bacterial concentrations ranged between 1.0 and 3.8 x 108 l-1 in the upper oxic waters increasing to 20 x 08 l-1 in the anoxic waters. Heterotrophic flagellates decreased in abundance down the oxygenated water column, disappearing completely at 9 m, and ranged between 0.28 and 7.39 x 105 l-1 in abundance. Autotrophic flagellates were much more abundant exhibiting a number of distinct peaks down the water column (1.89 25.3 x 108 l-1). The ciliated protozoa were very abundant (up to 7720 l-1) in relation to flagellate and bacterial numbers, typical of oligotrophic lakes world-wide. The distribution of the protistan plankton showed marked zonation, probably in response to the differing salinity and temperature gradients in the water column. Possible trophic interactions are discussed and comparisons with other continental Antarctic lakes made.

Surface ocean carbon isotope anomalies on glacial terminations: An alternative view

NASA Astrophysics Data System (ADS)

Lund, D. C.; Cote, M.; Schmittner, A.

2016-12-01

Late Pleistocene glacial terminations are characterized by surface ocean carbon isotope minima on a global scale. During the last deglaciation (i.e. Termination 1), planktonic foraminiferal δ13C anomalies occurred in the Atlantic, Indian, Pacific, and Southern Oceans. Despite the apparently ubiquitous nature of δ13C anomalies on glacial terminations, their cause remains a matter of ongoing debate. The prevailing view is that isotopically light carbon from the abyss was upwelled in the Southern Ocean, resulting in outgassing of 13C-depleted carbon to the atmosphere and its advection to lower latitudes via mode and intermediate waters (Spero and Lea, 2002). Alternatively, carbon isotope minima may be driven by weakening of the biological pump related to circulation-driven changes in the oceanic preformed nutrient budget (Schmittner and Lund, 2015). Here we assess the deep upwelling and biological pump hypotheses using a new compilation of 70 globally-distributed planktonic δ13C records from the published literature. We find that 1) the mean deglacial δ13C anomaly is similar in all ocean basins, 2) the eastern tropical Pacific yields smaller mean δ13C anomalies than the western tropical Pacific, and 3) δ13C anomalies in the Southern Ocean decrease with increasing latitude. Our results are generally inconsistent with the deep upwelling hypothesis, which predicts that the δ13C signal should be largest in the Southern Ocean and upwelling regions. Instead, the spatial pattern in δ13C anomalies supports the biological pump hypothesis, which predicts that reduced export of light carbon from the euphotic zone triggers negative carbon isotope anomalies in the surface ocean and positive anomalies at intermediate depths. Upwelling of relatively 13C-enriched intermediate waters tends to moderate carbon isotope minima in upwelling regions. Our results suggest that the initial rise in atmospheric CO2 during Termination 1 was likely due to weakening of the biological pump associated with a reduction in the Atlantic Meridional Overturning Circulation, consistent with model results (Schmittner and Lund, 2015). Spero, H., and D. Lea (2002) Science 296, 522-525. Schmittner, A., and D. Lund (2015) Climate of the Past 11, 135-152.

Partitioning and bioaccumulation of PCBs and PBDEs in marine plankton from the Strait of Georgia, British Columbia, Canada

NASA Astrophysics Data System (ADS)

Frouin, Heloise; Dangerfield, Neil; Macdonald, Robie W.; Galbraith, M.; Crewe, Norman; Shaw, Patrick; Mackas, David; Ross, Peter S.

2013-08-01

The Strait of Georgia is a large, deep, fjord-like estuary on the southern coast of British Columbia which is subject to local and atmospheric inputs of persistent environmental contaminants. We measured 204 polychlorinated biphenyls (PCBs) and 61 polybrominated diphenyl ethers (PBDEs) seasonally in water (two depths; dissolved and particle-bound) and plankton (vertical tow) samples collected at two stations. Principal components analysis clearly distinguished the dissolved and particulate water fractions and plankton samples, with the latter two compartments associated more with heavier congeners. Bioaccumulation factors (log BAFs) for PCBs and PBDEs in plankton were best described by parabolic relationships against octanol-water partitioning coefficients (log Kow), peaking at a log Kow of 5-7, underscoring the important role of physico-chemical properties in driving the uptake of these persistent contaminants by plankton from water. The estimated total quantity of PCBs (annual average of 0.61 ± SEM 0.12 kg) and PBDEs (annual average of 0.64 ± 0.19 kg) in Strait of Georgia plankton biomass were remarkably similar, highlighting the emergence of currently-used PBDEs as a priority concern. The estimated total of 52.1 ± 8.41 kg of PCBs in water (dissolved + particle-bound) was higher than the estimated 26.8 ± 5.20 kg of PBDEs (dissolved + particle-bound), reflecting the dichotomous use histories for these two contaminant classes. Results provide insight into the biological availability of PCBs and PBDEs to the Strait of Georgia food web, and describe an important initial partitioning process by which the region's endangered killer whales have become highly contaminated.

Shallow Carbon Export from an Iron fertilised Plankton Bloom in the Southern Ocean

NASA Astrophysics Data System (ADS)

Sanders, R.; Pollard, R.; Morris, P.; Statham, P.; Moore, C. M. M.; Lucas, M.

2009-04-01

Some regions of the global ocean, notably the Southern Ocean, have high levels of macronutrients yet low levels of chlorophyll (the high nutrient, low chlorophyll or HNLC condition). Numerous artificial iron fertilization experiments conducted in the Southern Ocean have resulted in enhanced phytoplankton biomass and macronutrient drawdown. However the subsequent long-term biogeochemical consequences of such iron fertilization are unclear due in part to the limited size and duration of such experiments. An alternative way to assess the affect of iron over the Southern Ocean biological carbon pump is to observe the evolution of plankton production in regions of the Southern Ocean where shallow topography and Ocean currents interact to promote to release terrestrial iron into HNLC waters. During 2004-5 RRS Discovery conduced a complex programme of observations in such a region around the Crozet Islands in the SW Indian Ocean. The results of this programme, focussing on a quantitative estimate of carbon export per unit iron addition, will be presented.

Marine biodiversity, ecosystem functioning, and carbon cycles.

PubMed

Beaugrand, Grégory; Edwards, Martin; Legendre, Louis

2010-06-01

Although recent studies suggest that climate change may substantially accelerate the rate of species loss in the biosphere, only a few studies have focused on the potential consequences of a spatial reorganization of biodiversity with global warming. Here, we show a pronounced latitudinal increase in phytoplanktonic and zooplanktonic biodiversity in the extratropical North Atlantic Ocean in recent decades. We also show that this rise in biodiversity paralleled a decrease in the mean size of zooplanktonic copepods and that the reorganization of the planktonic ecosystem toward dominance by smaller organisms may influence the networks in which carbon flows, with negative effects on the downward biological carbon pump and demersal Atlantic cod (Gadus morhua). Our study suggests that, contrary to the usual interpretation of increasing biodiversity being a positive emergent property promoting the stability/resilience of ecosystems, the parallel decrease in sizes of planktonic organisms could be viewed in the North Atlantic as reducing some of the services provided by marine ecosystems to humans.

The biological pump and lower trophic level controls on carbon cycling in Lake Superior: Insights from a multi-pronged study

NASA Astrophysics Data System (ADS)

Schreiner, K. M.; Bramburger, A.; Ozersky, T.; Sheik, C.; Steinman, B. A.

2016-02-01

Lake Superior is the largest freshwater lake in the world, supporting economically important fisheries and providing drinking water to hundreds of thousands of people. In recent decades, summer surface water temperature and the intensity and duration of water column stratification in the lake has increased steadily. These physical changes have resulted in significant perturbations to lower trophic level ecosystem characteristics. Recent observations of Great Lakes plankton assemblages have revealed multi-decadal patterns of community reorganization, with increased relative abundance of taxa characteristic of warmer waters. These changes, coupled with changing nutrient concentrations and colonization by non-native taxa, threaten to shift trophic structure and carbon dynamics at the bottom of the food web. To this end, this study seeks to quantify the impacts of this ecosystem shift on carbon fixation, the biological pump, and organic carbon cycling in Lake Superior. Utilizing a combined sampling approach, in the summer of 2015 we collected water, sediment, and biological samples across a nearshore-to-offshore gradient in the western arm of Lake Superior. Analyses included the community composition of bacteria, archaea, phytoplankton, and zooplankton; water column carbon and nutrient speciation; algal pigments and pigment degradation products; and net primary productivity. The collection of surface sediments allowed for additional assessment of benthic-pelagic coupling. The novel combination of this wide-ranging set of analyses to a locally and globally important water body like Lake Superior allowed us to fully assess the interactions between lower trophic level biology and carbon and nutrient cycling throughout the water column. Preliminary data indicates that microbial community composition was variable across the western arm of Lake Superior and showed signs of stratification at individual stations (>100 m deep). Sample collection occurred soon after lake stratification in July 2015, and the presence of a deep chlorophyll maximum was noted. The results shed light on the functioning of the biological pump and nutrient and carbon dynamics in a changing ecosystem and provides insight on how further change in Lake Superior and other aquatic systems will affect ecosystem function and services.

Comparing the chlorine disinfection of detached biofilm clusters with those of sessile biofilms and planktonic cells in single- and dual-species cultures.

PubMed

Behnke, Sabrina; Parker, Albert E; Woodall, Dawn; Camper, Anne K

2011-10-01

Although the detachment of cells from biofilms is of fundamental importance to the dissemination of organisms in both public health and clinical settings, the disinfection efficacies of commonly used biocides on detached biofilm particles have not been investigated. Therefore, the question arises whether cells in detached aggregates can be killed with disinfectant concentrations sufficient to inactivate planktonic cells. Burkholderia cepacia and Pseudomonas aeruginosa were grown in standardized laboratory reactors as single species and in coculture. Cluster size distributions in chemostats and biofilm reactor effluent were measured. Chlorine susceptibility was assessed for planktonic cultures, attached biofilm, and particles and cells detached from the biofilm. Disinfection tolerance generally increased with a higher percentage of larger cell clusters in the chemostat and detached biofilm. Samples with a lower percentage of large clusters were more easily disinfected. Thus, disinfection tolerance depended on the cluster size distribution rather than sample type for chemostat and detached biofilm. Intact biofilms were more tolerant to chlorine independent of species. Homogenization of samples led to significantly increased susceptibility in all biofilm samples as well as detached clusters for single-species B. cepacia, B. cepacia in coculture, and P. aeruginosa in coculture. The disinfection efficacy was also dependent on species composition; coculture was advantageous to the survival of both species when grown as a biofilm or as clusters detached from biofilm but, surprisingly, resulted in a lower disinfection tolerance when they were grown as a mixed planktonic culture.

Mercury methylation rates of biofilm and plankton microorganisms from a hydroelectric reservoir in French Guiana.

PubMed

Huguet, L; Castelle, S; Schäfer, J; Blanc, G; Maury-Brachet, R; Reynouard, C; Jorand, F

2010-02-15

The Petit-Saut ecosystem is a hydroelectric reservoir covering 365km(2) of flooded tropical forest. This reservoir and the Sinnamary Estuary downstream of the dam are subject to significant mercury methylation. The mercury methylation potential of plankton and biofilm microorganisms/components from different depths in the anoxic reservoir water column and from two different sites along the estuary was assessed. For this, reservoir water and samples of epiphytic biofilms from the trunk of a submerged tree in the anoxic water column and from submerged branches in the estuary were batch-incubated from 1h to 3 months with a nominal 1000ng/L spike of Hg(II) chloride enriched in (199)Hg. Methylation rates were determined for different reservoir and estuarine communities under natural nutrient (reservoir water, estuary freshwater) and artificial nutrient (culture medium) conditions. Methylation rates in reservoir water incubations were the highest with plankton microorganisms sampled at -9.5m depth (0.5%/d) without addition of biofilm components. Mercury methylation rates of incubated biofilm components were strongly enhanced by nutrient addition. The results suggested that plankton microorganisms strongly contribute to the total Hg methylation in the Petit-Saut reservoir and in the Sinnamary Estuary. Moreover, specific methylation efficiencies (%Me(199)Hg(net)/cell) suggested that plankton microorganisms could be more efficient methylating actors than biofilm consortia and that their methylation efficiency may be reduced in the presence of biofilm components. Extrapolation to the reservoir scale of the experimentally determined preliminary methylation efficiencies suggested that plankton microorganisms in the anoxic water column could produce up to 27mol MeHg/year. Taking into account that (i) demethylation probably occurs in the reservoir and (ii) that the presence of biofilm components may limit the methylation efficiency of plankton microorganisms, this result is highly consistent with the annual net MeHg production estimated from mass balances (8.1mol MeHg/year, Muresan et al., 2008a).

The Pseudomonas aeruginosa efflux pump MexGHI-OpmD transports a natural phenazine that controls gene expression and biofilm development

PubMed Central

Sakhtah, Hassan; Koyama, Leslie; Zhang, Yihan; Morales, Diana K.; Fields, Blanche L.; Price-Whelan, Alexa; Hogan, Deborah A.; Shepard, Kenneth; Dietrich, Lars E. P.

2016-01-01

Redox-cycling compounds, including endogenously produced phenazine antibiotics, induce expression of the efflux pump MexGHI-OpmD in the opportunistic pathogen Pseudomonas aeruginosa. Previous studies of P. aeruginosa virulence, physiology, and biofilm development have focused on the blue phenazine pyocyanin and the yellow phenazine-1-carboxylic acid (PCA). In P. aeruginosa phenazine biosynthesis, conversion of PCA to pyocyanin is presumed to proceed through the intermediate 5-methylphenazine-1-carboxylate (5-Me-PCA), a reactive compound that has eluded detection in most laboratory samples. Here, we apply electrochemical methods to directly detect 5-Me-PCA and find that it is transported by MexGHI-OpmD in P. aeruginosa strain PA14 planktonic and biofilm cells. We also show that 5-Me-PCA is sufficient to fully induce MexGHI-OpmD expression and that it is required for wild-type colony biofilm morphogenesis. These physiological effects are consistent with the high redox potential of 5-Me-PCA, which distinguishes it from other well-studied P. aeruginosa phenazines. Our observations highlight the importance of this compound, which was previously overlooked due to the challenges associated with its detection, in the context of P. aeruginosa gene expression and multicellular behavior. This study constitutes a unique demonstration of efflux-based self-resistance, controlled by a simple circuit, in a Gram-negative pathogen. PMID:27274079

Iron fertilization and the structure of planktonic communities in high nutrient regions of the Southern Ocean

NASA Astrophysics Data System (ADS)

Quéguiner, Bernard

2013-06-01

In this review article, plankton community structure observations are analyzed both for artificial iron fertilization experiments and also for experiments dedicated to the study of naturally iron-fertilized systems in the Atlantic, Indian and Pacific sectors of the Southern Ocean in the POOZ (Permanently Open Ocean Zone) and the PFZ (Polar Frontal Zone). Observations made in natural systems are combined with those from artificially perturbed systems, in order to evaluate the seasonal evolution of pelagic communities, taking into account controlling factors related to the life cycles and the ecophysiology of dominant organisms. The analysis considers several types of planktonic communities, including both autotrophs and heterotrophs. These communities are spatially segregated owing to different life strategies. A conceptual general scheme is proposed to account for these observations and their variability, regardless of experiment type. Diatoms can be separated into 2 groups: Group 1 has slightly silicified fast growing cells that are homogeneously distributed in the surface mixed layer, and Group 2 has strongly silicified slowly growing cells within discrete layers. During the growth season, Group 1 diatoms show a typical seasonal succession of dominant species, within time windows of development that are conditioned by physical factors (light and temperature) as well as endogenous specific rhythms (internal clock), and biomass accumulation is controlled by the availability of nutrients. Group 1 diatoms are not directly grazed by mesozooplankton which is fed by protozooplankton, linking the microbial food web to higher trophic levels. Instead, successive dominant species of Group 1 are degraded via bacterial activity at the end of their growth season. Organic detritus fragments feed protozooplankton and mesozooplankton. The effective silicon pump leads to the progressive disappearance of silicic acid in surface waters. In contrast, Group 2 is resistant to grazing due to its strong silicification, and its biomass accumulates continuously but relatively slowly throughout the productive period. Group 2 diatoms are concentrated at or near the seasonal pycnocline and thus benefit from upward nutrient fluxes by diapycnal mixing. The decrease in light and the deep convective mixing in the fall produce both light and nutrient limitation leading to a massive carbon export of Group 2 diatoms, a major annual event of the biological pump. This scheme describes the seasonal evolution of plankton communities in surface waters of the Southern Ocean. The scheme could probably be extended to ecosystems that are characterized by a seasonal bloom under influence of iron or other nutrients.

Cultivation of seaweed Gracilaria lemaneiformis enhanced biodiversity in a eukaryotic plankton community as revealed via metagenomic analyses.

PubMed

Chai, Zhao Yang; He, Zhi Li; Deng, Yun Yan; Yang, Yu Feng; Tang, Ying Zhong

2018-02-01

Plankton diversity reflects the quality and health of waters and should be monitored as a critical feature of marine ecosystems. This study applied a pair of 28S rRNA gene-specific primers and pyrosequencing to assess the effects of large-scale cultivation of the seaweed Gracilaria lemaneiformis on the biodiversity of eukaryotic plankton community in the coastal water of Guangdong, China. With 1 million sequences (2,221 operational taxonomic units [OTUs]) obtained from 51 samples, we found that the biodiversity of eukaryotic plankton community was significantly higher in the seaweed cultivation area than that in the nearby control area as reflected in OTU richness, evenness (Shannon-Wiener index) and dominance (Simpson index) for total plankton community and its four subcategories when Gracilaria biomass reached the maximum, while no such a significant difference was observed before seaweed inoculation. Our laboratory experiment using an artificial phytoplankton community of nine species observed the same effects of Gracilaria exposure. Principal component analysis and principal coordinates analysis showed the plankton community structure in cultivation area markedly differed from the control area when Gracilaria biomass reached its maximum. Redundancy analysis showed that G. lemaneiformis was the critical factor in controlling the dynamics of eukaryotic plankton communities in the studied coastal ecosystem. Our results explicitly demonstrated G. lemaneiformis cultivation could enhance biodiversity of plankton community via allelopathy, which prevents one or several plankton species from blooming and consequently maintains a relatively higher biodiversity. Our study provided further support for using large-scale G. lemaneiformis cultivation as an effective approach for improving costal ecosystem health. © 2018 John Wiley & Sons Ltd.

Evaluation of methods for identifying spawning sites and habitat selection for alosines

USGS Publications Warehouse

Harris, Julianne E.; Hightower, Joseph E.

2010-01-01

Characterization of riverine spawning habitat is important for the management and restoration of anadromous alosines. We examined the relative effectiveness of oblique plankton tows and spawning pads for collecting the eggs of American shad Alosa sapidissima, hickory shad A. mediocris, and “river herring” (a collective term for alewife A. pseudoharengus and blueback herring A. aestivalis) in the Roanoke River, North Carolina. Relatively nonadhesive American shad eggs were only collected by plankton tows, whereas semiadhesive hickory shad and river herring eggs were collected by both methods. Compared with spawning pads, oblique plankton tows had higher probabilities of collecting eggs and led to the identification of longer spawning periods. In assumed spawning areas, twice-weekly plankton sampling for 15 min throughout the spawning season had a 95% or greater probability of collecting at least one egg for all alosines; however, the probabilities were lower in areas with more limited spawning. Comparisons of plankton tows, spawning pads, and two other methods of identifying spawning habitat (direct observation of spawning and examination of female histology) suggested differences in effectiveness and efficiency. Riverwide information on spawning sites and timing for all alosines is most efficiently obtained by plankton sampling. Spawning pads and direct observations of spawning are the best ways to determine microhabitat selectivity for appropriate species, especially when spawning sites have previously been identified. Histological examination can help determine primary spawning sites but is most useful when information on reproductive biology and spawning periodicity is also desired. The target species, riverine habitat conditions, and research goals should be considered when selecting methods with which to evaluate alosine spawning habitat.

Impact of oxygen depletion on planktonic community with emphasis temperature dynamics at aquaculture scale in Blanakan, West Java

NASA Astrophysics Data System (ADS)

Takarina, Noverita Dian; Wardhana, Wisnu; Soedjiarti, Titi

2017-05-01

It is hypothesized that rise in temperature under climate change regimes can cause oxygen depletion and can reduce the diversity and population of plankton and decrease the potential food source for fish in ponds. Therefore, this paper aims to investigate the primary factors that can affect the planktonic community with emphasis on temperature rise and oxygen depletion. Sampling was conducted in Blanakan, West Java. Samples were assessed to determine levels of planktonic community and other water quality parameters. DO was monitored in situ along with pH and temperature. Based on the results, the temperature average in ponds was 31.88±1.93 °C and ranged from 29.0 to 35.0 °C. The DO average was 7.63±0.59 mg/l and ranged from 7.0 to 8.5 mg/l. The rise of pond temperature affected slighltyto the DO and had reduced the DO level to the lowest level (7.0-7.2 mg/l) when temperature reached its peak at 32.5-35.0 °C. The results showed that the oxygen depletion will significantly reduce the phytoplankton population (r2=0.54). However, the oxygen depletion did not affect the plankton diversity. The results revealedthe presence of 23 genera of phytoplankton and 18 genera for zooplankton in Blanakan ponds. Nitzchia and Pleurosigma were known as genera that can adapt both in the DOmin and DOmax environment (7.0-8.5 mg/l). At aquaculture scale, temperature has potential to influence oxygen level and affect planktonic community. It is recommended to provide natural shades and develop aeration systems to increase oxygen levels in ponds.

Environmental Controls of Oyster-Pathogenic Vibrio spp. in Oregon Estuaries and a Shellfish Hatchery

PubMed Central

Crump, Byron C.; Häse, Claudia C.; White, Angelicque E.

2018-01-01

ABSTRACT Vibrio spp. have been a persistent concern for coastal bivalve hatcheries, which are vulnerable to environmental pathogens in the seawater used for rearing larvae, yet the biogeochemical drivers of oyster-pathogenic Vibrio spp. in their planktonic state are poorly understood. Here, we present data tracking oyster-pathogenic Vibrio bacteria in Netarts Bay and Yaquina Bay in Oregon, USA, as well as in adjacent coastal waters and a local shellfish hatchery, through the 2015 upwelling season. Vibrio populations were quantified using a culture-independent approach of high-throughput Vibrio-specific 16S rRNA gene sequencing paired with droplet digital PCR, and abundances were analyzed in the context of local biogeochemistry. The most abundant putative pathogen in our samples was Vibrio coralliilyticus. Environmental concentrations of total Vibrio spp. and V. coralliilyticus were highest in Netarts Bay sediment samples and higher in seawater from Netarts Bay than from nearshore coastal waters or Yaquina Bay. In Netarts Bay, the highest V. coralliilyticus concentrations were observed during low tide, and abundances increased throughout the summer. We hypothesize that the warm shallow waters in estuarine mudflats facilitate the local growth of the V. coralliilyticus pathogen. Samples from larval oyster tanks in Whiskey Creek Shellfish Hatchery, which uses seawater pumped directly from Netarts Bay, contained significantly lower total Vibrio species concentrations, but roughly similar V. coralliilyticus concentrations, than did the bay water, resulting in a 30-fold increase in the relative abundance of the V. coralliilyticus pathogen in hatchery tanks. This suggests that the V. coralliilyticus pathogen is able to grow or persist under hatchery conditions. IMPORTANCE It has been argued that oyster-pathogenic Vibrio spp. have contributed to recent mortality events in U.S. shellfish hatcheries (R. A. Elston, H. Hasegawa, K. L. Humphrey, I. K. Polyak, and C. Häse, Dis Aquat Organ 82:119–134, 2008, https://doi.org/10.3354/dao01982); however, these events are often sporadic and unpredictable. The success of hatcheries is critically linked to the chemical and biological composition of inflowing seawater resources; thus, it is pertinent to understand the biogeochemical drivers of oyster-pathogenic Vibrio spp. in their planktonic state. Here, we show that Netarts Bay, the location of a local hatchery, is enriched in oyster-pathogenic V. coralliilyticus compared to coastal seawater, and we hypothesize that conditions in tidal flats promote the local growth of this pathogen. Furthermore, V. coralliilyticus appears to persist in seawater pumped into the local hatchery. These results improve our understanding of the ecology and environmental controls of the V. coralliilyticus pathogen and could be used to improve future aquaculture efforts, as multiple stressors impact hatchery success. PMID:29475863

Environmental Controls of Oyster-Pathogenic Vibrio spp. in Oregon Estuaries and a Shellfish Hatchery.

PubMed

Gradoville, Mary R; Crump, Byron C; Häse, Claudia C; White, Angelicque E

2018-05-01

Vibrio spp. have been a persistent concern for coastal bivalve hatcheries, which are vulnerable to environmental pathogens in the seawater used for rearing larvae, yet the biogeochemical drivers of oyster-pathogenic Vibrio spp. in their planktonic state are poorly understood. Here, we present data tracking oyster-pathogenic Vibrio bacteria in Netarts Bay and Yaquina Bay in Oregon, USA, as well as in adjacent coastal waters and a local shellfish hatchery, through the 2015 upwelling season. Vibrio populations were quantified using a culture-independent approach of high-throughput Vibrio- specific 16S rRNA gene sequencing paired with droplet digital PCR, and abundances were analyzed in the context of local biogeochemistry. The most abundant putative pathogen in our samples was Vibrio coralliilyticus Environmental concentrations of total Vibrio spp. and V. coralliilyticus were highest in Netarts Bay sediment samples and higher in seawater from Netarts Bay than from nearshore coastal waters or Yaquina Bay. In Netarts Bay, the highest V. coralliilyticus concentrations were observed during low tide, and abundances increased throughout the summer. We hypothesize that the warm shallow waters in estuarine mudflats facilitate the local growth of the V. coralliilyticus pathogen. Samples from larval oyster tanks in Whiskey Creek Shellfish Hatchery, which uses seawater pumped directly from Netarts Bay, contained significantly lower total Vibrio species concentrations, but roughly similar V. coralliilyticus concentrations, than did the bay water, resulting in a 30-fold increase in the relative abundance of the V. coralliilyticus pathogen in hatchery tanks. This suggests that the V. coralliilyticus pathogen is able to grow or persist under hatchery conditions. IMPORTANCE It has been argued that oyster-pathogenic Vibrio spp. have contributed to recent mortality events in U.S. shellfish hatcheries (R. A. Elston, H. Hasegawa, K. L. Humphrey, I. K. Polyak, and C. Häse, Dis Aquat Organ 82:119-134, 2008, https://doi.org/10.3354/dao01982); however, these events are often sporadic and unpredictable. The success of hatcheries is critically linked to the chemical and biological composition of inflowing seawater resources; thus, it is pertinent to understand the biogeochemical drivers of oyster-pathogenic Vibrio spp. in their planktonic state. Here, we show that Netarts Bay, the location of a local hatchery, is enriched in oyster-pathogenic V. coralliilyticus compared to coastal seawater, and we hypothesize that conditions in tidal flats promote the local growth of this pathogen. Furthermore, V. coralliilyticus appears to persist in seawater pumped into the local hatchery. These results improve our understanding of the ecology and environmental controls of the V. coralliilyticus pathogen and could be used to improve future aquaculture efforts, as multiple stressors impact hatchery success. Copyright © 2018 Gradoville et al.

Laboratory tests on heat treatment of ballast water using engine waste heat.

PubMed

Balaji, Rajoo; Lee Siang, Hing; Yaakob, Omar; Koh, Kho King; Adnan, Faizul Amri Bin; Ismail, Nasrudin Bin; Ahmad, Badruzzaman Bin; Ismail, Mohd Arif Bin; Wan Nik, W B

2018-05-01

Waste heat recovery from shipboard machineries could be a potential source for heat treatment of ballast water. Similar to a shipboard schematic arrangement, a laboratory-scale engine-heat exchanger set-up harvesting waste heat from jacket water and exhaust gases was erected to test the level of species' mortalities. Mortalities were also assessed under experimental conditions for cultured and natural plankton communities at laboratory level. Effect of pump impellers on species' mortalities were also tested. Exposures between 60°C and 70°C for 60 sec resulted in 80-100% mortalities. Mortalities due to pump impeller effects were observed in the range of 70-100% for zooplankton. On the laboratory-scale arrangement, >95% mortalities of phytoplankton, zooplankton and bacteria were recorded. It was demonstrated that the temperature of tropical sea waters used as secondary coolant can be raised to cause species' mortalities, employing engine exhaust gases. The results also indicated that pump impeller effects will enhance species' mortalities. The limitations of the shipboard application of this method would be the large ballast volumes, flow rates and time for treatment.

Methods for imaging Shewanella oneidensis MR-1 nanofilaments.

PubMed

Ray, R; Lizewski, S; Fitzgerald, L A; Little, B; Ringeisen, B R

2010-08-01

Nanofilament production by Shewanella oneidensis MR-1 was evaluated as a function of lifestyle (planktonic vs. sessile) under aerobic and anaerobic conditions using different sample preparation techniques prior to imaging with scanning electron microscopy. Nanofilaments could be imaged on MR-1 cells grown in biofilms or planktonically under both aerobic and anaerobic batch culture conditions after fixation, critical point drying and coating with a conductive metal. Critical point drying was a requirement for imaging nanofilaments attached to planktonically grown MR-1 cells, but not for cells grown in a biofilm. Techniques described in this paper cannot be used to differentiate nanowires from pili or flagella.

Novel lineage patterns from an automated water sampler to probe marine microbial biodiversity with ships of opportunity

NASA Astrophysics Data System (ADS)

Stern, Rowena F.; Picard, Kathryn T.; Hamilton, Kristina M.; Walne, Antony; Tarran, Glen A.; Mills, David; McQuatters-Gollop, Abigail; Edwards, Martin

2015-09-01

There is a paucity of data on long-term, spatially resolved changes in microbial diversity and biogeography in marine systems, and yet these organisms underpin fundamental ecological processes in the oceans affecting socio-economic values of the marine environment. We report results from a new autonomous Water and Microplankton Sampler (WaMS) that is carried within the Continuous Plankton Recorder (CPR). Whilst the CPR with its larger mesh size (270 μm), is designed to capture larger plankton, the WaMS was designed as an additional device to capture plankton below 50 μm and delicate larger species, often destroyed by net sampling methods. A 454 pyrosequencing and flow cytometric investigation of eukaryotic microbes using the partial 18S rDNA from thirteen WaMS samples collected over three months in the English Channel revealed a wide diversity of organisms. Alveolates, Fungi, and picoplanktonic Chlorophytes were the most common lineages captured despite the small sample volumes (200-250 ml). The survey also identified Cercozoa and MAST heterotrophic Stramenopiles, normally missed in microscopic-based plankton surveys. The most common was the likely parasitic LKM11 Rozellomycota lineage which comprised 43.2% of all reads and are rarely observed in marine pelagic surveys. An additional 9.5% of reads belonged to other parasitic lineages including marine Syndiniales and Ichthyosporea. Sample variation was considerable, indicating that microbial diversity is spatially or temporally patchy. Our study has shown that the WaMS sampling system is autonomous, versatile and robust, and due to its deployment on the established CPR network, is a cost-effective monitoring tool for microbial diversity for the detection of smaller and delicate taxa.

Persistent organic pollutants in Mediterranean seawater and processes affecting their accumulation in plankton.

PubMed

Berrojalbiz, Naiara; Dachs, Jordi; Del Vento, Sabino; Ojeda, María José; Valle, María Carmen; Castro-Jiménez, Javier; Mariani, Giulio; Wollgast, Jan; Hanke, Georg

2011-05-15

The Mediterranean and Black Seas are unique marine environments subject to important anthropogenic pressures due to riverine and atmospheric inputs of organic pollutants. Here, we report the results obtained during two east-west sampling cruises in June 2006 and May 2007 from Barcelona to Istanbul and Alexandria, respectively, where water and plankton samples were collected simultaneously. Both matrixes were analyzed for hexaclorochyclohexanes (HCHs), hexachlorobenzene (HCB), and 41 polychlorinated biphenyl (PCB) congeners. The comparison of the measured HCB and HCHs concentrations with previously reported dissolved phase concentrations suggests a temporal decline in their concentrations since the 1990s. On the contrary, PCB seawater concentrations did not exhibit such a decline, but show a significant spatial variability in dissolved concentrations with lower levels in the open Western and South Eastern Mediterranean, and higher concentrations in the Black, Marmara, and Aegean Seas and Sicilian Strait. PCB and OCPs (organochlorine pesticides) concentrations in plankton were higher at lower plankton biomass, but the intensity of this trend depended on the compound hydrophobicity (K(OW)). For the more persistent PCBs and HCB, the observed dependence of POP concentrations in plankton versus biomass can be explained by interactions between air-water exchange, particle settling, and/or bioaccumulation processes, whereas degradation processes occurring in the photic zone drive the trends shown by the more labile HCHs. The results presented here provide clear evidence of the important physical and biogeochemical controls on POP occurrence in the marine environment.

Comparing the Chlorine Disinfection of Detached Biofilm Clusters with Those of Sessile Biofilms and Planktonic Cells in Single- and Dual-Species Cultures ▿ †

PubMed Central

Behnke, Sabrina; Parker, Albert E.; Woodall, Dawn; Camper, Anne K.

2011-01-01

Although the detachment of cells from biofilms is of fundamental importance to the dissemination of organisms in both public health and clinical settings, the disinfection efficacies of commonly used biocides on detached biofilm particles have not been investigated. Therefore, the question arises whether cells in detached aggregates can be killed with disinfectant concentrations sufficient to inactivate planktonic cells. Burkholderia cepacia and Pseudomonas aeruginosa were grown in standardized laboratory reactors as single species and in coculture. Cluster size distributions in chemostats and biofilm reactor effluent were measured. Chlorine susceptibility was assessed for planktonic cultures, attached biofilm, and particles and cells detached from the biofilm. Disinfection tolerance generally increased with a higher percentage of larger cell clusters in the chemostat and detached biofilm. Samples with a lower percentage of large clusters were more easily disinfected. Thus, disinfection tolerance depended on the cluster size distribution rather than sample type for chemostat and detached biofilm. Intact biofilms were more tolerant to chlorine independent of species. Homogenization of samples led to significantly increased susceptibility in all biofilm samples as well as detached clusters for single-species B. cepacia, B. cepacia in coculture, and P. aeruginosa in coculture. The disinfection efficacy was also dependent on species composition; coculture was advantageous to the survival of both species when grown as a biofilm or as clusters detached from biofilm but, surprisingly, resulted in a lower disinfection tolerance when they were grown as a mixed planktonic culture. PMID:21856824

Benthic protists: the under-charted majority.

PubMed

Forster, Dominik; Dunthorn, Micah; Mahé, Fréderic; Dolan, John R; Audic, Stéphane; Bass, David; Bittner, Lucie; Boutte, Christophe; Christen, Richard; Claverie, Jean-Michel; Decelle, Johan; Edvardsen, Bente; Egge, Elianne; Eikrem, Wenche; Gobet, Angélique; Kooistra, Wiebe H C F; Logares, Ramiro; Massana, Ramon; Montresor, Marina; Not, Fabrice; Ogata, Hiroyuki; Pawlowski, Jan; Pernice, Massimo C; Romac, Sarah; Shalchian-Tabrizi, Kamran; Simon, Nathalie; Richards, Thomas A; Santini, Sébastien; Sarno, Diana; Siano, Raffaele; Vaulot, Daniel; Wincker, Patrick; Zingone, Adriana; de Vargas, Colomban; Stoeck, Thorsten

2016-08-01

Marine protist diversity inventories have largely focused on planktonic environments, while benthic protists have received relatively little attention. We therefore hypothesize that current diversity surveys have only skimmed the surface of protist diversity in marine sediments, which may harbor greater diversity than planktonic environments. We tested this by analyzing sequences of the hypervariable V4 18S rRNA from benthic and planktonic protist communities sampled in European coastal regions. Despite a similar number of OTUs in both realms, richness estimations indicated that we recovered at least 70% of the diversity in planktonic protist communities, but only 33% in benthic communities. There was also little overlap of OTUs between planktonic and benthic communities, as well as between separate benthic communities. We argue that these patterns reflect the heterogeneity and diversity of benthic habitats. A comparison of all OTUs against the Protist Ribosomal Reference database showed that a higher proportion of benthic than planktonic protist diversity is missing from public databases; similar results were obtained by comparing all OTUs against environmental references from NCBI's Short Read Archive. We suggest that the benthic realm may therefore be the world's largest reservoir of marine protist diversity, with most taxa at present undescribed. © FEMS 2016. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Mismatch between marine plankton range movements and the velocity of climate change

NASA Astrophysics Data System (ADS)

Chivers, William J.; Walne, Anthony W.; Hays, Graeme C.

2017-02-01

The response of marine plankton to climate change is of critical importance to the oceanic food web and fish stocks. We use a 60-year ocean basin-wide data set comprising >148,000 samples to reveal huge differences in range changes associated with climate change across 35 plankton taxa. While the range of dinoflagellates and copepods tended to closely track the velocity of climate change (the rate of isotherm movement), the range of the diatoms moved much more slowly. Differences in range shifts were up to 900 km in a recent warming period, with average velocities of range movement between 7 km per decade northwards for taxa exhibiting niche plasticity and 99 km per decade for taxa exhibiting niche conservatism. The differing responses of taxa to global warming will cause spatial restructuring of the plankton ecosystem with likely consequences for grazing pressures on phytoplankton and hence for biogeochemical cycling, higher trophic levels and biodiversity.

ONR Tokyo Scientific Bulletin. Volume 4, Number 4, October-December 1979,

DTIC Science & Technology

1979-12-01

describing various biological rhythms, from oscillatory electrical activities of the brain to circadian fluctuations in bodily functions and task...Technology Division, Naval Research Laboratory, has concentrated his activities on the design and utilization of far infrared gas lasers for the study... activities of the International Indian Ocean Expedition (IIOE) and the plankton sorting center established at Cochin, for plankton samples taken during the

Longitudinal changes in microbial planktonic communities of a French river in relation to pesticide and nutrient inputs.

PubMed

Pesce, Stéphane; Fajon, Céline; Bardot, Corinne; Bonnemoy, Frédérique; Portelli, Christophe; Bohatier, Jacques

2008-02-18

To determine the effects of anthropic activities on river planktonic microbial populations, monthly water samples were collected for 11 months from two sampling sites characterized by differing nutrient and pesticide levels. The difference in trophic level between the two stations was particularly pronounced from May to November. Total pesticide concentrations were notably higher at the downstream station from April to October with a clear predominance of herbicide residues, especially the glyphosate metabolite aminomethylphosphonic acid (AMPA). From spring, algal biomass and density were favored by the high orthophosphate concentrations recorded at the downstream location. However, isolated drops in algal biomass were recorded at this sampling station, suggesting an adverse effect of herbicides on algal communities. No major difference was observed in bacterial heterotrophic production, density, or activity (CTC reduction) between the two sampling stations. No major variation was detected using the fluorescent in situ hybridization (FISH) method, but shifts in bacterial community composition were recorded by PCR-TTGE analysis at the downstream station following high nutrient and pesticide inputs. However, outside the main anthropic pollution period, the water's chemical properties and planktonic microbial communities were very similar at the two sampling sites, suggesting a high recovery potential for this lotic system.

LC-MS-MS aboard ship: tandem mass spectrometry in the search for phycotoxins and novel toxigenic plankton from the North Sea.

PubMed

Krock, Bernd; Tillmann, Urban; John, Uwe; Cembella, Allan

2008-11-01

Phycotoxins produced by various species of toxigenic microalgae occurring in the plankton are a global threat to the security of seafood resources and the health of humans and coastal marine ecosystems. This has necessitated the development and application of advanced methods in liquid chromatography coupled to mass spectrometry (LC-MS) for monitoring of these compounds, particularly in plankton and shellfish. Most such chemical analyses are conducted in land-based laboratories on stored samples, and thus much information on the near real-time biogeographical distribution and dynamics of phycotoxins in the plankton is unavailable. To resolve this problem, we conducted ship-board analysis of a broad spectrum of phycotoxins collected directly from the water column on an oceanographic cruise along the North Sea coast of Scotland, Norway, and Denmark. We equipped the ship with a triple-quadrupole linear ion-trap hybrid LC-MS-MS system for detection and quantitative analysis of toxins, such as domoic acid, gymnodimine, spirolides, dinophysistoxins, okadaic acid, pectenotoxins, yessotoxins, and azaspiracids (AZAs). We focused particular attention on the detection of AZAs, a group of potent nitrogenous polyether toxins, because the culprit species associated with the occurrence of these toxins in shellfish has been controversial. Marine toxins were analyzed directly from size-fractionated plankton net tows (20 microm mesh size) and Niskin bottle samples from discrete depths, after rapid methanolic extraction but without any further clean-up. Almost all expected phycotoxins were detected in North Sea plankton samples, with domoic acid and 20-methylspirolide G being most abundant. Although AZA was the least abundant of these toxins, the high sensitivity of the LC-MS-MS enabled detailed quantification, indicating that the highest amounts of AZA-1 were present in the southern Skagerrak in the 3-20 microm size-fraction. The direct on-board toxin measurements enabled isolation of plankton from stations with high AZA-1 levels and from the most suspicious size-fraction, i.e. most likely to contain the AZA-producer. A large number (>100) of crude cultures were established by serial dilution and later screened for the presence of AZAs after several weeks growth. From one crude culture containing AZA, a small dinoflagellate was subsequently isolated and brought into pure culture. We have thus proved that even sophisticated mass spectrometers can be operated in ship laboratories without any limitation caused by vibrations of the ship's engine or by wave movement during heavy seas at wind forces up to nine Beaufort. On-board LC-MS-MS is a valuable method for near real-time analysis of phycotoxins in plankton for studies on bloom dynamics and the fate of toxins in the food web, and for characterization and isolation of putatively toxigenic organisms.

Phylogeography of the tropical planktonic foraminifera lineage globigerinella reveals isolation inconsistent with passive dispersal by ocean currents.

PubMed

Weiner, Agnes K M; Weinkauf, Manuel F G; Kurasawa, Atsushi; Darling, Kate F; Kucera, Michal; Grimm, Guido W

2014-01-01

Morphologically defined species of marine plankton often harbor a considerable level of cryptic diversity. Since many morphospecies show cosmopolitan distribution, an understanding of biogeographic and evolutionary processes at the level of genetic diversity requires global sampling. We use a database of 387 single-specimen sequences of the SSU rDNA of the planktonic foraminifera Globigerinella as a model to assess the biogeographic and phylogenetic distributions of cryptic diversity in marine microplankton on a global scale. Our data confirm the existence of multiple, well isolated genetic lineages. An analysis of their abundance and distribution indicates that our sampling is likely to approximate the actual total diversity. Unexpectedly, we observe an uneven allocation of cryptic diversity among the phylogenetic lineages. We show that this pattern is neither an artifact of sampling intensity nor a function of lineage age. Instead, we argue that it reflects an ongoing speciation process in one of the three major lineages. Surprisingly, four of the six genetic types in the hyperdiverse lineage are biogeographically restricted to the Indopacific. Their mutual co-occurrence and their hierarchical phylogenetic structure provide no evidence for an origin through sudden habitat fragmentation and their limitation to the Indopacific challenges the view of a global gene flow within the warm-water provinces. This phenomenon shows that passive dispersal is not sufficient to describe the distribution of plankton diversity. Rather, these organisms show differentiated distribution patterns shaped by species interactions and reflecting phylogenetic contingency with unique histories of diversification rates.

Inter-annual variability of transparent exopolymer particles in the Arctic Ocean reveals high sensitivity to ecosystem changes.

PubMed

Engel, Anja; Piontek, Judith; Metfies, Katja; Endres, Sonja; Sprong, Pim; Peeken, Ilka; Gäbler-Schwarz, Steffi; Nöthig, Eva-Maria

2017-06-23

Transparent exopolymer particles (TEP) are a class of marine gel particles and important links between surface ocean biology and atmospheric processes. Derived from marine microorganisms, these particles can facilitate the biological pumping of carbon dioxide to the deep sea, or act as cloud condensation and ice nucleation particles in the atmosphere. Yet, environmental controls on TEP abundance in the ocean are poorly known. Here, we investigated some of these controls during the first multiyear time-series on TEP abundance for the Fram Strait, the Atlantic gateway to the Central Arctic Ocean. Data collected at the Long-Term Ecological Research observatory HAUSGARTEN during 2009 to 2014 indicate a strong biological control with highest abundance co-occurring with the prymnesiophyte Phaeocystis pouchetii. Higher occurrence of P. pouchetii in the Arctic Ocean has previously been related to northward advection of warmer Atlantic waters, which is expected to increase in the future. Our study highlights the role of plankton key species in driving climate relevant processes; thus, changes in plankton distribution need to be accounted for when estimating the ocean's biogeochemical response to global change.

ZnO nanoparticles inhibit Pseudomonas aeruginosa biofilm formation and virulence factor production.

PubMed

Lee, Jin-Hyung; Kim, Yong-Guy; Cho, Moo Hwan; Lee, Jintae

2014-12-01

The opportunistic pathogen Pseudomonas aeruginosa produces a variety of virulence factors, and biofilms of this bacterium are much more resistant to antibiotics than planktonic cells. Thirty-six metal ions have been investigated to identify antivirulence and antibiofilm metal ions. Zinc ions and ZnO nanoparticles were found to markedly inhibit biofilm formation and the production of pyocyanin, Pseudomonas quinolone signal (PQS), pyochelin, and hemolytic activity of P. aeruginosa without affecting the growth of planktonic cells. Transcriptome analyses showed that ZnO nanoparticles induce the zinc cation efflux pump czc operon and several important transcriptional regulators (porin gene opdT and type III repressor ptrA), but repress the pyocyanin-related phz operon, which explains observed phenotypic changes. A mutant study showed that the effects of ZnO nanoparticles on the control of pyocyanin production and biofilm formation require the czc regulator CzcR. In addition, ZnO nanoparticles markedly increased the cellular hydrophilicity of P. aeruginosa cells. Our results support that ZnO nanoparticles are potential antivirulence materials against recalcitrant P. aeruginosa infections and possibly other important pathogens. Copyright © 2014 Elsevier GmbH. All rights reserved.

Secondary multidrug efflux pump mutants alter Escherichia coli biofilm growth in the presence of cationic antimicrobial compounds.

PubMed

Bay, Denice C; Stremick, Carol A; Slipski, Carmine J; Turner, Raymond J

2017-04-01

Escherichia coli possesses many secondary active multidrug resistance transporters (MDTs) that confer overlapping substrate resistance to a broad range of antimicrobials via proton and/or sodium motive force. It is uncertain whether redundant MDTs uniquely alter cell survival when cultures grow planktonically or as biofilms. In this study, the planktonic and biofilm growth and antimicrobial resistance of 13 E. coli K-12 single MDT gene deletion strains in minimal and rich media were determined. Antimicrobial tolerance to tetracycline, tobramycin and benzalkonium were also compared for each ΔMDT strain. Four E. coli MDT families were represented in this study: resistance nodulation and cell division members acrA, acrB, acrD, acrE, acrF and tolC; multidrug and toxin extruder mdtK; major facilitator superfamily emrA and emrB; and small multidrug resistance members emrE, sugE, mdtI and mdtJ. Deletions of multipartite efflux system genes acrB, acrE and tolC resulted in significant reductions in both planktonic and biofilm growth phenotypes and enhanced antimicrobial susceptibilities. The loss of remaining MDT genes produced similar or enhanced (acrD, acrE, emrA, emrB, mdtK, emrE and mdtJ) biofilm growth and antimicrobial resistance. ΔMDT strains with enhanced antimicrobial tolerance also enhanced biofilm biomass. These findings suggest that many redundant MDTs regulate biofilm formation and drug tolerance. Copyright © 2016 Institut Pasteur. Published by Elsevier Masson SAS. All rights reserved.

Mining big data sets of plankton images: a zero-shot learning approach to retrieve labels without training data

NASA Astrophysics Data System (ADS)

Orenstein, E. C.; Morgado, P. M.; Peacock, E.; Sosik, H. M.; Jaffe, J. S.

2016-02-01

Technological advances in instrumentation and computing have allowed oceanographers to develop imaging systems capable of collecting extremely large data sets. With the advent of in situ plankton imaging systems, scientists must now commonly deal with "big data" sets containing tens of millions of samples spanning hundreds of classes, making manual classification untenable. Automated annotation methods are now considered to be the bottleneck between collection and interpretation. Typically, such classifiers learn to approximate a function that predicts a predefined set of classes for which a considerable amount of labeled training data is available. The requirement that the training data span all the classes of concern is problematic for plankton imaging systems since they sample such diverse, rapidly changing populations. These data sets may contain relatively rare, sparsely distributed, taxa that will not have associated training data; a classifier trained on a limited set of classes will miss these samples. The computer vision community, leveraging advances in Convolutional Neural Networks (CNNs), has recently attempted to tackle such problems using "zero-shot" object categorization methods. Under a zero-shot framework, a classifier is trained to map samples onto a set of attributes rather than a class label. These attributes can include visual and non-visual information such as what an organism is made out of, where it is distributed globally, or how it reproduces. A second stage classifier is then used to extrapolate a class. In this work, we demonstrate a zero-shot classifier, implemented with a CNN, to retrieve out-of-training-set labels from images. This method is applied to data from two continuously imaging, moored instruments: the Scripps Plankton Camera System (SPCS) and the Imaging FlowCytobot (IFCB). Results from simulated deployment scenarios indicate zero-shot classifiers could be successful at recovering samples of rare taxa in image sets. This capability will allow ecologists to identify trends in the distribution of difficult to sample organisms in their data.

Microcystin distribution in physical size class separations of natural plankton communities

USGS Publications Warehouse

Graham, J.L.; Jones, J.R.

2007-01-01

Phytoplankton communities in 30 northern Missouri and Iowa lakes were physically separated into 5 size classes (>100 ??m, 53-100 ??m, 35-53 ??m, 10-35 ??m, 1-10 ??m) during 15-21 August 2004 to determine the distribution of microcystin (MC) in size fractionated lake samples and assess how net collections influence estimates of MC concentration. MC was detected in whole water (total) from 83% of takes sampled, and total MC values ranged from 0.1-7.0 ??g/L (mean = 0.8 ??g/L). On average, MC in the > 100 ??m size class comprised ???40% of total MC, while other individual size classes contributed 9-20% to total MC. MC values decreased with size class and were significantly greater in the >100 ??m size class (mean = 0.5 ??g /L) than the 35-53 ??m (mean = 0.1 ??g/L), 10-35 ??m (mean = 0.0 ??g/L), and 1-10 ??m (mean = 0.0 ??g/L) size classes (p < 0.01). MC values in nets with 100-??m, 53-??m, 35-??m, and 10-??m mesh were cumulatively summed to simulate the potential bias of measuring MC with various size plankton nets. On average, a 100-??m net underestimated total MC by 51%, compared to 37% for a 53-??m net, 28% for a 35-??m net, and 17% for a 10-??m net. While plankton nets consistently underestimated total MC, concentration of algae with net sieves allowed detection of MC at low levels (???0.01 ??/L); 93% of lakes had detectable levels of MC in concentrated samples. Thus, small mesh plankton nets are an option for documenting MC occurrence, but whole water samples should be collected to characterize total MC concentrations. ?? Copyright by the North American Lake Management Society 2007.

PSP toxin levels and plankton community composition and abundance in size-fractionated vertical profiles during spring/summer blooms of the toxic dinoflagellate Alexandrium fundyense in the Gulf of Maine and on Georges Bank, 2007, 2008, and 2010: 2. Plankton community composition and abundance.

PubMed

Petitpas, Christian M; Turner, Jefferson T; Deeds, Jonathan R; Keafer, Bruce A; McGillicuddy, Dennis J; Milligan, Peter J; Shue, Vangie; White, Kevin D; Anderson, Donald M

2014-05-01

As part of the Gulf of Maine Toxicity (GOMTOX) project, we determined Alexandrium fundyense abundance, paralytic shellfish poisoning (PSP) toxin levels in various plankton size fractions, and the community composition of potential grazers of A. fundyense in plankton size fractions during blooms of this toxic dinoflagellate in the coastal Gulf of Maine and on Georges Bank in spring and summer of 2007, 2008, and 2010. PSP toxins and A. fundyense cells were found throughout the sampled water column (down to 50 m) in the 20-64 μm size fractions. While PSP toxins were widespread throughout all size classes of the zooplankton grazing community, the majority of the toxin was measured in the 20-64 μm size fraction. A. fundyense cellular toxin content estimated from field samples was significantly higher in the coastal Gulf of Maine than on Georges Bank. Most samples containing PSP toxins in the present study had diverse assemblages of grazers. However, some samples clearly suggested PSP toxin accumulation in several different grazer taxa including tintinnids, heterotrophic dinoflagellates of the genus Protoperidinium , barnacle nauplii, the harpacticoid copepod Microsetella norvegica , the calanoid copepods Calanus finmarchicus and Pseudocalanus spp., the marine cladoceran Evadne nordmanni , and hydroids of the genus Clytia . Thus, a diverse assemblage of zooplankton grazers accumulated PSP toxins through food-web interactions. This raises the question of whether PSP toxins pose a potential human health risk not only from nearshore bivalve shellfish, but also potentially from fish and other upper-level consumers in zooplankton-based pelagic food webs.

Metabarcoding and metabolome analyses of copepod grazing reveal feeding preference and linkage to metabolite classes in dynamic microbial plankton communities.

PubMed

Ray, Jessica L; Althammer, Julia; Skaar, Katrine S; Simonelli, Paolo; Larsen, Aud; Stoecker, Diane; Sazhin, Andrey; Ijaz, Umer Z; Quince, Christopher; Nejstgaard, Jens C; Frischer, Marc; Pohnert, Georg; Troedsson, Christofer

2016-11-01

In order to characterize copepod feeding in relation to microbial plankton community dynamics, we combined metabarcoding and metabolome analyses during a 22-day seawater mesocosm experiment. Nutrient amendment of mesocosms promoted the development of haptophyte (Phaeocystis pouchetii)- and diatom (Skeletonema marinoi)-dominated plankton communities in mesocosms, in which Calanus sp. copepods were incubated for 24 h in flow-through chambers to allow access to prey particles (<500 μm). Copepods and mesocosm water sampled six times spanning the experiment were analysed using metabarcoding, while intracellular metabolite profiles of mesocosm plankton communities were generated for all experimental days. Taxon-specific metabarcoding ratios (ratio of consumed prey to available prey in the surrounding seawater) revealed diverse and dynamic copepod feeding selection, with positive selection on large diatoms, heterotrophic nanoflagellates and fungi, while smaller phytoplankton, including P. pouchetii, were passively consumed or even negatively selected according to our indicator. Our analysis of the relationship between Calanus grazing ratios and intracellular metabolite profiles indicates the importance of carbohydrates and lipids in plankton succession and copepod-prey interactions. This molecular characterization of Calanus sp. grazing therefore provides new evidence for selective feeding in mixed plankton assemblages and corroborates previous findings that copepod grazing may be coupled to the developmental and metabolic stage of the entire prey community rather than to individual prey abundances. © 2016 John Wiley & Sons Ltd.

Are baleen whales exposed to the threat of microplastics? A case study of the Mediterranean fin whale (Balaenoptera physalus).

PubMed

Fossi, Maria Cristina; Panti, Cristina; Guerranti, Cristiana; Coppola, Daniele; Giannetti, Matteo; Marsili, Letizia; Minutoli, Roberta

2012-11-01

Baleen whales are potentially exposed to micro-litter ingestion as a result of their filter-feeding activity. However, the impacts of microplastics on baleen whales are largely unknown. In this case study of the Mediterranean fin whale (Balaenoptera physalus), we explore the toxicological effects of microplastics on mysticetes. The study included the following three steps: (1) the collection/count of microplastics in the Pelagos Sanctuary (Mediterranean Sea), (2) the detection of phthalates in surface neustonic/planktonic samples, and (3) the detection of phthalates in stranded fin whales. A total of 56% of the surface neustonic/planktonic samples contained microplastic particles. The highest abundance of microplastics (9.63 items/m(3)) was found in the Portofino MPA (Ligurian Sea). High concentrations of phthalates (DEHP and MEHP) were detected in the neustonic/planktonic samples. The concentrations of MEHP found in the blubber of stranded fin whales suggested that phthalates could serve as a tracer of the intake of microplastics. The results of this study represent the first warning of this emerging threat to baleen whales. Copyright © 2012 Elsevier Ltd. All rights reserved.

δ 13C and δD identification of sources of lipid biomarkers in sediments of Lake Haruna (Japan)

NASA Astrophysics Data System (ADS)

Chikaraishi, Yoshito; Naraoka, Hiroshi

2005-07-01

Organic materials in lacustrine sediments are from multiple terrestrial and aquatic sources. In this study, carbon (δ 13C) and hydrogen isotopic compositions (δD) of phytol, various sterols, and major n-fatty acids in sediments at Lake Haruna, Japan, were determined in their solvent-extractable (free) and saponification-released forms (bound). The δ 13C-δD distributions of these lipid molecules in sediments are compared with those of terrestrial C3 and C4 plants, aquatic C3 plants, and plankton to evaluate their relative contributions. δ 13C-δD of free phytol in sediments is very close to that of phytol in plankton samples, whereas δ 13C-δD of bound phytol in sediments is on a mixing line between terrestrial C3 plant and plankton material. Unlike phytol, no significant δ 13C-δD difference between free and bound forms was found in sterols and n-fatty acids. δ 13C-δD values of algal sterols such as 24-methylcholesta-5,22-dien-3β-ol in sediments are close to those of plankton, whereas δ 13C-δD of multiple-source sterols such as 24-ethylcholest-5-en-3β-ol and of major n-fatty acids such as n-hexadecanoic acid in sediments are between those of terrestrial C3 plants and plankton samples. Thus, δ 13C-δD distributions clearly indicate the specific source contributions of biomarkers preserved in a lacustrine environment. Free phytol and algal sterols can be attributed to phytoplankton, and bound phytol, multiple source sterols, and major n-fatty acids are contributed by both terrestrial C3 plants and phytoplankton.

The continuous plankton recorder survey: A long-term, basin-scale oceanic time series

NASA Technical Reports Server (NTRS)

Gamble, John C.; Hunt, Harold G.

1992-01-01

In the 1920s, before the advent of echo sounders, fishery biologists were greatly concerned with assisting the fisherman to locate schools of pelagic fish. One of the approaches they developed was to relate the distribution of the planktonic food organisms to the presence of the schools of predators such as herring (Clupea harengus). The British planktologist, Alister Hardy, who had already carried out extensive studies on the feeding preferences of herring (Hardy, 1926a), initiated a program to examine the fishermen's contention that herring schools avoided 'green', i.e., phytoplankton-rich, water but could be correlated with high concentrations of zooplankton. This practical program was centered on the use of a specially developed instrument, the 'Plankton Indicator', designed to be used by the fisherman to assist in the search for suitable waters. It had limited success in its main aim but, as a collecting device, it embodied several profoundly important features. It was a simple instrument which was robust enough to be deployed and recovered by the crew of commercial vessels (in this case fishing vessels) while they were underway. The Indicator however, was no more than a high speed net which integrated the plankton over the area of sampling, but Hardy had also become interested in describing the patchiness of planktonic populations. He thus developed the Continuous Plankton Recorder (CPR) where he substituted the fixed filter screen of the Indicator by a continually moving length of silk mesh. The screen traversed at constant speed across the path of the incoming water and the trapped organisms were retained in place by sandwiching beneath an additional second mesh screen. Thus, knowing the speed of the towing vessel and the shooting and hauling positions, the spatial patterns of the plankton could be determined. Hardy took the first CPR to the Antarctic where he used it in the Southern Atlantic (Hardy, 1926b) and later deployed it in the North Sea to make some of the earliest contiguous records of plankton patchiness.

Impact of anthropogenic activities on water quality and plankton communities in the Day River (Red River Delta, Vietnam).

PubMed

Hoang, Hang Thi Thu; Duong, Thi Thuy; Nguyen, Kien Trung; Le, Quynh Thi Phuong; Luu, Minh Thi Nguyet; Trinh, Duc Anh; Le, Anh Hung; Ho, Cuong Tu; Dang, Kim Dinh; Némery, Julien; Orange, Didier; Klein, Judith

2018-01-08

Planktons are a major component of food web structure in aquatic ecosystems. Their distribution and community structure are driven by the combination and interactions between physical, chemical, and biological factors within the environment. In the present study, water quality and the community structure of phytoplankton and zooplankton were monthly investigated from January to December 2015 at 11 sampling sites along the gradient course of the Day River (Red River Delta, northern Vietnam). The study demonstrated that the Day River was eutrophic with the average values of total phosphorus concentration 0.17 mg/L, total nitrogen concentration 1.98 mg/L, and Chl a 54 μg/L. Microscopic plankton analysis showed that phytoplankton comprised 87 species belonging to seven groups in which Chlorophyceae, Bacillariophyceae, and Cyanobacteria accounted for the most important constituents of the river's phytoplankton assemblage. A total 53 zooplankton species belonging to three main groups including Copepoda, Cladocera, and Rotatoria were identified. Plankton biomass values were greatest in rainy season (3002.10-3 cell/L for phytoplankton and 12.573 individuals/m 3 for zooplankton). Using principal correspondence and Pearson correlation analyses, it was found that the Day River was divided into three main site groups based on water quality and characteristics of plankton community. Temperature and nutrients (total phosphorus and total nitrogen) are key factors regulating plankton abundance and distribution in the Day River.

An experimental investigation of barite formation in seawater

USGS Publications Warehouse

Ganeshram, R.S.; Francois, R.; Commeau, J.; Brown-Leger, S. L.

2003-01-01

We report results from time-series decay and sequential leaching experiments of laboratory cultured and coastal plankton to elucidate the mechanisms controlling barite formation in seawater. Batch-cultured diatoms ( Stephanopyxis palmerina ) and coccolithophorids (Emiliania huxleyi) were let to decay in the dark for 8-10 weeks, suspended in aerated seawater. The development of barite crystals was monitored by Scanning Electron Microscopy (SEM). A similar experiment was conducted with plankton collected during the spring-bloom in Vineyard Sound (MA). In addition to SEM, suspended particles were sequentially leached for Ba (distilled water rinse; 10% (v/v) HNO3 rinse at room temperature; 30% (v/v) HCl at 80??C overnight; 50% (v/v) HNO3 at 80??C overnight) immediately after collection, and after 10-week decay in seawater, in seawater poisoned with HgCl2, and in seawater spiked with 135Ba. Both experiments showed an increase in the number of barite crystals during decay. The spring-bloom plankton had initially a large pool of labile Ba, soluble in distilled water and cold dilute HNO3 that was lost from the plankton after 10-week decay in both axenic and nonaxenic conditions. In contrast, Ba in the decayed plankton samples was predominantly in forms extracted by hot HCl and hot HNO3 acids, which were attributed to presence of barite Ba and refractory organic Ba respectively. The increase in barite crystal counts under a Scanning Electron Microscope (SEM), the increase in HCl extractable Ba relative to organic carbon, and the loss of a large fraction of Ba during plankton decay suggest that living plankton consists of a relatively large pool of labile Ba, which is rapidly released during plankton decomposition and acts as the main source of Ba for barite formation in supersaturated microenvironments. Since mass balance indicates that only a small proportion (2 to 4%) of the labile-Ba pool is converted to barite, the availability of microenvironments that could locally concentrate Ba released by plankton decay seems to be the main limiting factor in barite precipitation. ?? 2003 Elsevier Science Ltd.

The MerR-like regulator BrlR confers biofilm tolerance by activating multidrug efflux pumps in Pseudomonas aeruginosa biofilms.

PubMed

Liao, Julie; Schurr, Michael J; Sauer, Karin

2013-08-01

A defining characteristic of biofilms is antibiotic tolerance that can be up to 1,000-fold greater than that of planktonic cells. In Pseudomonas aeruginosa, biofilm tolerance to antimicrobial agents requires the biofilm-specific MerR-type transcriptional regulator BrlR. However, the mechanism by which BrlR mediates biofilm tolerance has not been elucidated. Genome-wide transcriptional profiling indicated that brlR was required for maximal expression of genes associated with antibiotic resistance, in particular those encoding the multidrug efflux pumps MexAB-OprM and MexEF-OprN. Chromatin immunoprecipitation (ChIP) analysis revealed a direct regulation of these genes by BrlR, with DNA binding assays confirming BrlR binding to the promoter regions of the mexAB-oprM and mexEF-oprN operons. Quantitative reverse transcriptase PCR (qRT-PCR) analysis further indicated BrlR to be an activator of mexAB-oprM and mexEF-oprN gene expression. Moreover, immunoblot analysis confirmed increased MexA abundance in cells overexpressing brlR. Inactivation of both efflux pumps rendered biofilms significantly more susceptible to five different classes of antibiotics by affecting MIC but not the recalcitrance of biofilms to killing by bactericidal agents. Overexpression of either efflux pump in a ΔbrlR strain partly restored tolerance of ΔbrlR biofilms to antibiotics. Expression of brlR in mutant biofilms lacking both efflux pumps partly restored antimicrobial tolerance of biofilms to wild-type levels. Our results indicate that BrlR acts as an activator of multidrug efflux pumps to confer tolerance to P. aeruginosa biofilms and to resist the action of antimicrobial agents.

Feedback Interactions between Trace Metal Nutrients and Phytoplankton in the Ocean

PubMed Central

Sunda, William G.

2012-01-01

In addition to control by major nutrient elements (nitrogen, phosphorus, and silicon) the productivity and species composition of marine phytoplankton communities are also regulated by a number of trace metal nutrients (iron, zinc, cobalt, manganese, copper, and cadmium). Of these, iron is most limiting to phytoplankton growth and has the greatest effect on algal species diversity. It also plays an important role in limiting di-nitrogen (N2) fixation rates, and thus is important in controlling ocean inventories of fixed nitrogen. Because of these effects, iron is thought to play a key role in regulating biological cycles of carbon and nitrogen in the ocean, including the biological transfer of carbon to the deep sea, the so-called biological CO2 pump, which helps regulate atmospheric CO2 and CO2-linked global warming. Other trace metal nutrients (zinc, cobalt, copper, and manganese) have lesser effects on productivity; but may exert an important influence on the species composition of algal communities because of large differences in metal requirements among species. The interactions between trace metals and ocean plankton are reciprocal: not only do the metals control the plankton, but the plankton regulate the distributions, chemical speciation, and cycling of these metals through cellular uptake and recycling processes, downward flux of biogenic particles, biological release of organic chelators, and mediation of redox reactions. This two way interaction has influenced not only the biology and chemistry of the modern ocean, but has had a profound influence on biogeochemistry of the ocean and earth system as a whole, and on the evolution of marine and terrestrial biology over geologic history. PMID:22701115

A miniature Marine Aerosol Reference Tank (miniMART) as a compact breaking wave analogue

NASA Astrophysics Data System (ADS)

Stokes, M. Dale; Deane, Grant; Collins, Douglas B.; Cappa, Christopher; Bertram, Timothy; Dommer, Abigail; Schill, Steven; Forestieri, Sara; Survilo, Mathew

2016-09-01

In order to understand the processes governing the production of marine aerosols, repeatable, controlled methods for their generation are required. A new system, the miniature Marine Aerosol Reference Tank (miniMART), has been designed after the success of the original MART system, to approximate a small oceanic spilling breaker by producing an evolving bubble plume and surface foam patch. The smaller tank utilizes an intermittently plunging jet of water produced by a rotating water wheel, into an approximately 6 L reservoir to simulate bubble plume and foam formation and generate aerosols. This system produces bubble plumes characteristic of small whitecaps without the large external pump inherent in the original MART design. Without the pump it is possible to easily culture delicate planktonic and microbial communities in the bulk water during experiments while continuously producing aerosols for study. However, due to the reduced volume and smaller plunging jet, the absolute numbers of particles generated are approximately an order of magnitude less than in the original MART design.

Promethazine improves antibiotic efficacy and disrupts biofilms of Burkholderia pseudomallei.

PubMed

Sidrim, José Júlio Costa; Vasconcelos, David Caldas; Riello, Giovanna Barbosa; Guedes, Glaucia Morgana de Melo; Serpa, Rosana; Bandeira, Tereza de Jesus Pinheiro Gomes; Monteiro, André Jalles; Cordeiro, Rossana de Aguiar; Castelo-Branco, Débora de Souza Collares Maia; Rocha, Marcos Fábio Gadelha; Brilhante, Raimunda Sâmia Nogueira

2017-01-01

Efflux pumps are important defense mechanisms against antimicrobial drugs and maintenance of Burkholderia pseudomallei biofilms. This study evaluated the effect of the efflux pump inhibitor promethazine on the structure and antimicrobial susceptibility of B. pseudomallei biofilms. Susceptibility of planktonic cells and biofilms to promethazine alone and combined with antimicrobials was assessed by the broth microdilution test and biofilm metabolic activity was determined with resazurin. The effect of promethazine on 48 h-grown biofilms was also evaluated through confocal and electronic microscopy. The minimum inhibitory concentration (MIC) of promethazine was 780 mg l -1 , while the minimum biofilm elimination concentration (MBEC) was 780-3,120 mg l -1 . Promethazine reduced the MIC values for erythromycin, trimethoprim/sulfamethoxazole, gentamicin and ciprofloxacin and reduced the MBEC values for all tested drugs (p<0.05). Microscopic analyses demonstrated that promethazine altered the biofilm structure of B. pseudomallei, even at subinhibitory concentrations, possibly facilitating antibiotic penetration. Promethazine improves antibiotics efficacy against B. pseudomallei biofilms, by disrupting biofilm structure.

Combinatorial approaches with selected phytochemicals to increase antibiotic efficacy against Staphylococcus aureus biofilms.

PubMed

Abreu, Ana Cristina; Saavedra, Maria José; Simões, Lúcia C; Simões, Manuel

2016-10-01

Combinations of selected phytochemicals (reserpine, pyrrolidine, quinine, morin and quercetin) with antibiotics (ciprofloxacin, tetracycline and erythromycin) were tested on the prevention and control of Staphylococcus aureus biofilms. The phytochemicals were also studied for their ability to avoid antibiotic adaptation and to inhibit antibiotic efflux pumps. Morin, pyrrolidine and quercetin at subinhibitory concentrations had significant effects in biofilm prevention and/or control when applied alone and combined with antibiotics. Synergism between antibiotics and phytochemicals was found especially against biofilms of NorA overexpressing strain S. aureus SA1199B. This strain when growing with subinhibitory concentrations of ciprofloxacin developed increased tolerance to this antibiotic. However, this was successfully reversed by quinine and morin. In addition, reserpine and quercetin showed significant efflux pump inhibition. The overall results demonstrate the role of phytochemicals in co-therapies to promote more efficient treatments and decrease antimicrobial resistance to antibiotics, with substantial effects against S. aureus in both planktonic and biofilm states.

Spatial variations in annual cycles of body-size spectra of planktonic ciliates and their environmental drivers in marine ecosystems.

PubMed

Xu, Henglong; Jiang, Yong; Xu, Guangjian

2016-11-15

Body-size spectra has proved to be a useful taxon-free resolution to summarize a community structure for bioassessment. The spatial variations in annual cycles of body-size spectra of planktonic ciliates and their environmental drivers were studied based on an annual dataset. Samples were biweekly collected at five stations in a bay of the Yellow Sea, northern China during a 1-year cycle. Based on a multivariate approach, the second-stage analysis, it was shown that the annual cycles of the body-size spectra were significantly different among five sampling stations. Correlation analysis demonstrated that the spatial variations in the body-size spectra were significantly related to changes of environmental conditions, especially dissolved nitrogen, alone or in combination with salinity and dissolve oxygen. Based on results, it is suggested that the nutrients may be the environmental drivers to shape the spatial variations in annual cycles of planktonic ciliates in terms of body-size spectra in marine ecosystems. Copyright © 2016 Elsevier Ltd. All rights reserved.

Open science resources for the discovery and analysis of Tara Oceans data

PubMed Central

Pesant, Stéphane; Not, Fabrice; Picheral, Marc; Kandels-Lewis, Stefanie; Le Bescot, Noan; Gorsky, Gabriel; Iudicone, Daniele; Karsenti, Eric; Speich, Sabrina; Troublé, Romain; Dimier, Céline; Searson, Sarah; Acinas, Silvia G.; Bork, Peer; Boss, Emmanuel; Bowler, Chris; Vargas, Colomban De; Follows, Michael; Gorsky, Gabriel; Grimsley, Nigel; Hingamp, Pascal; Iudicone, Daniele; Jaillon, Olivier; Kandels-Lewis, Stefanie; Karp-Boss, Lee; Karsenti, Eric; Krzic, Uros; Not, Fabrice; Ogata, Hiroyuki; Pesant, Stéphane; Raes, Jeroen; Reynaud, Emmanuel G.; Sardet, Christian; Sieracki, Mike; Speich, Sabrina; Stemmann, Lars; Sullivan, Matthew B.; Sunagawa, Shinichi; Velayoudon, Didier; Weissenbach, Jean; Wincker, Patrick

2015-01-01

The Tara Oceans expedition (2009–2013) sampled contrasting ecosystems of the world oceans, collecting environmental data and plankton, from viruses to metazoans, for later analysis using modern sequencing and state-of-the-art imaging technologies. It surveyed 210 ecosystems in 20 biogeographic provinces, collecting over 35,000 samples of seawater and plankton. The interpretation of such an extensive collection of samples in their ecological context requires means to explore, assess and access raw and validated data sets. To address this challenge, the Tara Oceans Consortium offers open science resources, including the use of open access archives for nucleotides (ENA) and for environmental, biogeochemical, taxonomic and morphological data (PANGAEA), and the development of on line discovery tools and collaborative annotation tools for sequences and images. Here, we present an overview of Tara Oceans Data, and we provide detailed registries (data sets) of all campaigns (from port-to-port), stations and sampling events. PMID:26029378

Open science resources for the discovery and analysis of Tara Oceans data

NASA Astrophysics Data System (ADS)

2015-05-01

The Tara Oceans expedition (2009-2013) sampled contrasting ecosystems of the world oceans, collecting environmental data and plankton, from viruses to metazoans, for later analysis using modern sequencing and state-of-the-art imaging technologies. It surveyed 210 ecosystems in 20 biogeographic provinces, collecting over 35,000 samples of seawater and plankton. The interpretation of such an extensive collection of samples in their ecological context requires means to explore, assess and access raw and validated data sets. To address this challenge, the Tara Oceans Consortium offers open science resources, including the use of open access archives for nucleotides (ENA) and for environmental, biogeochemical, taxonomic and morphological data (PANGAEA), and the development of on line discovery tools and collaborative annotation tools for sequences and images. Here, we present an overview of Tara Oceans Data, and we provide detailed registries (data sets) of all campaigns (from port-to-port), stations and sampling events.

Open science resources for the discovery and analysis of Tara Oceans data.

PubMed

Pesant, Stéphane; Not, Fabrice; Picheral, Marc; Kandels-Lewis, Stefanie; Le Bescot, Noan; Gorsky, Gabriel; Iudicone, Daniele; Karsenti, Eric; Speich, Sabrina; Troublé, Romain; Dimier, Céline; Searson, Sarah

2015-01-01

The Tara Oceans expedition (2009-2013) sampled contrasting ecosystems of the world oceans, collecting environmental data and plankton, from viruses to metazoans, for later analysis using modern sequencing and state-of-the-art imaging technologies. It surveyed 210 ecosystems in 20 biogeographic provinces, collecting over 35,000 samples of seawater and plankton. The interpretation of such an extensive collection of samples in their ecological context requires means to explore, assess and access raw and validated data sets. To address this challenge, the Tara Oceans Consortium offers open science resources, including the use of open access archives for nucleotides (ENA) and for environmental, biogeochemical, taxonomic and morphological data (PANGAEA), and the development of on line discovery tools and collaborative annotation tools for sequences and images. Here, we present an overview of Tara Oceans Data, and we provide detailed registries (data sets) of all campaigns (from port-to-port), stations and sampling events.

Iron-reducing bacteria accumulate ferric oxyhydroxide nanoparticle aggregates that may support planktonic growth

PubMed Central

Luef, Birgit; Fakra, Sirine C; Csencsits, Roseann; Wrighton, Kelly C; Williams, Kenneth H; Wilkins, Michael J; Downing, Kenneth H; Long, Philip E; Comolli, Luis R; Banfield, Jillian F

2013-01-01

Iron-reducing bacteria (FeRB) play key roles in anaerobic metal and carbon cycling and carry out biogeochemical transformations that can be harnessed for environmental bioremediation. A subset of FeRB require direct contact with Fe(III)-bearing minerals for dissimilatory growth, yet these bacteria must move between mineral particles. Furthermore, they proliferate in planktonic consortia during biostimulation experiments. Thus, a key question is how such organisms can sustain growth under these conditions. Here we characterized planktonic microbial communities sampled from an aquifer in Rifle, Colorado, USA, close to the peak of iron reduction following in situ acetate amendment. Samples were cryo-plunged on site and subsequently examined using correlated two- and three-dimensional cryogenic transmission electron microscopy (cryo-TEM) and scanning transmission X-ray microscopy (STXM). The outer membranes of most cells were decorated with aggregates up to 150 nm in diameter composed of ∼3 nm wide amorphous, Fe-rich nanoparticles. Fluorescent in situ hybridization of lineage-specific probes applied to rRNA of cells subsequently imaged via cryo-TEM identified Geobacter spp., a well-studied group of FeRB. STXM results at the Fe L2,3 absorption edges indicate that nanoparticle aggregates contain a variable mixture of Fe(II)–Fe(III), and are generally enriched in Fe(III). Geobacter bemidjiensis cultivated anaerobically in the laboratory on acetate and hydrous ferric oxyhydroxides also accumulated mixed-valence nanoparticle aggregates. In field-collected samples, FeRB with a wide variety of morphologies were associated with nano-aggregates, indicating that cell surface Fe(III) accumulation may be a general mechanism by which FeRB can grow while in planktonic suspension. PMID:23038172

Iron-reducing bacteria accumulate ferric oxyhydroxide nanoparticle aggregates that may support planktonic growth

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

Luef, Birgit; Fakra, Sirine C.; Csencsits, Roseann

2013-02-04

Iron-reducing bacteria (FeRB) play key roles in anaerobic metal and carbon cycling and carry out biogeochemical transformations that can be harnessed for environmental bioremediation. A subset of FeRB require direct contact with Fe(III) bearing minerals for dissimilatory growth, yet these bacteria must move between mineral particles. Further, they proliferate in planktonic consortia during biostimulation experiments. Thus, a key question is how such organisms can sustain growth under these conditions. Here we characterized planktonic microbial communities sampled from an aquifer in Rifle, Colorado, USA close to the peak of iron reduction following in situ acetate amendment. Samples were cryo-plunged on sitemore » and subsequently examined using correlated 2- and 3- dimensional cryogenic transmission electron microscopy (cryo-TEM) and scanning transmission X-ray microscopy (STXM). Most cells had their outer membranes decorated with up to 150 nm diameter aggregates composed of a few nm wide amorphous, Fe-rich nanoparticles. Fluorescent in situ hybridization of lineage-specific probes applied to rRNA of cells subsequently imaged via cryo-TEM identified Geobacter spp., a well studied group of FeRB. STXM results at the Fe L2,3 absorption edges indicate that nanoparticle aggregates contain a variable mixture of Fe(II)-Fe(III), and are generally enriched in Fe(III). Geobacter bemidjiensis cultivated anaerobically in the laboratory on acetate and hydrous ferric oxyhydroxides also accumulated mixed valence nanoparticle aggregates. In field-collected samples, FeRB with a wide variety of morphologies were associated with nano-aggregates, indicating that cell-surface Fe(III) accumulation may be a general mechanism by which FeRB can grow while in planktonic suspension.« less

Iron-reducing bacteria accumulate ferric oxyhydroxide nanoparticle aggregates that may support planktonic growth.

PubMed

Luef, Birgit; Fakra, Sirine C; Csencsits, Roseann; Wrighton, Kelly C; Williams, Kenneth H; Wilkins, Michael J; Downing, Kenneth H; Long, Philip E; Comolli, Luis R; Banfield, Jillian F

2013-02-01

Iron-reducing bacteria (FeRB) play key roles in anaerobic metal and carbon cycling and carry out biogeochemical transformations that can be harnessed for environmental bioremediation. A subset of FeRB require direct contact with Fe(III)-bearing minerals for dissimilatory growth, yet these bacteria must move between mineral particles. Furthermore, they proliferate in planktonic consortia during biostimulation experiments. Thus, a key question is how such organisms can sustain growth under these conditions. Here we characterized planktonic microbial communities sampled from an aquifer in Rifle, Colorado, USA, close to the peak of iron reduction following in situ acetate amendment. Samples were cryo-plunged on site and subsequently examined using correlated two- and three-dimensional cryogenic transmission electron microscopy (cryo-TEM) and scanning transmission X-ray microscopy (STXM). The outer membranes of most cells were decorated with aggregates up to 150 nm in diameter composed of ∼3 nm wide amorphous, Fe-rich nanoparticles. Fluorescent in situ hybridization of lineage-specific probes applied to rRNA of cells subsequently imaged via cryo-TEM identified Geobacter spp., a well-studied group of FeRB. STXM results at the Fe L(2,3) absorption edges indicate that nanoparticle aggregates contain a variable mixture of Fe(II)-Fe(III), and are generally enriched in Fe(III). Geobacter bemidjiensis cultivated anaerobically in the laboratory on acetate and hydrous ferric oxyhydroxides also accumulated mixed-valence nanoparticle aggregates. In field-collected samples, FeRB with a wide variety of morphologies were associated with nano-aggregates, indicating that cell surface Fe(III) accumulation may be a general mechanism by which FeRB can grow while in planktonic suspension.

Iron Resources and Oceanic Nutrients - Advancement of Global Environment Simulations (ironages)

NASA Astrophysics Data System (ADS)

de Baar, H. J. W.; Ironages Team

Iron limits productivity in 40 percent of the oceans, and is a co-limitation in the re- maining 60 percent of surface waters. Moreover the paradigm of a single factor limit- ing plankton blooms, is presently giving way to co-limitation by light, and the nutri- ents N, P, Si, and Fe. Primary production, export into the deep sea, and CO2 uptake from the atmosphere together form the 'biological pump' in Ocean Biogeochemi- cal Climate Models (OBCM's). Thus far OBCM's assume just one limiting nutrient (P) and one universal phytoplankton species, for deriving C budgets and CO2 ex- change with the atmosphere. New realistic OBCM's are being developed in IRON- AGES for budgeting and air/sea exchanges of both CO2 and DMS, implementing (1) co-limitation by 4 nutrients of 5 major taxonomic classes of phytoplankton in a nested plankton ecosystem model, (ii) DMS(P) pathways, (iii) global iron cycling, (iv) chem- ical forms of iron and (v) iron supply in surface waters from above by aerosols and from below out of reducing margin sediments. IRONAGES is a consortium of 12 Eu- ropean institutes coordinated by the Royal NIOZ.

Molecular detection of native and invasive marine invertebrate larvae present in ballast and open water environmental samples collected in Puget Sound

USGS Publications Warehouse

Harvey, J.B.J.; Hoy, M.S.; Rodriguez, R.J.

2009-01-01

Non-native marine species have been and continue to be introduced into Puget Sound via several vectors including ship's ballast water. Some non-native species become invasive and negatively impact native species or near shore habitats. We present a new methodology for the development and testing of taxon specific PCR primers designed to assess environmental samples of ocean water for the presence of native and non-native bivalves, crustaceans and algae. The intergenic spacer regions (IGS; ITS1, ITS2 and 5.8S) of the ribosomal DNA were sequenced for adult samples of each taxon studied. We used these data along with those available in Genbank to design taxon and group specific primers and tested their stringency against artificial populations of plasmid constructs containing the entire IGS region for each of the 25 taxa in our study, respectively. Taxon and group specific primer sets were then used to detect the presence or absence of native and non-native planktonic life-history stages (propagules) from environmental samples of ballast water and plankton tow net samples collected in Puget Sound. This methodology provides an inexpensive and efficient way to test the discriminatory ability of taxon specific oligonucleotides (PCR primers) before creating molecular probes or beacons for use in molecular ecological applications such as probe hybridizations or microarray analyses. This work addresses the current need to develop molecular tools capable of diagnosing the presence of planktonic life-history stages from non-native marine species (potential invaders) in ballast water and other environmental samples. ?? 2008 Elsevier B.V.

Distribution of net-collected planktonic cnidarians along the northern Mid-Atlantic Ridge and their associations with the main water masses

NASA Astrophysics Data System (ADS)

Hosia, A.; Stemmann, L.; Youngbluth, M.

2008-01-01

Planktonic cnidarians and ctenophores were sampled with a multiple opening-closing net (Multinet) as well as a non-quantitative plankton net along the northern Mid-Atlantic Ridge (MAR) between Iceland and the Azores. Sixty-four species or genera of planktonic cnidarians (38 siphonophora, 21 hydromedusae, 5 scyphomedusae) and one genus of ctenophore were collected. Of these, Leuckartiara adnata and Clausophyes laetmata were new records for the area. Multinet samples collected from depths of 0-100, 100-500, 500-1000, 1000-1500 and 1500-2500 m at 11 stations were compared. Multivariate analysis of the data indicated that species composition and abundance along the ridge varied with the dominant water masses, with changes in the cnidarian zooplankton assemblage observed with regard to geographic location as well as depth. The surface waters of the two northernmost stations characterized by modified North Atlantic Water (MNAW) as well as the three southernmost stations characterized by North Atlantic Central Water (NACW) exhibited relatively high abundances (3284-13,915 individuals·1000 m -3) in the upper 100 m. No such peak was evident at the middle stations characterized by Subarctic Intermediate Water (SAIW), where the abundances in the upper three depth strata were consistently lower (57-863 individuals·1000 m -3). Across the study area, the lowest abundances were found in the 1500-2500 m stratum (0-56 ind.·1000 m -3). The main divergence in the species composition and abundance of planktonic cnidarians was observed at the Subpolar Front (SPF), which marked the boundary for the distribution of many species. The divergence at the SPF was strongest in the upper 500 m but observable down to 1500 m. Profoundly different epipelagic species assemblages were observed in SAIW and NACW on opposite sides of the SPF, with the distribution of several species of calycophoran siphonophores confined to the southern NACW. At mid-water depths, the species composition north of the SPF was possibly influenced by Labrador Sea Water (LSW). The highest diversity of planktonic cnidarians was observed in the surface waters south of the SPF and in the 100-1000 m range north of the SPF.

Refinement of stratigraphy according to the first finds of planktonic species of Orbulina and Praeorbulina from the Guri Limestone of the Mishan Formation in northwest of Bandar Abbas, South Iran

NASA Astrophysics Data System (ADS)

Daneshian, J.; Moallemi, S. A.; Derakhshani, M.

2016-05-01

The Zagros Basin is one of the most universal oil and gas basins that is located in the west to south of Iran and in north of the Arabian Plate. The Guri Member at the bottom of the Mishan Formation, in some areas such as Bandar Abbas hinterland, contains a significant amount of gas. The Bandar Abbas hinterland is located in the southeast of Zagros. The Guri Limestone is the youngest hydrocarbon reservoirs of the Zagros Sedimentary Basin. In this study, a total of 178 samples from the Guri Limestone in the Handun section are investigated for foraminiferal biostratigraphy. The study of foraminifers led to a recognition of 43 genera and 57 species of benthic and planktonic foraminifera. For the first time, planktonic foraminiferal species including Praeorbulina glomerosa, Praeorbulina transitoria, Orbulina suturalis, and Orbulina universa are reported, and based on the identified benthic and planktonic foraminifera taxa, the age of the Guri Member at Handun section is estimated as late Burdigalian to Langhian.

Fluid sampling system for a nuclear reactor

DOEpatents

Lau, Louis K.; Alper, Naum I.

1994-01-01

A system of extracting fluid samples, either liquid or gas, from the interior of a nuclear reactor containment utilizes a jet pump. To extract the sample fluid, a nonradioactive motive fluid is forced through the inlet and discharge ports of a jet pump located outside the containment, creating a suction that draws the sample fluid from the containment through a sample conduit connected to the pump suction port. The mixture of motive fluid and sample fluid is discharged through a return conduit to the interior of the containment. The jet pump and means for removing a portion of the sample fluid from the sample conduit can be located in a shielded sample grab station located next to the containment. A non-nuclear grade active pump can be located outside the grab sampling station and the containment to pump the nonradioactive motive fluid through the jet pump.

Fluid sampling system for a nuclear reactor

DOEpatents

Lau, L.K.; Alper, N.I.

1994-11-22

A system of extracting fluid samples, either liquid or gas, from the interior of a nuclear reactor containment utilizes a jet pump. To extract the sample fluid, a nonradioactive motive fluid is forced through the inlet and discharge ports of a jet pump located outside the containment, creating a suction that draws the sample fluid from the containment through a sample conduit connected to the pump suction port. The mixture of motive fluid and sample fluid is discharged through a return conduit to the interior of the containment. The jet pump and means for removing a portion of the sample fluid from the sample conduit can be located in a shielded sample grab station located next to the containment. A non-nuclear grade active pump can be located outside the grab sampling station and the containment to pump the nonradioactive motive fluid through the jet pump. 1 fig.

Ubiquitous healthy diatoms in the deep sea confirms deep carbon injection by the biological pump

NASA Astrophysics Data System (ADS)

Agustí, Susana; González-Gordillo, Jose I.; Vaqué, Dolors; Estrada, Marta; Cerezo, Maria I.; Salazar, Guillem; Gasol, Josep M.; Duarte, Carlos M.

2016-04-01

The role of the ocean as a sink for CO2 is partially dependent on the downward transport of phytoplankton cells packaged within fast-sinking particles. However, whether such fast-sinking mechanisms deliver fresh organic carbon down to the deep bathypelagic sea and whether this mechanism is prevalent across the ocean awaits confirmation. Photosynthetic plankton, directly responsible for trapping CO2 in organic form in the surface layer, are a key constituent of the flux of sinking particles and are assumed to die and become detritus upon leaving the photic layer. Research in the 1960-70's reported the occasional presence of well-preserved phytoplankton cells in the deep ocean, but these observations, which could signal at rapid sinking rates, were considered anecdotal. Using new developments we tested the presence of healthy phytoplankton cells in the deep sea (2000 to 4000 m depth) along the Malaspina 2010 Circumnavigation Expedition, a global expedition sampling the bathypelagic zone of the Atlantic, Indian and Pacific Oceans. In particular, we used a new microplankton sampling device, the Bottle-Net, 16S rDNA sequences, flow cytometric counts, vital stains and experiments to explore the abundance and health status of photosynthetic plankton cells between 2,000 and 4,000 m depth along the Circumnavigation track. We described the community of microplankton (> 20μm) found at the deep ocean (2000-4000 m depth), surprisingly dominated by phytoplankton, and within this, by diatoms. Moreover, we report the ubiquitous presence of healthy photosynthetic cells, dominated by diatoms, down to 4,000 m in the deep dark sea. Decay experiments with surface phytoplankton suggested that the large proportion (18%) of healthy photosynthetic cells observed, on average, in the dark ocean, requires transport times from few days to few weeks, corresponding to sinking rates of 124 to 732 m d-1, comparable to those of fast sinking aggregates and faecal pellets. These results confirm the expectation that fast-sinking mechanisms inject fresh organic carbon into the deep-sea and that this is a prevalent process operating across the global oligotrophic ocean.

Seasonality in ocean microbial communities.

PubMed

Giovannoni, Stephen J; Vergin, Kevin L

2012-02-10

Ocean warming occurs every year in seasonal cycles that can help us to understand long-term responses of plankton to climate change. Rhythmic seasonal patterns of microbial community turnover are revealed when high-resolution measurements of microbial plankton diversity are applied to samples collected in lengthy time series. Seasonal cycles in microbial plankton are complex, but the expansion of fixed ocean stations monitoring long-term change and the development of automated instrumentation are providing the time-series data needed to understand how these cycles vary across broad geographical scales. By accumulating data and using predictive modeling, we gain insights into changes that will occur as the ocean surface continues to warm and as the extent and duration of ocean stratification increase. These developments will enable marine scientists to predict changes in geochemical cycles mediated by microbial communities and to gauge their broader impacts.

The Estuary.

ERIC Educational Resources Information Center

Fortner, Rosanne; Bainer, Deborah L.

1983-01-01

Provides an OEAGLS (Oceanic Education Activities for Great Lakes Schools) activity showing how biological sampling can be taught using acquatic examples in a "dry lab." The activity, requiring use of mathematical/observational skills, simulates a plankton sample and stimulates discussions of how environmental/human factors can cause…

Foraminiferal and calcareous nannofossil paleoecology across the Cenomanian/Turonian boundary in the western interior of North America

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

Diner, R.; Bralower, T.J.

1985-01-01

The Cenomanian-Turonian boundary is noted by a global positive excursion in the carbon isotopic signature. Sediments deposited during this interval in Europe are rich in organic carbon this interval in Europe are rich in organic carbon. These data suggest unusually high productivity which should be expressed within the composition of the plankton. The authors have examined samples from three sections in the Western Interior Seaway from Manitoba, Colorado, Arizona, that represent nearshore and offshore calcareous litho facies. They analyzed the foraminifera and calcareous nannofossils to determine how biostratigraphic and paleoecologic events affected the makeup of faunal and floral assemblages. Themore » extinction of the calcareous nannofossil P. albianus occurs at the first appearance of the planktonic foraminifer W. archeocretacea, which marks the base of the boundary interval. Nearshore foraminiferal assemblages that include planktonic taxa, characteristically contain a benthic fauna composed of both arenaceous and calcareous species. During these blooms though, planktonics disappear as does the calcareous component of the benthic fauna, most notably the nodosariids. Co-occurring shifts in the relative abundance of the planktonic foraminifera and the calcareous nannofossils in the more offshore facies are also evident. Finally when the authors compare the faunal data with the record of carbon and oxygen isotopes, they find that the timing of the biostratigraphic events already described is coincident with the positive excursion of the carbon isotope.« less

In situ imaging reveals the biomass of giant protists in the global ocean.

PubMed

Biard, Tristan; Stemmann, Lars; Picheral, Marc; Mayot, Nicolas; Vandromme, Pieter; Hauss, Helena; Gorsky, Gabriel; Guidi, Lionel; Kiko, Rainer; Not, Fabrice

2016-04-28

Planktonic organisms play crucial roles in oceanic food webs and global biogeochemical cycles. Most of our knowledge about the ecological impact of large zooplankton stems from research on abundant and robust crustaceans, and in particular copepods. A number of the other organisms that comprise planktonic communities are fragile, and therefore hard to sample and quantify, meaning that their abundances and effects on oceanic ecosystems are poorly understood. Here, using data from a worldwide in situ imaging survey of plankton larger than 600 μm, we show that a substantial part of the biomass of this size fraction consists of giant protists belonging to the Rhizaria, a super-group of mostly fragile unicellular marine organisms that includes the taxa Phaeodaria and Radiolaria (for example, orders Collodaria and Acantharia). Globally, we estimate that rhizarians in the top 200 m of world oceans represent a standing stock of 0.089 Pg carbon, equivalent to 5.2% of the total oceanic biota carbon reservoir. In the vast oligotrophic intertropical open oceans, rhizarian biomass is estimated to be equivalent to that of all other mesozooplankton (plankton in the size range 0.2-20 mm). The photosymbiotic association of many rhizarians with microalgae may be an important factor in explaining their distribution. The previously overlooked importance of these giant protists across the widest ecosystem on the planet changes our understanding of marine planktonic ecosystems.

Ecological partitioning and diversity in tropical planktonic foraminifera

PubMed Central

2012-01-01

Background Ecological processes are increasingly being viewed as an important mode of diversification in the marine environment, where the high dispersal potential of pelagic organisms, and a lack of absolute barriers to gene flow may limit the occurrence of allopatric speciation through vicariance. Here we focus on the potential role of ecological partitioning in the diversification of a widely distributed group of marine protists, the planktonic foraminifera. Sampling was conducted in the tropical Arabian Sea, during the southwest (summer) monsoon, when pronounced environmental conditions result in a strong disparity in temperature, salinity and productivity between distinct northern and southern water masses. Results We uncovered extensive genetic diversity within the Arabian Sea planktonic foraminifera, identifying 13 morphospecies, represented by 20 distinct SSU rRNA genetic types. Several morphospecies/genetic types displayed non-random biogeographical distributions, partitioning between the northern and southern water masses, giving a strong indication of independent ecological adaptations. Conclusions We propose sea-surface primary productivity as the main factor driving the geographical segregation of Arabian Sea planktonic foraminifera, during the SW monsoon, with variations in symbiotic associations possibly playing a role in the specific ecological adaptations observed. Our findings suggest that ecological partitioning could be contributing to the high levels of 'cryptic' genetic diversity observed within the planktonic foraminifera, and support the view that ecological processes may play a key role in the diversification of marine pelagic organisms. PMID:22507289

Planktonic foraminifera-derived environmental DNA extracted from abyssal sediments preserves patterns of plankton macroecology

NASA Astrophysics Data System (ADS)

Morard, Raphaël; Lejzerowicz, Franck; Darling, Kate F.; Lecroq-Bennet, Béatrice; Winther Pedersen, Mikkel; Orlando, Ludovic; Pawlowski, Jan; Mulitza, Stefan; de Vargas, Colomban; Kucera, Michal

2017-06-01

Deep-sea sediments constitute a unique archive of ocean change, fueled by a permanent rain of mineral and organic remains from the surface ocean. Until now, paleo-ecological analyses of this archive have been mostly based on information from taxa leaving fossils. In theory, environmental DNA (eDNA) in the sediment has the potential to provide information on non-fossilized taxa, allowing more comprehensive interpretations of the fossil record. Yet, the process controlling the transport and deposition of eDNA onto the sediment and the extent to which it preserves the features of past oceanic biota remains unknown. Planktonic foraminifera are the ideal taxa to allow an assessment of the eDNA signal modification during deposition because their fossils are well preserved in the sediment and their morphological taxonomy is documented by DNA barcodes. Specifically, we re-analyze foraminiferal-specific metabarcodes from 31 deep-sea sediment samples, which were shown to contain a small fraction of sequences from planktonic foraminifera. We confirm that the largest portion of the metabarcode originates from benthic bottom-dwelling foraminifera, representing the in situ community, but a small portion (< 10 %) of the metabarcodes can be unambiguously assigned to planktonic taxa. These organisms live exclusively in the surface ocean and the recovered barcodes thus represent an allochthonous component deposited with the rain of organic remains from the surface ocean. We take advantage of the planktonic foraminifera portion of the metabarcodes to establish to what extent the structure of the surface ocean biota is preserved in sedimentary eDNA. We show that planktonic foraminifera DNA is preserved in a range of marine sediment types, the composition of the recovered eDNA metabarcode is replicable and that both the similarity structure and the diversity pattern are preserved. Our results suggest that sedimentary eDNA could preserve the ecological structure of the entire pelagic community, including non-fossilized taxa, thus opening new avenues for paleoceanographic and paleoecological studies.

Microplastics in Taihu Lake, China.

PubMed

Su, Lei; Xue, Yingang; Li, Lingyun; Yang, Dongqi; Kolandhasamy, Prabhu; Li, Daoji; Shi, Huahong

2016-09-01

In comparison with marine environments, the occurrence of microplastics in freshwater environments is less understood. In the present study, we investigated microplastic pollution levels during 2015 in Taihu Lake, the third largest Chinese lake located in one of the most developed areas of China. The abundance of microplastics reached 0.01 × 10(6)-6.8 × 10(6) items/km(2) in plankton net samples, 3.4-25.8 items/L in surface water, 11.0-234.6 items/kg dw in sediments and 0.2-12.5 items/g ww in Asian clams (Corbicula fluminea). The average abundance of microplastics was the highest in plankton net samples from the southeast area of the lake and in the sediments from the northwest area of the lake. The northwest area of the lake was the most heavily contaminated area of the lake, as indicated by chlorophyll-α and total phosphorus. The microplastics were dominated by fiber, 100-1000 μm in size and cellophane in composition. To our best knowledge, the microplastic levels measured in plankton net samples collected from Taihu Lake were the highest found in freshwater lakes worldwide. The ratio of the microplastics in clams to each sediment sample ranged from 38 to 3810 and was negatively correlated to the microplastic level in sediments. In brief, our results strongly suggest that high levels of microplastics occurred not only in water but also in organisms in Taihu Lake. Copyright © 2016 Elsevier Ltd. All rights reserved.

Public aquaria as long-term enrichments for investigating planktonic Archaea

NASA Astrophysics Data System (ADS)

Goldenstein, Nadine I.; Warren, Courtney E.; Lipp, Julius S.; Pagani, Mark; Hinrichs, Kai-Uwe

2016-04-01

The most abundant group of planktonic Archaea , the so-called Thaumarchaeota, represents 20% of all marine planktonic microorganisms (Karner et al., 2001) and their energy efficient performance of nitrification makes them key players in the global nitrogen- and carbon-cycle (Könneke et al., 2014). Furthermore, planktonic Archaea are considered to be the major producers of specific microbial membrane lipids that are extensively used as paleoproxies in marine climate research (Schouten et al., 2002). Therefore, assessing the parameters controlling the distribution of Archaea in the marine water column is crucial for studies of modern and past marine environments. Although diverse studies utilizing DNA- and biomarker-based approaches have constrained the turnover and distribution of marine Archaea, the environmental factors affecting their abundance and activity (e.g., Wuchter et al., 2006; Bale et al., 2013) are still poorly understood. Further, previous surveys, using enrichment cultivation and pure culture experiments, provided valuable information on adaptation of planktonic Archaea to changes of parameters affecting growth conditions, such as temperature, salinity and growth stage (Elling et al., 2014, 2015). Hence, we know that planktonic Archaea directly adapt their membranes to changing growth conditions, but also that environmental selection for individual phylogenetic groups of these organisms is also reflected in the membrane lipid pool. Extending these studies, this project further aims at constraining the environmental parameters controlling archaeal abundance in the marine environment. Public aquaria, which are comparable to perfectly monitored long-term enrichment cultures, are optimal sampling sites for this task. A comprehensive set of 120 water and substrate samples from fresh, marine and brackish systems exhibiting diverse conditions was selected from 15 public aquaria at the east and west coast of the USA. These samples were examined for their archaeal intact polar and core membrane lipid composition. We detected a set of more than 90 different lipid structures comprised of diverse glyco- as well as phospho- based head groups combined with di- and tetraether cores containing up to 5 cyclopentane rings or unsaturations. The correlation of the variability within the lipid portfolio with the 30 different environmental variables, measured in the individual tanks, like e.g., water chemistry, light availability and temperature will lead to a better understanding of the factors controlling planktonic archaeal distribution in the marine environment and the derived lipid-based proxies. References: Karner et al. (2001). Nature 409, p507-510. Könneke et al. (2014). Proc Natl Acad Sci U S A 111, p8239-44. Schouten et al. (2002). Earth Planet Sci Lett 204, p265-274. Wuchter et al. (2006). Proc Natl Acad Sci U S A 103, p12317-12322. Bale et al. (2013), Biogeosciences Discuss 10, p12593-12624. Elling et al. (2014). Geochim Cosmochim Acta 141, p579-597. Elling et al. (2015). Geochim Cosmochim Acta 171, p238-255.

Interannual variability in lower trophic levels on the Alaskan Shelf

NASA Astrophysics Data System (ADS)

Batten, Sonia D.; Raitsos, Dionysios E.; Danielson, Seth; Hopcroft, Russell; Coyle, Kenneth; McQuatters-Gollop, Abigail

2018-01-01

This study describes results from the first 16 years of the Continuous Plankton Recorder (CPR) program that has sampled the lower trophic levels (restricted to larger, hard-shelled phytoplankton and robust zooplankton taxa) on the Alaskan shelf. Sampling took place along transects from the open ocean across the shelf (to the entrance to Prince William Sound from 2000 to 2003 and into Cook Inlet from 2004 to 2015) to provide plankton abundance data, spring through autumn of each year. We document interannual variability in concentration and composition of the plankton community of the region over this time period. At least in part and through correlative relationships, this can be attributed to changes in the physical environment, particularly direct and indirect effects of temperature. For example; spring mixed layer depth is shown to influence the timing of the spring diatom peak and warmer years are biased towards smaller copepod species. A significant positive relationship between temperature, diatom abundance and zooplankton biomass existed from 2000 to 2013 but was not present in the warm years of 2014 and 2015. These results suggest that anomalous warming events, such as the "heat wave" of 2014-2015, could fundamentally influence typical lower trophic level patterns, possibly altering trophic interactions.

Combined treatments of enterocin AS-48 with biocides to improve the inactivation of methicillin-sensitive and methicillin-resistant Staphylococcus aureus planktonic and sessile cells.

PubMed

Caballero Gómez, Natacha; Abriouel, Hikmate; Grande, M José; Pérez Pulido, Rubén; Gálvez, Antonio

2013-05-15

Control of staphylococci during cleaning and disinfection is important to the food industry. Broad-spectrum bacteriocins with proved anti-staphylococcal activity, such as enterocin AS-48, could open new possibilities for disinfection in combination with biocides. In the present study, enterocin AS-48 was tested singly or in combination with biocides against a cocktail of six Staphylococcus aureus strains (including three methicillin-resistant strains) in planktonic state as well as in biofilms formed on polystyrene microtiter plates. Cells were challenged with enterocin, biocides or enterocin/biocide combinations. Inactivation of planktonic cells increased significantly (p<0.05) when enterocin AS-48 (25mg/l) was tested in combination with benzalkonium chloride (BC), cetrimide (CT) and hexadecylpyridinium chloride (HDP), and non-significantly in combination with didecyldimethylammonium bromide (AB), triclosan (TC), hexachlorophene (CF), polyhexamethylen guanidinium chloride (PHMG), chlorhexidine (CH) or P3-oxonia (OX). In the sessile state (24h biofilms), staphylococci required higher biocide concentrations in most cases, except for OX. Inactivation of sessile staphylococci increased remarkably when biocides were applied in combination with enterocin AS-48, especially when the bacteriocin was added at 50mg/l. During storage, the concentrations of sessile as well as planktonic cells in the treated samples decreased remarkably for BC, TC and PHMG, but OX failed to inhibit proliferation of the treated biofilms as well as growth of planktonic cells. The observed inhibitory effects during storage were potentiated when the biocides were combined with 50 mg/l enterocin AS-48. Results from this study suggest that selected combinations of enterocin AS-48 and biocides offer potential use against planktonic and sessile, methicillin-sensitive and methicillin-resistant S. aureus. Copyright © 2013 Elsevier B.V. All rights reserved.

Biosorption of nonylphenol by pure algae, field-collected planktons and their fractions.

PubMed

Zhang, Dainan; Ran, Yong; Cao, Xiaoyan; Mao, Jingdong; Cui, Jinfang; Schmidt-Rohr, Klaus

2015-03-01

Algal samples were fractionated into lipid (LP), lipid free (LF), alkaline nonhydrolyzable carbon (ANHC), and acid nonhydrolyzable carbon (NHC) fractions, and were characterized by the quantitative (13)C multiCP NMR technique. The biosorption isotherms for nonylphenol (NP) were established and compared with previously published data for phenanthrene (Phen). The log KOC values are significantly higher for the field-collected plankton samples than for the commercial algae and cultured algae samples, correlating with their lipid contents and aliphatic carbon structure. As the NHC fraction contains more poly(methylene) carbon, it exhibits a higher biosorption capacity. The sorption capacities are negatively related to the polarity index, COO/N-C=O, polar C and O-alkyl C concentrations, but are positively related to the H/O atomic ratios and poly(methylene) carbon. The higher sorption capacities observed for NP than for Phen on the investigated samples are explained by specific interactions such as hydrogen bonding and π-π interaction. Copyright © 2014 Elsevier Ltd. All rights reserved.

Differences in planktonic microbial communities associated with three types of macrophyte stands in a shallow lake.

PubMed

Mentes, Anikó; Szabó, Attila; Somogyi, Boglárka; Vajna, Balázs; Tugyi, Nóra; Csitári, Bianka; Vörös, Lajos; Felföldi, Tamás

2018-02-01

Little is known about how various substances from living and decomposing aquatic macrophytes affect the horizontal patterns of planktonic bacterial communities. Study sites were located within Lake Kolon, which is a freshwater marsh and can be characterised by open-water sites and small ponds with different macrovegetation (Phragmites australis, Nymphea alba and Utricularia vulgaris). Our aim was to reveal the impact of these macrophytes on the composition of the planktonic microbial communities using comparative analysis of environmental parameters, microscopy and pyrosequencing data. Bacterial 16S rRNA gene sequences were dominated by members of phyla Proteobacteria (36%-72%), Bacteroidetes (12%-33%) and Actinobacteria (5%-26%), but in the anoxic sample the ratio of Chlorobi (54%) was also remarkable. In the phytoplankton community, Cryptomonas sp., Dinobryon divergens, Euglena acus and chrysoflagellates had the highest proportion. Despite the similarities in most of the measured environmental parameters, the inner ponds had different bacterial and algal communities, suggesting that the presence and quality of macrophytes directly and indirectly controlled the composition of microbial plankton. © FEMS 2017. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Effects of Benzalkonium Chloride on Planktonic Growth and Biofilm Formation by Animal Bacterial Pathogens

PubMed Central

Ebrahimi, Azizollah; Hemati, Majid; Shabanpour, Ziba; Habibian Dehkordi, Saeed; Bahadoran, Shahab; Lotfalian, Sharareh; Khubani, Shahin

2015-01-01

Background: Resistance toward quaternary ammonium compounds (QACs) is widespread among a diverse range of microorganisms and is facilitated by several mechanisms such as biofilm formation. Objectives: In this study, the effects of benzalkonium chloride on planktonic growth and biofilm formation by some field isolates of animal bacterial pathogens were investigated. Materials and Methods: Forty clinical isolates of Escherichia coli, Salmonella serotypes, Staphylococcus aureus and Streptococcus agalactiae (10 isolates of each) were examined for effects of benzalkonium chloride on biofilm formation and planktonic growth using microtiter plates. For all the examined strains in the presence of benzalkonium chloride, biofilm development and planktonic growth were affected at the same concentrations of disinfectant. Results: The means of strains growth increase after the minimal inhibitory concentration (MIC) were significant in all the bacteria (except for E. coli in 1/32 and S. agalactiae in of 1/8 MIC). Biofilm formation increased with decrease of antiseptics concentration; a significant increase was found in all the samples. The most turbidity related to S. aureus and the least to Salmonella. Conclusions: Bacterial resistance against quaternary ammonium compounds is increasing which can increase the bacterial biofilm formation. PMID:25793094

Fluid sample collection and distribution system. [qualitative analysis of aqueous samples from several points

NASA Technical Reports Server (NTRS)

Brooks, R. L. (Inventor)

1979-01-01

A multipoint fluid sample collection and distribution system is provided wherein the sample inputs are made through one or more of a number of sampling valves to a progressive cavity pump which is not susceptible to damage by large unfiltered particles. The pump output is through a filter unit that can provide a filtered multipoint sample. An unfiltered multipoint sample is also provided. An effluent sample can be taken and applied to a second progressive cavity pump for pumping to a filter unit that can provide one or more filtered effluent samples. The second pump can also provide an unfiltered effluent sample. Means are provided to periodically back flush each filter unit without shutting off the whole system.

Method and apparatus for sampling low-yield wells

DOEpatents

Last, George V.; Lanigan, David C.

2003-04-15

An apparatus and method for collecting a sample from a low-yield well or perched aquifer includes a pump and a controller responsive to water level sensors for filling a sample reservoir. The controller activates the pump to fill the reservoir when the water level in the well reaches a high level as indicated by the sensor. The controller deactivates the pump when the water level reaches a lower level as indicated by the sensors. The pump continuously activates and deactivates the pump until the sample reservoir is filled with a desired volume, as indicated by a reservoir sensor. At the beginning of each activation cycle, the controller optionally can select to purge an initial quantity of water prior to filling the sample reservoir. The reservoir can be substantially devoid of air and the pump is a low volumetric flow rate pump. Both the pump and the reservoir can be located either inside or outside the well.

Comparison of passive diffusion bag samplers and submersible pump sampling methods for monitoring volatile organic compounds in ground water at Area 6, Naval Air Station, Whidbey Island, Washington

USGS Publications Warehouse

Huffman, Raegan L.

2002-01-01

Ground-water samples were collected in April 1999 at Naval Air Station Whidbey Island, Washington, with passive diffusion samplers and a submersible pump to compare concentrations of volatile organic compounds (VOCs) in water samples collected using the two sampling methods. Single diffusion samplers were installed in wells with 10-foot screened intervals, and multiple diffusion samplers were installed in wells with 20- to 40-foot screened intervals. The diffusion samplers were recovered after 20 days and the wells were then sampled using a submersible pump. VOC concentrations in the 10-foot screened wells in water samples collected with diffusion samplers closely matched concentrations in samples collected with the submersible pump. Analysis of VOC concentrations in samples collected from the 20- to 40-foot screened wells with multiple diffusion samplers indicated vertical concentration variation within the screened interval, whereas the analysis of VOC concentrations in samples collected with the submersible pump indicated mixing during pumping. The results obtained using the two sampling methods indicate that the samples collected with the diffusion samplers were comparable with and can be considerably less expensive than samples collected using a submersible pump.

Tracing shifts of oceanic fronts using the cryptic diversity of the planktonic foraminifera Globorotalia inflata

NASA Astrophysics Data System (ADS)

Morard, Raphaël.; Reinelt, Melanie; Chiessi, Cristiano M.; Groeneveld, Jeroen; Kucera, Michal

2016-09-01

The use of planktonic foraminifera in paleoceanographic studies relies on the assumption that morphospecies represent biological species with ecological preferences that are stable through time and space. However, genetic surveys unveiled a considerable level of diversity in most morphospecies of planktonic foraminifera. This diversity is significant for paleoceanographic applications because cryptic species were shown to display distinct ecological preferences that could potentially help refine paleoceanographic proxies. Subtle morphological differences between cryptic species of planktonic foraminifera have been reported, but so far, their applicability within paleoceanographic studies remains largely unexplored. Here we show how information on genetic diversity can be transferred to paleoceanography using Globorotalia inflata as a case study. The two cryptic species of G. inflata are separated by the Brazil-Malvinas Confluence (BMC), a major oceanographic feature in the South Atlantic. Based on this observation, we developed a morphological model of cryptic species detection in core top material. The application of the cryptic species detection model to Holocene samples implies latitudinal oscillations in the position of the confluence that are largely consistent with reconstructions obtained from stable isotope data. We show that the occurrence of cryptic species in G. inflata can be detected in the fossil record and used to trace the migration of the BMC. Since a similar degree of morphological separation as in G. inflata has been reported from other species of planktonic foraminifera, the approach presented in this study can potentially yield a wealth of new paleoceanographical proxies.

Capillary pumping independent of the liquid surface energy and viscosity

NASA Astrophysics Data System (ADS)

Guo, Weijin; Hansson, Jonas; van der Wijngaart, Wouter

2018-03-01

Capillary pumping is an attractive means of liquid actuation because it is a passive mechanism, i.e., it does not rely on an external energy supply during operation. The capillary flow rate generally depends on the liquid sample viscosity and surface energy. This poses a problem for capillary-driven systems that rely on a predictable flow rate and for which the sample viscosity or surface energy are not precisely known. Here, we introduce the capillary pumping of sample liquids with a flow rate that is constant in time and independent of the sample viscosity and sample surface energy. These features are enabled by a design in which a well-characterized pump liquid is capillarily imbibed into the downstream section of the pump and thereby pulls the unknown sample liquid into the upstream pump section. The downstream pump geometry is designed to exert a Laplace pressure and fluidic resistance that are substantially larger than those exerted by the upstream pump geometry on the sample liquid. Hence, the influence of the unknown sample liquid on the flow rate is negligible. We experimentally tested pumps of the new design with a variety of sample liquids, including water, different samples of whole blood, different samples of urine, isopropanol, mineral oil, and glycerol. The capillary filling speeds of these liquids vary by more than a factor 1000 when imbibed to a standard constant cross-section glass capillary. In our new pump design, 20 filling tests involving these liquid samples with vastly different properties resulted in a constant volumetric flow rate in the range of 20.96-24.76 μL/min. We expect this novel capillary design to have immediate applications in lab-on-a-chip systems and diagnostic devices.

Carbon geochemistry of plankton-dominated samples in the Laptev and East Siberian shelves: contrasts in suspended particle composition

NASA Astrophysics Data System (ADS)

Tesi, Tommaso; Geibel, Marc C.; Pearce, Christof; Panova, Elena; Vonk, Jorien E.; Karlsson, Emma; Salvado, Joan A.; Kruså, Martin; Bröder, Lisa; Humborg, Christoph; Semiletov, Igor; Gustafsson, Örjan

2017-09-01

Recent Arctic studies suggest that sea ice decline and permafrost thawing will affect phytoplankton dynamics and stimulate heterotrophic communities. However, in what way the plankton composition will change as the warming proceeds remains elusive. Here we investigate the chemical signature of the plankton-dominated fraction of particulate organic matter (POM) collected along the Siberian Shelf. POM (> 10 µm) samples were analysed using molecular biomarkers (CuO oxidation and IP25) and dual-carbon isotopes (δ13C and Δ14C). In addition, surface water chemical properties were integrated with the POM (> 10 µm) dataset to understand the link between plankton composition and environmental conditions. δ13C and Δ14C exhibited a large variability in the POM (> 10 µm) distribution while the content of terrestrial biomarkers in the POM was negligible. In the Laptev Sea (LS), δ13C and Δ14C of POM (> 10 µm) suggested a heterotrophic environment in which dissolved organic carbon (DOC) from the Lena River was the primary source of metabolisable carbon. Within the Lena plume, terrestrial DOC probably became part of the food web via bacteria uptake and subsequently transferred to relatively other heterotrophic communities (e.g. dinoflagellates). Moving eastwards toward the sea-ice-dominated East Siberian Sea (ESS), the system became progressively more autotrophic. Comparison between δ13C of POM (> 10 µm) samples and CO2aq concentrations revealed that the carbon isotope fractionation increased moving towards the easternmost and most productive stations. In a warming scenario characterised by enhanced terrestrial DOC release (thawing permafrost) and progressive sea ice decline, heterotrophic conditions might persist in the LS while the nutrient-rich Pacific inflow will likely stimulate greater primary productivity in the ESS. The contrasting trophic conditions will result in a sharp gradient in δ13C between the LS and ESS, similar to what is documented in our semi-synoptic study.

Identification, Discrimination, and Discovery of Species of Marine Planktonic Ostracods Using DNA Barcodes.

PubMed

Nigro, Lisa M; Angel, Martin V; Blachowiak-Samolyk, Katarzyna; Hopcroft, Russell R; Bucklin, Ann

2016-01-01

The Ostracoda (Crustacea; Class Ostracoda) is a diverse, frequently abundant, and ecologically important component of the marine zooplankton assemblage. There are more than 200 described species of marine planktonic ostracods, many of which (especially conspecific species) can be identified only by microscopic examination and dissection of fragile morphological characters. Given the complexity of species identification and increasing lack of expert taxonomists, DNA barcodes (short DNA sequences for species discrimination and identification) are particularly useful and necessary. Results are reported from analysis of 210 specimens of 78 species of marine planktonic ostracods, including two novel species, and 51 species for which barcodes have not been previously published. Specimens were collected during 2006 to 2008 from the Atlantic, Indian, and Southern Oceans, Greenland Sea and Gulf of Alaska. Samples were collected from surface to 5,000 m using various collection devices. DNA sequence variation was analyzed for a 598 base-pair region of the mitochondrial cytochrome oxidase subunit I (COI) gene. Kimura-2-Parameter (K2P) genetic distances within described species (mean = 0.010 ± 0.017 SD) were significantly smaller than between species (0.260 + 0.080), excluding eight taxa hypothesized to comprise cryptic species due to morphological variation (especially different size forms) and/or collection from different geographic regions. These taxa showed similar K2P distance values within (0.014 + 0.026) and between (0.221 ± 0.068) species. All K2P distances > 0.1 resulted from comparisons between identified or cryptic species, with no overlap between intra- and interspecific genetic distances. A Neighbor Joining tree resolved nearly all described species analyzed, with multiple sequences forming monophyletic clusters with high bootstrap values (typically 99%). Based on taxonomically and geographically extensive sampling and analysis (albeit with small sample sizes), the COI barcode region was shown to be a valuable character for discrimination, recognition, identification, and discovery of species of marine planktonic ostracods.

Identification, Discrimination, and Discovery of Species of Marine Planktonic Ostracods Using DNA Barcodes

PubMed Central

2016-01-01

The Ostracoda (Crustacea; Class Ostracoda) is a diverse, frequently abundant, and ecologically important component of the marine zooplankton assemblage. There are more than 200 described species of marine planktonic ostracods, many of which (especially conspecific species) can be identified only by microscopic examination and dissection of fragile morphological characters. Given the complexity of species identification and increasing lack of expert taxonomists, DNA barcodes (short DNA sequences for species discrimination and identification) are particularly useful and necessary. Results are reported from analysis of 210 specimens of 78 species of marine planktonic ostracods, including two novel species, and 51 species for which barcodes have not been previously published. Specimens were collected during 2006 to 2008 from the Atlantic, Indian, and Southern Oceans, Greenland Sea and Gulf of Alaska. Samples were collected from surface to 5,000 m using various collection devices. DNA sequence variation was analyzed for a 598 base-pair region of the mitochondrial cytochrome oxidase subunit I (COI) gene. Kimura-2-Parameter (K2P) genetic distances within described species (mean = 0.010 ± 0.017 SD) were significantly smaller than between species (0.260 + 0.080), excluding eight taxa hypothesized to comprise cryptic species due to morphological variation (especially different size forms) and/or collection from different geographic regions. These taxa showed similar K2P distance values within (0.014 + 0.026) and between (0.221 ± 0.068) species. All K2P distances > 0.1 resulted from comparisons between identified or cryptic species, with no overlap between intra- and interspecific genetic distances. A Neighbor Joining tree resolved nearly all described species analyzed, with multiple sequences forming monophyletic clusters with high bootstrap values (typically 99%). Based on taxonomically and geographically extensive sampling and analysis (albeit with small sample sizes), the COI barcode region was shown to be a valuable character for discrimination, recognition, identification, and discovery of species of marine planktonic ostracods. PMID:26730595

Deep-Sea Carbonate Accumulation and Surface Ocean Saturation State in the Aftermath of the Cretaceous-Paleogene extinction

NASA Astrophysics Data System (ADS)

Pruss, S. B.; Higgins, J. A.; Bush, A. M.; Leckie, R. M.; Deeg, C.; Getzin, B. L.

2016-12-01

The role of the K-Pg extinction on biogeochemical cycling has been intensively studied in recent years. However, it remains unknown how extinctions in marine pelagic calcifiers impacted carbon cycling in the ocean. Low accumulation rates of microfossils in the aftermath of the extinction have been attributed to lowered production, which triggered a reduction in carbonate delivery to the seafloor. Interestingly, although microfossil abundance is lower and foraminifera are significantly smaller than in the latest Cretaceous, carbonate accumulated on the seafloor in the earliest Paleogene even in areas that should have been below the CCD. One such deep-water site in the South Pacific (U1370) was cored during IODP Expedition 329 in November 2010. We examined 16 samples from an anomalous carbonate layer provisionally assigned to lower Paleocene planktonic foraminiferal Zones P1a and P1b that preserves benthic and planktonic foraminifera. Carbon isotope values of the benthic species Nuttalies orealis range from 1.45 to 1.95‰ VPDB in the 16 samples. The planktonic species Parasubbotina pseudobulloides was only abundant enough for analysis in 4 samples, and these values range from 1.41 to 1.91‰ VPDB. We note, as others have, that no carbon isotope gradient existed between the benthic and planktonic foraminifera during the deposition of this carbonate layer, perhaps due to reduced primary production and/or export of organic carbon. The presence of this carbonate layer in the deep ocean and its preservation of a collapsed isotopic gradient are both consistent with a reduction in the surface-to-deep water gradient in carbonate saturation state during the unusual oceanographic conditions that followed the extinction. We speculate that this was associated with a sustained reduction in surface ocean saturation state with adverse consequences for neritic carbonate producers in the aftermath of the K-T extinction.

Geographic variability in amoeboid protists and other microbial groups in the water column of the lower Hudson River Estuary (New York, USA)

NASA Astrophysics Data System (ADS)

Juhl, Andrew R.; Anderson, O. Roger

2014-12-01

In comparison to other groups of planktonic microorganisms, relatively little is known about the role of amoeboid protists (amebas) in planktonic ecosystems. This study describes the first geographic survey of the abundance and biomass of amebas in an estuarine water column. Samples collected in the lower Hudson River Estuary were used to investigate relationships between ameba abundance and biomass and hydrographic variables (temperature, salinity, and turbidity), water depth (surface and near bottom), distance from mid-channel to shore, phytoplankton biomass (chlorophyll fluorescence) and the occurrence of other heterotrophic microbial groups (heterotrophic bacteria, nanoflagellates, and ciliates) in the plankton. Although salinity increased significantly towards the mouth of the estuary, there were no significant differences in the abundance or biomass of any microbial group in surface samples collected at three stations separated by 44 km along the estuary's mid-channel. Peak biomass values for all microbial groups were found at the station closest to shore, however, cross-channel trends in microbial abundance and biomass were not statistically significant. Although ameba abundance and biomass in most samples were low compared to other microbial groups, clear patterns in ameba distribution were nevertheless found. Unlike other microbial groups examined, ameba numbers and biomass greatly increased in near bottom water compared to surface samples. Ameba abundance and biomass (in surface samples) were also strongly related to increasing turbidity. The different relationships of ameba abundance and biomass with turbidity suggest a rising contribution of large amebas in microbial communities of the Hudson estuary when turbidity increases. These results, emphasizing the importance of particle concentration as attachment and feeding surfaces for amebas, will help identify the environmental conditions when amebas are most likely to contribute significantly to estuarine bacterivory and C-flux.

Marine Bacterial and Archaeal Ion-Pumping Rhodopsins: Genetic Diversity, Physiology, and Ecology

PubMed Central

DeLong, Edward F.; Béjà, Oded; González, José M.; Pedrós-Alió, Carlos

2016-01-01

SUMMARY The recognition of a new family of rhodopsins in marine planktonic bacteria, proton-pumping proteorhodopsin, expanded the known phylogenetic range, environmental distribution, and sequence diversity of retinylidene photoproteins. At the time of this discovery, microbial ion-pumping rhodopsins were known solely in haloarchaea inhabiting extreme hypersaline environments. Shortly thereafter, proteorhodopsins and other light-activated energy-generating rhodopsins were recognized to be widespread among marine bacteria. The ubiquity of marine rhodopsin photosystems now challenges prior understanding of the nature and contributions of “heterotrophic” bacteria to biogeochemical carbon cycling and energy fluxes. Subsequent investigations have focused on the biophysics and biochemistry of these novel microbial rhodopsins, their distribution across the tree of life, evolutionary trajectories, and functional expression in nature. Later discoveries included the identification of proteorhodopsin genes in all three domains of life, the spectral tuning of rhodopsin variants to wavelengths prevailing in the sea, variable light-activated ion-pumping specificities among bacterial rhodopsin variants, and the widespread lateral gene transfer of biosynthetic genes for bacterial rhodopsins and their associated photopigments. Heterologous expression experiments with marine rhodopsin genes (and associated retinal chromophore genes) provided early evidence that light energy harvested by rhodopsins could be harnessed to provide biochemical energy. Importantly, some studies with native marine bacteria show that rhodopsin-containing bacteria use light to enhance growth or promote survival during starvation. We infer from the distribution of rhodopsin genes in diverse genomic contexts that different marine bacteria probably use rhodopsins to support light-dependent fitness strategies somewhere between these two extremes. PMID:27630250

Contamination of successive samples in portable pumping systems

Treesearch

Robert B. Thomas; Rand E. Eads

1983-01-01

Automatic discrete sample pumping systems used to monitor water quality should deliver to storage all materials pumped in a given cycle. If they do not, successive samples will be contaminated, a severe problem with highly variable suspended sediment concentrations in small streams. The cross-contamination characteristics of two small commonly used portable pumping...

Anti-Campylobacter activity of resveratrol and an extract from waste Pinot noir grape skins and seeds, and resistance of Camp. jejuni planktonic and biofilm cells, mediated via the CmeABC efflux pump.

PubMed

Klančnik, A; Šikić Pogačar, M; Trošt, K; Tušek Žnidarič, M; Mozetič Vodopivec, B; Smole Možina, S

2017-01-01

To define anti-Campylobacter jejuni activity of an extract from waste skins and seeds of Pinot noir grapes (GSS), resveratrol and possible resistance mechanisms, and the influence of these on Camp. jejuni morphology. Using gene-specific knock-out Camp. jejuni mutants and an efflux pump inhibitor, we showed CmeABC as the most active efflux pump for extrusion across the outer membrane of GSS extract and resveratrol. Using polystyrene surface and pig small intestine epithelial (PSI) and human foetal small intestine (H4) cell lines, GSS extract shows an efficient inhibition of adhesion of Camp. jejuni to these abiotic and biotic surfaces. Low doses of GSS extract can inhibit Camp. jejuni adhesion to polystyrene surfaces and to PSI and H4 cells, and can thus modulate Camp. jejuni invasion and intracellular survival. An understanding of the activities of GSS extract and resveratrol as bacterial growth inhibitors and the specific mechanisms of cell accumulation is crucial for our understanding of Camp. jejuni resistance. GSS extract inhibition of Camp. jejuni adhesion to abiotic and biotic surfaces provides a further step towards the application of new innovative strategies to control Campylobacter contamination and infection via the food chain. © 2016 The Society for Applied Microbiology.

Influence of diatom diversity on the ocean biological carbon pump

NASA Astrophysics Data System (ADS)

Tréguer, Paul; Bowler, Chris; Moriceau, Brivaela; Dutkiewicz, Stephanie; Gehlen, Marion; Aumont, Olivier; Bittner, Lucie; Dugdale, Richard; Finkel, Zoe; Iudicone, Daniele; Jahn, Oliver; Guidi, Lionel; Lasbleiz, Marine; Leblanc, Karine; Levy, Marina; Pondaven, Philippe

2018-01-01

Diatoms sustain the marine food web and contribute to the export of carbon from the surface ocean to depth. They account for about 40% of marine primary productivity and particulate carbon exported to depth as part of the biological pump. Diatoms have long been known to be abundant in turbulent, nutrient-rich waters, but observations and simulations indicate that they are dominant also in meso- and submesoscale structures such as fronts and filaments, and in the deep chlorophyll maximum. Diatoms vary widely in size, morphology and elemental composition, all of which control the quality, quantity and sinking speed of biogenic matter to depth. In particular, their silica shells provide ballast to marine snow and faecal pellets, and can help transport carbon to both the mesopelagic layer and deep ocean. Herein we show that the extent to which diatoms contribute to the export of carbon varies by diatom type, with carbon transfer modulated by the Si/C ratio of diatom cells, the thickness of the shells and their life strategies; for instance, the tendency to form aggregates or resting spores. Model simulations project a decline in the contribution of diatoms to primary production everywhere outside of the Southern Ocean. We argue that we need to understand changes in diatom diversity, life cycle and plankton interactions in a warmer and more acidic ocean in much more detail to fully assess any changes in their contribution to the biological pump.

Diversity of planktonic fish larvae along a latitudinal gradient in the Eastern Atlantic Ocean estimated through DNA barcodes

PubMed Central

Morote, Elvira; Kochzius, Marc; Garcia-Vazquez, Eva

2016-01-01

Mid-trophic pelagic fish are essential components of marine ecosystems because they represent the link between plankton and higher predators. Moreover, they are the basis of the most important fisheries resources; for example, in African waters. In this study, we have sampled pelagic fish larvae in the Eastern Atlantic Ocean along a latitudinal gradient between 37°N and 2°S. We have employed Bongo nets for plankton sampling and sorted visually fish and fish larvae. Using the cytochrome oxidase I gene (COI) as a DNA barcode, we have identified 44 OTUs down to species level that correspond to 14 families, with Myctophidae being the most abundant. A few species were cosmopolitan and others latitude-specific, as was expected. The latitudinal pattern of diversity did not exhibit a temperate-tropical cline; instead, it was likely correlated with environmental conditions with a decline in low-oxygen zones. Importantly, gaps and inconsistencies in reference DNA databases impeded accurate identification to the species level of 49% of the individuals. Fish sampled from tropical latitudes and some orders, such as Perciformes, Myctophiformes and Stomiiformes, were largely unidentified due to incomplete references. Some larvae were identified based on morphology and COI analysis for comparing time and costs employed from each methodology. These results suggest the need of reinforcing DNA barcoding reference datasets of Atlantic bathypelagic tropical fish that, as main prey of top predators, are crucial for ecosystem-based management of fisheries resources. PMID:27761307

Can nearby eutrophic reservoirs sustain a differentiated biodiversity of planktonic microcrustaceans in a tropical semiarid basin?

PubMed

Diniz, Leidiane P; Melo-Júnior, Mauro DE

2017-01-01

This paper aims to compare alpha and beta diversities of planktonic microcrustaceans from three reservoirs located nearby in a tropical semiarid basin. Our hypothesis was that alpha and beta diversities of the community are different, although the ecosystems are located close to each other. We carried out two sampling campaigns: dry and rainy seasons. The sampling of microcrustaceans and environmental variables (dissolved oxygen, chlorophyll a and nutrient) was performed at twelve stations and were distributed throughout the three zones (river, transition, and lacustrine), using a plankton net (45 µm). The reservoirs showed different uses and types of nitrogen predominance: Cachoeira (supply/nitrate), Borborema (sewage/ammonia) and Saco (aquaculture/ammonia). Seventeen species were recorded whose richness was assessed as particularly specific to each one of the studied reservoirs. Seasonally, both reservoirs with high anthropogenic alteration showed greater richness in the dry season. The three reservoirs located in a same basin showed different richness and composition, but the diversity did not differ between the zones of the reservoirs. Although communities are close to each other, their composition and richness were found to be distinct for each reservoir. This may be in response to the peculiar particularities, such as nitrogen sources and the different uses.

Mesh size effects on assessments of planktonic hydrozoan abundance and assemblage structure

NASA Astrophysics Data System (ADS)

Nogueira Júnior, Miodeli; Pukanski, Luis Eduardo de M.; Souza-Conceição, José M.

2015-04-01

The choice of appropriate mesh-size is paramount to accurately quantify planktonic assemblages, however there is no such information available for hydrozoans. Here planktonic hydrozoan abundance and assemblage structure were compared using 200 and 500 μm meshes at Babitonga estuary (S Brazil), throughout a year cycle. Species richness and Shannon-Wiener diversity were higher in the 200 μm mesh, while evenness was typically higher in the 500 μm. Assemblage structure was significantly different between meshes (PERMANOVA, P < 0.05; n = 72 pairs of samples) both regarding taxa and size composition. These discrepancies are due to significant underestimation of small hydromedusae by the coarse mesh, like Obelia spp., young Liriope tetraphylla, Podocoryna loyola and others. Yet, larger taxa like Eucheilota maculata and adult L. tetraphylla were more abundant in the coarse mesh on some occasions and others such as Blackfordia virginica and Muggiaea kochi were similarly represented in both meshes. Overall collection efficiency of the coarse mesh (CE500) was 14.4%, with monthly averages between 1.6% and 43.0%, in July (winter) and January (summer) respectively. Differences between the meshes were size-dependent; CE500 was ~ 0.3% for hydrozoans sizing < 0.5 mm, ~ 21% for those between 1 and 2 mm, ~ 56% for those between 2 and 4 mm, and nearly 100% for larger ones, reaching up to 312% for hydrozoans > 8 mm in October. These results suggest that both meshes have their drawbacks and the best choice would depend on the objectives of each study. Nevertheless species richness, total abundances and most taxa were better represented by the 200 μm mesh, suggesting that it is more appropriate to quantitatively sample planktonic hydrozoan assemblages.

The identification of plankton tropical status in the Wonokromo, Dadapan and Juanda extreme water estuary

NASA Astrophysics Data System (ADS)

Sari, L. A.; Satyantini, W. H.; Manan, A.; Pursetyo, K. T.; Dewi, N. N.

2018-04-01

Wonokromo, Dadapan and Juanda estuaries are extreme waters located around Surabaya environment. This is because of a lot of organic material intake, which provided nutrients for plankton growth. In addition, the waters is also dynamic in reason of physico-chemical, geological and biological processes controlled by the tides and freshwater run-off from the river that empties into it. The objective of this study was to identify the presentation of plankton in extreme waters based on brightness and ammonia level. The study was conducted in January 2017. Three sampling locations were Wonokromo, Dadapan and Juanda estuaries. Each station consists of three points based on distances, which were 400, 700, and 1000 meters from the coastline. The brightness in Wonokromo, Dadapan, and Juanda environment was 60, 40, and 100 cm, respectively. The result of ammonia in Wonokromo, Dadapan, and Juanda estuary was 0.837, 0.626, and 0.396 mg/L, correspondingly. Nine classes of phytoplankton’s were found in three locations (bacillariophyceae, dynophyceae, chlorophyceae, cyanophyceae, crysophyceae, euglenoidea, trebouxlophyceae, mediophyceae, and nitachiaceae) and five classes of zooplanktons (maxillopoda, hexanuplia, copepoda, malacostraca, and oligotrichea). The density of plankton in Wonokromo, Dadapan and Juanda environments, was 37.64, 63.80, and 352.85 cells/L, respectively.

The Tara Oceans voyage reveals global diversity and distribution patterns of marine planktonic ciliates

PubMed Central

Gimmler, Anna; Korn, Ralf; de Vargas, Colomban; Audic, Stéphane; Stoeck, Thorsten

2016-01-01

Illumina reads of the SSU-rDNA-V9 region obtained from the circumglobal Tara Oceans expedition allow the investigation of protistan plankton diversity patterns on a global scale. We analyzed 6,137,350 V9-amplicons from ocean surface waters and the deep chlorophyll maximum, which were taxonomically assigned to the phylum Ciliophora. For open ocean samples global planktonic ciliate diversity is relatively low (ca. 1,300 observed and predicted ciliate OTUs). We found that 17% of all detected ciliate OTUs occurred in all oceanic regions under study. On average, local ciliate OTU richness represented 27% of the global ciliate OTU richness, indicating that a large proportion of ciliates is widely distributed. Yet, more than half of these OTUs shared <90% sequence similarity with reference sequences of described ciliates. While alpha-diversity measures (richness and exp(Shannon H)) are hardly affected by contemporary environmental conditions, species (OTU) turnover and community similarity (β-diversity) across taxonomic groups showed strong correlation to environmental parameters. Logistic regression models predicted significant correlations between the occurrence of specific ciliate genera and individual nutrients, the oceanic carbonate system and temperature. Planktonic ciliates displayed distinct vertical distributions relative to chlorophyll a. In contrast, the Tara Oceans dataset did not reveal any evidence that latitude is structuring ciliate communities. PMID:27633177

Common species link global ecosystems to climate change: dynamical evidence in the planktonic fossil record.

PubMed

Hannisdal, Bjarte; Haaga, Kristian Agasøster; Reitan, Trond; Diego, David; Liow, Lee Hsiang

2017-07-12

Common species shape the world around us, and changes in their commonness signify large-scale shifts in ecosystem structure and function. However, our understanding of long-term ecosystem response to environmental forcing in the deep past is centred on species richness, neglecting the disproportional impact of common species. Here, we use common and widespread species of planktonic foraminifera in deep-sea sediments to track changes in observed global occupancy (proportion of sampled sites at which a species is present and observed) through the turbulent climatic history of the last 65 Myr. Our approach is sensitive to relative changes in global abundance of the species set and robust to factors that bias richness estimators. Using three independent methods for detecting causality, we show that the observed global occupancy of planktonic foraminifera has been dynamically coupled to past oceanographic changes captured in deep-ocean temperature reconstructions. The causal inference does not imply a direct mechanism, but is consistent with an indirect, time-delayed causal linkage. Given the strong quantitative evidence that a dynamical coupling exists, we hypothesize that mixotrophy (symbiont hosting) may be an ecological factor linking the global abundance of planktonic foraminifera to long-term climate changes via the relative extent of oligotrophic oceans. © 2017 The Authors.

Impact of Actinobacillus pleuropneumoniae biofilm mode of growth on the lipid A structures and stimulation of immune cells.

PubMed

Hathroubi, Skander; Beaudry, Francis; Provost, Chantale; Martelet, Léa; Segura, Mariela; Gagnon, Carl A; Jacques, Mario

2016-07-01

Actinobacillus pleuropneumoniae (APP), the etiologic agent of porcine pleuropneumonia, forms biofilms on biotic and abiotic surfaces. APP biofilms confers resistance to antibiotics. To our knowledge, no studies have examined the role of APP biofilm in immune evasion and infection persistence. This study was undertaken to (i) investigate biofilm-associated LPS modifications occurring during the switch to biofilm mode of growth; and (ii) characterize pro-inflammatory cytokines expression in porcine pulmonary alveolar macrophages (PAMs) and proliferation in porcine PBMCs challenged with planktonic or biofilm APP cells. Extracted lipid A samples from biofilm and planktonic cultures were analyzed by HPLC high-resolution, accurate mass spectrometry. Biofilm cells displayed significant changes in lipid A profiles when compared with their planktonic counterparts. Furthermore, in vitro experiments were conducted to examine the inflammatory response of PAMs exposed to UV-inactivated APP grown in biofilm or in suspension. Relative mRNA expression of pro-inflammatory genes IL1, IL6, IL8 and MCP1 decreased in PAMs when exposed to biofilm cells compared to planktonic cells. Additionally, the biofilm state reduced PBMCs proliferation. Taken together, APP biofilm cells show a weaker ability to stimulate innate immune cells, which could be due, in part, to lipid A structure modifications. © The Author(s) 2016.

Gas Chromatography-Mass Spectrometry-Based Metabolite Profiling of Salmonella enterica Serovar Typhimurium Differentiates between Biofilm and Planktonic Phenotypes

PubMed Central

Maker, Garth L.; Trengove, Robert D.; O'Handley, Ryan M.

2015-01-01

The aim of this study was to utilize gas chromatography coupled with mass spectrometry (GC-MS) to compare and identify patterns of biochemical change between Salmonella cells grown in planktonic and biofilm phases and Salmonella biofilms of different ages. Our results showed a clear separation between planktonic and biofilm modes of growth. The majority of metabolites contributing to variance between planktonic and biofilm supernatants were identified as amino acids, including alanine, glutamic acid, glycine, and ornithine. Metabolites contributing to variance in intracellular profiles were identified as succinic acid, putrescine, pyroglutamic acid, and N-acetylglutamic acid. Principal-component analysis revealed no significant differences between the various ages of intracellular profiles, which would otherwise allow differentiation of biofilm cells on the basis of age. A shifting pattern across the score plot was illustrated when analyzing extracellular metabolites sampled from different days of biofilm growth, and amino acids were again identified as the metabolites contributing most to variance. An understanding of biofilm-specific metabolic responses to perturbations, especially antibiotics, can lead to the identification of novel drug targets and potential therapies for combating biofilm-associated diseases. We concluded that under the conditions of this study, GC-MS can be successfully applied as a high-throughput technique for “bottom-up” metabolomic biofilm research. PMID:25636852

Prevalence of Colacium vesiculosum (Colaciales: Euglenophyceae) on planktonic crustaceans in a subtropical shallow lake of Argentina.

PubMed

Zalocar, Yolanda; Frutos, Santa Margarita; Casco, Sylvina Lorena; Forastier, Marina Elizabet; Vallejos, Silvina Vanesa

2011-09-01

Colacium vesiculosum (Euglenophyceae) is an epibiont common on planktonic microcrustaceans of continental waters. The interaction between epibionts and substrate organisms is not very well known, particularly in subtropical environments of South America. In the present work, we analyzed the prevalence, density, biomass and attachment sites of C. vesiculosum on planktonic microcrustaceans from Paiva Lake, a subtropical lake of Argentina. With the aim to evaluate whether epibionts affect the filtering rates of Notodiaptomus spiniger, the dominant planktonic crustacean, we carried out bioassays using phytoplankton < 53 microm. Crustaceans were sampled using a PVC tube (1.2m long and 10cm in diameter), filtering 50L of water through a 53 microm-mesh. Microcrustaceans were counted in Bogorov chambers under a stereoscopic microscope. The infested organisms were separated and observed with a photonic microscope to determine density and biovolume of epibionts, by analyzing their distribution on the exoskeleton. The prevalence of C. vesiculosum was higher in adult crustaceans than in their larvae and juveniles. The most infested group was that of calanoid copepods, related to their high density. The attachment sites on the exoskeleton were found to be the portions of the body which have a higher probability of encounter with epibionts during locomotion and feeding, i.e., antennae and thoracic legs in copepods, and thoracic legs and postabdomen in cladocerans. The similar values found in the filtering rate of infested and uninfested individuals of N. spiniger and the constant prevalence (< 40%) of epibiont algae, suggest that C. vesiculosum does not condition the life of planktonic crustaceans of Paiva Lake.

Multi-year assessment of coastal planktonic fungi reveals environmental drivers of diversity and abundance

PubMed Central

Taylor, Joe D; Cunliffe, Michael

2016-01-01

Mycoplankton have so far been a neglected component of pelagic marine ecosystems, having been poorly studied relative to other plankton groups. Currently, there is a lack of understanding of how mycoplankton diversity changes through time, and the identity of controlling environmental drivers. Using Fungi-specific high-throughput sequencing and quantitative PCR analysis of plankton DNA samples collected over 6 years from the coastal biodiversity time series site Station L4 situated off Plymouth (UK), we have assessed changes in the temporal variability of mycoplankton diversity and abundance in relation to co-occurring environmental variables. Mycoplankton diversity at Station L4 was dominated by Ascomycota, Basidiomycota and Chytridiomycota, with several orders within these phyla frequently abundant and dominant in multiple years. Repeating interannual mycoplankton blooms were linked to potential controlling environmental drivers, including nitrogen availability and temperature. Specific relationships between mycoplankton and other plankton groups were also identified, with seasonal chytrid blooms matching diatom blooms in consecutive years. Mycoplankton α-diversity was greatest during periods of reduced salinity at Station L4, indicative of riverine input to the ecosystem. Mycoplankton abundance also increased during periods of reduced salinity, and when potential substrate availability was increased, including particulate organic matter. This study has identified possible controlling environmental drivers of mycoplankton diversity and abundance in a coastal sea ecosystem, and therefore sheds new light on the biology and ecology of an enigmatic marine plankton group. Mycoplankton have several potential functional roles, including saprotrophs and parasites, that should now be considered within the consensus view of pelagic ecosystem functioning and services. PMID:26943623

Temporal variation of cesium isotope concentrations and atom ratios in zooplankton in the Pacific off the east coast of Japan.

PubMed

Ikenoue, Takahito; Takata, Hyoe; Kusakabe, Masashi; Kudo, Natsumi; Hasegawa, Kazuyuki; Ishimaru, Takashi

2017-01-04

After the Fukushima Daiichi Nuclear Power Plant accident in March 2011, concentrations of cesium isotopes ( 133 Cs, 134 Cs, and 137 Cs) were measured in zooplankton collected in the Pacific off the east coast of Japan from May 2012 to February 2015. The time series of the data exhibited sporadic 137 Cs concentration peaks in zooplankton. In addition, the atom ratio of 137 Cs/ 133 Cs in zooplankton was consistently high compared to that in ambient seawater throughout the sampling period. These phenomena cannot be explained fully by the bioaccumulation of 137 Cs in zooplankton via ambient seawater intake, the inclusion of resuspended sediment in the plankton sample, or the taxonomic composition of the plankton. Autoradiography revealed highly radioactive particles within zooplankton samples, which could be the main factor underlying the sporadic appearance of high 137 Cs concentrations in zooplankton as well as the higher ratio of 137 Cs/ 133 Cs in zooplankton than in seawater.

Temporal variation of cesium isotope concentrations and atom ratios in zooplankton in the Pacific off the east coast of Japan

PubMed Central

Ikenoue, Takahito; Takata, Hyoe; Kusakabe, Masashi; Kudo, Natsumi; Hasegawa, Kazuyuki; Ishimaru, Takashi

2017-01-01

After the Fukushima Daiichi Nuclear Power Plant accident in March 2011, concentrations of cesium isotopes (133Cs, 134Cs, and 137Cs) were measured in zooplankton collected in the Pacific off the east coast of Japan from May 2012 to February 2015. The time series of the data exhibited sporadic 137Cs concentration peaks in zooplankton. In addition, the atom ratio of 137Cs/133Cs in zooplankton was consistently high compared to that in ambient seawater throughout the sampling period. These phenomena cannot be explained fully by the bioaccumulation of 137Cs in zooplankton via ambient seawater intake, the inclusion of resuspended sediment in the plankton sample, or the taxonomic composition of the plankton. Autoradiography revealed highly radioactive particles within zooplankton samples, which could be the main factor underlying the sporadic appearance of high 137Cs concentrations in zooplankton as well as the higher ratio of 137Cs/133Cs in zooplankton than in seawater. PMID:28051136

Fluidics platform and method for sample preparation

DOEpatents

Benner, Henry W.; Dzenitis, John M.

2016-06-21

Provided herein are fluidics platforms and related methods for performing integrated sample collection and solid-phase extraction of a target component of the sample all in one tube. The fluidics platform comprises a pump, particles for solid-phase extraction and a particle-holding means. The method comprises contacting the sample with one or more reagents in a pump, coupling a particle-holding means to the pump and expelling the waste out of the pump while the particle-holding means retains the particles inside the pump. The fluidics platform and methods herein described allow solid-phase extraction without pipetting and centrifugation.

Particulate organic matter delta C-13 variations across the Drake Passage

NASA Technical Reports Server (NTRS)

Rau, G. H.; Takahashi, T.; Des Marais, D. J.; Sullivan, C. W.

1991-01-01

Particulate organic matter (POM) was sampled during two cruise transects across the Drake Passage during March 1986 to investigate the unusual C-13 depletion in high-latitude Southern Ocean plankton. This POM delta C-13 transition from -23.2 o/oo at 53.3 deg S to values as low as -30.3 o/oo at above 62 deg S does not track previously reported abrupt changes in water chemistry and plankton species composition associated with the Polar Front Zone. The north-south isotopic trend is not accompanied by significant changes in POM carbon or nitrogen concentrations, or in POM C/N. Differences in plankton standing crop or biochemistry (e.g. lipid content) do not appear responsible for the isotopic trends observed. The latitudinal change in POM delta C-13 is highly correlated with water temperature and with the calculated concentration of CO2 (aq) at equilibrium with atmospheric CO2. These observations are consistent with the hypothesis that CO2 (aq) significantly influences POM delta C-13 in ocean surface waters.

Characterising meso-marine ecosystems of the North Pacific

NASA Astrophysics Data System (ADS)

Batten, Sonia D.; David Hyrenbach, K.; Sydeman, William J.; Morgan, Ken H.; Henry, Michael F.; Yen, Peggy P. Y.; Welch, David W.

2006-02-01

To delineate mesoscale variability in marine ecosystems of the subarctic North Pacific and identify "hotspots" of biological activity, we conducted contemporaneous surveys of plankton and avifaunal communites in 2000-2003. Plankton samples were collected with a continuous plankton recorder (CPR) towed by a commercial vessel while a trained observer recorded marine bird distributions using strip-transect techniques. Near- and sub-surface physical oceanographic properties and productivity patterns were measured using a temperature data logger and satellite-derived chlorophyll a concentrations. We identified 10 distinct biological communities across the North Pacific, which we refer to as 'meso-marine ecosystems' (MME). We examined the characteristics of MME over multiple years to assess temporal persistence. MME were associated with different bathymetric domains and current systems. MME differed in the overall abundance and species composition of their fauna and, therefore, almost certainly in productivity. Regular monitoring of the spatial and temporal variability of MME will enhance our ability to detect and understand coupled climate-ecosystem responses, and, in turn, help guide ecosystem-based fisheries and wildlife management.

Standing out from the crowd: Spotting your targets in a mixed plankton sample.

PubMed

Harada, Alice E; Burton, Ronald S

2017-11-01

The diversity of marine organisms is staggering, and this fact is readily appreciated by microscopic examination of the contents of a plankton net after a short tow across the ocean surface. Although this diversity is beautiful, it can present a significant problem for those seeking to extract information about a single species of interest. Enumeration of the eggs and larvae of a specific target species can provide a quantitative window into reproductive dynamics that are of great use for fisheries stock assessment and management. But how do you efficiently sort through the mass of plankton and identify target species' eggs and larvae that may be morphologically indistinguishable from those of a number of other local species? In this issue of Molecular Ecology Resources, Oxley et al. () describe an innovative in situ hybridization (ISH) approach that successfully solves this important problem and opens an exciting new avenue to ichthyoplankton analysis that may be widely adopted by both fish ecologists and fisheries managers. © 2017 John Wiley & Sons Ltd.

Effect of novel antibacterial gallium-carboxymethyl cellulose on Pseudomonas aeruginosa.

PubMed

Valappil, Sabeel P; Yiu, Humphrey H P; Bouffier, Laurent; Hope, Christopher K; Evans, Gary; Claridge, John B; Higham, Susan M; Rosseinsky, Matthew J

2013-02-07

Gallium has emerged as a new therapeutic agent due partly to the scarcity in development of new antibiotics. In this study, a novel antibacterial gallium exchanged carboxymethyl cellulose (Ga-CMC) has been developed and tested for the susceptibility on a common bacteria, Pseudomonas aeruginosa. The results show that an increase in average molecular weight (MW) from 90 k, 250 k to 700 k of Ga-CMC caused a decrease in antimicrobial activity against planktonic P. aeruginosa. Gallium loading of the Ga-CMC (250 k) samples was altered by varying the amount of functionality (0.7, 0.9 and 1.2 acid groups per mole of carbohydrate) which affected also its antimicrobial activity against planktonic P. aeruginosa. Further, the ability to prevent the growth of biofilms of P. aeruginosa was tested on MW = 250 k samples with 0.9 acid groups per mole of carbohydrate as this sample showed the most promising activity against planktonic P. aeruginosa. Gallium was found to reduce biofilm growth of P. aeruginosa with a maximum effect (0.85 log(10) CFU reduction compared to sodium-carboxymethyl cellulose, Na-CMC) after 24 h. Results of the solubility and ion exchange studies show that this compound is suitable for the controlled release of Ga(3+) upon their breakdown in the presence of bacteria. SEM EDX analysis confirmed that Ga(3+) ions are evenly exchanged on the cellulose surface and systematic controls were carried out to ensure that antibacterial activity is solely due to the presence of gallium as samples intrinsic acidity or nature of counterion did not affect the activity. The results presented here highlight that Ga-CMC may be useful in controlled drug delivery applications, to deliver gallium ions in order to prevent infections due to P. aeruginosa biofilms.

[Interdependence of plankton spatial distribution and plancton biomass temporal oscillations: mathematical simulation].

PubMed

Medvedinskiĭ, A B; Tikhonova, I A; Li, B L; Malchow, H

2003-01-01

The dynamics of aquatic biological communities in a patchy environment is of great interest in respect to interrelations between phenomena at various spatial and time scales. To study the complex plankton dynamics in relation to variations of such a biologically essential parameter as the fish predation rate, we use a simple reaction-diffusion model of trophic interactions between phytoplankton, zooplankton, and fish. We suggest that plankton is distributed between two habitats one of which is fish-free due to hydrological inhomogeneity, while the other is fish-populated. We show that temporal variations in the fish predation rate do not violate the strong correspondence between the character of spatial distribution of plankton and changes of plankton biomass in time: regular temporal oscillations of plankton biomass correspond to large-scale plankton patches, while chaotic oscillations correspond to small-scale plankton patterns. As in the case of the constant fish predation rate, the chaotic plankton dynamics is characterized by coexistence of the chaotic attractor and limit cycle.

THE CD ISOTOPE SIGNATURE OF THE SOUTHERN OCEAN

NASA Astrophysics Data System (ADS)

Abouchami, W.; Galer, S. J.; Middag, R.; de Baar, H.; Andreae, M. O.; Feldmann, H.; Raczek, I.

2009-12-01

The availability of micronutrients can limit and control plankton ecosystems, notably in the Southern Ocean which plays a major role in regulating the CO2 biological pump. Cadmium has a nutrient-like distribution in seawater - it is directly incorporated into living plankton in the upper water column and re-mineralised at depth. The nutritional role of Cd (Price and Morel, 1990) makes it a potentially useful tracer of biological productivity. We report Cd concentration and Cd stable isotope data obtained using a double-spike TIMS method on seawater samples collected during the Zero and Drake Passage cruise (ANTXXIV-III, IPY-GEOTRACES 2008). Four vertical profiles were collected from 40 to 70°S across the Polar Front using the ultra-clean Titan frame (De Baar et al., 2008), providing a record of changes in biological productivity from the Subantarctic to the Antarctic region. Data from two profiles from the SE Atlantic (47.66°S, 4.28W) and Drake Passage (55.13°S, 65.53°W) obtained on 1 litre-sized samples are presented. Both profiles show a increase in Cd concentration with depth, with noticeably higher concentrations in the SE Atlantic. Cd and PO4 are positively correlated with distinct slopes for the two profiles. The Cd isotope data are expressed as ɛ112/110Cd relative to our JMC Mainz standard (± 8ppm, 2SD, N=17). ɛ112/110Cd values show a continuous decrease with increasing depth and a significant shift towards heavier values in the upper 400m at both stations resolvable outside analytical error (2SE ≤ 20ppm). The sense of Cd isotope fractionation confirms previous findings of uptake of “light” Cd by phytoplankton in the upper water column (Lacan et al., 2006; Ripperger et al., 2007; Schmidt et al., 2009). Most important is the evidence for a distinctive heavier Cd isotope signature in AASW relative to AAIW. This result demonstrates that different water masses carry distinct Cd isotopic compositions reflecting changes in Cd uptake by phytoplankton. Price and Morel(1990) Nature 344, 658-660. De Baar et al.(2008) Mar. Chem. 111, 4-21 Lacan et al.(2006) Geochim. Cosmochim. Acta 70, 5104-5118. Ripperger et al.(2007) Earth Planet. Sci. Lett 261,670-684. Schmidt et al.(2009)Earth Planet. Sci. Lett 277, 262-272.

Abyssal near-bottom dispersal stages of benthic invertebrates in the Clarion-Clipperton polymetallic nodule province

NASA Astrophysics Data System (ADS)

Kersten, Oliver; Smith, Craig R.; Vetter, Eric W.

2017-09-01

Growing interest in polymetallic nodule mining has intensified the need to characterize the abundance, community structure and vertical flux of meroplankton in the Clarion-Clipperton Zone (CCZ) to facilitate the estimation of larval supply and potential connectivity of benthic populations. These ecological parameters are essential to predict recolonization processes following the expected large-scale, high intensity disturbances associated with nodule extraction. Here, we present the first description of the composition, abundance, temporal variability, and mesoscale distribution of dispersing stages of the benthos in two study areas in the eastern CCZ. Samples from free-vehicle plankton pumps showed little variation in meroplankton diversity and abundance over scales of 30-100 km for time scales of days to weeks. However, sediment-trap samples revealed high temporal variability in vertical flux over weeks to months. Larval abundances and fluxes measured in the abyssal CCZ are 1-2 orders of magnitude lower than observed at deep-sea ridge and hydrothermal-vent habitats. We found significantly higher downward larval fluxes at 11 m above the bottom (mab) than at 146 mab, indicating accumulation or retention of meroplankton within the Benthic Boundary Layer (BBL). The high abundance of meroplankton in the BBL emphasizes its importance to dispersing stages and suggests that the creation of large sediment plumes in the BBL during nodule mining could compromise the dispersal and recruitment abilities of the abyssal benthos, potentially slowing rates and altering patterns of benthic community recovery following mining disturbance.

Sampling strategies exploiting multi-pumping flow systems.

PubMed

Prior, João A V; Santos, João L M; Lima, José L F C

2003-04-01

In this work new strategies were exploited to implement multi-pumping flow systems relying on the utilisation of multiple devices that act simultaneously as sample-insertion, reagent-introduction, and solution-propelling units. The solenoid micro-pumps that were initially used as the only active elements of multi-pumping systems, and which were able to produce pulses of 3 to 25 microL, were replaced by syringe pumps with the aim of producing pulses between 1 and 4 microL. The performance of the developed flow system was assessed by using distinct sample-insertion strategies like single sample volume, merging zones, and binary sampling in the spectrophotometric determination of isoniazid in pharmaceutical formulations upon reaction with 1,2-naphthoquinone-4-sulfonate, in alkaline medium. The results obtained showed that enhanced sample/reagent mixing could be obtained with binary sampling and by using a 1 microL per step pump, even in limited dispersion conditions. Moreover, syringe pumps produce very reproducible flowing streams and are easily manipulated and controlled by a computer program, which is greatly simplified since they are the only active manifold component. Linear calibration plots up to 18.0 microg mL(-1), with a relative standard deviation of less than 1.48% (n=10) and a throughput of about 20 samples per hour, were obtained.

Variability of neodymium isotopes associated with planktonic foraminifera in the Pacific Ocean during the Holocene and Last Glacial Maximum

NASA Astrophysics Data System (ADS)

Hu, Rong; Piotrowski, Alexander M.; Bostock, Helen C.; Crowhurst, Simon; Rennie, Victoria

2016-08-01

The deep Pacific Ocean holds the largest oceanic reservoir of carbon which may interchange with the atmosphere on climatologically important timescales. The circulation of the deep Pacific during the Last Glacial Maximum (LGM), however, is not well understood. Neodymium (Nd) isotopes of ferromanganese oxide coatings precipitated on planktonic foraminifera are a valuable proxy for deep ocean water mass reconstruction in paleoceanography. In this study, we present Nd isotope compositions (εNd) of planktonic foraminifera for the Holocene and the LGM obtained from 55 new sites widely distributed in the Pacific Ocean. The Holocene planktonic foraminiferal εNd results agree with the proximal seawater data, indicating that they provide a reliable record of modern bottom water Nd isotopes in the deep Pacific. There is a good correlation between foraminiferal εNd and seawater phosphate concentrations (R2 = 0.80), but poorer correlation with silicate (R2 = 0.37). Our interpretation is that the radiogenic Nd isotope is added to the deep open Pacific through particle release from the upper ocean during deep water mass advection and aging. The data thus also imply the Nd isotopes in the Pacific are not likely to be controlled by silicate cycling. In the North Pacific, the glacial Nd isotopic compositions are similar to the Holocene values, indicating that the Nd isotope composition of North Pacific Deep Water (NPDW) remained constant (-3.5 to -4). During the LGM, the southwest Pacific cores throughout the water column show higher εNd corroborating previous studies which suggested a reduced inflow of North Atlantic Deep Water to the Pacific. However, the western equatorial Pacific deep water does not record a corresponding radiogenic excursion, implying reduced radiogenic boundary inputs during the LGM probably due to a shorter duration of seawater-particle interaction in a stronger glacial deep boundary current. A significant negative glacial εNd excursion is evident in mid-depth (1-2 km) cores of the eastern equatorial Pacific (EEP) which may suggest a stronger influence of NPDW return flow to the core sites and decreased local input in the EEP. Taken together, our Nd records do not support a dynamically slower glacial Pacific overturning circulation, and imply that the increased carbon inventory of Pacific deep water might be due to poor high latitude air-sea exchange and increased biological pump efficiency in glacial times.

Sampling system and method

DOEpatents

Decker, David L.; Lyles, Brad F.; Purcell, Richard G.; Hershey, Ronald Lee

2013-04-16

The present disclosure provides an apparatus and method for coupling conduit segments together. A first pump obtains a sample and transmits it through a first conduit to a reservoir accessible by a second pump. The second pump further conducts the sample from the reservoir through a second conduit.

Benthic foraminifera in the plankton following storms: what does this mean for (palaeo)-ecological interpretations?

NASA Astrophysics Data System (ADS)

Hart, Malcolm; Molina, Giulia; Smart, Christopher; Widdicombe, Claire

2017-04-01

The Western Channel Observatory was established by the Natural Environment Research Council (NERC), with Plymouth Marine Laboratory managing the two autonomous buoys that are located to the south of Plymouth in the English Channel (Stations L4 and E1): see Smyth et al. (2015). These two locations are now monitored continually and there is regular sampling of the water column and the sea floor at both locations. At Station L4, despite being in waters with a depth of 50 m, benthic foraminifera are regularly found in the surface water plankton samples. Some of these benthic foraminifera contain algal symbionts, indicating that they may be living at the time of capture. If benthic foraminifera can be entrained in the water column, while still living, then this provides a mechanism for 'migration' that is much more rapid and efficient than the rate at which protists could migrate within, or on, the sediment surface. Recolonization by foraminifera, following disturbance, could well be facilitated by this mechanism which has only rarely been reported in the literature (e.g., Murray, 1965). It is clearly limited to depths impacted by fair weather ( 30 m) or storm wave base (80 - 100 m). Data gathered during winter 2015-2016 certainly indicate that, following storm events, the larger the number of benthic foraminifera in the plankton tows and the greater their overall size. Some of the individuals being observed appear to contain sediment, indicating that they have been picked up from the sediment surface and, despite their greater weight, have still been transported into the plankton. Using data from the nearby sea area, off-shore and within Plymouth Sound, we are trying to ascertain if the recorded assemblage is from the L4 area, or whether they have been transported out from shallower-water environments, possibly assisted by increased run-off caused by heavy rainfall (associated with the storms). Clearly, re-distribution of foraminifera in the environment might make subsequent interpretations of ecology less accurate, but in the fossil record such changes could go completely undetected and lead to considerable inaccuracy in the interpretation of palaeoecology. Murray, J.W. 1965. Significance of benthic foraminiferids in plankton samples. Journal of Paleontology, 39, 156-157. Smyth, T., Atkinson, A., Widdicombe, S., Frost, M., Allen, I., Fishwick, J., Queiros, A., Sims, D. & Barange, M. 2015. The Western Channel Observatory. Progress in Oceanography, 137, 335-341.

Depletion of 13C in Cretaceous marine organic matter: Source, diagenetic, or environmental sigal?

USGS Publications Warehouse

Dean, W.E.; Arthur, M.A.; Claypool, G.E.

1986-01-01

Geochemical studies of Cretaceous strata rich in organic carbon (OC) from Deep Sea Drilling Project (DSDP) sites and several land sections reveal several consistent relationships among amount of OC, hydrocarbon generating potential of kerogen (measured by pyrolysis as the hydrogen index, HI), and the isotopic composition of the OC. First, there is a positive correlation between HI and OC in strata that contain more than about 1% OC. Second, percent OC and HI often are negatively correlated with carbon isotopic composition (?? 13C) of kerogen. The relationship between HI and OC indicates that as the amount of organic matter increases, this organic matter tends to be more lipid rich reflecting the marine source of the organic matter. Cretaceous samples that contain predominantly marine organic matter tend to be isotopically lighter than those that contain predominantly terrestrial organic matter. Average ?? 13C values for organic matter from most Cretaceous sites are between -26 and -28???, and values heavier than about -25??? occur at very few sites. Most of the ?? 13C values of Miocene to Holocene OC-rich strata and modern marine plankton are between -16 to -23???. Values of ??13C of modern terrestrial organic matter are mostly between -23 and -33???. The depletion of terrestial OC in 13C relative to marine planktonic OC is the basis for numerous statements in the literature that isotopically light Cretaceous organic matter is of terrestrial origin, even though other organic geochemical and(or) optical indicators show that the organic matter is mainly of marine origin. A difference of about 5??? in ?? 13C between modern and Cretaceous OC-rich marine strata suggests either that Cretaceous marine planktonic organic matter had the same isotopic signature as modern marine plankton and that signature has been changed by diagenesis, or that OC derived from Cretaceous marine plankton was isotopically lighter by about 5??? relative to modern plankton OC. Diagenesis does not produce a significant shift in ?? 13C in Miocene to Holocene sediments, and therefore probably did not produce the isotopically light Cretaceous OC. This means that Cretaceous marine plankton must have had ?? 13C values that were about 5??? lighter than modern marine plankton, and at least several per mil lighter than Cretaceous terrestrial vegetation. The reason for these lighter values, however, is not obvious. It has been proposed that concentrations of CO2 were higher during the middle Cretaceous, and this more available CO2 may be responsible for the lighter ?? 13C values of Cretaceous marine organic matter. ?? 1986.

Tank 241-AZ-101 Mixer Pump Test Vapor Sampling and Analysis Plan

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

TEMPLETON, A.M.

2000-03-06

This sampling and analysis plan (SAP) identifies characterization objectives pertaining to sample collection, laboratory analytical evaluation, and reporting requirements for vapor samples obtained during the operation of mixer pumps in tank 241-AZ-101. The primary purpose of the mixer pump test (MPT) is to demonstrate that the two 300 horsepower mixer pumps installed in tank 241-AZ-101 can mobilize the settled sludge so that it can be retrieved for treatment and vitrification. Sampling will be performed in accordance with Tank 241-AZ-101 Mixer Pump Test Data Quality Objective (Banning 1999) and Data Quality Objectives for Regulatory Requirements for Hazardous and Radioactive Air Emissionsmore » Sampling and Analysis (Mulkey 1999). The sampling will verify if current air emission estimates used in the permit application are correct and provide information for future air permit applications.« less

Tank 241-AZ-101 Mixer Pump Test Vapor Sampling and Analysis Plan

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

TEMPLETON, A.M.

2000-01-31

This sampling and analysis plan (SAP) identifies characterization objectives pertaining to sample collection, laboratory analytical evaluation, and reporting requirements for vapor samples obtained during the operation of mixer pumps in tank 241-AZ-101. The primary purpose of the mixer pump test (MPT) is to demonstrate that the two 300 horsepower mixer pumps installed in tank 241-AZ-101 can mobilize the settled sludge so that it can be retrieved for treatment and vitrification Sampling will be performed in accordance with Tank 241-AZ-101 Mixer Pump Test Data Quality Objective (Banning 1999) and Data Quality Objectives for Regulatory Requirements for Hazardous and Radioactive Air Emissionsmore » Sampling and Analysis (Mulkey 1999). The sampling will verify if current air emission estimates used in the permit application are correct and provide information for future air permit applications.« less

Tank 241-AZ-101 Mixer Pump Test Vapor Sampling and Analysis Plan

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

TEMPLETON, A.M.

2000-04-10

This sampling and analysis plan (SAP) identifies characterization objectives pertaining to sample collection, laboratory analytical evaluation, and reporting requirements for vapor samples obtained during the operation of mixer pumps in tank 241-AZ-101. The primary purpose of the mixer pump test (MPT) is to demonstrate that the two 300 horsepower mixer pumps installed in tank 241-AZ-101 can mobilize the settled sludge so that it can be retrieved for treatment and vitrification. Sampling will be performed in accordance with Tank 241-AZ-101 Mixer Pump Test Data Quality Objective (Banning 1999) and Data Quality Objectives for Regulatory Requirements for Hazardous and Radioactive Air Emissionsmore » Sampling and Analysis (Mulkey 1999). The sampling will verify if current air emission estimates used in the permit application are correct and provide information for future air permit applications.« less

Distinct patterns and processes of abundant and rare eukaryotic plankton communities following a reservoir cyanobacterial bloom.

PubMed

Xue, Yuanyuan; Chen, Huihuang; Yang, Jun R; Liu, Min; Huang, Bangqin; Yang, Jun

2018-06-13

Plankton communities normally consist of few abundant and many rare species, yet little is known about the ecological role of rare planktonic eukaryotes. Here we used a 18S ribosomal DNA sequencing approach to investigate the dynamics of rare planktonic eukaryotes, and to explore the co-occurrence patterns of abundant and rare eukaryotic plankton in a subtropical reservoir following a cyanobacterial bloom event. Our results showed that the bloom event significantly altered the eukaryotic plankton community composition and rare plankton diversity without affecting the diversity of abundant plankton. The similarities of both abundant and rare eukaryotic plankton subcommunities significantly declined with the increase in time-lag, but stronger temporal turnover was observed in rare taxa. Further, species turnover of both subcommunities explained a higher percentage of the community variation than species richness. Both deterministic and stochastic processes significantly influenced eukaryotic plankton community assembly, and the stochastic pattern (e.g., ecological drift) was particularly pronounced for rare taxa. Co-occurrence network analysis revealed that keystone taxa mainly belonged to rare species, which may play fundamental roles in network persistence. Importantly, covariations between rare and non-rare taxa were predominantly positive, implying multispecies cooperation might contribute to the stability and resilience of the microbial community. Overall, these findings expand current understanding of the ecological mechanisms and microbial interactions underlying plankton dynamics in changing aquatic ecosystems.

Species-specific separation of lake plankton reveals divergent food assimilation patterns in rotifers.

PubMed

Burian, Alfred; Kainz, Martin J; Schagerl, Michael; Yasindi, Andrew

2014-06-01

1. The analysis of functional groups with a resolution to the individual species level is a basic requirement to better understand complex interactions in aquatic food webs. Species-specific stable isotope analyses are currently applied to analyse the trophic role of large zooplankton or fish species, but technical constraints complicate their application to smaller-sized plankton. 2. We investigated rotifer food assimilation during a short-term microzooplankton bloom in the East African soda lake Nakuru by developing a method for species-specific sampling of rotifers. 3. The two dominant rotifers, Brachionus plicatilis and Brachionus dimidiatus , were separated to single-species samples (purity >95%) and significantly differed in their isotopic values (4.1‰ in δ 13 C and 1.5‰ in δ 15 N). Bayesian mixing models indicated that isotopic differences were caused by different assimilation of filamentous cyanobacteria and particles <2 μm and underlined the importance of species-specific sampling of smaller plankton compartments. 4. A main difference was that the filamentous cyanobacterium Arthrospira fusiformis , which frequently forms blooms in African soda lakes, was an important food source for the larger-sized B. plicatilis (48%), whereas it was hardly ingested by B. dimidiatus . Overall, A . fusiformis was, relative to its biomass, assimilated to small extents, demonstrating a high grazing resistance of this species. 5. In combination with high population densities, these results demonstrate a strong potential of rotifer blooms to shape phytoplankton communities and are the first in situ demonstration of a quantitatively important direct trophic link between rotifers and filamentous cyanobacteria.

Species-specific separation of lake plankton reveals divergent food assimilation patterns in rotifers

PubMed Central

Burian, Alfred; Kainz, Martin J; Schagerl, Michael; Yasindi, Andrew

2014-01-01

1. The analysis of functional groups with a resolution to the individual species level is a basic requirement to better understand complex interactions in aquatic food webs. Species-specific stable isotope analyses are currently applied to analyse the trophic role of large zooplankton or fish species, but technical constraints complicate their application to smaller-sized plankton. 2. We investigated rotifer food assimilation during a short-term microzooplankton bloom in the East African soda lake Nakuru by developing a method for species-specific sampling of rotifers. 3. The two dominant rotifers, Brachionus plicatilis and Brachionus dimidiatus, were separated to single-species samples (purity >95%) and significantly differed in their isotopic values (4.1‰ in δ13C and 1.5‰ in δ15N). Bayesian mixing models indicated that isotopic differences were caused by different assimilation of filamentous cyanobacteria and particles <2 μm and underlined the importance of species-specific sampling of smaller plankton compartments. 4. A main difference was that the filamentous cyanobacterium Arthrospira fusiformis, which frequently forms blooms in African soda lakes, was an important food source for the larger-sized B. plicatilis (48%), whereas it was hardly ingested by B. dimidiatus. Overall, A. fusiformis was, relative to its biomass, assimilated to small extents, demonstrating a high grazing resistance of this species. 5. In combination with high population densities, these results demonstrate a strong potential of rotifer blooms to shape phytoplankton communities and are the first in situ demonstration of a quantitatively important direct trophic link between rotifers and filamentous cyanobacteria. PMID:25866422

A simple filtration method to remove plankton-associated Vibrio cholerae in raw water supplies in developing countries.

PubMed

Huq, A; Xu, B; Chowdhury, M A; Islam, M S; Montilla, R; Colwell, R R

1996-07-01

Plankton to which cells of Vibrio cholerae O1 and/or O139 were attached was introduced into 0.5% Instant Ocean microcosms maintained at 25 degrees C. The bulk of the plankton and associated particulates was removed with a filter constructed from either nylon net and one of several different types of sari material, the latter being very inexpensive and readily available in villages in Bangladesh, where V. cholerae is endemic. V. cholerae was enumerated before and after filtration to evaluate the efficiency of the filtration procedure. The results obtained indicate that 99% of V. cholerae, i.e., those cells attached to plankton, were removed from the water samples. Epidemic strains of V. cholerae O1 and O139 from various geographical sources, including Bangladesh, Brazil, India, and Mexico, were included in the experiments. Removal of vibrios from water by this simple filtration method was found to yield consistent results with all strains examined in this study. Thus, it is concluded that a simple filtration procedure involving the use of domestic sari material can reduce the number of cholera vibrios attached to plankton in raw water from ponds and rivers commonly used for drinking. Since untreated water from such sources serves as drinking water for millions of people living in developing countries (e.g., Bangladesh), filtration should prove effective at reducing the incidence and severity of outbreaks, especially in places that lack fuel wood for boiling water and/or municipal water treatment plants. The results of this study provide the basis for determining such reductions, which are to be carried out in the near future.

High Genetic Diversity and Novelty in Eukaryotic Plankton Assemblages Inhabiting Saline Lakes in the Qaidam Basin

PubMed Central

Wang, Jiali; Wang, Fang; Chu, Limin; Wang, Hao; Zhong, Zhiping; Liu, Zhipei; Gao, Jianyong; Duan, Hairong

2014-01-01

Saline lakes are intriguing ecosystems harboring extremely productive microbial communities in spite of their extreme environmental conditions. We performed a comprehensive analysis of the genetic diversity (18S rRNA gene) of the planktonic microbial eukaryotes (nano- and picoeukaryotes) in six different inland saline lakes located in the Qaidam Basin. The novelty level are high, with about 11.23% of the whole dataset showing <90% identity to any previously reported sequence in GenBank. At least 4 operational taxonomic units (OTUs) in mesosaline lakes, while up to eighteen OTUs in hypersaline lakes show very low CCM and CEM scores, indicating that these sequences are highly distantly related to any existing sequence. Most of the 18S rRNA gene sequence reads obtained in investigated mesosaline lakes is closely related to Holozoa group (48.13%), whereas Stramenopiles (26.65%) and Alveolates (10.84%) are the next most common groups. Hypersaline lakes in the Qaidam Basin are also dominated by Holozoa group, accounting for 26.65% of the total number of sequence reads. Notably, Chlorophyta group are only found in high abundance in Lake Gasikule (28.00%), whereas less represented in other hypersaline lakes such as Gahai (0.50%) and Xiaochaidan (1.15%). Further analysis show that the compositions of planktonic eukaryotic assemblages are also most variable between different sampling sites in the same lake. Out of the parameters, four show significant correlation to this CCA: altitude, calcium, sodium and potassium concentrations. Overall, this study shows important gaps in the current knowledge about planktonic microbial eukaryotes inhabiting Qaidam Basin (hyper) saline water bodies. The identified diversity and novelty patterns among eukaryotic plankton assemblages in saline lake are of great importance for understanding and interpreting their ecology and evolution. PMID:25401703

The effectiveness of radiant catalytic ionization in inactivation of Listeria monocytogenes planktonic and biofilm cells from food and food contact surfaces as a method of food preservation.

PubMed

Skowron, K; Grudlewska, K; Krawczyk, A; Gospodarek-Komkowska, E

2018-06-01

The aim of the study was to evaluate the microbicidal effectiveness of radiant catalytic ionization (RCI) against Listeria monocytogenes strains in the form of planktonic cells and biofilm on food products and food contact surfaces as a method of food preservation. The study material comprised six strains of L. monocytogenes, isolated from food. Samples of different types of food available by retail (raw carrot, frozen salmon filets, soft cheese) and the fragments of surfaces (stainless steel AISI 304, rubber, milled rock tiles, polypropylene) were used in the experiment. The obtained results showed the effectiveness of RCI in the inactivation of both forms of the tested L. monocytogenes strains on all the surfaces. The effectiveness of RCI for biofilm forms was lower as compared with planktonic forms. The PRR value ranged from 18·19 to 99·97% for planktonic form and from 3·92 to 70·10% for biofilm. The RCI phenomenon induces the inactivation of L. monocytogenes on surfaces of food and materials used in the processing industry to a varying degree, depending on the manner of surface contamination, the properties of the contaminated materials as well as on the origin of the strain and the properties of surrounding dispersive environment in which the micro-organisms were suspended. Searching of new actions aimed at the reduction of the microbial contamination of food and food contact surfaces are extremely important. RCI method has been already described as an effective technique of microbial and abiotic pollution removal from air. However, our studies provide new, additional data related to evaluation the RCI efficacy against microbes on different surfaces, both in planktonic and biofilm form. © 2018 The Society for Applied Microbiology.

The structure and evolution of plankton communities

NASA Astrophysics Data System (ADS)

Longhurst, Alan R.

New understanding of the circulation of ancient oceans is not yet matched by progress in our understanding of their pelagic ecology, though it was the planktonic ecosystems that generated our offshore oil and gas reserves. Can we assume that present-day models of ecosystem function are also valid for ancient seas? This question is addressed by a study of over 4000 plankton samples to derive a comprehensive, global description of zooplankton community structure in modern oceans: this shows that copepods form only 50% of the biomass of all plankton, ranging from 70% in polar to 35% in tropical seas. Comparable figures are derived from 14 other taxonomic categories of zooplankton. For trophic groupings, the data indicate globally: geletinous predators - 14%; gelatinous herbivores - 4%; raptorial predators - 33%; macrofiltering herbivores - 20%; macrofiltering omnivores - 25%; and detritivores - 3%. A simple, idealized model for the modern pelagic ecosystem is derived from these percentages which indicates that metazooplankton are not the most important consumers of pico- and nano-plankton production which itself probably constitutes 90% of primary production in warm oceans. This model is then compared with candidate life-forms available in Palaeozoic and Mesozoic oceans to determine to what extent it is also valid for ancient ecosystems: it is concluded that it is probably unnecessary to postulate models fundamentally differing from it in order to accommodate the life-forms, both protozoic and metazoic, known to have populated ancient seas. Remarkably few life-forms have existed which cannot be paralleled in the modern ocean, which contains remarkably few life-forms which cannot be paralleled in the Palaeozoic ocean. As a first assumption, then, it is reasonable to assume that energy pathways were similar in ancient oceans to those we study today.

Plankton dynamics and biogeochemical fluxes in the Costa Rica Dome: introduction to the CRD Flux and Zinc Experiments.

PubMed

Landry, Michael R; De Verneil, Alain; Goes, Joaquim I; Moffett, James W

2016-03-01

The Costa Rica Dome (CRD) is an open-ocean upwelling system in the Eastern Tropical Pacific that overlies the ocean's largest oxygen minimum zone (OMZ). The region has unique characteristics, biomass dominance by picophytoplankton, suppressed diatoms, high biomass of higher consumers and presumptive trace metal limitation, but is poorly understood in terms of pelagic stock and process relationships, including productivity and production controls. Here, we describe the goals, project design, physical context and major findings of the Flux and Zinc Experiments cruise conducted in June-July 2010 to assess trophic flux relationships and elemental controls on phytoplankton in the CRD. Despite sampling during a year of suppressed summertime surface chlorophyll, cruise results show high productivity (∼1 g C m -2 day -1 ), high new production relative to export, balanced production and grazing, disproportionate biomass-specific productivity of large phytoplankton and high zooplankton stocks. Zinc concentrations are low in surface waters relative to phosphorous and silicate in other regions, providing conditions conducive to picophytoplankton, like Synechococcus , with low Zn requirements. Experiments nonetheless highlight phytoplankton limitation or co-limitation by silicic acid, driven by a strong silica pump that is linked to low dissolution of biogenic silica in the cold shallow thermocline of the lower euphotic zone.

pCO2 effects on species composition and growth of an ...

EPA Pesticide Factsheets

The effects of ongoing changes in ocean carbonate chemistry on plankton ecology have important implications for food webs and biogeochemical cycling. However, conflicting results have emerged regarding species-specific responses to pCO2 enrichment and thus community responses have been difficult to predict. To assess community level effects (e.g., production) of altered carbonate chemistry, studies are needed that capitalize on the benefits of controlled experiments but also retain features of intact ecosystems that may exacerbate or ameliorate the effects observed in single-species or single cohort experiments. We performed incubations of natural plankton communities from Narragansett Bay, RI, USA in winter at ambient bay temperatures (5–13 °C), light and nutrient concentrations under three levels of controlled and constant CO2 concentrations, simulating past, present and future conditions at mean pCO2 levels of 224, 361, and 724 μatm respectively. Samples for carbonate analysis, chlorophyll a, plankton size-abundance, and plankton species composition were collected daily and phytoplankton growth rates in three different size fractions (20 μm) were measured at the end of the 7-day incubation period. Community composition changed during the incubation period with major increases in relative diatom abundance, which were similar across pCO2 treatments. At the end of the experiment, 24-hr growth responses to pCO2 levels varied as a function of cell size. The s

Characterization of Macroinvertebrate Communities in the Hyporheic Zone of River Ecosystems Reflects the Pump-Sampling Technique Used

PubMed Central

Dole-Olivier, Marie-José; Galassi, Diana M. P.; Hogan, John-Paul; Wood, Paul J.

2016-01-01

The hyporheic zone of river ecosystems provides a habitat for a diverse macroinvertebrate community that makes a vital contribution to ecosystem functioning and biodiversity. However, effective methods for sampling this community have proved difficult to establish, due to the inaccessibility of subsurface sediments. The aim of this study was to compare the two most common semi-quantitative macroinvertebrate pump-sampling techniques: Bou-Rouch and vacuum-pump sampling. We used both techniques to collect replicate samples in three contrasting temperate-zone streams, in each of two biogeographical regions (Atlantic region, central England, UK; Continental region, southeast France). Results were typically consistent across streams in both regions: Bou-Rouch samples provided significantly higher estimates of taxa richness, macroinvertebrate abundance, and the abundance of all UK and eight of 10 French common taxa. Seven and nine taxa which were rare in Bou-Rouch samples were absent from vacuum-pump samples in the UK and France, respectively; no taxon was repeatedly sampled exclusively by the vacuum pump. Rarefaction curves (rescaled to the number of incidences) and non-parametric richness estimators indicated no significant difference in richness between techniques, highlighting the capture of more individuals as crucial to Bou-Rouch sampling performance. Compared to assemblages in replicate vacuum-pump samples, multivariate analyses indicated greater distinction among Bou-Rouch assemblages from different streams, as well as significantly greater consistency in assemblage composition among replicate Bou-Rouch samples collected in one stream. We recommend Bou-Rouch sampling for most study types, including rapid biomonitoring surveys and studies requiring acquisition of comprehensive taxon lists that include rare taxa. Despite collecting fewer macroinvertebrates, vacuum-pump sampling remains an important option for inexpensive and rapid sample collection. PMID:27723819

Assessing the biogeochemical impact of AMOC collapse during Heinrich Stadial 1: New surface and mid-depth records from the South Atlantic

NASA Astrophysics Data System (ADS)

Lund, D. C.; Lacerra, M.; Schmittner, A.; Yu, J.

2017-12-01

Carbon isotope minima were a ubiquitous feature in the mid-depth (1.5-2.5 km) Atlantic during Heinrich Stadial 1 (HS1, 14.5-17.5 kyr BP), with the most likely driver being a collapse of the Atlantic Meridional Overturning Circulation (AMOC) [1, 2]. Model simulations suggest a weaker AMOC increases the residence time of deep water and causes accumulation of isotopically light respired carbon at mid-depths [3]. Subsequent weakening of the biological pump also causes light carbon to accumulate in the surface ocean and atmosphere, potentially accounting for surface ocean δ13C minima and the initial rise in atmospheric CO2. Here, we test the AMOC hypothesis using high resolution planktonic and benthic δ13C records from the Brazil Margin (1.8 km and 2.1 km water depth). We show that N. dutertrei and G. sacculifer δ13C lags benthic δ13C during HS1 by 500 years. Because the planktonic and benthic results are based on analyses of the same samples, the relative timing is constrained by the stratigraphic offset of the δ13C time series. Our results are consistent with the model prediction of an initial collapse of the AMOC causing δ13C minima at mid-depth followed by weakening of the biological pump and equilibration of the surface ocean with a 13C-depleted atmosphere. We also assess ΣCO2 storage in the mid-depth Atlantic during HS1 using benthic foraminiferal B/Ca as a proxy for [CO32-]. Using replicated high resolution B/Ca records, we show that [CO32-] decreased during HS1, synchronous with apparent weakening of the AMOC. The [CO32-] response is smaller than in the tropical North Atlantic [4], indicating there was a north-south gradient in the [CO32-] signal similar to that for δ13C [5]. The implied ΣCO2 signal is consistent with model results [3], suggesting that carbon is temporarily sequestered in the mid-depth Atlantic during millennial-scale stadial events. We estimate that approximately 75% of the mid-depth δ13C signal was driven by accumulation of remineralized carbon, highlighting the non-conservative nature of δ13C during the last deglaciation. 1 McManus, J. et al. (2004) Nature, 428, 834. 2 Oppo, D. et al. (2015) Paleoceanography, 30, 353. 3 Schmittner, A., & Lund, D. (2015) Clim. Past, 11, 135. 4 Yu, J. et al. (2010) Science, 330 (6007), 1084. 5 Lund, D., et al. (2015) Paleoceanography, 30, 477.

Molecular distribution and degradation status of combined aldoses in sinking particulate organic matter

NASA Astrophysics Data System (ADS)

Panagiotopoulos, C.; Sempéré, R.

2003-04-01

Particulate samples were collected by using floating sediment traps (50--300 m) and in situ pumps (30 and 200 m) in the Southern Indian Ocean (Polar Front Zone (PFZ) and Sub-Tropical Zone (STZ)), Mediterranean Sea (Ligurian and Ionian Seas) and Atlantic Ocean (Upwelling (UPW) of Agadir-Morocco). They were studied for monosaccharide composition after acid hydrolysis (HCl 0.09 M, 20 h, 100^oC) by using High Performance Anion Exchange Chromatography followed by Pulsed Amperometric Detection (HPAEC-PAD). Our results indicated that higher PCHO yields (calculated as PCHO-C/POC ratios) were associated to higher C:N ratios (Med. Sea sample, PCHO yields = 12.7 ± 7.7%; C:N ratios = 8.3 ± 1.6; n = 12) whether the opposite trend was found for Southern Ocean samples (PCHO yields = 3.3 ± 0.75%; C:N ratios = 5.7 ± 0.59, n = 5) indicating significant variability in the sugar content of particles which might be due to the degradation degree of the particles as well as to the initial chemical composition of plankton. Alternatively, other processes such as high production of extracellular polysaccharides (type transparent exopolymer polysaccharides (TEP)) due to phosphorus limitation of some phytoplanktonic species may increase the sugar content in Mediterranean particles and the C/N ratio. In any case, glucose appeared to be the most abundant monosaccharide in Mediterranean Sea or UPW samples (range 23--59 wt% of the total aldoses) whereas ribose (17--39 wt%) and galactose (range 10--28 wt%) were the predominant aldoses in Southern Indian Ocean. These sugars (glucose + ribose) exhibited a strong negative relationship with C:N (r = -0.53, p >0.01; n = 30) in sediment traps (data from this study) and sediment (data from literature) particulate material which further indicates that these two monosaccharides are selectively extracted from the carbohydrate pool in sediment. In vitro biodegradation experiments performed with large particles (>60 μm) sampled using in situ pumps in Polar Front and Sub-Antarctic Zones indicated that ribose seems to be a labile sugar, rapidly degraded especially in Polar Front Zone whereas it was below the detection limit in Sub-Antarctic zone where a high bacterial activity was recorded in surface waters. Our results also showed that the relative abundance of deoxysugars (fucose + rhamnose) increased overtime in Sub-Antarctic Zone (deoxyinitial = 18%, deoxyfinal = 23%) and Polar Front Zone (deoxyinitial = 6%, deoxyfinal = 21%) indicating that these sugars are preserved during organic matter decomposition.

Upper Cretaceous planktonic stratigraphy of the Göynük composite section, western Tethys (Bolu province, Turkey)

NASA Astrophysics Data System (ADS)

Wolfgring, Erik; Liu, Shasha; Wagreich, Michael; Böhm, Katharina; Omer Yilmaz, Ismail

2017-04-01

Upper Cretaceous strata exposed at Göynük (Mudurnu-Göynük basin, Bolu Province, Northwestern Anatolia, Turkey) provide a composite geological record from the Upper Santonian to the Maastrichtian. Deposits in this area originate from the Sakarya continent, therefore, a western Tethyan palaeogeographic setting with a palaeolatitude of a bit less than 30 degrees north can be reconstructed. Grey shales and clayey marls are exposed at Göynük and do frequently show volcanic intercalations in the oldest parts of the section, while the uppermost layers depict a more complete deeper-marine record. The pelagic palaeoenvironment, microfossil indicators point towards a distal slope setting, at the Göynük section comprises rich low-latitude planktonic foraminiferal and calcareous nannoplankton assemblages. Benthic foraminifera are scarce, however, some biostratigraphically indicative taxa were recovered. The three sections sampled for this study reveal a composite record from the Campanian Contusotruncana plummerae planktonic foraminifera Zone to the Maastrichtian Racemiguembelina fruticosa planktonic foraminifera Zone. The oldest sub section („GK-section") yields the „mid" Campanian Contusotruncana plummerae or Globotruncana ventricosa Zones and is followed by the „GC-section". The oldest strata in latter record the C. plummerae Zone, the Radotruncana calcarata Zone, Globotruncanita havanensis as well as the Globotruncana aegyptiaca Zone and are overlain by the youngest section examined in this study ("GS -section"). In the latter, we recognize the G. aegyptiaca Zone in the lowermost part, the upper Campanian/lower Maastrichtian Gansserina gansseri Zone, and the Maastrichtian Racemiguembelina fruticosa Zone. Nannofossil standard zones UC15b to UC18 are recorded within the composite section. The planktonic foraminiferal assemblages assessed in the Göynük area feature a well preserved, diverse plankton record that can be correlated to other western Tethyan sections from the Upper Cretaceous. Especially the Austrian Alpine sections (i.e. Northern Calcareous Alps and Ultrahelvetics) show similar environmental and palaeolatitudinal settings and feature a well established biostratigraphical and cyclostratigraphic record. Comparing the multi-proxy record assessed in these sections to the biostratigraphic data from the Göynük region provides useful insights into planktonic foraminiferal palaeoecology and the multistratigraphic high-resolution correlation in the Upper Cretaceous Tethyan realm.

The Continuous Plankton Recorder: concepts and history, from Plankton Indicator to undulating recorders [review article

NASA Astrophysics Data System (ADS)

Reid, P. C.; Colebrook, J. M.; Matthews, J. B. L.; Aiken, J.; Continuous Plankton Recorder Team

2003-08-01

Alister Hardy conceived the Continuous Plankton Recorder (CPR) survey in the 1920s as a means of mapping near-surface plankton in space and time, interpreting the changing fortunes of the fisheries and relating plankton changes to hydrometeorology and climatic change. The seed he planted has grown to become the most extensive long-term survey of marine organisms in the world and the breadth of his vision becomes ever more apparent. The survey has now run for over 70 years and its value increases with every passing decade. Operating from ‘ships of opportunity’ the machines used are robust, reliable and easy to handle. Wherever possible, all the sampling and analytical methods have not been changed to maintain the consistency of the time series. Computerisation and the development of new statistical approaches have increased our ability to handle the large quantities of information generated and enhance the sensitivity of the data analyses. This overview, based on almost 900 papers, recounts the various phases in the history of the survey. It starts with the Indicator Survey (1921-1934), the deployment of the first CPR on the Discovery Expedition (1924-1927) and the early CPR survey in the North Sea (1931-1939). The survey reopened in 1946 after the Second World War and expanded across the North Atlantic to North America from 1959. Taxonomic studies were initiated and an emphasis was placed on patterns of distribution, which were seen to reflect the varying oceanographic conditions. The years 1968-1976 saw further expansion with operations even in the American Great Lakes, publication of a Plankton Atlas and initial evidence for a downward trend in plankton biomass. At about this time electronic instrumentation was attached to CPRs to make additional measurements and work was started on the development of a new generation of undulating Continuous Plankton and Environmental Recorders (CPERs). In 1976 the survey moved to Plymouth. Scientific priorities in the UK changed in the subsequent decade and funding became more difficult to secure even though some of the CPR papers being published at the time are now regarded as classics in plankton ecology. In 1988 the UK Natural Environment Research Council (NERC) decided to close the survey. An international rescue operation led to the creation of the Sir Alister Hardy Foundation for Ocean Science (SAHFOS) in 1990, which has continued with consortium funding from a number of countries, and from 1999 again included NERC. The scientific rationale of the survey has gained credibility as concern over climate change and other anthropogenic effects has grown and as the key role that plankton plays as an indicator of large-scale environmental conditions becomes ever more apparent. Recently, the survey became an integral component of the Global Ocean Observation System (GOOS) and expanded into the North Pacific. It plays a complementary role in many large international and multidisciplinary projects and is providing inspiration, advice and support to daughter surveys elsewhere in the world. At the start of a new millennium, Hardy’s vision from the 1920s is a powerful driving force not just in international biological oceanography, but in global environmental science.

Multiplexed microfluidic approach for nucleic acid enrichment

DOEpatents

VanderNoot, Victoria A.; Langevin, Stanley Alan; Bent, Zachary; Renzi, Ronald F.; Ferko, Scott M.; Van De Vreugde, James L.; Lane, Todd; Patel, Kamlesh; Branda, Steven

2016-04-26

A system for enhancing a nucleic acid sample may include a one pump, a denaturing chamber; a microfluidic hydroxyapatite chromatography device configured for performing hydroxyapatite chromatography on the nucleic acid sample, a sample collector, and tubing connecting the pump with the denaturing chamber, the hydroxyapatite chromatography device and the sample collector such that the pump may be used to move the nucleic acid sample from the denaturing chamber to the hydroxyapatite chromatography device and then to the sample collector.

Impacts of mesoscale eddies on biogeochemical cycles in the South China Sea

NASA Astrophysics Data System (ADS)

Xiu, P.; Chai, F.; Guo, M.

2016-02-01

Biogeochemical cycles associated with mesoscale eddies in the South China Sea (SCS) are investigated by using satellite surface chlorophyll concentration, altimeter data, satellite sea surface temperature, and a coupled physical-biogeochemical Pacific Ocean model (ROMS-CoSiNE) simulation for the period from 1991 to 2007. Considering the annual mean, composite analysis reveals that cyclonic eddies are associated with higher concentrations of nutrients, phytoplankton and zooplankton while the anticyclonic eddies are with lower concentrations compared with surrounding waters, which is generally controlled by the eddy pumping mechanism. Dipole structures of vertical fluxes with net upward motion in cyclonic eddies and net downward motion in anticyclonic eddies are also revealed. During the lifetime of an eddy, the evolutions of physical, biological, and chemical structures are not linearly coupled at the eddy core where plankton grow and composition of the community depend not only on the physical and chemical processes but also on the adjustments by the predator-prey relationship. Considering the seasonal variability, we find eddy pumping mechanisms are generally dominant in winter and eddy advection effects are dominant in summer. Over the space, variability of chlorophyll to the west of Luzon Strait and off northwest of Luzon Island are mainly controlled by eddy pumping mechanism. In regions off the Vietnam coast, chlorophyll distributions are generally associated with horizontal eddy advection. This research highlights different mesoscale mechanisms affecting biological structures that can potentially disturb ocean biogeochemical cycling processes in the South China Sea.

What you see is not what you catch: a comparison of concurrently collected net, Optical Plankton Counter, and Shadowed Image Particle Profiling Evaluation Recorder data from the northeast Gulf of Mexico

NASA Astrophysics Data System (ADS)

Remsen, Andrew; Hopkins, Thomas L.; Samson, Scott

2004-01-01

Zooplankton and suspended particles were sampled in the upper 100 m of the Gulf of Mexico with the High Resolution Sampler. This towed-platform can concurrently sample zooplankton with plankton nets, an Optical Plankton Counter (OPC) and the Shadowed Image Particle Profiling and Evaluation Recorder (SIPPER), a zooplankton imaging system. This allowed for direct comparison of mesozooplankton abundance, biomass, taxonomic composition and size distributions between simultaneously collected net samples, OPC data, and digital imagery. While the net data were numerically and taxonomically similar to that of previous studies in the region, analysis of the SIPPER imagery revealed that nets significantly underestimated larvacean, doliolid, protoctist and cnidarian/ctenophore abundance by 300%, 379%, 522% and 1200%, respectively. The inefficiency of the nets in sampling the fragile and gelatinous zooplankton groups led to a dry-weight biomass estimate less than half that of the SIPPER total and suggests that this component of the zooplankton assemblage is more important than previously determined for this region. Additionally, using the SIPPER data we determined that more than 29% of all mesozooplankton-sized particles occurred within 4 mm of another particle and therefore would not be separately counted by the OPC. This suggests that coincident counting is a major problem for the OPC even at the low zooplankton abundances encountered in low latitude oligotrophic systems like the Gulf. Furthermore, we found that the colonial cyanobacterium Trichodesmium was the most abundant recognizable organism in the SIPPER dataset, while it was difficult to quantify with the nets. For these reasons, the traditional method of using net samples to ground truth OPC data would not be adequate in describing the particle assemblage described here. Consequently we suggest that in situ imaging sensors be included in any comprehensive study of mesozooplankton.

Pathogens in Ornamental Waters: A Pilot Study

PubMed Central

Nascimento, Maria; Rodrigues, Joao Carlos; Reis, Lucia; Nogueira, Isabel; Carvalho, Patricia A.; Brandão, João; Duarte, Aida; Jordao, Luisa

2016-01-01

In parks, ornamental waters of easy access and populated with animals are quite attractive to children and yet might hide threats to human health. The present work focuses on the microbiota of the ornamental waters of a Lisboa park, characterized during 2015. The results show a dynamic microbiota integrating human pathogens such as Klebsiella pneumoniae, Aeromonas spp. and Enterobacter spp., and also antibiotic resistant bacteria. K. pneumoniae and Aeromonas spp. were present as planktonic and biofilm organized bacteria. In vitro K. pneumoniae and Aeromonas spp. showed an enhanced ability to assemble biofilm at 25 °C than at 37 °C. Bacteria recovered from biofilm samples showed an increased antibiotic resistance compared to the respective planktonic counterparts. PMID:26891309

Potential Health Benefits of Deep Sea Water: A Review

PubMed Central

Jaafar, A. B.; Mahdzir, A.; Musa, M. N.

2016-01-01

Deep sea water (DSW) commonly refers to a body of seawater that is pumped up from a depth of over 200 m. It is usually associated with the following characteristics: low temperature, high purity, and being rich with nutrients, namely, beneficial elements, which include magnesium, calcium, potassium, chromium, selenium, zinc, and vanadium. Less photosynthesis of plant planktons, consumption of nutrients, and organic decomposition have caused lots of nutrients to remain there. Due to this, DSW has potential to become a good source for health. Research has proven that DSW can help overcome health problems especially related to lifestyle-associated diseases such as cardiovascular disease, diabetes, obesity, cancer, and skin problems. This paper reviews the potential health benefits of DSW by referring to the findings from previous researches. PMID:28105060

Potential Health Benefits of Deep Sea Water: A Review.

PubMed

Mohd Nani, Samihah Zura; Majid, F A A; Jaafar, A B; Mahdzir, A; Musa, M N

2016-01-01

Deep sea water (DSW) commonly refers to a body of seawater that is pumped up from a depth of over 200 m. It is usually associated with the following characteristics: low temperature, high purity, and being rich with nutrients, namely, beneficial elements, which include magnesium, calcium, potassium, chromium, selenium, zinc, and vanadium. Less photosynthesis of plant planktons, consumption of nutrients, and organic decomposition have caused lots of nutrients to remain there. Due to this, DSW has potential to become a good source for health. Research has proven that DSW can help overcome health problems especially related to lifestyle-associated diseases such as cardiovascular disease, diabetes, obesity, cancer, and skin problems. This paper reviews the potential health benefits of DSW by referring to the findings from previous researches.

ZOOPLANKTON - PHYTOPLANKTON BIOMASS SEZE STRUCTURE IN NEARSHORE REGIONS OF LAKE SUPERIOR

EPA Science Inventory

Presentation addresses new technologies and new strategies for developing biological indicators to assess the Great Lakes . . . We assessed biomass size-spectra acquired with an optical plankton counter (OPC) or laser optical counter (LOPC) and phytoplankton samples analyzed with...

Quantifying Microplastic Pollution in the Mohawk River, Eastern New York State

NASA Astrophysics Data System (ADS)

Smith, J. A.; Hodge, J.; Kurtz, B. G.; Garver, J. I.

2016-12-01

We are investigating the extent to which microplastic particles are reaching the Mohawk River in upstate New York. Microplastics are commonly defined as plastic particles less than 5 mm in diameter, whether deliberately manufactured to be that size or resulting from the fragmentation or erosion of larger pieces of plastic. Despite recent legislative bans, many personal care products such as facial scrubs still use tiny particles of plastic as abrasives. Plastic fibers also make up part of the microplastic load potentially reaching waterways. Microplastic particles are a health hazard for aquatic organisms and an undesirable component of public water supplies. The Mohawk River is the main tributary of the Hudson River, coinciding with the Erie Canal for stretches downriver from Rome, NY, and serves as both the outfall for wastewater treatment plants and the water supply for several municipalities. In some cities along the Mohawk River (e.g., Utica, NY), combined sewer overflows (CSOs) deliver untreated sewage and stormwater directly to the river during heavy rainfall events, increasing the likelihood of microplastic pollution. We used a manta trawl deployed from a rigid inflatable boat to collect 60 samples of planktonic material along the 112-mile section of the Mohawk River and/or Erie Canal between Rome, NY, and the Crescent Dam in Cohoes, NY. Each trawl lasted for 1 mile. We used an Ekman grab sampler to collect 64 samples of channel sediment along the same section of the Mohawk River and/or Erie Canal. Sample processing for planktonic samples includes sieving and wet peroxide oxidation to remove organic material. Sample processing for sediment grab samples includes drying, sieving, density separation, and wet peroxide oxidation. Anthropogenic particles that contain dye are easiest to spot under a microscope. Laboratory analyses indicate that the majority of the planktonic samples include dyed particles in addition to colorless particles likely to be plastic, and that the greatest abundance of suspected microplastic particles was collected in the natural channel of the Mohawk River downstream of the Utica CSO during a heavy rainfall event. We are using Raman spectroscopy to provide definitive identification of plastics and other anthropogenic materials, including paint.

Oxygen isotope ranking of late Eocene and Oligocene planktonic foraminifers: Implications for Oligocene sea-surface temperatures and global ice-volume

USGS Publications Warehouse

Poore, R.Z.; Matthews, R.K.

1984-01-01

Oxygen isotope analyses of late Eocene and Oligocene planktonic foraminifers from low and middle latitude sites in the Atlantic Basin show that different species from the same samples can yield significantly different isotopic values. The range of isotopic values observed between species is greatest at low-latitudes and declines poleward. Many planktonic foraminifers exhibit a systematic isotopic ranking with respect to each other and can therefore be grouped on the basis of their isotopic ranking. The isotopic ranking of some taxa, however, appears to vary geographically and/or through time. Isotopic and paleontologic data from DSDP Site 522 indicate that commonly used isotopic temperature scales underestimate Oligocene sea surface temperatures. We suggest these temperature scales require revision to reflect the presence of Oligocene glaciation. Comparison of isotopic and paleontologic data from Sites 522, 511 and 277 suggests cold, low-salinity surface waters were present in high southern latitudes during the early Oligocene. Lowsalinity, high latitude surface waters could be caused by Eocene/Oligocene paleogeography or by the production of warm saline bottom water. ?? 1984.

Iodine susceptibility of pseudomonads grown attached to stainless steel surfaces

NASA Technical Reports Server (NTRS)

Pyle, B. H.; McFeters, G. A.

1990-01-01

Pseudomonads were adapted to grow in phosphate-buffered water and on stainless steel surfaces to study the iodine sensitivity of attached and planktonic cells. Cultures adapted to low nutrient growth were incubated at room temperature in a circulating reactor system with stainless steel coupons to allow biofilm formation on the metal surfaces. In some experiments, the reactor was partially emptied and refilled with buffer at each sampling time to simulate a "fill-and-draw" water system. Biofilms of attached bacteria, resuspended biofilm bacteria, and reactor suspension, were exposed to 1 mg l-1 iodine for 2 min. Attached bacterial populations which established on coupons within 3 to 5 days displayed a significant increase in resistance to iodine. Increased resistance was also observed for resuspended cells from the biofilm and planktonic bacteria in the system suspension. Generally, intact biofilms and resuspended biofilm cells were most resistant, followed by planktonic bacteria and phosphate buffer cultures. Thus, biofilm formation on stainless steel surfaces within water systems can result in significantly increased disinfection resistance of commonly-occurring water-borne bacteria that may enhance their ability to colonise water treatment and distribution systems.

A sampler for capturing larval and juvenile Atlantic menhaden

USGS Publications Warehouse

Hedrick, J.D.; Hedrick, L.R.; Margraf, F.J.

2005-01-01

Interest in capturing larval and juvenile Atlantic menhaden Brevoortia tyrannus for use in laboratory studies required the design and construction of a sampling device that would allow us to make collections of live fish from open-water areas. Our device for capturing 1-2.5-in larval-juvenile fish was constructed of a stainless steel frame that supported a 9.84-ft-long (3-m-long)5 cone plankton net with a 3.28-ft-diameter (1-m-diameter) opening and a 0.04-in (1-mm) mesh size. Although the plankton net was similar to that used during typical larval fish collections, the cod end was constructed of Plexiglas and was nearly watertight; this prevented impingement and injury to larval fish and provided a calm-water environment. The cod end was designed for quick release from the plankton net, and the entire cod end could be submerged into a 75-gal onboard holding tank. This design and technique obviated the netting or emerging of fish from the water until they were returned to the laboratory. ?? Copyright by the American Fisheries Society 2005.

Moderate effect of damming the Romaine River (Quebec, Canada) on coastal plankton dynamics

NASA Astrophysics Data System (ADS)

Senneville, Simon; Schloss, Irene R.; St-Onge Drouin, Simon; Bélanger, Simon; Winkler, Gesche; Dumont, Dany; Johnston, Patricia; St-Onge, Isabelle

2018-04-01

Rivers' damming disrupts the seasonal cycle of freshwater and nutrient inputs into the marine system, which can lead to changes in coastal plankton dynamics. Here we use a 3-D 5-km resolution coupled biophysical model and downscale it to a 400-m resolution to simulate the effect of damming the Romaine River in Québec, Canada, which discharges on average 327 m3 s-1 of freshwater into the northern Gulf of St. Lawrence. Model results are compared with environmental data obtained from 2 buoys and in situ sampling near the Romaine River mouth during the 2013 spring-summer period. Noteworthy improvements are made to the light attenuation parametrization and the trophic links of the biogeochemical model. The modelled variables reproduced most of the observed levels of variability. Comparisons between natural and regulated discharge simulation show differences in primary production and in the dominance of plankton groups in the Romaine River plume. The maximum increase in primary production when averaged over the inner part of Mingan Archipelago is 41%, but 7.1% when the primary production anomaly is averaged from March to September.

Aminoglycoside inhibition of Staphylococcus aureus biofilm formation is nutrient dependent

PubMed Central

Hess, Donavon J.; Wells, Carol L.

2014-01-01

Biofilms represent microbial communities, encased in a self-produced matrix or extracellular polymeric substance. Microbial biofilms are likely responsible for a large proportion of clinically significant infections and the multicellular nature of biofilm existence has been repeatedly associated with antibiotic resistance. Classical in vitro antibiotic-susceptibility testing utilizes artificial growth media and planktonic microbes, but this method may not account for the variability inherent in environments subject to biofilm growth in vivo. Experiments were designed to test the hypothesis that nutrient concentration can modulate the antibiotic susceptibility of Staphylococcus aureus biofilms. Developing S. aureus biofilms initiated on surgical sutures, and in selected experiments planktonic cultures, were incubated for 16 h in 66 % tryptic soy broth, 0.2 % glucose (1× TSBg), supplemented with bactericidal concentrations of gentamicin, streptomycin, ampicillin or vancomycin. In parallel experiments, antibiotics were added to growth medium diluted one-third (1/3× TSBg) or concentrated threefold (3× TSBg). Following incubation, viable bacteria were enumerated from planktonic cultures or suture sonicates, and biofilm biomass was assayed using spectrophotometry. Interestingly, bactericidal concentrations of gentamicin (5 µg gentamicin ml−1) and streptomycin (32 µg streptomycin ml−1) inhibited biofilm formation in samples incubated in 1/3× or 1× TSBg, but not in samples incubated in 3× TSBg. The nutrient dependence of aminoglycoside susceptibility is not only associated with biofilm formation, as planktonic cultures incubated in 3× TSBg in the presence of gentamicin also showed antibiotic resistance. These findings appeared specific for aminoglycosides because biofilm formation was inhibited in all three growth media supplemented with bactericidal concentrations of the cell wall-active antibiotics, ampicillin and vancomycin. Additional experiments showed that the ability of 3× TSBg to overcome the antibacterial effects of gentamicin was associated with decreased uptake of gentamicin by S. aureus. Uptake is known to be decreased at low pH, and the kinetic change in pH of growth medium from biofilms incubated in 5 µg gentamicin ml−1 in the presence of 3× TSBg was decreased when compared with pH determinations from biofilms formed in 1/3× or 1× TSBg. These studies underscore the importance of environmental factors, including nutrient concentration and pH, on the antibiotic susceptibility of S. aureus planktonic and biofilm bacteria. PMID:24696518

Understanding and eliminating artifact signals from diffusely scattered pump beam in measurements of rough samples by time-domain thermoreflectance (TDTR).

PubMed

Sun, Bo; Koh, Yee Kan

2016-06-01

Time-domain thermoreflectance (TDTR) is a pump-probe technique frequently applied to measure the thermal transport properties of bulk materials, nanostructures, and interfaces. One of the limitations of TDTR is that it can only be employed to samples with a fairly smooth surface. For rough samples, artifact signals are collected when the pump beam in TDTR measurements is diffusely scattered by the rough surface into the photodetector, rendering the TDTR measurements invalid. In this paper, we systemically studied the factors affecting the artifact signals due to the pump beam leaked into the photodetector and thus established the origin of the artifact signals. We find that signals from the leaked pump beam are modulated by the probe beam due to the phase rotation induced in the photodetector by the illumination of the probe beam. As a result of the modulation, artifact signals due to the leaked pump beam are registered in TDTR measurements as the out-of-phase signals. We then developed a simple approach to eliminate the artifact signals due to the leaked pump beam. We verify our leak-pump correction approach by measuring the thermal conductivity of a rough InN sample, when the signals from the leaked pump beam are significant. We also discuss the advantages of our new method over the two-tint approach and its limitations. Our new approach enables measurements of the thermal conductivity of rough samples using TDTR.

Understanding and eliminating artifact signals from diffusely scattered pump beam in measurements of rough samples by time-domain thermoreflectance (TDTR)

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

Sun, Bo; Koh, Yee Kan, E-mail: mpekyk@nus.edu.sg; Centre of Advanced 2D Materials, National University of Singapore, Singapore 117542

Time-domain thermoreflectance (TDTR) is a pump-probe technique frequently applied to measure the thermal transport properties of bulk materials, nanostructures, and interfaces. One of the limitations of TDTR is that it can only be employed to samples with a fairly smooth surface. For rough samples, artifact signals are collected when the pump beam in TDTR measurements is diffusely scattered by the rough surface into the photodetector, rendering the TDTR measurements invalid. In this paper, we systemically studied the factors affecting the artifact signals due to the pump beam leaked into the photodetector and thus established the origin of the artifact signals.more » We find that signals from the leaked pump beam are modulated by the probe beam due to the phase rotation induced in the photodetector by the illumination of the probe beam. As a result of the modulation, artifact signals due to the leaked pump beam are registered in TDTR measurements as the out-of-phase signals. We then developed a simple approach to eliminate the artifact signals due to the leaked pump beam. We verify our leak-pump correction approach by measuring the thermal conductivity of a rough InN sample, when the signals from the leaked pump beam are significant. We also discuss the advantages of our new method over the two-tint approach and its limitations. Our new approach enables measurements of the thermal conductivity of rough samples using TDTR.« less

Concentration comparison of selected constituents between groundwater samples collected within the Missouri River alluvial aquifer using purge and pump and grab-sampling methods, near the city of Independence, Missouri, 2013

USGS Publications Warehouse

Krempa, Heather M.

2015-10-29

Relative percent differences between methods were greater than 10 percent for most analyzed trace elements. Barium, cobalt, manganese, and boron had concentrations that were significantly different between sampling methods. Barium, molybdenum, boron, and uranium method concentrations indicate a close association between pump and grab samples based on bivariate plots and simple linear regressions. Grab sample concentrations were generally larger than pump concentrations for these elements and may be because of using a larger pore sized filter for grab samples. Analysis of zinc blank samples suggests zinc contamination in filtered grab samples. Variations of analyzed trace elements between pump and grab samples could reduce the ability to monitor temporal changes and potential groundwater contamination threats. The degree of precision necessary for monitoring potential groundwater threats and application objectives need to be considered when determining acceptable variation amounts.

Neutral carbohydrate geochemistry of particulate material in the central equatorial Pacific

NASA Astrophysics Data System (ADS)

Hernes, Peter J.; Hedges, John I.; Peterson, Michael L.; Wakeham, Stuart G.; Lee, Cindy

Neutral carbohydrate compositions were determined for particulate samples from plankton net tows, shallow floating sediment traps, mid-depth and deep moored sediment traps, and sediment cores collected along a north-south transect in the central equatorial Pacific Ocean during the U.S. JGOFS EqPac program. Total neutral carbohydrate depth profiles and patterns along the transect follow essentially the same trends as bulk and organic carbon (OC) fluxes—attenuating with depth, high near the equator and decreasing poleward. OC-normalized total aldose (TCH 2,O) yields along the transect and with depth do not show any consitent patterns. Relative to a planktonic source, neutral carbohydrate compositions in sediment trap and sediment core samples reflect preferential loss of ribose and storage carbohydrates rich in glucose, and preferential preservation of structural carbohydrates rich in rhamnose, xylose, fucose, and mannose. There is also evidence for an intermediately labile component rich in galactose. It appears that compositional signatures of neutral carbohydrates in sediments are more dependent upon their planktonic source than on any particular diagenetic pathway. Relative to other types of organic matter, neutral carbohydrates are better preserved in calcareous oozes from 12°S to 5°N than in red clays at 9°N based on OC-normalized TCH 2O yields, due to either differing sources or sorption characteristics. Weight per cent glucose generally decreases with increased degradation of organic material in the central equatorial Pacific region. Based on weight per cent glucose, comparisons of samples between Survey I (El Niõn) and Survey II (non-El Niño) indicate that during Survey I, organic material in the epipelagic zone in the northern hemisphere may have undergone more degradation than organic material in the southern hemisphere.

The effect of carbon subsidies on marine planktonic niche partitioning and recruitment during biofilm assembly

PubMed Central

Pepe-Ranney, Charles; Hall, Edward K.

2015-01-01

The influence of resource availability on planktonic and biofilm microbial community membership is poorly understood. Heterotrophic bacteria derive some to all of their organic carbon (C) from photoautotrophs while simultaneously competing with photoautotrophs for inorganic nutrients such as phosphorus (P) or nitrogen (N). Therefore, C inputs have the potential to shift the competitive balance of aquatic microbial communities by increasing the resource space available to heterotrophs (more C) while decreasing the resource space available to photoautotrophs (less mineral nutrients due to increased competition from heterotrophs). To test how resource dynamics affect membership of planktonic communities and assembly of biofilm communities we amended a series of flow-through mesocosms with C to alter the availability of C among treatments. Each mesocosm was fed with unfiltered seawater and incubated with sterilized microscope slides as surfaces for biofilm formation. The highest C treatment had the highest planktonic heterotroph abundance, lowest planktonic photoautotroph abundance, and highest biofilm biomass. We surveyed bacterial 16S rRNA genes and plastid 23S rRNA genes to characterize biofilm and planktonic community membership and structure. Regardless of resource additions, biofilm communities had higher alpha diversity than planktonic communities in all mesocosms. Heterotrophic plankton communities were distinct from heterotrophic biofilm communities in all but the highest C treatment where heterotrophic plankton and biofilm communities resembled each other after 17 days. Unlike the heterotrophs, photoautotrophic plankton communities were different than photoautotrophic biofilm communities in composition in all treatments including the highest C treatment. Our results suggest that although resource amendments affect community membership and structure, microbial lifestyle (biofilm vs. planktonic) has a stronger influence on community composition. PMID:26236289

Gas-driven pump for ground-water samples

USGS Publications Warehouse

Signor, Donald C.

1978-01-01

Observation wells installed for artificial-recharge research and other wells used in different ground-water programs are frequently cased with small-diameter steel pipe. To obtain samples from these small-diameter wells in order to monitor water quality, and to calibrate solute-transport models, a small-diameter pump with unique operating characteristics is required that causes a minimum alternation of samples during field sampling. A small-diameter gas-driven pump was designed and built to obtain water samples from wells of two-inch diameter or larger. The pump is a double-piston type with the following characteristics: (1) The water sample is isolated from the operating gas, (2) no source of electricity is ncessary, (3) operation is continuous, (4) use of compressed gas is efficient, and (5) operation is reliable over extended periods of time. Principles of operation, actual operation techniques, gas-use analyses and operating experience are described. Complete working drawings and a component list are included. Recent modifications and pump construction for high-pressure applications also are described. (Woodard-USGS)

Activities of Fluconazole, Caspofungin, Anidulafungin, and Amphotericin B on Planktonic and Biofilm Candida Species Determined by Microcalorimetry

PubMed Central

Maiolo, Elena Maryka; Furustrand Tafin, Ulrika; Borens, Olivier

2014-01-01

We investigated the activities of fluconazole, caspofungin, anidulafungin, and amphotericin B against Candida species in planktonic form and biofilms using a highly sensitive assay measuring growth-related heat production (microcalorimetry). C. albicans, C. glabrata, C. krusei, and C. parapsilosis were tested, and MICs were determined by the broth microdilution method. The antifungal activities were determined by isothermal microcalorimetry at 37°C in RPMI 1640. For planktonic Candida, heat flow was measured in the presence of antifungal dilutions for 24 h. Candida biofilm was formed on porous glass beads for 24 h and exposed to serial dilutions of antifungals for 24 h, and heat flow was measured for 48 h. The minimum heat inhibitory concentration (MHIC) was defined as the lowest antifungal concentration reducing the heat flow peak by ≥50% (≥90% for amphotericin B) at 24 h for planktonic Candida and at 48 h for Candida biofilms (measured also at 24 h). Fluconazole (planktonic MHICs, 0.25 to >512 μg/ml) and amphotericin B (planktonic MHICs, 0.25 to 1 μg/ml) showed higher MHICs than anidulafungin (planktonic MHICs, 0.015 to 0.5 μg/ml) and caspofungin (planktonic MHICs, 0.125 to 0.5 μg/ml). Against Candida species in biofilms, fluconazole's activity was reduced by >1,000-fold compared to its activity against the planktonic counterparts, whereas echinocandins and amphotericin B mainly preserved their activities. Fluconazole induced growth of planktonic C. krusei at sub-MICs. At high concentrations of caspofungin (>4 μg/ml), paradoxical growth of planktonic C. albicans and C. glabrata was observed. Microcalorimetry enabled real-time evaluation of antifungal activities against planktonic and biofilm Candida organisms. It can be used in the future to evaluate new antifungals and antifungal combinations and to study resistant strains. PMID:24566186

AN EVALUATION OF PERSONAL SAMPLING PUMPS IN SUB-ZERO TEMPERATURES

EPA Science Inventory

Personal sampling pumps suitable for industrial hygiene surveys were evaluated to discover their characteristics as a function of temperature for temperatures between 25 and -50C. The pumps evaluated were significantly influenced by low temperatures. In general, most provided a s...

Environmental bacteriophages active on biofilms and planktonic forms of toxigenic Vibrio cholerae: Potential relevance in cholera epidemiology.

PubMed

Naser, Iftekhar Bin; Hoque, M Mozammel; Abdullah, Ahmed; Bari, S M Nayeemul; Ghosh, Amar N; Faruque, Shah M

2017-01-01

Phages isolated from environmental waters in Bangladesh were tested for their host specificity towards V. cholerae O1 and O139, and the ability to disperse V. cholerae biofilms formed in the laboratory. Representative phages were further characterized by electron microscopy and whole genome sequencing. Selected phages were then introduced in various combinations to biofilms of toxigenic V. cholerae added to samples of river water, and the dispersion of biofilms as well as the growth kinetics of V. cholerae and the phages were monitored. A phage cocktail composed of three different phages isolated from surface waters in Bangladesh and designated as JSF7, JSF4, and JSF3 could significantly influence the distribution and concentration of the active planktonic form and biofilm associated form of toxigenic V. cholerae in water. While JSF7 showed a biofilm degrading activity and dispersed cells from both V. cholerae O1 and O139 derived biofilms thus increasing the concentration of planktonic V. cholerae in water, JSF4 and JSF3 showed strong bactericidal activity against V. cholerae O1 and O139 respectively. A mixture of all three phages could effectively reduce both biofilm-associated and planktonic V. cholerae in river water microcosms. Besides potential applicability in phage-mediated control of cholera, our results have relevance in appreciating possible intricate role of diverse environmental phages in the epidemiology of the disease, since both biofilms and phages influence the prevalence and infectivity of V. cholerae in a variety of ways.

Spatial variability in plankton biomass and hydrographic variables along an axial transect in Chesapeake Bay

NASA Astrophysics Data System (ADS)

Zhang, X.; Roman, M.; Kimmel, D.; McGilliard, C.; Boicourt, W.

2006-05-01

High-resolution, axial sampling surveys were conducted in Chesapeake Bay during April, July, and October from 1996 to 2000 using a towed sampling device equipped with sensors for depth, temperature, conductivity, oxygen, fluorescence, and an optical plankton counter (OPC). The results suggest that the axial distribution and variability of hydrographic and biological parameters in Chesapeake Bay were primarily influenced by the source and magnitude of freshwater input. Bay-wide spatial trends in the water column-averaged values of salinity were linear functions of distance from the main source of freshwater, the Susquehanna River, at the head of the bay. However, spatial trends in the water column-averaged values of temperature, dissolved oxygen, chlorophyll-a and zooplankton biomass were nonlinear along the axis of the bay. Autocorrelation analysis and the residuals of linear and quadratic regressions between each variable and latitude were used to quantify the patch sizes for each axial transect. The patch sizes of each variable depended on whether the data were detrended, and the detrending techniques applied. However, the patch size of each variable was generally larger using the original data compared to the detrended data. The patch sizes of salinity were larger than those for dissolved oxygen, chlorophyll-a and zooplankton biomass, suggesting that more localized processes influence the production and consumption of plankton. This high-resolution quantification of the zooplankton spatial variability and patch size can be used for more realistic assessments of the zooplankton forage base for larval fish species.

Foraminiferal biostratigraphy of the Miocene Qom Formation, northwest of the Qom, Central Iran

NASA Astrophysics Data System (ADS)

Daneshian, Jahanbakhsh; Ramezani Dana, Leila

2018-03-01

Near Dochah, in the type area of the Qom Formation, Central Iran, the Miocene is partly developed in pelagic facies. From the 894.1 meter thick, `a to e' members of this section, 152 samples were collected. Abundant planktonic foraminifera let us correlate the study section with the global planktonic foraminifera biozonations. High diversity of foraminifera in the study section allow us to adapt the study succession to global biozonations. Twenty-seven genera and thirty-four species are reported for the first time from the Dochah section. First reports of Praeorbulina sicana and Praeorbulina transitoria in the upper part of this section led to recognition of the Praeorbulina sicana lower occurrence subzone (M5a) biozone with a late Late Burdigalian age.

Open ocean pelago-benthic coupling: cyanobacteria as tracers of sedimenting salp faeces

NASA Astrophysics Data System (ADS)

Pfannkuche, Olaf; Lochte, Karin

1993-04-01

Coupling between surface water plankton and abyssal benthos was investigated during a mass development of salps ( Salpa fusiformis) in the Northeast Atlantic. Cyanobacteria numbers and composition of photosynthetic pigments were determined in faeces of captured salps from surface waters, sediment trap material, detritus from plankton hauls, surface sediments from 4500-4800 m depth and Holothurian gut contents. Cyanobacteria were found in all samples containing salp faeces and also in the guts of deep-sea Holothuria. The ratio between zeaxanthin (typical of cyanobacteria) and sum of chlorophyll a pigments was higher in samples from the deep sea when compared to fresh salp faeces, indicating that this carotenoid persisted longer in the sedimenting material than total chlorophyll a pigments. The microscopic and chemical observations allowed us to trace sedimenting salp faeces from the epipelagial to the abyssal benthos, and demonstrated their role as a fast and direct link between both systems. Cyanobacteria may provide a simple tracer for sedimenting phytodetritus.

Tara Oceans: Eco-Systems Biology at Planetary Scale

NASA Astrophysics Data System (ADS)

Bowler, C.; Malviya, S.

2016-02-01

The ocean is the largest ecosystem on Earth and yet we know very little about the plankton that drift within. To increase our understanding of this underexplored world a multidisciplinary consortium, Tara Oceans, was formed around the 110-ft research schooner Tara, which sampled plankton at more than 210 sites and multiple depth layers in all the major oceanic regions during expeditions from 2009-2013 (Karsenti et al. Plos Biol., 2011). The presentation will describe the first foundational resources from the project (based on a first data freeze from 579 samples at 75 stations; see Science special issue May 22, 2015) and their initial analyses, illustrating several aspects of the Tara Oceans' eco-systems biology approach. The project provides unique resources for several scientific disciplines, capturing biodiversity of a wide range of organisms that are rarely studied together, exploring interactions between them and integrating them with environmental conditions to further our understanding of life in the ocean and beyond in the context of ongoing climate changes.

Comparison of diffusion- and pumped-sampling methods to monitor volatile organic compounds in ground water, Massachusetts Military Reservation, Cape Cod, Massachusetts, July 1999-December 2002

USGS Publications Warehouse

Archfield, Stacey A.; LeBlanc, Denis R.

2005-01-01

To evaluate diffusion sampling as an alternative method to monitor volatile organic compound (VOC) concentrations in ground water, concentrations in samples collected by traditional pumped-sampling methods were compared to concentrations in samples collected by diffusion-sampling methods for 89 monitoring wells at or near the Massachusetts Military Reservation, Cape Cod. Samples were analyzed for 36 VOCs. There was no substantial difference between the utility of diffusion and pumped samples to detect the presence or absence of a VOC. In wells where VOCs were detected, diffusion-sample concentrations of tetrachloroethene (PCE) and trichloroethene (TCE) were significantly lower than pumped-sample concentrations. Because PCE and TCE concentrations detected in the wells dominated the calculation of many of the total VOC concentrations, when VOC concentrations were summed and compared by sampling method, visual inspection also showed a downward concentration bias in the diffusion-sample concentration. The degree to which pumped- and diffusion-sample concentrations agreed was not a result of variability inherent within the sampling methods or the diffusion process itself. A comparison of the degree of agreement in the results from the two methods to 13 quantifiable characteristics external to the sampling methods offered only well-screen length as being related to the degree of agreement between the methods; however, there is also evidence to indicate that the flushing rate of water through the well screen affected the agreement between the sampling methods. Despite poor agreement between the concentrations obtained by the two methods at some wells, the degree to which the concentrations agree at a given well is repeatable. A one-time, well-bywell comparison between diffusion- and pumped-sampling methods could determine which wells are good candidates for the use of diffusion samplers. For wells with good method agreement, the diffusion-sampling method is a time-saving and cost-effective alternative to pumped-sampling methods in a long-term monitoring program, such as at the Massachusetts Military Reservation.

Catch me if you can: Comparing ballast water sampling skids to traditional net sampling

NASA Astrophysics Data System (ADS)

Bradie, Johanna; Gianoli, Claudio; Linley, Robert Dallas; Schillak, Lothar; Schneider, Gerd; Stehouwer, Peter; Bailey, Sarah

2018-03-01

With the recent ratification of the International Convention for the Control and Management of Ships' Ballast Water and Sediments, 2004, it will soon be necessary to assess ships for compliance with ballast water discharge standards. Sampling skids that allow the efficient collection of ballast water samples in a compact space have been developed for this purpose. We ran 22 trials on board the RV Meteor from June 4-15, 2015 to evaluate the performance of three ballast water sampling devices (traditional plankton net, Triton sampling skid, SGS sampling skid) for three organism size classes: ≥ 50 μm, ≥ 10 μm to < 50 μm, and < 10 μm. Natural sea water was run through the ballast water system and untreated samples were collected using paired sampling devices. Collected samples were analyzed in parallel by multiple analysts using several different analytic methods to quantify organism concentrations. To determine whether there were differences in the number of viable organisms collected across sampling devices, results were standardized and statistically treated to filter out other sources of variability, resulting in an outcome variable representing the mean difference in measurements that can be attributed to sampling devices. These results were tested for significance using pairwise Tukey contrasts. Differences in organism concentrations were found in 50% of comparisons between sampling skids and the plankton net for ≥ 50 μm, and ≥ 10 μm to < 50 μm size classes, with net samples containing either higher or lower densities. There were no differences for < 10 μm organisms. Future work will be required to explicitly examine the potential effects of flow velocity, sampling duration, sampled volume, and organism concentrations on sampling device performance.

Chemical pump study for Pioneer Venus program

NASA Technical Reports Server (NTRS)

Rotheram, M.

1973-01-01

Two chemical pumps were designed for the Pioneer Venus large probe mass spectrometer. Factors involved in the design selection are reviewed. One pump is designed to process a sample of the Venus atmosphere to remove the major component, carbon dioxide, so that the minor, inert components may be measured with greater sensitivity. The other pump is designed to promote flow of atmospheric gas through a pressure reduction inlet system. This pump, located downstream from the mass spectrometer sampling point, provides the pressure differential required for flow through the inlet system. Both pumps utilize the reaction of carbon dioxide with lithium hydroxide. The available data for this reaction was reviewed with respect to the proposed applications, and certain deficiencies in reaction rate data at higher carbon dioxide pressures noted. The chemical pump designed for the inert gas experiment has an estimated volume of 30 cu cm and weight of 80 grams, exclusive of the four valves required for the operation. The chemical pump for the pressure reduction inlet system is designed for a total sample of 0.3 bar liter during the Venus descent.

Different mixing techniques in experimental mesocosms—does mixing affect plankton biomass and community composition?

PubMed Central

Striebel, Maren; Kirchmaier, Leo; Hingsamer, Peter

2014-01-01

Over the past four decades, mesocosm studies have been successfully used for a wide range of applications and have provided a lot of information on trophic interactions and biogeochemical cycling of aquatic ecosystem. However, the setup of such mesocosms (e.g., dimensions and duration of experiments) needs to be adapted to the relevant biological processes being investigated. Mixing of the water column is an important factor to be considered in mesocosm experiments because enclosing water in an artificial chamber always alters the mixing regime. Various approaches have been applied to generate mixing in experimental ecosystems, including pure mechanical mixing (e.g., using a disc), airlifts, bubbling with compressed air, and pumping. In this study, we tested different mixing techniques for outdoor mesocosms and their impact on plankton biomass and community composition. We compared mesocosms mixed with a disc, an airlift-system, and bubbling, and used a nonactively mixed mesocosm as a control. We investigated phytoplankton, ciliate, and zooplankton communities during a 19-d mesocosm experiment. Based on our results, we concluded that mechanical mixing with a disc was the most effective technique due to the undertow produced by lowering and lifting the disc. While no mixing technique affected seston biomass, zooplankton biomass was highest in the treatments mixed with the disc. The airlift treatments had the lowest relative share of small flagellates. However, no further differences in phytoplankton community composition occurred and no differences in zooplankton community composition existed between all actively mixed treatments. PMID:25729335

Lead (Pb) contamination of self-supply groundwater systems in coastal Madagascar and predictions of blood lead levels in exposed children.

PubMed

Akers, D Brad; MacCarthy, Michael F; Cunningham, Jeffrey A; Annis, Jonathan; Mihelcic, James R

2015-03-03

Thousands of households in coastal Madagascar rely on locally manufactured pitcher-pump systems to provide water for drinking, cooking, and household use. These pumps typically include components made from lead (Pb). In this study, concentrations of Pb in water were monitored at 18 household pitcher pumps in the city of Tamatave over three sampling campaigns. Concentrations of Pb frequently exceeded the World Health Organization's provisional guideline for drinking water of 10 μg/L. Under first-draw conditions (i.e., after a pump had been inactive for 1 h), 67% of samples analyzed were in excess of 10 μg/L Pb, with a median concentration of 13 μg/L. However, flushing the pump systems before collecting water resulted in a statistically significant (p < 0.0001) decrease in Pb concentrations: 35% of samples collected after flushing exceeded 10 μg/L, with a median concentration of 9 μg/L. Based on measured Pb concentrations, a biokinetic model estimates that anywhere from 15% to 70% of children living in households with pitcher pumps may be at risk for elevated blood lead levels (>5 μg/dL). Measured Pb concentrations in water were not correlated at statistically significant levels with pump-system age, well depth, system manufacturer, or season of sample collection; only the contact time (i.e., flushed or first-draw condition) was observed to correlate significantly with Pb concentrations. In two of the 18 systems, Pb valve weights were replaced with iron, which decreased the observed Pb concentrations in the water by 57-89% in one pump and by 89-96% in the other. Both systems produced samples exclusively below 10 μg/L after substitution. Therefore, relatively straightforward operational changes on the part of the pump-system manufacturers and pump users might reduce Pb exposure, thereby helping to ensure the continued sustainability of pitcher pumps in Madagascar.

Automated fluid analysis apparatus and techniques

DOEpatents

Szecsody, James E.

2004-03-16

An automated device that couples a pair of differently sized sample loops with a syringe pump and a source of degassed water. A fluid sample is mounted at an inlet port and delivered to the sample loops. A selected sample from the sample loops is diluted in the syringe pump with the degassed water and fed to a flow through detector for analysis. The sample inlet is also directly connected to the syringe pump to selectively perform analysis without dilution. The device is airtight and used to detect oxygen-sensitive species, such as dithionite in groundwater following a remedial injection to treat soil contamination.

In vitro effects of ambroxol on Cryptococcus adherence, planktonic cells, and biofilms.

PubMed

Kong, Qingtao; Du, Xue; Huang, Suyang; Yang, Rui; Zhang, Chengzhen; Shen, Yongnian; Liu, Weida; Sang, Hong

2017-07-01

The antifungal effects of ambroxol (Amb; the metabolite VIII of bromhexine) against Cryptococcus planktonic cells and mature biofilms were investigated in this study. Amb showed antifungal activity against planktonic cells and mature biofilms. Disk diffusion test similarly showed antifungal profile for planktonic cells. Furthermore, Amb was found to be synergetic with fluconazole against planktonic cells and reduced the adherence of cells to polystyrene. Our results suggest that Amb can inhibit cryptococcal cells and biofilms, indicating its potential role in the prevention and treatment of cryptococcosis. © 2017 APMIS. Published by John Wiley & Sons Ltd.

Planktonic Foraminifera Proxies Calibration Off the NW Iberian Margin: Nutrients Approach

NASA Astrophysics Data System (ADS)

Salgueiro, E.; Castro, C. G.; Zuniga, D.; Martin, P. A.; Groeneveld, J.; de la Granda, F.; Villaceiros-Robineau, N.; Alonso-Perez, F.; Alberto, A.; Rodrigues, T.; Rufino, M. M.; Abrantes, F. F. G.; Voelker, A. H. L.

2014-12-01

Planktonic foraminifera (PF) shells preserved in marine sediments are a useful tool to reconstruct productivity conditions at different geological timescales. However, the accuracy of these paleoreconstructions depends on the data set and calibration quality. Several calibration works have been defining and improving the use of proxies for productivity and nutrient cycling parameters. Our contribution is centred on a multi-proxy calibration at a regional coastal upwelling system. To minimize the existing uncertainties affecting the use of trace elements and C stable isotopes as productivity proxy in the high productivity upwelling areas, we investigate the content and distribution of Ba/Ca and δ13C in the water column, its transference into the planktonic foraminifera shells, and, how the living planktonic foraminifera Ba/Ca and δ13C signal is related to the same planktonic foraminiferal species preserved in the sediment record. This study is based on a large data set from two stations (RAIA - 75m water depth, and CALIBERIA - 350m water depth) located off the NW Iberian margin (41.5-42.5ºN; 9-10ºW), and includes: i) two year monthly water column data (temperature, salinity, nutrients, chlorophyll a, Ba/Ca, and δ13C-DIC); ii) seasonal Ba/Ca, δ13C in several living PF species at both stations; and iii) Ba/Ca and δ13C in several PF species from a large set of core-top sediment samples in the study region. Additionally, total organic carbon and total alkenones were also measured in the sediment. Our results showed the link between productivity proxies in the surface sediment foraminifera assemblage and the processes regulating the actual phytoplankton dynamics in an upwelling area. The understanding of this relationship has special relevance since it gives fundamental information related to the past oceanic biogeochemistry and/or climate and improves the prevision of future changes against possible climate variability due to anthropogenic forcing.

Environmental DNA sampling protocol - filtering water to capture DNA from aquatic organisms

USGS Publications Warehouse

Laramie, Matthew B.; Pilliod, David S.; Goldberg, Caren S.; Strickler, Katherine M.

2015-09-29

Environmental DNA (eDNA) analysis is an effective method of determining the presence of aquatic organisms such as fish, amphibians, and other taxa. This publication is meant to guide researchers and managers in the collection, concentration, and preservation of eDNA samples from lentic and lotic systems. A sampling workflow diagram and three sampling protocols are included as well as a list of suggested supplies. Protocols include filter and pump assembly using: (1) a hand-driven vacuum pump, ideal for sample collection in remote sampling locations where no electricity is available and when equipment weight is a primary concern; (2) a peristaltic pump powered by a rechargeable battery-operated driver/drill, suitable for remote sampling locations when weight consideration is less of a concern; (3) a 120-volt alternating current (AC) powered peristaltic pump suitable for any location where 120-volt AC power is accessible, or for roadside sampling locations. Images and detailed descriptions are provided for each step in the sampling and preservation process.

The role of nutricline depth in regulating the ocean carbon cycle.

PubMed

Cermeño, Pedro; Dutkiewicz, Stephanie; Harris, Roger P; Follows, Mick; Schofield, Oscar; Falkowski, Paul G

2008-12-23

Carbon uptake by marine phytoplankton, and its export as organic matter to the ocean interior (i.e., the "biological pump"), lowers the partial pressure of carbon dioxide (pCO(2)) in the upper ocean and facilitates the diffusive drawdown of atmospheric CO(2). Conversely, precipitation of calcium carbonate by marine planktonic calcifiers such as coccolithophorids increases pCO(2) and promotes its outgassing (i.e., the "alkalinity pump"). Over the past approximately 100 million years, these two carbon fluxes have been modulated by the relative abundance of diatoms and coccolithophores, resulting in biological feedback on atmospheric CO(2) and Earth's climate; yet, the processes determining the relative distribution of these two phytoplankton taxa remain poorly understood. We analyzed phytoplankton community composition in the Atlantic Ocean and show that the distribution of diatoms and coccolithophorids is correlated with the nutricline depth, a proxy of nutrient supply to the upper mixed layer of the ocean. Using this analysis in conjunction with a coupled atmosphere-ocean intermediate complexity model, we predict a dramatic reduction in the nutrient supply to the euphotic layer in the coming century as a result of increased thermal stratification. Our findings indicate that, by altering phytoplankton community composition, this causal relationship may lead to a decreased efficiency of the biological pump in sequestering atmospheric CO(2), implying a positive feedback in the climate system. These results provide a mechanistic basis for understanding the connection between upper ocean dynamics, the calcium carbonate-to-organic C production ratio and atmospheric pCO(2) variations on time scales ranging from seasonal cycles to geological transitions.

Dynamics of planktonic prokaryotes and dissolved carbon in a subtropical coastal lake.

PubMed

Fontes, Maria Luiza S; Tonetta, Denise; Dalpaz, Larissa; Antônio, Regina V; Petrucio, Maurício M

2013-01-01

To understand the dynamics of planktonic prokaryotes in a subtropical lake and its relationship with carbon, we conducted water sampling through four 48-h periods in Peri Lake for 1 year. Planktonic prokaryotes were characterized by the abundance and biomass of heterotrophic bacteria (HB) and of cyanobacteria (coccoid and filamentous cells). During all samplings, we measured wind speed, water temperature (WT), pH, dissolved oxygen (DO), precipitation, dissolved organic carbon (DOC), dissolved inorganic carbon (DIC), and carbon dioxide (CO2). DOC was higher in the summer (average = 465 μM - WT = 27°C) and lower in the winter (average = 235 μM - WT = 17°C), with no significant variability throughout the daily cycles. CO2 concentrations presented a different pattern, with a minimum in the warm waters of the summer period (8.31 μM) and a maximum in the spring (37.13 μM). Daily trends were observed for pH, DO, WT, and CO2. At an annual scale, both biological and physical-chemical controls were important regulators of CO2. HB abundance and biomass were higher in the winter sampling (5.60 × 10(9) cells L(-1) and 20.83 μmol C L(-1)) and lower in the summer (1.87 × 10(9) cells L(-1) and 3.95 μmol C L(-1)). Filamentous cyanobacteria (0.23 × 10(8)-0.68 × 10(8) filaments L(-1)) produced up to 167.16 μmol C L(-1) as biomass (during the warmer period), whereas coccoid cyanobacteria contributed only 0.38 μmol C L(-1). Precipitation, temperature, and the biomass of HB were the main regulators of CO2 concentrations. Temperature had a negative effect on the concentration of CO2, which may be indirectly attributed to high heterotroph activity in the autumn and winter periods. DOC was positively correlated with the abundance of total cyanobacteria and negatively with HB. Thus, planktonic prokaryotes have played an important role in the dynamics of both dissolved inorganic and organic carbon in the lake.

Dynamics of Planktonic Prokaryotes and Dissolved Carbon in a Subtropical Coastal Lake

PubMed Central

Fontes, Maria Luiza S.; Tonetta, Denise; Dalpaz, Larissa; Antônio, Regina V.; Petrucio, Maurício M.

2013-01-01

To understand the dynamics of planktonic prokaryotes in a subtropical lake and its relationship with carbon, we conducted water sampling through four 48-h periods in Peri Lake for 1 year. Planktonic prokaryotes were characterized by the abundance and biomass of heterotrophic bacteria (HB) and of cyanobacteria (coccoid and filamentous cells). During all samplings, we measured wind speed, water temperature (WT), pH, dissolved oxygen (DO), precipitation, dissolved organic carbon (DOC), dissolved inorganic carbon (DIC), and carbon dioxide (CO2). DOC was higher in the summer (average = 465 μM – WT = 27°C) and lower in the winter (average = 235 μM – WT = 17°C), with no significant variability throughout the daily cycles. CO2 concentrations presented a different pattern, with a minimum in the warm waters of the summer period (8.31 μM) and a maximum in the spring (37.13 μM). Daily trends were observed for pH, DO, WT, and CO2. At an annual scale, both biological and physical-chemical controls were important regulators of CO2. HB abundance and biomass were higher in the winter sampling (5.60 × 109 cells L−1 and 20.83 μmol C L−1) and lower in the summer (1.87 × 109 cells L−1 and 3.95 μmol C L−1). Filamentous cyanobacteria (0.23 × 108–0.68 × 108 filaments L−1) produced up to 167.16 μmol C L−1 as biomass (during the warmer period), whereas coccoid cyanobacteria contributed only 0.38 μmol C L−1. Precipitation, temperature, and the biomass of HB were the main regulators of CO2 concentrations. Temperature had a negative effect on the concentration of CO2, which may be indirectly attributed to high heterotroph activity in the autumn and winter periods. DOC was positively correlated with the abundance of total cyanobacteria and negatively with HB. Thus, planktonic prokaryotes have played an important role in the dynamics of both dissolved inorganic and organic carbon in the lake. PMID:23579926

Identification of pectenotoxins in plankton, filter feeders, and isolated cells of a Dinophysis acuminata with an atypical toxin profile, from Chile.

PubMed

Blanco, Juan; Alvarez, Gonzalo; Uribe, Eduardo

2007-04-01

A bloom of Dinophysis acuminata produced, in autumn of 2005, a closure of the scallop harvesting in Bahía Inglesa, in the Chilean III region. Isolated cells of this Dinophysis species were shown to contain 180 pg cell(-1) of pectenotoxin 2 but neither okadaic acid nor any of its analogs or derivatives (at least at a detectable level). Examination of plankton and filter-feeder samples covering an area of ca. 350 km, from the location where the toxicity was recorded to Bahía Tongoy, showed that the unique toxin profile found in the first bloom was widespread over that part of Chile and persisted for months. The analysis were carried out by HPLC-ESI-MS using positive ionization mode, with a detection limit below 2 ng of OA mL(-1) of methanolic extract. This is the first report of the presence of pectenotoxins in the plankton of the Pacific coast of America and in the studied filter feeders. This is also the first report of a Dinophysis species containing pectenotoxins and not any toxin of the okadaic acid group.

Eukaryotic Plankton Species Diversity in the Western Channel of the Korea Strait using 18S rDNA Sequences and its Implications for Water Masses

NASA Astrophysics Data System (ADS)

Lee, Sang-Rae; Song, Eun Hye; Lee, Tongsup

2018-03-01

Organisms entering the East Sea (Sea of Japan) through the Korea Strait, together with water, salt, and energy, affect the East Sea ecosystem. In this study, we report on the biodiversity of eukaryotic plankton found in the Western Channel of the Korea Strait for the first time using small subunit ribosomal RNA gene (18S rDNA) sequences. We also discuss the characteristics of water masses and their physicochemical factors. Diverse taxonomic groups were recovered from 18S rDNA clone libraries, including putative novel, higher taxonomic entities affiliated with Cercozoa, Raphidophyceae, Picozoa, and novel marine Stramenopiles. We also found that there was cryptic genetic variation at both the intraspecific and interspecific levels among arthropods, diatoms, and green algae. Specific plankton assemblages were identified at different sampling depths and they may provide useful information that could be used to interpret the origin and the subsequent mixing history of the water masses that contribute to the Tsushima Warm Current waters. Furthermore, the biological information highlighted in this study may help improve our understanding about the complex water mass interactions that were highlighted in the Korea Strait.

Intrinsic speckle noise in in-line particle holography due to polydisperse and continuous particle sizes

NASA Astrophysics Data System (ADS)

Edwards, Philip J.; Hobson, Peter R.; Rodgers, G. J.

2000-08-01

In-line particle holography is subject to image deterioration due to intrinsic speckle noise. The resulting reduction in the signal to noise ratio (SNR) of the replayed image can become critical for applications such as holographic particle velocimetry (HPV) and 3D visualisation of marine plankton. Work has been done to extend the mono-disperse model relevant to HPV to include poly-disperse particle fields appropriate for the visualisation of marine plankton. Continuous and discrete particle fields are both considered. It is found that random walk statistics still apply for the poly-disperse case. The speckle field is simply the summation of the individual speckle patters due to each scatter size. Therefor the characteristic speckle parameter (which encompasses particle diameter, concentration and sample depth) is alos just the summation of the individual speckle parameters. This reduces the SNR calculation to the same form as for the mono-disperse case. For the continuous situation three distributions, power, exponential and Gaussian are discussed with the resulting SNR calcuated. The work presented here was performed as part of the Holomar project to produce a working underwater holographic camera for recording plankton.

Biological Inventory Cape La Croix Creek Watershed, Cape Girardeau County, Missouri.

DTIC Science & Technology

1977-01-01

important stream flow characteristic of Cape La Croix Creek in this region is that it is a losing stream, or one which loses water to the groundwater system...flowing water habitat types (Capt. L7 Croix Creek and tributaries and Mississippi River) on the habitat map. Backwaters and oxbows are aquatic habitats...samples of 30 to 60 liters were collected at aquatic sampling stations 1 through 6 using a #25 plankton net. Sample volumes were dependent upon water

Activity and adaptation of nitrilotriacetate (NTA)-degrading bacteria: field and laboratory studies

NASA Technical Reports Server (NTRS)

McFeters, G. A.; Egli, T.; Wilberg, E.; Alder, A.; Schneider, R.; Suozzi, M.; Giger, W.

1990-01-01

Adaptation of bacterial activity for the degradation of nitrilotriacetate (NTA) was studied using natural sediment samples and an NTA-degrading bacterium (strain ATCC 29600). Sediment samples from a river with persistent levels of NTA had much higher NTA-degradative activity than comparable samples from a less contaminated control site. When sediment from the control site was exposed to high levels of NTA a 5 day lag preceded an abrupt increase in NTA degradation while strain 29600 colonized on sand and grown in the absence of NTA became induced within eight hours. The induction of strain 29600 was compared between bacteria in suspension and cells attached to sand. The sand-associated bacteria became induced 4 to 5 h before the planktonic suspension and displayed over threefold greater specific activity. Suspensions of strain 29600 became adapted within 8 h when placed in membrane diffusion chambers that were immersed within a municipal wastewater reactor containing NTA. These findings support the concept that induction is a part of the process of bacterial adaptation to degrade NTA and sand-associated bacteria can adapt more quickly to and have a greater degradative activity for NTA than planktonic cells.

Total selenium and selenium species in irrigation drain inflows to the Salton Sea, California, October 2007 and January 2008

USGS Publications Warehouse

May, Thomas W.; Walther, Michael J.; Saiki, Michael K.; Brumbaugh, William G.

2008-01-01

This report presents the results for two sampling periods (October 2007 and January 2008) during a 4-year monitoring program to characterize selenium concentrations in selected irrigation drains flowing into the Salton Sea, California. Total selenium, selenium species (selenite, selenate, organoselenium), and total suspended solids were determined in water samples, and total selenium was determined in sediment, detritus, and biota that included algae, plankton, midge larvae (family, Chironomidae), and two fish species?western mosquitofish (Gambusia affinis) and sailfin molly (Poecilia latipinna). In addition, sediments were analyzed for percent total organic carbon and particle size. Mean total selenium concentrations in water for both sampling periods ranged from 0.97 to 64.5 micrograms per liter, predominately as selenate, which is typical of waters where selenium is leached out of selenium-containing marine shales and associated soils under alkaline and oxidizing conditions. Total selenium concentrations (micrograms per gram dry weight) ranged as follows: algae, 0.95 to 5.99; plankton, 0.15 to 19.3; midges, 1.39 to 15.4; fish, 3.71 to 25.1; detritus, 0.85 to 21.7; sediment, 0.32 to 7.28.

Total selenium and selenium species in irrigation drain inflows to the Salton Sea, California, April and July 2008

USGS Publications Warehouse

May, Thomas W.; Walther, Michael J.; Saiki, Michael K.; Brumbaugh, William G.

2009-01-01

This report presents the results for two sampling periods (April 2008 and July 2008) during a 4-year monitoring program to characterize selenium concentrations in selected irrigation drains flowing into the Salton Sea, California. Total selenium, selenium species (dissolved selenite, selenate, organoselenium), and total suspended solids were determined in water samples and total selenium was determined in water column particulates and in sediment, detritus, and biota that included algae, plankton, midge larvae (family, Chironomidae), and two fish species - western mosquitofish (Gambusia affinis) and sailfin molly (Poecilia latipinna). In addition, sediments were analyzed for percent total organic carbon and particle size. Mean total selenium concentrations in water for both sampling periods ranged from 1.93 to 44.2 micrograms per liter, predominately as selenate, which is typical of waters where selenium is leached out of selenium-containing marine shales and associated soils under alkaline and oxidizing conditions. Total selenium concentrations (micrograms per gram dry weight) ranged as follows: algae, 0.75 to 3.39; plankton, 0.88 to 4.03; midges, 2.52 to 44.3; fish, 3.37 to 18.9; detritus, 1.11 to 13.6; sediment, 0.11 to 8.93.

Total selenium and selenium species in irrigation drain inflows to the Salton Sea, California, October 2008 and January 2009

USGS Publications Warehouse

May, Thomas W.; Walther, Michael J.; Saiki, Michael K.; Brumbaugh, William G.

2009-01-01

This report presents the results for two sampling periods (October 2008 and January 2009) during a 4-year monitoring program to characterize selenium concentrations in selected irrigation drains flowing into the Salton Sea, California. Total selenium, selenium species (dissolved selenite, selenate, organoselenium), and total suspended solids were determined in water samples. Total selenium also was determined in water column particulates and in sediment, detritus, and biota that included algae, plankton, midge larvae (family, Chironomidae), and two fish species (western mosquitofish, Gambusia affinis, and sailfin molly, Poecilia latipinna). In addition, sediments were analyzed for percent total organic carbon and particle size. Mean total selenium concentrations in water for both sampling periods ranged from 1.00 to 33.6 micrograms per liter, predominately as selenate, which is typical of waters where selenium is leached out of selenium-containing marine shales and associated soils under alkaline and oxidizing conditions. Total selenium concentrations (micrograms per gram dry weight) ranged as follows: algae, 1.52 to 8.26; plankton, 0.79 to 3.66; midges, 2.68 to 50.6; fish, 3.09 to 30.4; detritus, 1.78 to 58.0; and sediment, 0.42 to 10.0.

Big Numbers for the Big Lake: A Lower Food Web Assessment of Lake Superior (2004-2006)

EPA Science Inventory

Our collaborative binational studies focused on lower trophic levels (plankton, mysids, benthos) of Lake Superior based on comprehensive sampling (2004 to 2006). Information is integrated for a lakewide summary, but also to display patterns among lower food web components by dept...

Fine-scale planktonic habitat partitioning at a shelf-slope front revealed by a high-resolution imaging system

NASA Astrophysics Data System (ADS)

Greer, Adam T.; Cowen, Robert K.; Guigand, Cedric M.; Hare, Jonathan A.

2015-02-01

Ocean fronts represent productive regions of the ocean, but predator-prey interactions within these features are poorly understood partially due to the coarse-scale and biases of net-based sampling methods. We used the In Situ Ichthyoplankton Imaging System (ISIIS) to sample across a front near the Georges Bank shelf edge on two separate sampling days in August 2010. Salinity characterized the transition from shelf to slope water, with isopycnals sloping vertically, seaward, and shoaling at the thermocline. A frontal feature defined by the convergence of isopycnals and a surface temperature gradient was sampled inshore of the shallowest zone of the shelf-slope front. Zooplankton and larval fishes were abundant on the shelf side of the front and displayed taxon-dependent depth distributions but were rare in the slope waters. Supervised automated particle counting showed small particles with high solidity, verified to be zooplankton (copepods and appendicularians), aggregating near surface above the front. Salps were most abundant in zones of intermediate chlorophyll-a fluorescence, distinctly separate from high abundances of other grazers and found almost exclusively in colonial form (97.5%). Distributions of gelatinous zooplankton differed among taxa but tended to follow isopycnals. Fine-scale sampling revealed distinct habitat partitioning of various planktonic taxa, resulting from a balance of physical and biological drivers in relation to the front.

Biofilms and planktonic cells of Deinococcus geothermalis in extreme environments

NASA Astrophysics Data System (ADS)

Panitz, Corinna; Reitz, Guenther; Rabbow, Elke; Rettberg, Petra; Flemming, Hans-Curt; Wingender, Jost; Froesler, Jan

In addition to the several extreme environments on Earth, Space can be considered as just another exceptional environment with a unique mixture of stress factors comprising UV radiation, vacuum, desiccation, temperature, ionizing radiation and microgravity. Life that processes in these environments can depend on the life forms and their state of living. The question is whether there are different strategies for individual microorganisms compared to communities of the same organisms to cope with the different factors of their surroundings. Comparative studies of the survi-val of these communities called biofilms and planktonic cell samples of Deinococcus geothermalis stand at the focal point of the presented investigations. A biofilm is a structured community of microorganisms that live encapsulated in a matrix of extracellular polymeric substances on a surface. Microorganisms living in a biofilm usually have significantly different properties to cooperate than individually living microorganisms of the same species. An advantage of the biofilm is increased resistance to various chemical and physical effects, while the dense extracellular matrix and the outer layer of the cells protect the interior of the microbial consortium. The space experiment BOSS (Biofilm organisms surfing Space) as part the ESA experimental unit EXPOSE R-2 with a planned launch date in July 2014 will be subsequently mounted on the Russian Svesda module outside the ISS. An international team of scientists coordinated by Dr. P. Rettberg will investigate the hypothesis whether microorganisms organized as biofilm outmatch the same microorganisms exposed individually in the long-term survival of the harsh environmental conditions as they occur in space and on Mars. Another protective function in the samples could be dust par-ticles for instance Mars regolith simulant contained inside the biofilms or mixed with the planktonic cells, as additional shelter especially against the extraterrestrial UV radiation. D. geothermalis besides others, like co-cultures of Halomonas muralis and Halococcus morrhuae, Bacillus horneckiae, Chroococcidiopsis CCMEE 029 and Streptomyces + Polaromonas and Arthrobacter strains from volcanic rocks, was involved in the several preparatory test runs at the Planetary and Space Simulation facilities at the German Aerospace Center in Cologne. Results of the already carried out EVTs (Experiment Verification Test) and the SVT (Science verification test) as EXPOSE-R2 mission pre-paration tests, where investigated parameters like dehydration, temperature extremes, extraterrestrial UV radiation, simulated Martian atmosphere, and a Mars-like UV climate were tested individually as well as in combination will be presented. Following exposure to the parameters listed above, the survival of both biofilms and planktonic cells of D. geothermalis was assessed in terms of (i) culturability by colony counts on R2A medium, (ii) membrane integrity by using the Live/Dead differential staining kit, (iii) ATP content by using a commercial luminometric assay, and (iv) the presence of 16S rRNA by fluorescence in situ hybridization. So far, the results suggest that Deinococcus geothermalis remains viable in the desiccated state over weeks to months, whereas culturability, intracellular ATP levels, and membrane integrity were preserved in biofilm cells at a significantly higher level than in planktonic cells. Furthermore, cells of both sample types were able to survive simulated space and Martian conditions and showed high resistance after irradiation with monochromatic and polychromatic UV. The results will contribute to the fundamental understanding of the opportunities and limitations of viability of microorganisms organized in biofilms or as planktonic cells under the extreme environ-mental conditions of space or other planets.

Early detection monitoring for larval dreissenid mussels: How much plankton sampling is enough?

USGS Publications Warehouse

Counihan, Timothy D.; Bollens, Stephen M.

2017-01-01

The development of quagga and zebra mussel (dreissenids) monitoring programs in the Pacific Northwest provides a unique opportunity to evaluate a regional invasive species detection effort early in its development. Recent studies suggest that the ecological and economic costs of a dreissenid infestation in the Pacific Northwest of the USA would be significant. Consequently, efforts are underway to monitor for the presence of dreissenids. However, assessments of whether these efforts provide for early detection are lacking. We use information collected from 2012 to 2014 to characterize the development of larval dreissenid monitoring programs in the states of Idaho, Montana, Oregon, and Washington in the context of introduction and establishment risk. We also estimate the effort needed for high-probability detection of rare planktonic taxa in four Columbia and Snake River reservoirs and assess whether the current level of effort provides for early detection. We found that the effort expended to monitor for dreissenid mussels increased substantially from 2012 to 2014, that efforts were distributed across risk categories ranging from high to very low, and that substantial gaps in our knowledge of both introduction and establishment risk exist. The estimated volume of filtered water required to fully census planktonic taxa or to provide high-probability detection of rare taxa was high for the four reservoirs examined. We conclude that the current level of effort expended does not provide for high-probability detection of larval dreissenids or other planktonic taxa when they are rare in these reservoirs. We discuss options to improve early detection capabilities.

Biostratigraphy of Cretaceous-Paleogene marine succession, foraminiferal changes across the K/T boundary, sequence stratigraphy and response to sedimentary cyclicity in the Haymana Basin (Central Anatolia, Turkey)

NASA Astrophysics Data System (ADS)

Amirov, Elnur

2016-04-01

The aim of this study is to establish the planktonic foraminiferal biozonation, to construct the sequence stratigraphical framework and to determine the foraminiferal response to sedimentary cyclicity in the sedimentary sequence spanning Upper Cretaceous-Paleocene in the Haymana basin (Central Anatolia, Turkey). In order to achieve this study, the stratigraphic section was measured from sedimentary sequence of the Haymana, Beyobası and Yeşilyurt formations. The sedimentary sequence is mainly characterized by flyschoidal sequence that is composed of alternating of siliciclastic and carbonate units. On the account of the detailed taxonomic study of planktonic foraminifers, the biostratigraphic framework was established for the Maastrichtian-Paleocene interval. The biozonation includes 7 zones; Pseudoguembelina hariaensis, Pα, P1, P2, P3, P4 and P5 zones. The Cretaceous-Paleogene (K/P) boundary was delineated between the samples HEA-105 and 106. In order to construct the sequence-stratigraphical framework, the A, B, C and D-type meter-scale cycles were identified. Based on the stacking patterns of them, six depositional sequences, six third and two second order cycles were determined. Third order cycles coincide with the Global Sea Level Change Curve. On the account of the conducted petrographic analysis sandstone, mudstone, marl, limestone and muddy-limestone lithofacies were recorded in the studied samples. In order to demonstrate the response of foraminifers to cyclicity, quantitative analysis has been carried out by counting the individuals of planktonic, benthonic foraminifers and ostracods. The best response to sedimentary cyclicity was revealed from planktonic foraminifers. The average abundance of planktonic foraminifers increases in the transgressive systems tract and decreases in the highstand systems tract. Foraminifera are the most abundant marine protozoa in the benthic, epipelagic and pelagic realm. Because of the complexity and diversity of habitats, especially in the pelagic realm, planktonic foraminifera show high biodiversity and abundance as an effect of their different ecological requirements. Microfaunal analysis displays significant presence of foraminifers and an insignificant presence of ostracoda shells which represented by genera Leptocythere, Caspiella, Xestoleberis and etc. The foraminiferal assemblages of this sequence were determined in detail and quantitative analysis of them was carried out. By detail investigation of microfauna and determination of foraminifer species under the microscope, it was possible to pinpoint the C/P boundary in the studied section, which is indicating the mass extinctions of Cretaceous foraminifers represented by genera Archaeoglobigerina, Contusotruncana, Gansserina, Globigerinelloides, Globotruncana, Globorotalia, Hedbergella, Heterohelix, Planoglobulina and appearance of new small and non-keeled Danian species, represented by genera such as Chiloguembelina, Eoglobigerina, Globoconusa, Globanomalina, Igorina, Parvularugoglobigerina, Parasubbotina, Subbotina, Woodringina and etc. As a result of precise conducted research the significant bioevent has been revealed, namely that Hedbergella holmdelensis became extinct in Pα Zone.

Plankton the Delightful Drifters

ERIC Educational Resources Information Center

Mertz, Jack

1978-01-01

Presents an introduction to plankton, describing the various plants and animals that make up this group of living things. Suggests that plankton can be an important introduction to marine biology and an intriguing study to stimulate the curiosity of students. (BB)

Chlorhexidine digluconate effects on planktonic growth and biofilm formation in some field isolates of animal bacterial pathogens.

PubMed

Ebrahimi, Azizollah; Hemati, Majid; Habibian Dehkordi, Saeed; Bahadoran, Shahab; Khoshnood, Sheida; Khubani, Shahin; Dokht Faraj, Mahdi; Hakimi Alni, Reza

2014-05-01

To study chlorhexidine digluconate disinfectant effects on planktonic growth and biofilm formation in some bacterial field isolates from animals. The current study investigated chlorhexidine digluconate effects on planktonic growth and biofilm formation in some field isolates of veterinary bacterial pathogens. Forty clinical isolates of Escherichia coli, Salmonella serotypes, Staphylococcus. aureus and Streptococcus agalactiae (10 isolates for each) were examined for chlorhexidine digluconate effects on biofilm formation and planktonic growth using microtiter plates. In all of the examined strains in the presence of chlorhexidine digluconate, biofilm development and planktonic growth were affected at the same concentrations of the disinfectant. Chlorhexidine digluconate inhibited the planktonic growth of different bacterial species at sub-MICs. But they were able to induce biofilm development of the E. coli, Salmonella spp., S. aureus and Str. agalactiae strains. Bacterial resistance against chlorhexidine is increasing. Sub-MIC doses of chlorhexidine digluconate can stimulate the formation of biofilm strains.

Decreased seasonality and high variability of coastal plankton dynamics in an urban location of the NW Mediterranean

NASA Astrophysics Data System (ADS)

Romero, Estela; Peters, Francesc; Arin, Laura; Guillén, Jorge

2014-04-01

Contrary to what happens in open waters, where chlorophyll values and plankton dynamics can be predicted with a reasonable accuracy on an annual basis, biological parameters analyzed for coastal waters often show slight seasonality, and are exposed to numerous and convergent forcing factors that make it difficult to draw clear patterns. On top of this large natural variability, coastal locations subjected to urban sprawl suffer further human impact that may increase the unpredictability of plankton dynamics. Here we present the results of a multi-year time series of monthly samplings carried out in a coastal location by the city of Barcelona (NW Mediterranean) that is highly exposed to anthropogenic disturbances. Our data confirm the existence of complex patterns throughout the year. Freshwater inputs proved to be an important source of nutrients, yet the response of the planktonic organisms was vague and not systematic, contrary to the results of a previous study at a nearby coastal site less affected by human activities. The severity of anthropogenic disruptions was partially masked by the co-occurrence of natural physical phenomena, e.g., waste spills often come with downpours and large river discharge. In the NW Mediterranean, there seems to be a gradient of decreasing predictability on plankton dynamics from offshore to coastal waters with little human influence, where seasonality can be largely modified by local processes but the biological response is systematic and fairly predictable, and finally to urban coastal locations, where the seasonal background is diluted by numerous perturbations and there exists a variable pattern of biological responses. Our study underlines the importance of specific coastal processes in determining the structure and dynamics of the planktonic community, and the need to characterize coastal areas setting aside some of the assumptions valid for open ocean regions (e.g., (1) in the open ocean seasonality dominates annual nutrient fluxes, which are tightly linked to mixing and turbulence, while nutrient inputs at the coast can occur anytime throughout the year and may not be coincident with increased water-column mixing (Cloern, 1996; Cloern and Jassby, 2008); and (2) in coastal regions the concentration of nutrients during nutrient pulses can be greatly imbalanced with regard to Redfield elemental ratios (Jickells, 1998; Justić et al., 1995 and references therein)).

Variability of the planktonic foraminifera community across the Eocene/Oligocene boundary, Fuente Caldera Section, Baetic Ranges (Spain)

NASA Astrophysics Data System (ADS)

Legarda-Lisarri, A.

2013-12-01

During the Eocene/Oligocene transition, in a massive extinction event that took place about 33.7 million years ago, the current high resolution study analyzes qualitatively and quantitatively the community structure of the planktonic foraminifera that were preserved in the hemipelagic sediments of the Tethys Sea. The sampled section of the Fuente Caldera column, located in the Baetic mountain ranges, spans a register of 396,551.7 years. Based in the identification of 27 species, that belong to 13 genera and 2 families of foraminifera, there have been found three biozones of Gonzalvo Zonation (Gonzalvo, 2002) in the studied stratigraphic interval: Turborotalia cocoaensis and Cribrohantkenina lazzarii Biozones (Rupelian), and Paragloborotalia increbescens (Priabonian). The planktonic foraminifera associations variability patterns are defined by paleoecologic indexes (diversity index, high and low latitude species index and planktonic and benthic foraminifera index), by geochemical proxies: δ18O and δ13C and by 'Q' Mode Factor Analysis. They prove that the deposition environment is outer platform and also, they suggest that the studied area in the Tethys Sea underwent many thermal pulses, during which some species extinct or appear. In the first extinction event the species Turborotalia cocoaensis and Turborotalia cunialensis became extinct. In the second one, Hantkenina alabamensis, Hantkenina brevispina, Cribrohantkenina lazzarii and Pseudohastigerina micra became extinct while a succession occured; Globigerina officinalis, Globoturborotalita anguliofficinalis and Tenuitellinata angustiumbilicata appeared. The cooling event that finished in the Lower Oligocene was the biggest of these pulses, which was extremely abrupt and corresponds to the Oi-1 event that was described by Miller (Miller, 1991). All this evidences that the planktonic foraminifera extinction in the Upper Eocene was a gradual and fast event, what is supported by the Factor Analysis application. Key words: Eocene/Oligocene boundary, Planktonic foraminifera, Paleoecology. References Gonzalvo, C., 2002. Los foraminíferos planctónicos del tránsito Eoceno medio-Oligoceno inferior: Bioestratigrafía, cronoestratigrafía y eventos paleoceanográficos, Tesis Doctoral, Universidad de Zaragoza, 314 pp. Miller, K.G., Wright, J.D., Fairbanks, R.G., 1991. Unlocking the Ice House: Oligocene-Miocene oxygen isotopes, eustasy, and margin erosion. Journal of Geophysical Research 96, 6829-6848.

Paleoceanography/climate and taphonomy at intermediate water depth in the Subtropical Western North Pacific Ocean over the last 1 Ma from IODP Exp 350 Sites U1436C and U1437B, Izu arc area.

NASA Astrophysics Data System (ADS)

Vautravers, Maryline

2015-04-01

IODP Expedition 350 Site U1436C lies in the western part of the Izu fore arc basin, ~60 km east of the arc front volcano Aogashima, at 1776 m water depth. This site is a technical hole (only a 150 m long record) for a potential future deep drilling by Chikyu. Site U1437 is located in the Izu rear arc, ~90 km west of the arc front volcanoes Myojinsho and Myojin Knoll, at 2117 m water depth. At this site in order to study the evolution of the IZU rear arc crust we recovered a 1800 meter long sequence of mud and volcaniclastic sediments. These sites provide a rich and well-preserved record of volcanic eruptions within the area of the Izu Bonin-Arc. However, the material recovered, mostly mud with ash containing generally abundant planktonic foraminifera, can support additional paleoceanographic goals in an area affected by the Kuroshio Current. Also, the hydrographic divide created by the Izu rise provides a rare opportunity to gain some insight into the operation of the global intermediate circulation. The Antarctic Intermediate Water Mass is more influential at the depth of U1437B in the West and the North Pacific Intermediate Water at Site U1436C to the East. We analyzed 460 samples recovered at Sites U1436C and U1437B for a quantitative planktonic foraminifer study, and also for carbonate preservation indices, including: shell weight, percent planktonic foraminifera fragments planktonic foraminifer concentrations, various faunal proxies, and benthic/planktonic ratio. We measured the stable isotopes for a similar number of samples using the thermocline dwelling Neogloboquadrina dutertrei. The dataset presented here covers the last 1 Ma at Site U1437B and 0.9 Ma at Site U1436C. The age models for the two sites are largely established through stable isotope stratigraphy (this study). On their respective age models we evidence based on polar/subpolar versus subtropical faunal assemblages changes qualitative surface water temperature variations recording the changing influences in the Kuroshio/Oyashio currents at orbital time scales over the last 1 Ma. However, the 2 main findings are i.) that of the intense and pervasive carbonate dissolution at such an intermediate water depth, especially during interglacials, and in particular at site U1436C, and ii.) the good and improving carbonate preservation at Site U1437B during glacials, particularly in the upper part of the record.

Metagenomic Insights into the Evolution, Function, and Complexity of the Planktonic Microbial Community of Lake Lanier, a Temperate Freshwater Ecosystem ▿†

PubMed Central

Oh, Seungdae; Caro-Quintero, Alejandro; Tsementzi, Despina; DeLeon-Rodriguez, Natasha; Luo, Chengwei; Poretsky, Rachel; Konstantinidis, Konstantinos T.

2011-01-01

Lake Lanier is an important freshwater lake for the southeast United States, as it represents the main source of drinking water for the Atlanta metropolitan area and is popular for recreational activities. Temperate freshwater lakes such as Lake Lanier are underrepresented among the growing number of environmental metagenomic data sets, and little is known about how functional gene content in freshwater communities relates to that of other ecosystems. To better characterize the gene content and variability of this freshwater planktonic microbial community, we sequenced several samples obtained around a strong summer storm event and during the fall water mixing using a random whole-genome shotgun (WGS) approach. Comparative metagenomics revealed that the gene content was relatively stable over time and more related to that of another freshwater lake and the surface ocean than to soil. However, the phylogenetic diversity of Lake Lanier communities was distinct from that of soil and marine communities. We identified several important genomic adaptations that account for these findings, such as the use of potassium (as opposed to sodium) osmoregulators by freshwater organisms and differences in the community average genome size. We show that the lake community is predominantly composed of sequence-discrete populations and describe a simple method to assess community complexity based on population richness and evenness and to determine the sequencing effort required to cover diversity in a sample. This study provides the first comprehensive analysis of the genetic diversity and metabolic potential of a temperate planktonic freshwater community and advances approaches for comparative metagenomics. PMID:21764968

The antibacterial effect of photodynamic therapy in dental plaque-derived biofilms

PubMed Central

Fontana, C. R.; Abernethy, A. D.; Som, S.; Ruggiero, K.; Doucette, S.; Marcantonio, R. C.; Boussios, C. I.; Kent, R.; Goodson, J. M.; Tanner, A. C. R.; Soukos, N. S.

2009-01-01

Background and Objective Photodynamic therapy (PDT) has been advocated as an alternative to antimicrobial agents to suppress subgingival species and treat periodontitis. Bacteria located within dense biofilms, such as those encountered in dental plaques, have been found to be relatively resistant to antimicrobial therapy. In the present study, we investigated the ability of PDT to affect bacteria resistant in biofilms by comparing the photodynamic effects of methylene blue (MB) on human dental plaque microorganisms in planktonic phase and in biofilms. Material and Methods Dental plaque samples were obtained from 10 subjects with chronic periodontitis. Suspensions of plaque microorganisms from 5 subjects were sensitized with MB (25 μg/ml) for 5 minutes followed by exposure to red light. Multi-species microbial biofilms developed from the same plaque samples were also exposed to MB (25 μg/ml) and the same light conditions as their planktonic counterparts. In a second set of experiments, biofilms were developed with plaque bacteria from 5 subjects and sensitized with 25 and 50 μg/ml MB followed by exposure to light as above. After PDT, survival fractions were calculated from colony-forming unit counts. Results In suspension, PDT produced approximately 63% killing of bacteria. In biofilms, the effect of PDT resulted in much lower reductions of microorganisms (32% maximal killing). Conclusion Oral bacteria in biofilms are less affected by PDT than bacteria in planktonic phase. The antibacterial effect of PDT is reduced in biofilm bacteria but not to the same degree as has been reported for treatment with antibiotics under similar conditions. PMID:19602126

Calcification of the planktonic foraminifera Globigerina bulloides and carbonate ion concentration: Results from the Santa Barbara Basin

NASA Astrophysics Data System (ADS)

Osborne, Emily B.; Thunell, Robert C.; Marshall, Brittney J.; Holm, Jessica A.; Tappa, Eric J.; Benitez-Nelson, Claudia; Cai, Wei-Jun; Chen, Baoshan

2016-08-01

Planktonic foraminiferal calcification intensity, reflected by shell wall thickness, has been hypothesized to covary with the carbonate chemistry of seawater. Here we use both sediment trap and box core samples from the Santa Barbara Basin to evaluate the relationship between the calcification intensity of the planktonic foraminifera species Globigerina bulloides, measured by area density (µg/µm2), and the carbonate ion concentration of seawater ([CO32-]). We also evaluate the influence of both temperature and nutrient concentration ([PO43-]) on foraminiferal calcification and growth. The presence of two G. bulloides morphospecies with systematically different calcification properties and offset stable isotopic compositions was identified within sampling populations using distinguishing morphometric characteristics. The calcification temperature and by extension calcification depth of the more abundant "normal" G. bulloides morphospecies was determined using δ18O temperature estimates. Calcification depths vary seasonally with upwelling and were used to select the appropriate [CO32-], temperature, and [PO43-] depth measurements for comparison with area density. Seasonal upwelling in the study region also results in collinearity between independent variables complicating a straightforward statistical analysis. To address this issue, we use additional statistical diagnostics and a down core record to disentangle the respective roles of each parameter on G. bulloides calcification. Our results indicate that [CO32-] is the primary variable controlling calcification intensity while temperature influences shell size. We report a modern calibration for the normal G. bulloides morphospecies that can be used in down core studies of well-preserved sediments to estimate past [CO32-].

Planktonic and biofilm-grown nitrogen-cycling bacteria exhibit different susceptibilities to copper nanoparticles.

PubMed

Reyes, Vincent C; Opot, Stephen O; Mahendra, Shaily

2015-04-01

Proper characterization of nanoparticle (NP) interactions with environmentally relevant bacteria under representative conditions is necessary to enable their sustainable manufacture, use, and disposal. Previous nanotoxicology research based on planktonic growth has not adequately explored biofilms, which serve as the predominant mode of bacterial growth in natural and engineered environments. Copper nanoparticle (Cu-NP) impacts on biofilms were compared with respective planktonic cultures of the ammonium-oxidizing Nitrosomonas europaea, nitrogen-fixing Azotobacter vinelandii, and denitrifying Paracoccus denitrificans using a suite of independent toxicity diagnostics. Median inhibitory concentration (IC50) values derived from adenosine triphosphate (ATP) for Cu-NPs were lower in N. europaea biofilms (19.6 ± 15.3 mg/L) than in planktonic cells (49.0 ± 8.0 mg/L). However, in absorbance-based growth assays, compared with unexposed controls, N. europaea growth rates in biofilms were twice as resilient to inhibition than those in planktonic cultures. Similarly, relative to unexposed controls, growth rates and yields of P. denitrificans in biofilms exposed to Cu-NPs were 40-fold to 50-fold less inhibited than those in planktonic cells. Physiological evaluation of ammonium oxidation and nitrate reduction suggested that biofilms were also less inhibited by Cu-NPs than planktonic cells. Furthermore, functional gene expression for ammonium oxidation (amoA) and nitrite reduction (nirK) showed lower inhibition by NPs in biofilms relative to planktonic-grown cells. These results suggest that biofilms mitigate NP impacts, and that nitrogen-cycling bacteria in wastewater, wetlands, and soils might be more resilient to NPs than planktonic-based assessments suggest. © 2014 SETAC.

Marine Biology

ERIC Educational Resources Information Center

Dewees, Christopher M.; Hooper, Jon K.

1976-01-01

A variety of informational material for a course in marine biology or oceanology at the secondary level is presented. Among the topics discussed are: food webs and pyramids, planktonic blooms, marine life, plankton nets, food chains, phytoplankton, zooplankton, larval plankton and filter feeders. (BT)

Influence of ocean acidification on plankton community structure during a winter-to-summer succession: An imaging approach indicates that copepods can benefit from elevated CO2 via indirect food web effects

PubMed Central

Taucher, Jan; Haunost, Mathias; Boxhammer, Tim; Bach, Lennart T.; Algueró-Muñiz, María; Riebesell, Ulf

2017-01-01

Plankton communities play a key role in the marine food web and are expected to be highly sensitive to ongoing environmental change. Oceanic uptake of anthropogenic carbon dioxide (CO2) causes pronounced shifts in marine carbonate chemistry and a decrease in seawater pH. These changes–summarized by the term ocean acidification (OA)–can significantly affect the physiology of planktonic organisms. However, studies on the response of entire plankton communities to OA, which also include indirect effects via food-web interactions, are still relatively rare. Thus, it is presently unclear how OA could affect the functioning of entire ecosystems and biogeochemical element cycles. In this study, we report from a long-term in situ mesocosm experiment, where we investigated the response of natural plankton communities in temperate waters (Gullmarfjord, Sweden) to elevated CO2 concentrations and OA as expected for the end of the century (~760 μatm pCO2). Based on a plankton-imaging approach, we examined size structure, community composition and food web characteristics of the whole plankton assemblage, ranging from picoplankton to mesozooplankton, during an entire winter-to-summer succession. The plankton imaging system revealed pronounced temporal changes in the size structure of the copepod community over the course of the plankton bloom. The observed shift towards smaller individuals resulted in an overall decrease of copepod biomass by 25%, despite increasing numerical abundances. Furthermore, we observed distinct effects of elevated CO2 on biomass and size structure of the entire plankton community. Notably, the biomass of copepods, dominated by Pseudocalanus acuspes, displayed a tendency towards elevated biomass by up to 30–40% under simulated ocean acidification. This effect was significant for certain copepod size classes and was most likely driven by CO2-stimulated responses of primary producers and a complex interplay of trophic interactions that allowed this CO2 effect to propagate up the food web. Such OA-induced shifts in plankton community structure could have far-reaching consequences for food-web interactions, biomass transfer to higher trophic levels and biogeochemical cycling of marine ecosystems. PMID:28178268

Automatic plankton image classification combining multiple view features via multiple kernel learning.

PubMed

Zheng, Haiyong; Wang, Ruchen; Yu, Zhibin; Wang, Nan; Gu, Zhaorui; Zheng, Bing

2017-12-28

Plankton, including phytoplankton and zooplankton, are the main source of food for organisms in the ocean and form the base of marine food chain. As the fundamental components of marine ecosystems, plankton is very sensitive to environment changes, and the study of plankton abundance and distribution is crucial, in order to understand environment changes and protect marine ecosystems. This study was carried out to develop an extensive applicable plankton classification system with high accuracy for the increasing number of various imaging devices. Literature shows that most plankton image classification systems were limited to only one specific imaging device and a relatively narrow taxonomic scope. The real practical system for automatic plankton classification is even non-existent and this study is partly to fill this gap. Inspired by the analysis of literature and development of technology, we focused on the requirements of practical application and proposed an automatic system for plankton image classification combining multiple view features via multiple kernel learning (MKL). For one thing, in order to describe the biomorphic characteristics of plankton more completely and comprehensively, we combined general features with robust features, especially by adding features like Inner-Distance Shape Context for morphological representation. For another, we divided all the features into different types from multiple views and feed them to multiple classifiers instead of only one by combining different kernel matrices computed from different types of features optimally via multiple kernel learning. Moreover, we also applied feature selection method to choose the optimal feature subsets from redundant features for satisfying different datasets from different imaging devices. We implemented our proposed classification system on three different datasets across more than 20 categories from phytoplankton to zooplankton. The experimental results validated that our system outperforms state-of-the-art plankton image classification systems in terms of accuracy and robustness. This study demonstrated automatic plankton image classification system combining multiple view features using multiple kernel learning. The results indicated that multiple view features combined by NLMKL using three kernel functions (linear, polynomial and Gaussian kernel functions) can describe and use information of features better so that achieve a higher classification accuracy.

Response to alkaline stress by root canal bacteria in biofilms.

PubMed

Chávez de Paz, L E; Bergenholtz, G; Dahlén, G; Svensäter, G

2007-05-01

To determine whether bacteria isolated from infected root canals survive alkaline shifts better in biofilms than in planktonic cultures. Clinical isolates of Enterococcus faecalis, Lactobacillus paracasei, Olsenella uli, Streptococcus anginosus, S. gordonii, S. oralis and Fusobacterium nucleatum in biofilm and planktonic cultures were stressed at pH 10.5 for 4 h, and cell viability determined using the fluorescent staining LIVE/DEAD BacLight bacterial viability kit. In addition, proteins released into extracellular culture fluids were identified by Western blotting. Enterococcus faecalis, L. paracasei, O. uli and S. gordonii survived in high numbers in both planktonic cultures and in biofilms after alkaline challenge. S. anginosus, S. oralis and F. nucleatum showed increased viability in biofilms compared with planktonic cultures. Alkaline exposure caused all planktonic cultures to aggregate into clusters and resulted in a greater extrusion of cellular proteins compared with cells in biofilms. Increased levels of DnaK, HPr and fructose-1,6-bisphosphate aldolase were observed in culture fluids, especially amongst streptococci. In general, bacteria isolated from infected roots canals resisted alkaline stress better in biofilms than in planktonic cultures, however, planktonic cells appeared to use aggregation and the extracellular transport of specific proteins as survival mechanisms.

Automated Analysis of Zooplankton Size and Taxonomic Composition.

DTIC Science & Technology

1998-07-01

Gallager, and P. Alatalo. Seasonal evolution of plankton and particle distributions across Georges Bank as measured using the Video Plankton Recorder... pteropods , and larvaceans estimated from concurrent Video Plankton Recorder and MOCNESS tows in the stratified region of Georges Bank. Deep Sea Res

THE PARADOX OF THE PLANKTON: COMMUNITY STRUCTURE PROMOTES BLOOMS

EPA Science Inventory

ABSTRACT: The 'paradox of the plankton' refers to commensalism as well as symbiosis, predation, and impacts of non equilibrium conditions between two planktonic

competitors. In regards to commensalism, phytoplankton can release organic carbon that enhances growth of its ba...

Lake Superior Zooplankton Biomass Predictions from LOPC Tow Surveys Compare Well with a Probability Based Net Survey

EPA Science Inventory

We conducted a probability-based sampling of Lake Superior in 2006 and compared the zooplankton biomass estimate with laser optical plankton counter (LOPC) predictions. The net survey consisted of 52 sites stratified across three depth zones (0-30, 30-150, >150 m). The LOPC tow...

Can groundwater sampling techniques used in monitoring wells influence methane concentrations and isotopes?

PubMed

Rivard, Christine; Bordeleau, Geneviève; Lavoie, Denis; Lefebvre, René; Malet, Xavier

2018-03-06

Methane concentrations and isotopic composition in groundwater are the focus of a growing number of studies. However, concerns are often expressed regarding the integrity of samples, as methane is very volatile and may partially exsolve during sample lifting in the well and transfer to sampling containers. While issues concerning bottle-filling techniques have already been documented, this paper documents a comparison of methane concentration and isotopic composition obtained with three devices commonly used to retrieve water samples from dedicated observation wells. This work lies within the framework of a larger project carried out in the Saint-Édouard area (southern Québec, Canada), whose objective was to assess the risk to shallow groundwater quality related to potential shale gas exploitation. The selected sampling devices, which were tested on ten wells during three sampling campaigns, consist of an impeller pump, a bladder pump, and disposable sampling bags (HydraSleeve). The sampling bags were used both before and after pumping, to verify the appropriateness of a no-purge approach, compared to the low-flow approach involving pumping until stabilization of field physicochemical parameters. Results show that methane concentrations obtained with the selected sampling techniques are usually similar and that there is no systematic bias related to a specific technique. Nonetheless, concentrations can sometimes vary quite significantly (up to 3.5 times) for a given well and sampling event. Methane isotopic composition obtained with all sampling techniques is very similar, except in some cases where sampling bags were used before pumping (no-purge approach), in wells where multiple groundwater sources enter the borehole.

Persister cells, the biofilm matrix and tolerance to metal cations in biofilm and planktonic Pseudomonas aeruginosa.

PubMed

Harrison, Joe J; Turner, Raymond J; Ceri, Howard

2005-07-01

In this study, we examined Pseudomonas aeruginosa ATCC 27853 biofilm and planktonic cell susceptibility to metal cations. The minimum inhibitory concentration (MIC), the minimum bactericidal concentration (MBC) required to eradicate 100% of the planktonic population (MBC 100), and the minimum biofilm eradication concentration (MBEC) were determined using the MBEC trade mark-high throughput assay. Six metals - Co(2+), Ni(2+), Cu(2+), Zn(2+), Al(3+) and Pb(2+)- were each tested at 2, 4, 6, 8, 10 and 27 h of exposure to biofilm and planktonic cultures grown in rich or minimal media. With 2 or 4 h of exposure, biofilms were approximately 2-25 times more tolerant to killing by metal cations than the corresponding planktonic cultures. However, by 27 h of exposure, biofilm and planktonic bacteria were eradicated at approximately the same concentration in every instance. Viable cell counts evaluated at 2 and 27 h of exposure revealed that at high concentrations, most of the metals assayed had killed greater than 99.9% of biofilm and planktonic cell populations. The surviving cells were propogated in vitro and gave rise to biofilm and planktonic cultures with normal sensitivity to metals. Further, retention of copper by the biofilm matrix was investigated using the chelator sodium diethlydithiocarbamate. Formation of visible brown metal-chelates in biofilms treated with Cu(2+) suggests that the biofilm matrix may coordinate and sequester metal cations from the aqueous surroundings. Overall, our data suggest that both metal sequestration in the biofilm matrix and the presence of a small population of 'persister' cells may be contributing factors in the time-dependent tolerance of both planktonic cells and biofilms to high concentrations of metal cations.

Design and Operation of a Borehole Straddle Packer for Ground-Water Sampling and Hydraulic Testing of Discrete Intervals at U.S. Air Force Plant 6, Marietta, Georgia

USGS Publications Warehouse

Holloway, Owen G.; Waddell, Jonathan P.

2008-01-01

A borehole straddle packer was developed and tested by the U.S. Geological Survey to characterize the vertical distribution of contaminants, head, and hydraulic properties in open-borehole wells as part of an ongoing investigation of ground-water contamination at U.S. Air Force Plant 6 (AFP6) in Marietta, Georgia. To better understand contaminant fate and transport in a crystalline bedrock setting and to support remedial activities at AFP6, numerous wells have been constructed that include long open-hole intervals in the crystalline bedrock. These wells can include several discontinuities that produce water, which may contain contaminants. Because of the complexity of ground-water flow and contaminant movement in the crystalline bedrock, it is important to characterize the hydraulic and water-quality characteristics of discrete intervals in these wells. The straddle packer facilitates ground-water sampling and hydraulic testing of discrete intervals, and delivery of fluids including tracer suites and remedial agents into these discontinuities. The straddle packer consists of two inflatable packers, a dual-pump system, a pressure-sensing system, and an aqueous injection system. Tests were conducted to assess the accuracy of the pressure-sensing systems, and water samples were collected for analysis of volatile organic compound (VOCs) concentrations. Pressure-transducer readings matched computed water-column height, with a coefficient of determination of greater than 0.99. The straddle packer incorporates both an air-driven piston pump and a variable-frequency, electronic, submersible pump. Only slight differences were observed between VOC concentrations in samples collected using the two different types of sampling pumps during two sampling events in July and August 2005. A test conducted to assess the effect of stagnation on VOC concentrations in water trapped in the system's pump-tubing reel showed that concentrations were not affected. A comparison was conducted to assess differences between three water-sampling methods - collecting samples from the well by pumping a packer-isolated zone using a submersible pump, by using a grab sampler, and by using a passive diffusion sampler. Concentrations of tetrachloroethylene, trichloroethylene and 1,2-dichloropropane were greatest for samples collected using the submersible pump in the packed-isolated interval, suggesting that the straddle packer yielded the least dilute sample.

Integration of On-Chip Peristaltic Pumps and Injection Valves with Microchip Electrophoresis and Electrochemical Detection

PubMed Central

Bowen, Amanda L; Martin, R. Scott

2010-01-01

A microfluidic approach that integrates peristaltic pumping from an on-chip reservoir with injection valves, microchip electrophoresis and electrochemical detection is described. Fabrication and operation of both the peristaltic pumps and injection valves were optimized to ensure efficient pumping and discrete injections. The final device uses the peristaltic pumps to continuously direct sample from a reservoir containing a mixture of analytes to injection valves that are coupled with microchip electrophoresis and amperometric detection. The separation and direct detection of dopamine and norepinephrine were possible with this approach and the utility of the device was demonstrated by monitoring the stimulated release of these neurotransmitters from a layer of cells introduced into the microchip. It is also shown that this pumping/reservoir approach can be expanded to multiple reservoirs and pumps, where one reservoir can be addressed individually or multiple reservoirs sampled simultaneously. PMID:20665914

Chlorhexidine Digluconate Effects on Planktonic Growth and Biofilm Formation in Some Field Isolates of Animal Bacterial Pathogens

PubMed Central

Ebrahimi, Azizollah; Hemati, Majid; Habibian Dehkordi, Saeed; Bahadoran, Shahab; Khoshnood, Sheida; Khubani, Shahin; Dokht Faraj, Mahdi; Hakimi Alni, Reza

2014-01-01

Background: To study chlorhexidine digluconate disinfectant effects on planktonic growth and biofilm formation in some bacterial field isolates from animals. Objectives: The current study investigated chlorhexidine digluconate effects on planktonic growth and biofilm formation in some field isolates of veterinary bacterial pathogens. Materials and Methods: Forty clinical isolates of Escherichia coli, Salmonella serotypes, Staphylococcus. aureus and Streptococcus agalactiae (10 isolates for each) were examined for chlorhexidine digluconate effects on biofilm formation and planktonic growth using microtiter plates. In all of the examined strains in the presence of chlorhexidine digluconate, biofilm development and planktonic growth were affected at the same concentrations of the disinfectant. Results: Chlorhexidine digluconate inhibited the planktonic growth of different bacterial species at sub-MICs. But they were able to induce biofilm development of the E. coli, Salmonella spp., S. aureus and Str. agalactiae strains. Conclusions: Bacterial resistance against chlorhexidine is increasing. Sub-MIC doses of chlorhexidine digluconate can stimulate the formation of biofilm strains. PMID:24872940

First record of the larvae of tanner crab Chionoecetes bairdi in the Chukchi Sea: A future northward expansion in the Arctic?

NASA Astrophysics Data System (ADS)

Landeira, Jose M.; Matsuno, Kohei; Tanaka, Yuji; Yamaguchi, Atsushi

2018-06-01

In the Bering Sea, warming and reduction of summer sea-ice cover are driving species ranges towards the Arctic. Tanner crab, Chionoecetes bairdi, is a commercially important species in the SE Bering Sea with a northerly range margin in 62ºN. In this paper, using plankton samples collected in the Pacific sub-Arctic/Arctic sector during summer, we report for the first time the presence of larval stages (zoea II) of C. bairdi far from its northern limit of the distribution, in the south of St. Lawrence Island during 1991, and even crossing the Bering Strait into the Chukchi Sea during 1992. We suggest that the long planktonic phase (3-5 months), in combination with the oceanographic circulation, may facilitate eventual long-distance transport.

Environmental forcing on jellyfish communities in a small temperate estuary.

PubMed

Primo, Ana Lígia; Marques, Sónia C; Falcão, Joana; Crespo, Daniel; Pardal, Miguel A; Azeiteiro, Ulisses M

2012-08-01

The impact of biological, hydrodynamic and large scale climatic variables on the jellyfish community of Mondego estuary was evaluated from 2003 to 2010. Plankton samples were collected at the downstream part of the estuary. Siphonophora Muggiaea atlantica and Diphyes spp. were the main jellyfish species. Jellyfish density was generally higher in summer and since 2005 densities had increased. Summer community analysis pointed out Acartia clausi, estuarine temperature and salinity as the main driven forces for the assemblage's structure. Also, Chl a, estuarine salinity, runoff and SST were identified as the major environmental factors influencing the siphonophores summer interannual variability. Temperature influenced directly and indirectly the community and fluctuation of jellyfish blooms in the Mondego estuary. This study represents a contribution to a better knowledge of the gelatinous plankton communities in small temperate estuaries. Copyright © 2012 Elsevier Ltd. All rights reserved.

A blooming jellyfish in the northeast Atlantic and Mediterranean

PubMed Central

Licandro, P.; Conway, D. V. P.; Daly Yahia, M. N.; Fernandez de Puelles, M. L.; Gasparini, S.; Hecq, J. H.; Tranter, P.; Kirby, R. R.

2010-01-01

A long-term time series of plankton records collected by the continuous plankton recorder (CPR) Survey in the northeast Atlantic indicates an increased occurrence of Cnidaria since 2002. In the years 2007 and 2008, outbreaks of the warm-temperate scyphomedusa, Pelagia noctiluca, appeared in CPR samples between 45° N to 58° N and 1° W to 26° W. Knowing the biology of this species and its occurrence in the adjacent Mediterranean Sea, we suggest that P. noctiluca may be exploiting recent hydroclimatic changes in the northeast Atlantic to increase its extent and intensity of outbreaks. In pelagic ecosystems, Cnidaria can affect fish recruitment negatively. Since P. noctiluca is a highly venomous species, outbreaks can also be detrimental to aquaculture and make bathing waters unusable, thus having profound ecological and socio-economic consequences. PMID:20375044

Ocean-atmosphere science from the NASA Plankton, Aerosol, Cloud, ocean Ecosystem (PACE) mission

NASA Astrophysics Data System (ADS)

Werdell, J.

2016-12-01

The new NASA Plankton, Aerosol, Cloud, ocean Ecosystem (PACE) mission is a strategic climate continuity activity that will not only extend key heritage ocean color, cloud, and aerosol data records, but also enable new insight into oceanographic and atmospheric responses to Earth's changing climate. The primary PACE instrument will be a spectroradiometer that spans the ultraviolet to shortwave infrared region at 5 nm resolution with a ground sample distance of 1 km at nadir. This payload will likely be complemented by a multi-angle polarimeter with a similar spectral range. Scheduled for launch in 2022, this PACE instrument pair will revolutionize studies of global biogeochemistry and carbon cycles in the ocean-atmosphere system. Here, I present a PACE mission overview, with focus on instrument characteristics, core and advanced data products, and overarching science objectives.

Protozoan Bacterivory in the Ice and the Water Column of a Cold Temperate Lagoon.

PubMed

Sime-Ngando; Demers; Juniper

1999-02-01

> Abstract Bacterial abundance and bacterivorous protist abundance and activity were examined in ice-brine and water column communities of a cold temperate Japanese lagoon (Saroma-Ko Lagoon, Hokkaido, 44 degreesN, 144 degreesE), during the late winter phase of ice community development (February-March 1992). Bacterial abundance averaged 6 and 1 x 10(5) cells ml-1 in the ice-brine and plankton samples, respectively, and generally decreased during the sampling period. Bacterivorous protists, identified based on direct observation of short-term (<1 h) ingested fluorescently labeled bacteria (FLB) in their food vacuoles, were largely dominated by flagellates, mainly cryothecomonad-type and chrysomonad-like cells and small dinoflagellates of the genus Gymnodinium. Bacterivorous ciliates included mainly the prostomatid Urotricha sp., the scuticociliates Uronema and Cyclidium, the choreotrichs Lohmaniella oviformis and Strobilidium, and the hypotrich Euplotes sp. Protist abundance averaged 4 x 10(3) and 8.1 cells ml-1 in the ice-brine and 0.3 x 10(3) and 1.2 cells ml-1 in the plankton, for flagellates and ciliates, respectively. In contrast to bacteria, the abundance of protists generally increased throughout the sampling period, indicating predator-prey interactions. Protistan bacterivory, measured from the rate of FLB disappearance over 24 h, averaged 36% (ice) and 24% (plankton) of bacterial standing stock and exhibited the same seasonal pattern as for protist abundance. The calculated specific clearance (range, 2-67 nl protozoa-1 h-1) and ingestion (<1-26 particles protozoa-1 h-1) rates were likely to be minimal estimates and grazing impact may have been higher on occasion. Indications for the dependence of "bacterivorous protists" on nonbacterial food items were also provided. Although alternative sources of bacterial loss are likely to be of importance, this study provides evidence for the potential of protozoan assemblages as bacterial grazers in both sea ice-brine biota and water column at the southern limit of sea ice in the northern hemisphere.

Isotopic and Chemical Analysis of Nitrate Sources and Cycling in the San Joaquin River Near Stockton, California

NASA Astrophysics Data System (ADS)

Silva, S. R.; Kendall, C.; Bemis, B.; Wankel, S.; Bergamaschi, B.; Kratzer, C.; Dileanis, P.; Erickson, D.; Avery, E.; Paxton, K.

2002-12-01

Fish migration through the deep-water channel in the San Joaquin River at Stockton, California is inhibited by low oxygen concentrations during the summer months. The cause for this condition appears to be stagnation and decomposition of algae with attendant oxygen consumption. Algae growth in the San Joaquin River is promoted by nutrients entering the river mainly in the form of nitrate. Possible significant sources of nitrate include soil, fertilizer from agriculture, manure from dairy operations, and N derived from municipal sewage. A 2000 CALFED pilot study investigated the sources and cycling of nitrate at four sites along the San Joaquin River upstream of Stockton using the carbon and nitrogen isotopes of total dissolved and particulate organic matter, together with hydrological measurements and various concentration data, including chlorophyll-a. The nitrate source, its relationship to phytoplankton, and the effect of the nitrate source and cycling on the N isotopic composition of dissolved and particulate organic matter were the primary concerns of the study. The d15N values of dissolved organic nitrogen (DON) were used as a proxy for nitrate d15N because nitrate comprised about 90% of DON. Chlorophyll-a and C:N ratios indicated that the particulate organic matter (POM) consisted largely of plankton and therefore the d15N of POM was used as a proxy for the d15N of plankton. A tentative interpretation of the pilot study was that nitrate was a major nutrient for the plankton and the nitrate was of anthropogenic origin, possibly sewage or animal waste. To test these assumptions and interpretations, we are currently analyzing a set of samples collected in 2001. In addition to the previous sample types, a subset of samples will be measured directly for nitrate d15N to assess the validity of using d15N of DON as a proxy for nitrate.

Evaluation of Pump Pulsation in Respirable Size-Selective Sampling: Part II. Changes in Sampling Efficiency

PubMed Central

Lee, Eun Gyung; Lee, Taekhee; Kim, Seung Won; Lee, Larry; Flemmer, Michael M.; Harper, Martin

2015-01-01

This second, and concluding, part of this study evaluated changes in sampling efficiency of respirable size-selective samplers due to air pulsations generated by the selected personal sampling pumps characterized in Part I (Lee E, Lee L, Möhlmann C et al. Evaluation of pump pulsation in respirable size-selective sampling: Part I. Pulsation measurements. Ann Occup Hyg 2013). Nine particle sizes of monodisperse ammonium fluorescein (from 1 to 9 μm mass median aerodynamic diameter) were generated individually by a vibrating orifice aerosol generator from dilute solutions of fluorescein in aqueous ammonia and then injected into an environmental chamber. To collect these particles, 10-mm nylon cyclones, also known as Dorr-Oliver (DO) cyclones, were used with five medium volumetric flow rate pumps. Those were the Apex IS, HFS513, GilAir5, Elite5, and Basic5 pumps, which were found in Part I to generate pulsations of 5% (the lowest), 25%, 30%, 56%, and 70% (the highest), respectively. GK2.69 cyclones were used with the Legacy [pump pulsation (PP) = 15%] and Elite12 (PP = 41%) pumps for collection at high flows. The DO cyclone was also used to evaluate changes in sampling efficiency due to pulse shape. The HFS513 pump, which generates a more complex pulse shape, was compared to a single sine wave fluctuation generated by a piston. The luminescent intensity of the fluorescein extracted from each sample was measured with a luminescence spectrometer. Sampling efficiencies were obtained by dividing the intensity of the fluorescein extracted from the filter placed in a cyclone with the intensity obtained from the filter used with a sharp-edged reference sampler. Then, sampling efficiency curves were generated using a sigmoid function with three parameters and each sampling efficiency curve was compared to that of the reference cyclone by constructing bias maps. In general, no change in sampling efficiency (bias under ±10%) was observed until pulsations exceeded 25% for the DO cyclone. However, for three models of pumps producing 30%, 56%, and 70% pulsations, substantial changes were confirmed. The GK2.69 cyclone showed a similar pattern to that of the DO cyclone, i.e. no change in sampling efficiency for the Legacy producing 15% pulsation and a substantial change for the Elite12 producing 41% pulsation. Pulse shape did not cause any change in sampling efficiency when compared to the single sine wave. The findings suggest that 25% pulsation at the inlet of the cyclone as measured by this test can be acceptable for the respirable particle collection. If this test is used in place of that currently in European standards (EN 1232–1997 and EN 12919-1999) or is used in any International Organization for Standardization standard, then a 25% pulsation criterion could be adopted. This work suggests that a 10% criterion as currently specified in the European standards for testing may be overly restrictive and not able to be met by many pumps on the market. Further work is recommended to determine which criterion would be applicable to this test if it is to be retained in its current form. PMID:24064963

Evaluation of pump pulsation in respirable size-selective sampling: part II. Changes in sampling efficiency.

PubMed

Lee, Eun Gyung; Lee, Taekhee; Kim, Seung Won; Lee, Larry; Flemmer, Michael M; Harper, Martin

2014-01-01

This second, and concluding, part of this study evaluated changes in sampling efficiency of respirable size-selective samplers due to air pulsations generated by the selected personal sampling pumps characterized in Part I (Lee E, Lee L, Möhlmann C et al. Evaluation of pump pulsation in respirable size-selective sampling: Part I. Pulsation measurements. Ann Occup Hyg 2013). Nine particle sizes of monodisperse ammonium fluorescein (from 1 to 9 μm mass median aerodynamic diameter) were generated individually by a vibrating orifice aerosol generator from dilute solutions of fluorescein in aqueous ammonia and then injected into an environmental chamber. To collect these particles, 10-mm nylon cyclones, also known as Dorr-Oliver (DO) cyclones, were used with five medium volumetric flow rate pumps. Those were the Apex IS, HFS513, GilAir5, Elite5, and Basic5 pumps, which were found in Part I to generate pulsations of 5% (the lowest), 25%, 30%, 56%, and 70% (the highest), respectively. GK2.69 cyclones were used with the Legacy [pump pulsation (PP) = 15%] and Elite12 (PP = 41%) pumps for collection at high flows. The DO cyclone was also used to evaluate changes in sampling efficiency due to pulse shape. The HFS513 pump, which generates a more complex pulse shape, was compared to a single sine wave fluctuation generated by a piston. The luminescent intensity of the fluorescein extracted from each sample was measured with a luminescence spectrometer. Sampling efficiencies were obtained by dividing the intensity of the fluorescein extracted from the filter placed in a cyclone with the intensity obtained from the filter used with a sharp-edged reference sampler. Then, sampling efficiency curves were generated using a sigmoid function with three parameters and each sampling efficiency curve was compared to that of the reference cyclone by constructing bias maps. In general, no change in sampling efficiency (bias under ±10%) was observed until pulsations exceeded 25% for the DO cyclone. However, for three models of pumps producing 30%, 56%, and 70% pulsations, substantial changes were confirmed. The GK2.69 cyclone showed a similar pattern to that of the DO cyclone, i.e. no change in sampling efficiency for the Legacy producing 15% pulsation and a substantial change for the Elite12 producing 41% pulsation. Pulse shape did not cause any change in sampling efficiency when compared to the single sine wave. The findings suggest that 25% pulsation at the inlet of the cyclone as measured by this test can be acceptable for the respirable particle collection. If this test is used in place of that currently in European standards (EN 1232-1997 and EN 12919-1999) or is used in any International Organization for Standardization standard, then a 25% pulsation criterion could be adopted. This work suggests that a 10% criterion as currently specified in the European standards for testing may be overly restrictive and not able to be met by many pumps on the market. Further work is recommended to determine which criterion would be applicable to this test if it is to be retained in its current form.

Pump-probe nonlinear phase dispersion spectroscopy.

PubMed

Robles, Francisco E; Samineni, Prathyush; Wilson, Jesse W; Warren, Warren S

2013-04-22

Pump-probe microscopy is an imaging technique that delivers molecular contrast of pigmented samples. Here, we introduce pump-probe nonlinear phase dispersion spectroscopy (PP-NLDS), a method that leverages pump-probe microscopy and spectral-domain interferometry to ascertain information from dispersive and resonant nonlinear effects. PP-NLDS extends the information content to four dimensions (phase, amplitude, wavelength, and pump-probe time-delay) that yield unique insight into a wider range of nonlinear interactions compared to conventional methods. This results in the ability to provide highly specific molecular contrast of pigmented and non-pigmented samples. A theoretical framework is described, and experimental results and simulations illustrate the potential of this method. Implications for biomedical imaging are discussed.

Pump-probe nonlinear phase dispersion spectroscopy

PubMed Central

Robles, Francisco E.; Samineni, Prathyush; Wilson, Jesse W.; Warren, Warren S.

2013-01-01

Pump-probe microscopy is an imaging technique that delivers molecular contrast of pigmented samples. Here, we introduce pump-probe nonlinear phase dispersion spectroscopy (PP-NLDS), a method that leverages pump-probe microscopy and spectral-domain interferometry to ascertain information from dispersive and resonant nonlinear effects. PP-NLDS extends the information content to four dimensions (phase, amplitude, wavelength, and pump-probe time-delay) that yield unique insight into a wider range of nonlinear interactions compared to conventional methods. This results in the ability to provide highly specific molecular contrast of pigmented and non-pigmented samples. A theoretical framework is described, and experimental results and simulations illustrate the potential of this method. Implications for biomedical imaging are discussed. PMID:23609646

Microbial Ecology of a Regional Flow System: Deep, Aerobic, Fractured Rock Aquifers of the US Basin and Range (Invited)

NASA Astrophysics Data System (ADS)

Moser, D. P.; Hamilton-Brehm, S.; Zhang, G.; Fisher, J.; Hughes, K.; Wheatley, A.; Thomas, J.; Zavarin, M.; Roberts, S. K.; Kryder, L.; McRae, R.; Howard, W.; Walker, J.; Federwisch, R.; King, M.; Friese, R.; Grim, S.; Amend, J.; Momper, L.; Sherwood Lollar, B.; Onstott, T. C.

2013-12-01

Recent decades have revealed anaerobic microbial ecosystems across a range of deep, continental settings; however, aerobic, regional aquifers represent a little-studied habitat for deep life. The US' Basin and Range Province is an extensional zone defined by deep, interconnected fracture systems that span multiple hydrologic basins and host regional aquifers. Here we describe a multi-basin microbiological assessment, applied to the Death Valley Regional Flow System (DVRFS). Our group has surveyed more than thirty deep boreholes (~ 1,000 m depth average) and deeply-sourced springs across a ~170 km inferred flow path from recharge areas in volcanic and carbonate rock highlands of the Nevada National Security Site (NNSS) and the Spring Mountains to discharge zones in Oasis, Amargosa, and Death Valleys. DVRFS waters were characterized by temperatures of 30 - 50 oC and the presence of dissolved O2 (4 - 8 mg/L in the recharge areas and ~0.2 - 2 mg/L in the discharge zones). Planktonic microbial populations, as tracked by molecular DNA approaches (e.g. 454 pyrotag), were of low abundance (e.g. ~ 10e3 ~10e6 per mL) and dominated by Proteobacteria and Nitrospirae. Archaea were also present and dominated by novel Thaumarchaeotes. Patterns of microbial diversity and the hypothesis that these patterns may have utility for recognition of hydrologic connectivity were assessed by statistical tools. At the species level, cosmopolitan, system-wide, and flow-path-specific groupings of both bacteria and archaea were detected. Even when in close proximity to aerobic springs and wells, sites sampling deep, hot, anaerobic groundwaters possessed completely distinct microbial populations (e.g. dominance by Firmicutes, ANME, and predicted methanogens). Among methodological refinements developed from this work, the repeated sampling of one deep borehole over a month-long pump test revealed that well-bore-associated contaminants required several days of pumping for complete removal and enabled the identification of the specific depth that produced most of the water. Our results reveal details of microbial community structure for a common, but little-studied microbial ecosystem and support the concept that regional flow systems possess distinct microbial populations, consistent with their geochemical and hydrologic characteristics. These results generally support the concept that microbial populations may have utility as amplifiable tracers for tracking the connectivity of fluids in the subsurface.

Flow through electrode with automated calibration

DOEpatents

Szecsody, James E [Richland, WA; Williams, Mark D [Richland, WA; Vermeul, Vince R [Richland, WA

2002-08-20

The present invention is an improved automated flow through electrode liquid monitoring system. The automated system has a sample inlet to a sample pump, a sample outlet from the sample pump to at least one flow through electrode with a waste port. At least one computer controls the sample pump and records data from the at least one flow through electrode for a liquid sample. The improvement relies upon (a) at least one source of a calibration sample connected to (b) an injection valve connected to said sample outlet and connected to said source, said injection valve further connected to said at least one flow through electrode, wherein said injection valve is controlled by said computer to select between said liquid sample or said calibration sample. Advantages include improved accuracy because of more frequent calibrations, no additional labor for calibration, no need to remove the flow through electrode(s), and minimal interruption of sampling.

Autumn leaf subsidies influence spring dynamics of freshwater plankton communities.

PubMed

Fey, Samuel B; Mertens, Andrew N; Cottingham, Kathryn L

2015-07-01

While ecologists primarily focus on the immediate impact of ecological subsidies, understanding the importance of ecological subsidies requires quantifying the long-term temporal dynamics of subsidies on recipient ecosystems. Deciduous leaf litter transferred from terrestrial to aquatic ecosystems exerts both immediate and lasting effects on stream food webs. Recently, deciduous leaf additions have also been shown to be important subsidies for planktonic food webs in ponds during autumn; however, the inter-seasonal effects of autumn leaf subsidies on planktonic food webs have not been studied. We hypothesized that autumn leaf drop will affect the spring dynamics of freshwater pond food webs by altering the availability of resources, water transparency, and the metabolic state of ponds. We created leaf-added and no-leaf-added field mesocosms in autumn 2012, allowed mesocosms to ice-over for the winter, and began sampling the physical, chemical, and biological properties of mesocosms immediately following ice-off in spring 2013. At ice-off, leaf additions reduced dissolved oxygen, elevated total phosphorus concentrations and dissolved materials, and did not alter temperature or total nitrogen. These initial abiotic effects contributed to higher bacterial densities and lower chlorophyll concentrations, but by the end of spring, the abiotic environment, chlorophyll and bacterial densities converged. By contrast, zooplankton densities diverged between treatments during the spring, with leaf additions stimulating copepods but inhibiting cladocerans. We hypothesized that these differences between zooplankton orders resulted from resource shifts following leaf additions. These results suggest that leaf subsidies can alter both the short- and long-term dynamics of planktonic food webs, and highlight the importance of fully understanding how ecological subsidies are integrated into recipient food webs.

Surface proteins and the formation of biofilms by Staphylococcus aureus.

PubMed

Kim, Sung Joon; Chang, James; Rimal, Binayak; Yang, Hao; Schaefer, Jacob

2018-03-01

Staphylococcus aureus biofilms pose a serious clinical threat as reservoirs for persistent infections. Despite this clinical significance, the composition and mechanism of formation of S. aureus biofilms are unknown. To address these problems, we used solid-state NMR to examine S. aureus (SA113), a strong biofilm-forming strain. We labeled whole cells and cell walls of planktonic cells, young biofilms formed for 12-24h after stationary phase, and more mature biofilms formed for up to 60h after stationary phase. All samples were labeled either by (i) [ 15 N]glycine and l-[1- 13 C]threonine, or in separate experiments, by (ii) l-[2- 13 C, 15 N]leucine. We then measured 13 C- 15 N direct bonds by C{N} rotational-echo double resonance (REDOR). The increase in peptidoglycan stems that have bridges connected to a surface protein was determined directly by a cell-wall double difference (biofilm REDOR difference minus planktonic REDOR difference). This procedure eliminates errors arising from differences in 15 N isotopic enrichments and from the routing of 13 C label from threonine degradation to glycine. For both planktonic cells and the mature biofilm, 20% of pentaglycyl bridges are not cross-linked and are potential surface-protein attachment sites. None of these sites has a surface protein attached in the planktonic cells, but one-fourth have a surface protein attached in the mature biofilm. Moreover, the leucine-label shows that the concentration of β-strands in leucine-rich regions doubles in the mature biofilm. Thus, a primary event in establishing a S. aureus biofilm is extensive decoration of the cell surface with surface proteins that are linked covalently to the cell wall and promote cell-cell adhesion. Copyright © 2017 Elsevier B.V. All rights reserved.

The deep-sea zooplankton of the North, Central, and South Atlantic: Biomass, abundance, diversity

NASA Astrophysics Data System (ADS)

Vereshchaka, Alexander; Abyzova, Galina; Lunina, Anastasia; Musaeva, Eteri

2017-03-01

Ocean-scale surveys of vertical distribution of the zooplankton from the surface to the bathypelagic zone along transects are quite rare in the North Atlantic and absent in the Equatorial and South Atlantic. We present the first deep-sea quantitative survey of the zooplankton in the Equatorial and South Atlantic, analyze the interaction between environment (depth, water masses, surface productivity) and zooplankton abundance and biomass, and assess the biodiversity and role of copepods in various deep strata. Samples were taken at 20 sites along a submeridional transect between 40°N and 30°S at four discrete depth strata: epi- meso-, upper- and lower- bathypelagic. A closing Bogorov-Rass plankton net (1 m2 opening, 500 μm mesh size, towed at a speed of 1 m s-1) was used and three major plankton groups were defined: non-gelatinous mesozooplankton (mainly copepods and chaetognaths; 1-30 mm length), gelatinous mesozooplankton (mainly siphonophorans, medudae and salps; individual or zooid; 1-30 mm length) and macroplankton (mainly shrimps; over 30 mm length). Over 300 plankton taxa were identified, among which 243 belonged to Copepoda. Two-dimensional distribution (latitude versus depth zone) of major group biomass, total copepod abundance, and abundance of dominant species is presented as well as distribution of biodiversity parameters (number of species, Shannon and 'dominance' indices). Biomass and abundance of all major groups were depth-dependent. The number of taxa (N) was depended on surface productivity, diversity of the communities was strongly linked to depth, whilst 'evenness' was independant upon both variables. Each of depth strata was inhabited by distinct copepod assemblages, which significantly differed from each other. The paper is concluded with brief descriptions of the deep Atlantic plankton communities from studied strata.

Plankton assembly in an ultra-oligotrophic Antarctic lake over the summer transition from the ice-cover to ice-free period: A size spectra approach

NASA Astrophysics Data System (ADS)

Rochera, Carlos; Quesada, Antonio; Toro, Manuel; Rico, Eugenio; Camacho, Antonio

2017-03-01

Lakes from the Antarctic maritime region experience climate change as a main stressor capable of modifying their plankton community structure and function, essentially because summer temperatures are commonly over the freezing point and the lake's ice cap thaws. This study was conducted in such seasonally ice-covered lake (Lake Limnopolar, Byers Peninsula, Livingston Is., Antarctica), which exhibits a microbial dominated pelagic food web. An important feature is also the occurrence of benthic mosses (Drepanocladus longifolius) covering the lake bottom. Plankton dynamics were investigated during the ice-thawing transition to the summer maximum. Both bacterioplankton and viral-like particles were higher near the lake's bottom, suggesting a benthic support. When the lake was under dim conditions because of the snow-and-ice cover, autotrophic picoplankters dominated at deep layers. The taxa-specific photopigments indicated dominance of picocyanobacteria among them when the light availability was lower. By contrast, larger and less edible phytoplankton dominated at the onset of the ice melting. The plankton size spectra were fitted to the continuous model of Pareto distribution. Spectra evolved similarly at two sampled depths, in surface and near the bottom, with slopes increasing until mid-January. However, slopes were less steep (i.e., size classes more uniformly distributed) at the bottom, thus denoting a more efficient utilization of resources. These findings suggest that microbial loop pathways in the lake are efficiently channelized during some periods to the metazoan production (mainly the copepod Boeckella poppei). Our results point to that trophic interactions may still occur in these lakes despite environmental harshness. This results of interest in a framework of increasing temperatures that may reduce the climatic restrictions and therefore stimulate biotic interactions.

Relationships between environmental conditions and the morphological variability of planktonic testate amoeba in four neotropical floodplains.

PubMed

Arrieira, Rodrigo Leite; Schwind, Leilane Talita Fatoreto; Joko, Ciro Yoshio; Alves, Geziele Mucio; Velho, Luiz Felipe Machado; Lansac-Tôha, Fábio Amodêo

2016-10-01

Planktonic testate amoebae in floodplains exhibit a broad-range of morphological variability. The variation size is already known, but it is necessary to know how this is for morphological variables. This study aimed to identify the relationships between testate amoebae morphology and environmental factors in four neotropical floodplains. We conducted detailed morphometric analyses on 27 common species of planktonic testate amoebae from genera Arcella, Centropyxis, Cucurbitella, Suiadifflugia, Difflugia, Lesquereusia and Netzelia. We sampled subsurface water from each lake in 72 lakes in four Brazilian floodplain lakes. Our goals were to assess: (1) the range of their morphological variability (a) over space within each floodplain, and (b) among the four floodplains, and (c) over time, and (2) which environmental factors explained this variation. Mean shell height and breadth varied considerably among the different floodplain lakes, especially in the Pantanal and Amazonian floodplains. The morphological variability of testate amoeba was correlated to environmental conditions (ammonia, nitrate, phosphate, chlorophyll-a, turbidity, temperature, and depth). Thus, understanding the morphological variation of the testate amoeba species can elucidate many questions involving the ecology of these organisms. Furthermore, could help molecular studies, bioindicator role of these organisations, environmental reconstruction, among others. Copyright © 2016 Elsevier GmbH. All rights reserved.

A planktonic diatom displays genetic structure over small spatial scales.

PubMed

Sefbom, Josefin; Kremp, Anke; Rengefors, Karin; Jonsson, Per R; Sjöqvist, Conny; Godhe, Anna

2018-04-03

Marine planktonic microalgae have potentially global dispersal, yet reduced gene flow has been confirmed repeatedly for several species. Over larger distances (>200 km) geographic isolation and restricted oceanographic connectivity have been recognized as instrumental in driving population divergence. Here we investigated whether similar patterns, that is, structured populations governed by geographic isolation and/or oceanographic connectivity, can be observed at smaller (6-152 km) geographic scales. To test this we established 425 clonal cultures of the planktonic diatom Skeletonema marinoi collected from 11 locations in the Archipelago Sea (northern Baltic Sea). The region is characterized by a complex topography, entailing several mixing regions of which four were included in the sampling area. Using eight microsatellite markers and conventional F-statistics, significant genetic differentiation was observed between several sites. Moreover, Bayesian cluster analysis revealed the co-occurrence of two genetic groups spread throughout the area. However, geographic isolation and oceanographic connectivity could not explain the genetic patterns observed. Our data reveal hierarchical genetic structuring whereby despite high dispersal potential, significantly diverged populations have developed over small spatial scales. Our results suggest that biological characteristics and historical events may be more important in generating barriers to gene flow than physical barriers at small spatial scales. © 2018 Society for Applied Microbiology and John Wiley & Sons Ltd.

Adhesion of and to soil in runoff as influenced by polyacrylamide.

PubMed

Bech, Tina B; Sbodio, Adrian; Jacobsen, Carsten S; Suslow, Trevor

2014-11-01

Polyacrylamide (PAM) is used in agriculture to reduce soil erosion and has been reported to reduce turbidity, nutrients, and pollutants in surface runoff water. The objective of this work was to determine the effect of PAM on the concentration of enteric bacteria in surface runoff by comparing four enteric bacteria representing phenotypically different motility and hydrophobicity from three soils. Results demonstrated that bacterial surface runoff was differentially influenced by the PAM treatment. Polyacrylamide treatment increased surface runoff for adhered and planktonic cells from a clay soil; significantly decreased surface runoff of adhered bacteria, while no difference was observed for planktonic bacteria from the sandy loam; and significantly decreased the surface runoff of planktonic cells, while no difference was observed for adhered bacteria from the clay loam. Comparing strains from a final water sample collected after 48 h showed a greater loss of while serovar Poona was almost not detected. Thus, (i) the PAM efficiency in reducing the concentration of enteric bacteria in surface runoff was influenced by soil type and (ii) variation in the loss of enteric bacteria highlights the importance of strain-specific properties that may not be captured with general fecal indicator bacteria. Copyright © by the American Society of Agronomy, Crop Science Society of America, and Soil Science Society of America, Inc.

Fully Integrated Microfluidic Device for Direct Sample-to-Answer Genetic Analysis

NASA Astrophysics Data System (ADS)

Liu, Robin H.; Grodzinski, Piotr

Integration of microfluidics technology with DNA microarrays enables building complete sample-to-answer systems that are useful in many applications such as clinic diagnostics. In this chapter, a fully integrated microfluidic device [1] that consists of microfluidic mixers, valves, pumps, channels, chambers, heaters, and a DNA microarray sensor to perform DNA analysis of complex biological sample solutions is present. This device can perform on-chip sample preparation (including magnetic bead-based cell capture, cell preconcentration and purification, and cell lysis) of complex biological sample solutions (such as whole blood), polymerase chain reaction, DNA hybridization, and electrochemical detection. A few novel microfluidic techniques were developed and employed. A micromix-ing technique based on a cavitation microstreaming principle was implemented to enhance target cell capture from whole blood samples using immunomagnetic beads. This technique was also employed to accelerate DNA hybridization reaction. Thermally actuated paraffin-based microvalves were developed to regulate flows. Electrochemical pumps and thermopneumatic pumps were integrated on the chip to provide pumping of liquid solutions. The device is completely self-contained: no external pressure sources, fluid storage, mechanical pumps, or valves are necessary for fluid manipulation, thus eliminating possible sample contamination and simplifying device operation. Pathogenic bacteria detection from ~mL whole blood samples and single-nucleotide polymorphism analysis directly from diluted blood were demonstrated. The device provides a cost-effective solution to direct sample-to-answer genetic analysis, and thus has a potential impact in the fields of point-of-care genetic analysis, environmental testing, and biological warfare agent detection.

Quantitative NMR Metabolite Profiling of Methicillin-Resistant and Methicillin-Susceptible Staphylococcus aureus Discriminates between Biofilm and Planktonic Phenotypes

PubMed Central

2015-01-01

Wound bioburden in the form of colonizing biofilms is a major contributor to nonhealing wounds. Staphylococcus aureus is a Gram-positive, facultative anaerobe commonly found in chronic wounds; however, much remains unknown about the basic physiology of this opportunistic pathogen, especially with regard to the biofilm phenotype. Transcriptomic and proteomic analysis of S. aureus biofilms have suggested that S. aureus biofilms exhibit an altered metabolic state relative to the planktonic phenotype. Herein, comparisons of extracellular and intracellular metabolite profiles detected by 1H NMR were conducted for methicillin-resistant (MRSA) and methicillin-susceptible (MSSA) S. aureus strains grown as biofilm and planktonic cultures. Principal component analysis distinguished the biofilm phenotype from the planktonic phenotype, and factor loadings analysis identified metabolites that contributed to the statistical separation of the biofilm from the planktonic phenotype, suggesting that key features distinguishing biofilm from planktonic growth include selective amino acid uptake, lipid catabolism, butanediol fermentation, and a shift in metabolism from energy production to assembly of cell-wall components and matrix deposition. These metabolite profiles provide a basis for the development of metabolite biomarkers that distinguish between biofilm and planktonic phenotypes in S. aureus and have the potential for improved diagnostic and therapeutic use in chronic wounds. PMID:24809402

Origin of marine planktonic cyanobacteria.

PubMed

Sánchez-Baracaldo, Patricia

2015-12-01

Marine planktonic cyanobacteria contributed to the widespread oxygenation of the oceans towards the end of the Pre-Cambrian and their evolutionary origin represents a key transition in the geochemical evolution of the Earth surface. Little is known, however, about the evolutionary events that led to the appearance of marine planktonic cyanobacteria. I present here phylogenomic (135 proteins and two ribosomal RNAs), Bayesian relaxed molecular clock (18 proteins, SSU and LSU) and Bayesian stochastic character mapping analyses from 131 cyanobacteria genomes with the aim to unravel key evolutionary steps involved in the origin of marine planktonic cyanobacteria. While filamentous cell types evolved early on at around 2,600-2,300 Mya and likely dominated microbial mats in benthic environments for most of the Proterozoic (2,500-542 Mya), marine planktonic cyanobacteria evolved towards the end of the Proterozoic and early Phanerozoic. Crown groups of modern terrestrial and/or benthic coastal cyanobacteria appeared during the late Paleoproterozoic to early Mesoproterozoic. Decrease in cell diameter and loss of filamentous forms contributed to the evolution of unicellular planktonic lineages during the middle of the Mesoproterozoic (1,600-1,000 Mya) in freshwater environments. This study shows that marine planktonic cyanobacteria evolved from benthic marine and some diverged from freshwater ancestors during the Neoproterozoic (1,000-542 Mya).

Origin of marine planktonic cyanobacteria

PubMed Central

Sánchez-Baracaldo, Patricia

2015-01-01

Marine planktonic cyanobacteria contributed to the widespread oxygenation of the oceans towards the end of the Pre-Cambrian and their evolutionary origin represents a key transition in the geochemical evolution of the Earth surface. Little is known, however, about the evolutionary events that led to the appearance of marine planktonic cyanobacteria. I present here phylogenomic (135 proteins and two ribosomal RNAs), Bayesian relaxed molecular clock (18 proteins, SSU and LSU) and Bayesian stochastic character mapping analyses from 131 cyanobacteria genomes with the aim to unravel key evolutionary steps involved in the origin of marine planktonic cyanobacteria. While filamentous cell types evolved early on at around 2,600–2,300 Mya and likely dominated microbial mats in benthic environments for most of the Proterozoic (2,500–542 Mya), marine planktonic cyanobacteria evolved towards the end of the Proterozoic and early Phanerozoic. Crown groups of modern terrestrial and/or benthic coastal cyanobacteria appeared during the late Paleoproterozoic to early Mesoproterozoic. Decrease in cell diameter and loss of filamentous forms contributed to the evolution of unicellular planktonic lineages during the middle of the Mesoproterozoic (1,600–1,000 Mya) in freshwater environments. This study shows that marine planktonic cyanobacteria evolved from benthic marine and some diverged from freshwater ancestors during the Neoproterozoic (1,000–542 Mya). PMID:26621203

UV sensitivity of planktonic net community production in ocean surface waters

NASA Astrophysics Data System (ADS)

Regaudie-de-Gioux, Aurore; Agustí, Susana; Duarte, Carlos M.

2014-05-01

The net plankton community metabolism of oceanic surface waters is particularly important as it more directly affects the partial pressure of CO2 in surface waters and thus the air-sea fluxes of CO2. Plankton communities in surface waters are exposed to high irradiance that includes significant ultraviolet blue (UVB, 280-315 nm) radiation. UVB radiation affects both photosynthetic and respiration rates, increase plankton mortality rates, and other metabolic and chemical processes. Here we test the sensitivity of net community production (NCP) to UVB of planktonic communities in surface waters across contrasting regions of the ocean. We observed here that UVB radiation affects net plankton community production at the ocean surface, imposing a shift in NCP by, on average, 50% relative to the values measured when excluding partly UVB. Our results show that under full solar radiation, the metabolic balance shows the prevalence of net heterotrophic community production. The demonstration of an important effect of UVB radiation on NCP in surface waters presented here is of particular relevance in relation to the increased UVB radiation derived from the erosion of the stratospheric ozone layer. Our results encourage design future research to further our understanding of UVB effects on the metabolic balance of plankton communities.

[Effect of Pseudomonas aeruginosa exometabolites on planktonic and biofilm cultures of Escherichia coli].

PubMed

Kuznetsova, M V; Karpunina, T I; Maslennikova, I L; Nesterova, L Iu; Demakov, V A

2012-01-01

Study the effect of P. aeruginosa exometabolites on planktonic and biofilm cultures of bioluminescent E. coli strain. E. coli K12 TG1 (pF1 lux+ Ap(r)) recombinant bioluminescent strain, P. aeruginosa ATCC 27853 reference strain and 2 nosocomial isolates were used. Pyocyanin and pyoverdin content in supernatant of P. aeruginosa over-night cultures was evaluated according to E. Deziel et al. (2001). Planktonic and biofilm cultures of E. coli were obtained in 96-well plates (LB, statically, 37 degrees C), optical density of plankton, film biomass (OD600, OD580) and bioluminescence in plankton and biofilm were evaluated in microplate reader Infiniti M200 (Tecan, Austria). P. aeruginosa exometabolites increased the duration of lag-phase in E. coli, and short term exposition inhibited luminescence of planktonic cells. These effects are determined by bactericidal action ofpyocyanin and pyoverdin. Supernatants ofover-night cultures of P. aeruginosa inhibit formation of biofilm and disrupt the formed biofilm of E. coli. Effect of pyocyanin and pyoverdin on these processes is not established, other factors may have higher significance. Bioluminescence of E. coli K12 TGI that reflects the energetic status of the cell allows to evaluate and prognose the character of coexistence of P. aeruginosa in combined with E. coli planktonic and biofilm culture.

Ecological-network models link diversity, structure and function in the plankton food-web

NASA Astrophysics Data System (ADS)

D'Alelio, Domenico; Libralato, Simone; Wyatt, Timothy; Ribera D'Alcalà, Maurizio

2016-02-01

A planktonic food-web model including sixty-three functional nodes (representing auto- mixo- and heterotrophs) was developed to integrate most trophic diversity present in the plankton. The model was implemented in two variants - which we named ‘green’ and ‘blue’ - characterized by opposite amounts of phytoplankton biomass and representing, respectively, bloom and non-bloom states of the system. Taxonomically disaggregated food-webs described herein allowed to shed light on how components of the plankton community changed their trophic behavior in the two different conditions, and modified the overall functioning of the plankton food web. The green and blue food-webs showed distinct organizations in terms of trophic roles of the nodes and carbon fluxes between them. Such re-organization stemmed from switches in selective grazing by both metazoan and protozoan consumers. Switches in food-web structure resulted in relatively small differences in the efficiency of material transfer towards higher trophic levels. For instance, from green to blue states, a seven-fold decrease in phytoplankton biomass translated into only a two-fold decrease in potential planktivorous fish biomass. By linking diversity, structure and function in the plankton food-web, we discuss the role of internal mechanisms, relying on species-specific functionalities, in driving the ‘adaptive’ responses of plankton communities to perturbations.

No increase in marine microplastic concentration over the last three decades - A case study from the Baltic Sea.

PubMed

Beer, Sabrina; Garm, Anders; Huwer, Bastian; Dierking, Jan; Nielsen, Torkel Gissel

2018-04-15

Microplastic is considered a potential threat to marine life as it is ingested by a wide variety of species. Most studies on microplastic ingestion are short-term investigations and little is currently known about how this potential threat has developed over the last decades where global plastic production has increased exponentially. Here we present the first long-term study on microplastic in the marine environment, covering three decades from 1987 to 2015, based on a unique sample set originally collected and conserved for food web studies. We investigated the microplastic concentration in plankton samples and in digestive tracts of two economically and ecologically important planktivorous forage fish species, Atlantic herring (Clupea harengus) and European sprat (Sprattus sprattus), in the Baltic Sea, an ecosystem which is under high anthropogenic pressure and has undergone considerable changes over the past decades. Surprisingly, neither the concentration of microplastic in the plankton samples nor in the digestive tracts changed significantly over the investigated time period. Average microplastic concentration in the plankton samples was 0.21±0.15particlesm -3 . Of 814 fish examined, 20% contained plastic particles, of which 95% were characterized as microplastic (<5mm) and of these 93% were fibres. There were no significant differences in the plastic content between species, locations, or time of day the fish were caught. However, fish size and microplastic in the digestive tracts were positively correlated, and the fish contained more plastic during summer than during spring, which may be explained by increased food uptake with size and seasonal differences in feeding activity. This study highlights that even though microplastic has been present in the Baltic environment and the digestive tracts of fishes for decades, the levels have not changed in this period. This underscores the need for greater understanding of how plastic is cycled through marine ecosystems. The stability of plastic concentration and contamination over time observed here indicates that the type and level of microplastic pollution may be more closely correlated to specific human activities in a region than to global plastic production and utilization as such. Copyright © 2017 The Authors. Published by Elsevier B.V. All rights reserved.

Microbial community structures differentiated in a single-chamber air-cathode microbial fuel cell fueled with rice straw hydrolysate.

PubMed

Wang, Zejie; Lee, Taekwon; Lim, Bongsu; Choi, Chansoo; Park, Joonhong

2014-01-17

The microbial fuel cell represents a novel technology to simultaneously generate electric power and treat wastewater. Both pure organic matter and real wastewater can be used as fuel to generate electric power and the substrate type can influence the microbial community structure. In the present study, rice straw, an important feedstock source in the world, was used as fuel after pretreatment with diluted acid method for a microbial fuel cell to obtain electric power. Moreover, the microbial community structures of anodic and cathodic biofilm and planktonic culturewere analyzed and compared to reveal the effect of niche on microbial community structure. The microbial fuel cell produced a maximum power density of 137.6 ± 15.5 mW/m2 at a COD concentration of 400 mg/L, which was further increased to 293.33 ± 7.89 mW/m2 through adjusting the electrolyte conductivity from 5.6 mS/cm to 17 mS/cm. Microbial community analysis showed reduction of the microbial diversities of the anodic biofilm and planktonic culture, whereas diversity of the cathodic biofilm was increased. Planktonic microbial communities were clustered closer to the anodic microbial communities compared to the cathodic biofilm. The differentiation in microbial community structure of the samples was caused by minor portion of the genus. The three samples shared the same predominant phylum of Proteobacteria. The abundance of exoelectrogenic genus was increased with Desulfobulbus as the shared most abundant genus; while the most abundant exoelectrogenic genus of Clostridium in the inoculum was reduced. Sulfate reducing bacteria accounted for large relative abundance in all the samples, whereas the relative abundance varied in different samples. The results demonstrated that rice straw hydrolysate can be used as fuel for microbial fuel cells; microbial community structure differentiated depending on niches after microbial fuel cell operation; exoelectrogens were enriched; sulfate from rice straw hydrolysate might be responsible for the large relative abundance of sulfate reducing bacteria.

Microbial community structures differentiated in a single-chamber air-cathode microbial fuel cell fueled with rice straw hydrolysate

PubMed Central

2014-01-01

Background The microbial fuel cell represents a novel technology to simultaneously generate electric power and treat wastewater. Both pure organic matter and real wastewater can be used as fuel to generate electric power and the substrate type can influence the microbial community structure. In the present study, rice straw, an important feedstock source in the world, was used as fuel after pretreatment with diluted acid method for a microbial fuel cell to obtain electric power. Moreover, the microbial community structures of anodic and cathodic biofilm and planktonic culturewere analyzed and compared to reveal the effect of niche on microbial community structure. Results The microbial fuel cell produced a maximum power density of 137.6 ± 15.5 mW/m2 at a COD concentration of 400 mg/L, which was further increased to 293.33 ± 7.89 mW/m2 through adjusting the electrolyte conductivity from 5.6 mS/cm to 17 mS/cm. Microbial community analysis showed reduction of the microbial diversities of the anodic biofilm and planktonic culture, whereas diversity of the cathodic biofilm was increased. Planktonic microbial communities were clustered closer to the anodic microbial communities compared to the cathodic biofilm. The differentiation in microbial community structure of the samples was caused by minor portion of the genus. The three samples shared the same predominant phylum of Proteobacteria. The abundance of exoelectrogenic genus was increased with Desulfobulbus as the shared most abundant genus; while the most abundant exoelectrogenic genus of Clostridium in the inoculum was reduced. Sulfate reducing bacteria accounted for large relative abundance in all the samples, whereas the relative abundance varied in different samples. Conclusion The results demonstrated that rice straw hydrolysate can be used as fuel for microbial fuel cells; microbial community structure differentiated depending on niches after microbial fuel cell operation; exoelectrogens were enriched; sulfate from rice straw hydrolysate might be responsible for the large relative abundance of sulfate reducing bacteria. PMID:24433535

Seasonal and interannual changes in zooplankton community in the coastal zone of the North-Eastern Black Sea.

NASA Astrophysics Data System (ADS)

Nikishina, A. B.; Arashkevich, E. G.; Louppova, N. E.; Soloviev, K. A.

2009-04-01

The phenological response of zooplankton community is a result of simultaneous effect of several factors: feeding conditions, predation abundance, periods of reproduction of common species and hydrodynamic regime. The Black sea ecosystem is one of the best studied in the world, otherwise there is still some illegibility about ecosystem functioning and especially about environmental factors influence on zooplankton dynamics. For the last twenty years pelagic system of the Black Sea has changed dramatically. The invasion of ctenophore Mnemiopsis leidyi in the middle of eighties caused significant decrease in zooplankton biomass. It also altered plankton structure and shifted periods of mass reproduction of the abundant species and biomass maximums. For instance, before the invasion of Mnemiopsis the maximum of zooplankton biomass was observed in autumn (data by A. Pasternak, 1983), and after that the maximum moved to the spring (data by V.S. Khoroshilov, 1999). The incursion of ctenophore Beroe ovata feeding on Mnemiopsis in the nineties has led to the enhancement of zooplankton community. Although the detailed analysis of seasonal zooplankton dynamics wasn't performed in the recent years. The object of our research was to study seasonal and interannual changes in zooplankton community in the coastal area of the North-Eastern Black Sea. Analysis of interannual, seasonal and spatial changes in zooplankton distribution, abundance and species composition along with age structure of dominant populations were performed based on investigations during 2005-2008 years in the North-Eastern Black Sea. Plankton samples were obtained monthly since June 2005 till December 2008. Plankton was collected at three stations at depths 25m, 50m and 500-1000m along the transect from the Blue Bay to the open sea. Sampling of gelatinous animals was conducted in parallel to the zooplankton sampling. Simultaneously with plankton sampling CTD data were obtained. The feeding conditions were obtained using SSC satellite data. For studying vertical distribution of zooplankton depth stratified samples were collected in different seasons. To evaluate seasonal variations in reproduction and offspring development of dominant mesozooplankton populations, we analyzed age structure of five species: four herbivorous copepods - Acartia clausi, Pseudocalanus elongatus, Paracalanus parvus and Calanus euxinus, and carnivorous chaethognaths Parasagitta setosa. Periods of mass reproduction varied in different years. The possible reason for this variation is the effect of climate change and top-predators on seasonal shift in zooplankton dynamics. Whereas timing of reproduction is related to life strategy of species, an intensity of reproduction and success of new generations depend on food supply. The impact of food conditions on abundance and age structure of herbivores was studied in the different seasons. Vertical distribution of different species also altered from year to year. Thus, in "warm" July 2007 (sea surface temperature 27°C) most of the Calanus euxinus population concentrated in the deeper layers than in "cold" July 2005 (sea surface temperature 22°C).

Relations of habitat-specific algal assemblages to land use and water chemistry in the Willamette Basin, Oregon

USGS Publications Warehouse

Carpenter, K.D.; Waite, I.R.

2000-01-01

Benthic algal assemblages, water chemistry, and habitat were characterized at 25 stream sites in the Willamette Basin, Oregon, during low flow in 1994. Seventy-three algal samples yielded 420 taxa - Mostly diatoms, blue-green algae, and green algae. Algal assemblages from depositional samples were strongly dominated by diatoms (76% mean relative abundance), whereas erosional samples were dominated by blue-green algae (68% mean relative abundance). Canonical correspondence analysis (CCA) of semiquantitative and qualitative (presence/absence) data sets identified four environmental variables (maximum specific conductance, % open canopy, pH, and drainage area) that were significant in describing patterns of algal taxa among sites. Based on CCA, four groups of sites were identified: Streams in forested basins that supported oligotrophic taxa, such as Diatoma mesodon; small streams in agricultural and urban basins that contained a variety of eutrophic and nitrogen-heterotrophic algal taxa; larger rivers draining areas of mixed land use that supported planktonic, eutrophic, and nitrogen-heterotrophic algal taxa; and streams with severely degraded or absent riparian vegetation (> 75% open canopy) that were dominated by other planktonic, eutrophic, and nitrogen-heterotrophic algal taxa. Patterns in water chemistry were consistent with the algal autecological interpretations and clearly demonstrated relationships between land use, water quality, and algal distribution patterns.

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

Jeffries, H P

As a test of the hypothesis that fatty acid patterns of entire planktonic communities should be less variable and more predictable in offshore waters than estuarine habitats, monthly samples have been taken in Block Island Sound, Narragansett Bay, and Green Hill Pond (a brackish lagoon), R.I. Observations include physical environmental properties, standing crop estimates, and fatty acid distribution in two size fractions - phytoplankton-microzooplankton and zooplankton. A second hypothesis states that the annual sample trajectory of a zooplankton community displayed in biochemical(fatty acid) phase space is related to production, but only under certain circumstances. Samples were also taken along themore » major axes of Ria de Arosa and Ria de Muros y Noya, two deep embayments on the Atlantic coast of northern Spain. Results on the first hypothesis show that each system in the gradient of environmental severity behaves individually during the autumnal cooling period, when plankton production declines to annual minima. Spatial distribution of zooplankton in the two adjacent Spanish rias differ completely, both qualitatively and quantitatively. A comparison between the Spanish rias and the three US estuaries should reveal the basic nature of chemically defined stable domain in community structure. From these relations, the fate of communities subjected to either natural stressors or anthrogenic perturbation may be predicted with economy, speed, and objectivity.« less

An automated leaching method for the determination of opal in sediments and particulate matter

NASA Astrophysics Data System (ADS)

Müller, Peter J.; Schneider, Ralph

1993-03-01

An automated leaching method for the analysis of biogenic silica (opal) in sediments and particulate matter is described. The opaline material is extracted with 1 M NaOH at 85°C in a stainless steel vessel under constant stirring, and the increase in dissolved silica is continuously monitored. For this purpose, a minor portion of the leaching solution is cycled to an autoanalyzer and analyzed for dissolved silicon by molybdate-blue spectrophotometry. The resulting absorbance versus time plot is then evaluated according to the extrapolation procedure of DEMASTER (1981). The method has been tested on sponge spicules, radiolarian tests. Recent and Pliocene diatomaceous ooze samples, clay minerals and quartz, artificial sediment mixtures, and on various plankton, sediment trap and sediment samples. The results show that the relevant forms of biogenic opal in Quaternary sediments are quantitatively recovered. The time required for an analysis is dependent on the sample type, ranging from 10 to 20 min for plankton and sediment trap material and up to 40-60 min for Quaternary sediments. The silica co-extracted from silicate minerals is largely compensated for by the applied extrapolation technique. The remaining degree of uncertainty is on the order of 0.4 wt% SiO 2 or less, depending on the clay mineral composition and content.

Standard filtration practices may significantly distort planktonic microbial diversity estimates.

PubMed

Padilla, Cory C; Ganesh, Sangita; Gantt, Shelby; Huhman, Alex; Parris, Darren J; Sarode, Neha; Stewart, Frank J

2015-01-01

Fractionation of biomass by filtration is a standard method for sampling planktonic microbes. It is unclear how the taxonomic composition of filtered biomass changes depending on sample volume. Using seawater from a marine oxygen minimum zone, we quantified the 16S rRNA gene composition of biomass on a prefilter (1.6 μm pore-size) and a downstream 0.2 μm filter over sample volumes from 0.05 to 5 L. Significant community shifts occurred in both filter fractions, and were most dramatic in the prefilter community. Sequences matching Vibrionales decreased from ~40 to 60% of prefilter datasets at low volumes (0.05-0.5 L) to less than 5% at higher volumes, while groups such at the Chromatiales and Thiohalorhabdales followed opposite trends, increasing from minor representation to become the dominant taxa at higher volumes. Groups often associated with marine particles, including members of the Deltaproteobacteria, Planctomycetes, and Bacteroidetes, were among those showing the greatest increase with volume (4 to 27-fold). Taxon richness (97% similarity clusters) also varied significantly with volume, and in opposing directions depending on filter fraction, highlighting potential biases in community complexity estimates. These data raise concerns for studies using filter fractionation for quantitative comparisons of aquatic microbial diversity, for example between free-living and particle-associated communities.

Pump and probe spectroscopy with continuous wave quantum cascade lasers.

PubMed

Kirkbride, James M R; Causier, Sarah K; Dalton, Andrew R; Weidmann, Damien; Ritchie, Grant A D

2014-02-07

This paper details infra-red pump and probe studies on nitric oxide conducted with two continuous wave quantum cascade lasers both operating around 5 μm. The pump laser prepares a velocity selected population in a chosen rotational quantum state of the v = 1 level which is subsequently probed using a second laser tuned to a rotational transition within the v = 2 ← v = 1 hot band. The rapid frequency scan of the probe (with respect to the molecular collision rate) in combination with the velocity selective pumping allows observation of marked rapid passage signatures in the transient absorption profiles from the polarized vibrationally excited sample. These coherent transient signals are influenced by the underlying hyperfine structure of the pump and probe transitions, the sample pressure, and the coherent properties of the lasers. Pulsed pump and probe studies show that the transient absorption signals decay within 1 μs at 50 mTorr total pressure, reflecting both the polarization and population dephasing times of the vibrationally excited sample. The experimental observations are supported by simulation based upon solving the optical Bloch equations for a two level system.

Reproduction among protobranch bivalves of the family Nuculidae from sublittoral, bathyal, and abyssal depths off the New England coast of North America

NASA Astrophysics Data System (ADS)

Scheltema, Rudolf S.; Williams, Isabelle P.

2009-09-01

Protobranch bivalve species of the family Nuculidae pass through either a planktonic lecithotrophic larval stage or a direct non-planktonic development. Oogenesis of the three sublittoral species examined is synchronous. Deposition of egg masses by Nucula delphinodonta and spawning by Nucula annulata and Nucula proxima occur only during summer months. Among the four bathyal and abyssal species, Ennucula similis, Ennucula granulosa, Deminucula atacellana, and Brevinucula verrilli, oogenesis is asynchronous and there is no discernable pattern of periodicity of spawning. Absence of periodicity in reproduction in these deep-sea species is confirmed by examination of individuals from dredge samples taken at different times of the year. The median apparent fecundity among both sublittoral and deep-sea species is directly related to size (i.e. shell length) and age. Among the Nuculidae the median apparent fecundity is greater among sublittoral than bathyal and abyssal species. The geographic distribution of a species depends on its capacity to disperse. The dispersal of the planktonic lecithotrophic larvae of the sublittoral species N. annulata and N. proxima is limited to the continental shelf of the northwestern Atlantic by inshore bottom circulation and because these very small planktonic larvae (<2.5 mm) lack the capacity to move vertically upward through the water column into the offshore currents. On the other hand, the bathyal and abyssal species having lecithotrophic larvae have a very wide amphi-Atlantic distribution extending from 60°N to 40°S latitude along the North and South American coasts and from 55°N to ca. 19°S from off Europe southwards to the coast of West Africa as a consequence of dispersal by planktonic lecithotrophic larvae along the seafloor. The amphi-Atlantic dispersal must occur stepwise between deep-sea populations (e.g., off Greenland). Such a geographic distribution indicates a widespread dispersal and is supported by the genetic similarity that has been described between North American and western European populations of D. atacellana.

Distribution of Dechlorinating Bacteria between the Aqueous and Solid Phases

NASA Astrophysics Data System (ADS)

Cápiro, N. L.; Hatt, J. K.; Wang, Y.; Loeffler, F. E.; Pennell, K. D.

2010-12-01

Microbial monitoring of aquifers relies on nucleic acid biomarker analysis, which is typically performed with biomass recovered from groundwater samples; however, it is unclear what fraction of the target population(s) is associated with groundwater (i.e., planktonic cells) or is attached to solid phases (i.e., biofilms). Understanding how the titer of target organism(s) in groundwater correlates with the true cell titers of the target organism in the aquifer (i.e., planktonic plus attached cells) is critical for a meaningful interpretation of the data, the prediction of bioremediation performance, and the implementation of site management strategies. To evaluate the distribution of active cells between resident solid phase and the aqueous phase, one-dimensional columns were packed under water-saturated conditions with Bio-Dechlor INOCULUM, a PCE-to ethene-dechlorinating bacterial consortium containing both multiple Dehalococcoides (Dhc) strains and Geobacter lovleyi strain SZ (GeoSZ). The columns were packed with two distinct solid matrices: a low organic content sandy Federal Fine Ottawa soil or Appling soil with higher organic matter content. Influent reduced mineral salts medium supplied at a groundwater pore-water velocity of 0.3 m/day contained both 10 mM lactate as electron donor and 0.33 mM PCE as electron acceptor. Routine collection of biomass from column side ports and effluent samples measured the titers of target cells in the aqueous phase and determined when steady state conditions had been reached. A second set of column experiments evaluated delivery and filtration effects by the solid matrix (i.e., Federal Fine Ottawa sand versus Appling soil) under the same conditions except that electron donor or acceptor were omitted (no growth conditions). Quantitative real-time PCR (qPCR) analysis using Dhc and GeoSZ 16S rRNA gene-targeted primer and probe sets determined the planktonic cell counts, and destructive sampling of the columns allowed measurement of the total cell titer (i.e., attached plus planktonic cells). The results indicate that within the higher organic matter Appling soil, the fraction of target cells associated with the solid phase was nearly 2-orders of magnitude higher compared to the fraction attached to the aqueous phase. In the sandy soil, differences were approximately 1-order of magnitude. Ongoing efforts use dynamic light scattering and electrophoretic mobility measurements over a range of ionic strengths and pH values to shed light on the parameters that control microbial attachment behavior. Knowledge of factors that affect microbial distribution between aqueous and solid phases is essential for interpreting qPCR data obtained from site groundwater where biological remedies are implemented.

Mg/Ca in foraminifera from plankton tows: Evaluation of proxy controls and comparison with core tops

NASA Astrophysics Data System (ADS)

Martínez-Botí, M. A.; Mortyn, P. G.; Schmidt, D. N.; Vance, D.; Field, D. B.

2011-07-01

Calibrations and validations of the Mg/Ca paleothermometer in planktic foraminifera have traditionally been performed by means of core tops, sediment trap samples and culture experiments. In this study, Mg/Ca ratios have been measured in 8 species of planktic foraminifera (non-globorotaliids Globigerina bulloides, Neogloboquadrina incompta, Orbulina universa, Globigerinoides ruber (white) and G. sacculifer, and globorotaliids Globorotalia inflata, G. hirsuta and G. truncatulinoides), collected live from the North Atlantic, the Southeast Atlantic, the Northeast Pacific and the Norwegian Sea. Mg/Ca ratios for N. incompta, O. universa, G. ruber, G. sacculifer and G. truncatulinoides are similar to available North Atlantic core-top studies and consistent with previous calibration equations. In contrast, some G. bulloides, G. inflata and G. hirsuta Mg/Ca ratios are higher than predicted based on δ 18O values, and exhibit considerable scatter. This elevation may be in part related to the impact of potential isotopic disequilibrium effects on δ 18O-derived temperatures, which the Mg/Ca ratios are compared to. Another factor that may affect Mg/Ca ratios in some plankton samples is the lack of low-Mg test components (e.g., final chambers or gametogenic calcite), because of the incompleteness of the life cycle at the time of collection. N. incompta Mg/Ca ratios are correlated with salinity, with Mg/Ca changing about 16% per salinity unit, suggesting that salinity may have an important influence on Mg/Ca of some species even in non-extreme salinity environments. This is the first extensive multispecific plankton tow Mg/Ca data set from different oceanographic regions, which has been used to test the Mg/Ca temperature proxy in the context of published calibration data, highlighting the complex physiological/ecological controls on the acquisition of the proxy signal.

Uranium in foraminiferal calcite as a recorder of seawater uranium concentrations

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

Russell, A.D.; Emerson, S.; Nelson, B.K.

The authors present results of an investigation of uranium/calcium ratios in cleaned foraminiferal calcite as a recorder of seawater uranium concentrations. For accurate reconstruction of past seawater uranium content, shell calcite must incorporate uranium in proportion to seawater concentration and must preserve its original uranium composition over time. Laboratory culture experiments with live benthic (Amphistegina lobifera) and live planktonic (Globigerinell calida) foraminifera show that the U/Ca ratio of cleaned calcite tests is proportional to the concentration of uranium in solution. After correcting results for the presence of initial calcite, the apparent distribution coefficient D = (U/Ca[sub calcite])/(U/Ca)[sub solution] = 10.6more » [+-] 0.3 (x10[sup [minus]3]) for A. lobifera and D = 7.9 [+-] 0.1 (x10[sup [minus]3]) for G. calida. U/Ca ratios in planktonic foraminifera from core tops collected above 3900 m in the equatorial Atlantic and above 2100 m in the Pacific Ocean show no significant difference among the species analyzed. D estimated form core top samples ranges from 7.6 [+-] 0.4 (x10[sup [minus]3]) for O. universa to 8.4 [+-] 0.5 (x10[sup [minus]3]) for G. ruber. In benthic species C. wuellerstorfi, D = 7.0 [+-] 0.8 (x10[sup [minus]3]). U/Ca and Mg/Ca in G. tumida and G. sacculifer from core tops taken near and below the regional lysocline decrease with water depth. Smaller decreases in U/Ca and Mg/Ca with depth were observed in C. wuellerstorfi. In the planktonic species, the authors believe that U/CA and Mg/Ca are lower in the more dissolution-resistant fraction of calcite, leading to lower U/Ca in more highly dissolved samples.« less

Veligers of the invasive Asian clam Corbicula fluminea in the Columbia River Basin: Broadscale distribution, abundance, and ecological associations

USGS Publications Warehouse

Hassett, Whitney; Bollens, Stephen M.; Counihan, Timothy D.; Rollwagen-Bollens, Gretchen; Zimmerman, Julie; Emerson, Joshua E.

2017-01-01

The invasive Asian clam Corbicula fluminea was introduced to North America in the 1930s and now inhabits most regions of the conterminous United States; however, the distribution and ecology of C. fluminea in the Columbia River Basin is poorly understood. During 2013 and 2014, 5 Columbia-Snake River reservoirs were sampled monthly from May through September, along with 23 additional lakes and reservoirs sampled once each summer. Associations among C. fluminea veligers, other components of the plankton, and environmental variables were analyzed using non-metric multidimensional scaling and canonical correspondence analysis. Corbicula fluminea veligers were found in high abundances in all mainstem Columbia-Snake River reservoirs, with an annual mean abundance of 71.2 individuals per cubic meter (inds./m3). Only 3 of 23 lakes and (non-mainstem) reservoirs contained C. fluminea, with abundances considerably lower (maximum = 21.2 inds./m3) than in the mainstem reservoirs. A diatom-dominated community preceded the spawning of C. fluminea in early summer at all sites. Corbicula fluminea veligers characterized the plankton community in late summer and were associated with cyanobacteria and high water temperatures. A third community, characterized by cyanobacteria, was apparent in non-mainstem sites in July and August. Our analyses describe the relationship of C. fluminea to the plankton community and environment, which contributes to our understanding of the possible effects of C. fluminea infestations and which waterbodies in the Columbia River Basin are at risk for infestation. Understanding the effects and environmental determinants of invasive mollusks will be increasingly important in the future with the possible arrival of zebra (Dreissena polymorpha) or quagga (D. bugensis) mussels to the region.

Seasonal plankton variability in Chilean Patagonia fjords: Carbon flow through the pelagic food web of Aysen Fjord and plankton dynamics in the Moraleda Channel basin

NASA Astrophysics Data System (ADS)

González, H. E.; Castro, L.; Daneri, G.; Iriarte, J. L.; Silva, N.; Vargas, C. A.; Giesecke, R.; Sánchez, N.

2011-03-01

Two research cruises ( CIMAR 13 Fiordos) were conducted in the N-S oriented macrobasin of the Moraleda Channel (42-47°S), which includes the E-W oriented Puyuhuapi Channel and Aysen Fjord, during two contrasting productive seasons: austral winter (27 July-7 August 2007) and spring (2-12 November 2007). These campaigns set out to assess the spatio-temporal variability, defined by the local topography along Moraleda Channel, in the biological, physical, and chemical oceanographic characteristics of different microbasins and to quantify the carbon budget of the pelagic trophic webs of Aysen Fjord. Seasonal carbon fluxes and fjord-system functioning vary widely in our study area. In terms of spatial topography, two constriction sills (Meninea and Elefantes) define three microbasins along Moraleda Channel, herein the (1) north (Guafo-Meninea), (2) central (Meninea-Elefantes), and (3) south (Elefantes-San Rafael Lagoon) microbasins. In winter, nutrient concentrations were high (i.e. nitrate range: 21-14 μM) and primary production was low (153-310 mgC m -2 d -1), suggesting that reduced light radiation depressed the plankton dynamics throughout Moraleda Channel. In spring, primary production followed a conspicuous N-S gradient, which was the highest (5167 mgC m -2 d -1) in the north microbasin and the lowest (742 mgC m -2 d -1) in the south microbasin. The seasonal pattern of the semi-enclosed Puyuhuapi Channel and Aysen Fjord, however, revealed no significant differences in primary production (˜800 mgC m -2 d -1), and vertical fluxes of particulate organic carbon were nearly twice as high in spring as in winter (266 vs. 168 mgC m -2 d -1). At the time-series station (St. 79), the lithogenic fraction dominated the total sedimented matter (seston). The role of euphausiids in the biological carbon pump of the Patagonian fjords was evident, given the predominance of zooplankton fecal material, mostly euphausiid fecal strings (46% of all fecal material), among the recognizable particles contributing to the particulate organic carbon flux. The topographic constriction sills partially modulated the exchange of oceanic waters (Subantarctic Surface Water) with freshwater river discharges along the Moraleda Channel. This exchange affects salinity and nutrient availability and, thus, the plankton structure. The north microbasin was dominated by a seasonal alternation of the classical (spring) and microbial (winter) food webs. However, in the south microbasin, productivity was low and the system was dominated year-round by large inputs of glacier-derived, silt-rich freshwater carrying predominantly small-sized diatoms ( Skeletonema spp) and bacteria. When superimposed upon this scenario, highly variable (seasonal) solar radiation and photoperiods could exacerbate north-south differences along Moraleda Channel.

Toxicity of waters from the Rochester Embayment Area of Concern to the plankton species Pseudokirchneriella subcapitata and Ceriodaphnia dubia

USGS Publications Warehouse

Baldigo, Barry P.; Duffy, Brian T.; Smith, Alexander J.; George, Scott D.

2016-01-01

The lower Genesee River and Rochester Embayment of Lake Ontario are a designated Area of Concern (AOC) under the binational Great Lakes Water Quality Agreement. The “degradation of phytoplankton and zooplankton populations” or plankton Beneficial Use Impairment (BUI) was classified as unknown and in need of further assessment in this AOC because water quality data suggested plankton communities could be effected and community data were either unavailable or indicated impacts. The plankton BUI may now be obsolete because local contaminant sources have been largely eliminated. The present study was conducted between July 2013 and August 2014 to assess the BUI-removal criteria: “AOC plankton bioassays confirm that toxicity in ambient waters (i.e., no growth inhibition) is not significantly higher than comparable non-AOC controls”. Acute and chronic toxicity of waters from 13 sites were quantified seasonally using standardized bioassays with the green alga Pseudokirchneriella subcapitata and water flea Ceriodaphnia dubia to test the hypothesis that toxicity of waters from AOC sites was not higher than that of waters from comparable non-AOC reference sites. Survival and reproduction of C. dubia did not differ significantly between site types, systems, or months. The growth of P. subcapitata did not differ between site types, but differed among systems and months. All results indicate that waters from AOC sites were no more toxic to both plankton species than waters from reference sites. Assuming test species represent natural plankton assemblages, water quality should not negatively affect survival and growth of resident plankton populations in the Rochester Embayment AOC.

Quality of dissolved organic matter affects planktonic but not biofilm bacterial production in streams.

PubMed

Kamjunke, Norbert; Herzsprung, Peter; Neu, Thomas R

2015-02-15

Streams and rivers are important sites of organic carbon mineralization which is dependent on the land use within river catchments. Here we tested whether planktonic and epilithic biofilm bacteria differ in their response to the quality of dissolved organic carbon (DOC). Thus, planktonic and biofilm bacterial production was compared with patterns of DOC along a land-use gradient in the Bode catchment area (Germany). The freshness index of DOC was positively related to the proportion of agricultural area in the catchment. The humification index correlated with the proportion of forest area. Abundance and production of planktonic bacteria were lower in headwaters than at downstream sites. Planktonic production was weakly correlated to the total concentration of DOC but more strongly to quality-measures as revealed by spectra indexes, i.e. positively to the freshness index and negatively to the humification index. In contrast to planktonic bacteria, abundance and production of biofilm bacteria were independent of DOC quality. This finding may be explained by the association of biofilm bacteria with benthic algae and an extracellular matrix which represent additional substrate sources. The data show that planktonic bacteria seem to be regulated at a landscape scale controlled by land use, whereas biofilm bacteria are regulated at a biofilm matrix scale controlled by autochthonous production. Thus, the effects of catchment-scale land use changes on ecosystem processes are likely lower in small streams dominated by biofilm bacteria than in larger streams dominated by planktonic bacteria. Copyright © 2014 Elsevier B.V. All rights reserved.

Experimental evaluation of the effect of winter feeding on channel catfish growout pond plankton

USDA-ARS?s Scientific Manuscript database

Ten, 0.25 acre ponds at the UAPB Aquaculture Station were sampled weekly from Dec. 7-Feb. 22 (n=90) for phytoplankton and zooplankton. Five of the ponds were randomly assigned to each of two treatments: no feeding and feeding based on recommended rates. Channel catfish sizes and numbers approximated...

The Estuary: A Special Place. Student Guide and Teacher Guide. OEAGLS Investigation 20.

ERIC Educational Resources Information Center

Fortner, Rosanne; Mischler, Ron

In this unit students examine Old Woman Creek National Estuarine Sanctuary on Lake Erie to study the characteristics and importance of estuaries in general. Activities include the analysis of a pictured plankton sample, a transect study using computer data, a consideration of the ecological roles of various estuarine species, and a discussion of…

40 CFR 91.424 - Dilute sampling procedure-CVS calibration.

Code of Federal Regulations, 2014 CFR

2014-07-01

... temperature at CVS pump inlet PTI °C ±1.11 °C Pressure depression at CVS pump inlet PPI kPa ±0.055 kPa...) Reset the restrictor valve to a more restricted condition in an increment of pump inlet depression that...=Absolute pump inlet pressure, kPa. =PP−PPI Where: PP=barometric pressure, kPa. PPI=Pump inlet depression, k...

40 CFR 91.424 - Dilute sampling procedure-CVS calibration.

Code of Federal Regulations, 2011 CFR

2011-07-01

... temperature at CVS pump inlet PTI °C ±1.11 °C Pressure depression at CVS pump inlet PPI kPa ±0.055 kPa...) Reset the restrictor valve to a more restricted condition in an increment of pump inlet depression that...=Absolute pump inlet pressure, kPa. =PP−PPI Where: PP=barometric pressure, kPa. PPI=Pump inlet depression, k...

40 CFR 91.424 - Dilute sampling procedure-CVS calibration.

Code of Federal Regulations, 2010 CFR

2010-07-01

... temperature at CVS pump inlet PTI °C ±1.11 °C Pressure depression at CVS pump inlet PPI kPa ±0.055 kPa...) Reset the restrictor valve to a more restricted condition in an increment of pump inlet depression that...=Absolute pump inlet pressure, kPa. =PP−PPI Where: PP=barometric pressure, kPa. PPI=Pump inlet depression, k...

40 CFR 91.424 - Dilute sampling procedure-CVS calibration.

Code of Federal Regulations, 2012 CFR

2012-07-01

... temperature at CVS pump inlet PTI °C ±1.11 °C Pressure depression at CVS pump inlet PPI kPa ±0.055 kPa...) Reset the restrictor valve to a more restricted condition in an increment of pump inlet depression that...=Absolute pump inlet pressure, kPa. =PP−PPI Where: PP=barometric pressure, kPa. PPI=Pump inlet depression, k...

40 CFR 91.424 - Dilute sampling procedure-CVS calibration.

Code of Federal Regulations, 2013 CFR

2013-07-01

... temperature at CVS pump inlet PTI °C ±1.11 °C Pressure depression at CVS pump inlet PPI kPa ±0.055 kPa...) Reset the restrictor valve to a more restricted condition in an increment of pump inlet depression that...=Absolute pump inlet pressure, kPa. =PP−PPI Where: PP=barometric pressure, kPa. PPI=Pump inlet depression, k...

Hydraulic pump with in-ground filtration and monitoring capability

DOEpatents

Hopkins, C.D.; Livingston, R.R.; Toole, W.R. Jr.

1995-01-01

A hydraulically operated pump is described for in-ground filtering and monitoring of wells or other fluid sources, including a hollow cylindrical pump housing with an inlet and an outlet, filtering devices positioned in the inlet and the outlet, a piston that fits slidably within the pump housing, and an optical cell in fluid communication with the pump housing. A conduit within the piston allows fluid communication between the exterior and one end of the piston. A pair of O-rings form a seal between the inside of the pump housing and the exterior of the piston. A flow valve positioned within the piston inside the conduit allows fluid to flow in a single direction. In operation, fluid enters the pump housing through the inlet, flows through the conduit and towards an end of the pump housing. The piston then makes a downward stroke closing the valve, thus forcing the fluid out from the pump housing into the optical cell, which then takes spectrophotometric measurements of the fluid. A spring helps return the piston back to its starting position, so that a new supply of fluid may enter the pump housing and the downward stroke can begin again. The pump may be used independently of the optical cell, as a sample pump to transport a sample fluid from a source to a container for later analysis.

Hydraulic pump with in-ground filtration and monitoring capability

DOEpatents

Hopkins, C.D.; Livingston, R.R.; Toole, W.R. Jr.

1996-10-29

A hydraulically operated pump is described for in-ground filtering and monitoring of waters or other fluid sources, includes a hollow cylindrical pump housing with an inlet and an outlet, filtering devices positioned in the inlet and the outlet, a piston that fits slidably within the pump housing, and an optical cell in fluid communication with the pump housing. A conduit within the piston allows fluid communication between the exterior and one end of the piston. A pair of o-rings form a seal between the inside of the pump housing and the exterior of the piston. A flow valve positioned within the piston inside the conduit allows fluid to flow in a single direction. In operation, fluid enters the pump housing through the inlet, flows through the conduit and towards an end of the pump housing. The piston then makes a downward stroke closing the valve, thus forcing the fluid out from the pump housing into the optical cell, which then takes spectrophotometric measurements of the fluid. A spring helps return the piston back to its starting position, so that a new supply of fluid may enter the pump housing and the downward stroke can begin again. The pump may be used independently of the optical cell, as a sample pump to transport a sample fluid from a source to a container for later analysis. 5 figs.

Hydraulic pump with in-ground filtration and monitoring capability

DOEpatents

Hopkins, Charles D.; Livingston, Ronald R.; Toole, Jr., William R.

1996-01-01

A hydraulically operated pump for in-ground filtering and monitoring of ws or other fluid sources, including a hollow cylindrical pump housing with an inlet and an outlet, filtering devices positioned in the inlet and the outlet, a piston that fits slidably within the pump housing, and an optical cell in fluid communication with the pump housing. A conduit within the piston allows fluid communication between the exterior and one end of the piston. A pair of o-rings form a seal between the inside of the pump housing and the exterior of the piston. A flow valve positioned within the piston inside the conduit allows fluid to flow in a single direction. In operation, fluid enters the pump housing through the inlet, flows through the conduit and towards an end of the pump housing. The piston then makes a downward stroke closing the valve, thus forcing the fluid out from the pump housing into the optical cell, which then takes spectrophotometric measurements of the fluid. A spring helps return the piston back to its starting position, so that a new supply of fluid may enter the pump housing and the downward stroke can begin again. The pump may be used independently of the optical cell, as a sample pump to transport a sample fluid from a source to a container for later analysis.

Electrokinetic high pressure hydraulic system

DOEpatents

Paul, Phillip H.; Rakestraw, David J.; Arnold, Don W.; Hencken, Kenneth R.; Schoeniger, Joseph S.; Neyer, David W.

2001-01-01

An electrokinetic high pressure hydraulic pump for manipulating fluids in capillary-based systems. The pump uses electro-osmotic flow to provide a high pressure hydraulic system, having no moving mechanical parts, for pumping and/or compressing fluids, for providing valve means and means for opening and closing valves, for controlling fluid flow rate, and manipulating fluid flow generally and in capillary-based systems (Microsystems), in particular. The compact nature of the inventive high pressure hydraulic pump provides the ability to construct a micro-scale or capillary-based HPLC system that fulfills the desire for small sample quantity, low solvent consumption, improved efficiency, the ability to run samples in parallel, and field portability. Control of pressure and solvent flow rate is achieved by controlling the voltage applied to an electrokinetic pump.

Electrokinetic high pressure hydraulic system

DOEpatents

Paul, Phillip H.; Rakestraw, David J.; Arnold, Don W.; Hencken, Kenneth R.; Schoeniger, Joseph S.; Neyer, David W.

2003-06-03

An electrokinetic high pressure hydraulic pump for manipulating fluids in capillary-based system. The pump uses electro-osmotic flow to provide a high pressure hydraulic system, having no moving mechanical parts, for pumping and/or compressing fluids, for providing valve means and means for opening and closing valves, for controlling fluid flow rate, and manipulating fluid flow generally and in capillary-based systems (microsystems), in particular. The compact nature of the inventive high pressure hydraulic pump provides the ability to construct a micro-scale or capillary-based HPLC system that fulfills the desire for small sample quantity, low solvent consumption, improved efficiency, the ability to run samples in parallel, and field portability. Control of pressure and solvent flow rate is achieved by controlling the voltage applied to an electrokinetic pump.

Selenium concentrations in irrigation drain inflows to the Salton Sea, California, October 2006 and January 2007

USGS Publications Warehouse

May, Thomas W.; Walther, Mike W.; Brumbaugh, William G.

2007-01-01

This report presents raw data on selenium concentrations in samples of water, sediment, detritus, and selected food-chain matrices collected from selected agricultural drains in the southern portion of the Salton Sea during October 2006 and January 2007. Total selenium and selenium species were determined in water samples, whereas total selenium was determined in sediment, detritus, algae, plankton, midge larvae (Family Chironomidae), and two fish species (western mosquitofish, Gambusia affinis, and sailfin molly, Poecilia latipinna).

Pump efficiency in solar-energy systems

NASA Technical Reports Server (NTRS)

1978-01-01

Study investigates characteristics of typical off-the-shelf pumping systems that might be used in solar systems. Report includes discussion of difficulties in predicting pump efficiency from manufacturers' data. Sample calculations are given. Peak efficiencies, flow-rate control, and noise levels are investigated. Review or theory of pumps types and operating characteristics is presented.

Micro Linear Pump with Electromagnetic Actuator

NASA Astrophysics Data System (ADS)

Suzumori, Koichi; Furusawa, Hiroaki; Kanda, Takefumi; Yamada, Yoshiaki; Nagata, Takashi

In recent years, research and development of the micro-fluid systems have been activated in the field of chemical technology and biotechnology. Micro-fluid systems are realized by micromachine technology and MEMS technology. Micro pump is an essential element for miniaturization of chemical analysis reaction systems. The aim of this research is development of a micro linear pump which will be built into micro-fluid systems. This pump aims to take a sample of very-small-quantity of liquids. Taking a sample of very-small-quantity of liquids reduce the amount used and waste fluid of a reagent. Full length and diameter of this pump are 32.5mm and 6mm respectively. The features of this pump are (1) the pump is built with actuator, (2) the gap of 7μm between piston and cylinder is achieved through fine machining process, and (3) micro check-valves of 2mm diameter made of stainless-steel film are fabricated and integrated. In this paper, the structure and the characteristics of this pump were shown. And the characteristics after improvement of micro check-valves were shown.

Nonlinear photothermal mid-infrared spectroscopy

NASA Astrophysics Data System (ADS)

Totachawattana, Atcha; Erramilli, Shyamsunder; Sander, Michelle Y.

2016-10-01

Mid-infrared photothermal spectroscopy is a pump-probe technique for label-free and non-destructive sample characterization by targeting intrinsic vibrational modes. In this method, the mid-infrared pump beam excites a temperature-induced change in the refractive index of the sample. This laser-induced change in the refractive index is measured by a near-infrared probe laser using lock-in detection. At increased pump powers, emerging nonlinear phenomena not previously demonstrated in other mid-infrared techniques are observed. Nonlinear study of a 6 μm-thick 4-Octyl-4'-Cyanobiphenyl (8CB) liquid crystal sample is conducted by targeting the C=C stretching band at 1606 cm-1. At high pump powers, nonlinear signal enhancement and multiple pitchfork bifurcations of the spectral features are observed. An explanation of the nonlinear peak splitting is provided by the formation of bubbles in the sample at high pump powers. The discontinuous refractive index across the bubble interface results in a decrease in the forward scatter of the probe beam. This effect can be recorded as a bifurcation of the absorption peak in the photothermal spectrum. These nonlinear effects are not present in direct measurements of the mid-infrared beam. Evolution of the nonlinear photothermal spectrum of 8CB liquid crystal with increasing pump power shows enhancement of the absorption peak at 1606 cm-1. Multiple pitchfork bifurcations and spectral narrowing of the photothermal spectrum are demonstrated. This novel nonlinear regime presents potential for improved spectral resolution as well as a new regime for sample characterization in mid-infrared photothermal spectroscopy.

Design of Portable Mass Spectrometers with Handheld Probes: Aspects of the Sampling and Miniature Pumping Systems

NASA Astrophysics Data System (ADS)

Chen, Chien-Hsun; Chen, Tsung-Chi; Zhou, Xiaoyu; Kline-Schoder, Robert; Sorensen, Paul; Cooks, R. Graham; Ouyang, Zheng

2015-02-01

Miniature mass spectrometry analytical systems of backpack configuration fitted with sampling probes could potentially be of significant interest for in-field, real-time chemical analysis. In this study, various configurations were explored in which a long narrow tube was used to connect the turbo and backing pumps used to create and maintain vacuum. Also, for the first time we introduced two new types of pumps for miniature mass spectrometers, the Creare 130 g drag pump and Creare 350 g scroll backing pump. These pumps, along with another Creare 550 turbo pump and the commercially available Pfeiffer HiPace 10 turbo and KnF diaphragm backing pumps, were tested with the backpack configurations. The system performance, especially the scan time, was characterized when used with a discontinuous atmospheric pressure interface (DAPI) for ion introduction. The pumping performance in the pressure region above 1 mtorr is critical for DAPI operation. The 550 g turbo pump was shown to have a relatively higher pumping speed above 1 mtorr and gave a scan time of 300 ms, almost half the value obtained with the larger, heavier HiPace 10 often used with miniature mass spectrometers. The 350 g scroll pump was also found to be an improvement over the diaphragm pumps generally used as backing pumps. With a coaxial low temperature plasma ion source, direct analysis of low volatility compounds glass slides was demonstrated, including 1 ng DNP (2,4-Dinitrophenol) and 10 ng TNT (2,4,6-trinitrotoluene) with Creare 550 g turbo pump as well as 10 ng cocaine and 20 ng DNP with Creare 130 g drag pump.

Design of Portable Mass Spectrometers with Handheld Probes: Aspects of the Sampling and Miniature Pumping Systems

PubMed Central

Chen, Chien-Hsun; Chen, Tsung-Chi; Zhou, Xiaoyu; Kline-Schoder, Robert; Sorensen, Paul; Cooks, R. Graham; Ouyang, Zheng

2014-01-01

Miniature mass spectrometry analytical systems of backpack configuration fitted with sampling probes could potentially be of significant interest for in-field, real-time chemical analysis. In this study, various configurations were explored in which a long narrow tube was used to connect the turbo and backing pumps used to create and maintain vacuum. Also, for the first time we introduced two new types of pumps for miniature mass spectrometers, the Creare 130g drag pump and Creare 350g scroll backing pump. These pumps, along with another Creare 550 turbo pump and the commercially available Pfeiffer HiPace 10 turbo and KnF diaphragm backing pumps, were tested with the backpack configurations. The system performance, especially the scan time, was characterized when used with a discontinuous atmospheric pressure interface (DAPI) for ion introduction. The pumping performance in the pressure region above 1 mtorr is critical for DAPI operation. The 550g turbo pump was shown to have a relatively higher pumping speed above 1 mtorr and gave a scan time of 300 ms, almost half the value obtained with the larger, heavier HiPace 10 often used with miniature mass spectrometers. The 350 g scroll pump was also found to be an improvement over the diaphragm pumps generally used as backing pumps. With a coaxial low temperature plasma ion source, direct analysis of low volatility compounds glass slides was demonstrated, including 1 ng DNP (2,4-Dinitrophenol) and 10ng TNT (2,4,6-trinitrotoluene) with Creare 550g turbo pump as well as 10 ng cocaine and 20 ng DNP with Creare 130g drag pump. PMID:25404157

Design of portable mass spectrometers with handheld probes: aspects of the sampling and miniature pumping systems.

PubMed

Chen, Chien-Hsun; Chen, Tsung-Chi; Zhou, Xiaoyu; Kline-Schoder, Robert; Sorensen, Paul; Cooks, R Graham; Ouyang, Zheng

2015-02-01

Miniature mass spectrometry analytical systems of backpack configuration fitted with sampling probes could potentially be of significant interest for in-field, real-time chemical analysis. In this study, various configurations were explored in which a long narrow tube was used to connect the turbo and backing pumps used to create and maintain vacuum. Also, for the first time we introduced two new types of pumps for miniature mass spectrometers, the Creare 130 g drag pump and Creare 350 g scroll backing pump. These pumps, along with another Creare 550 turbo pump and the commercially available Pfeiffer HiPace 10 turbo and KnF diaphragm backing pumps, were tested with the backpack configurations. The system performance, especially the scan time, was characterized when used with a discontinuous atmospheric pressure interface (DAPI) for ion introduction. The pumping performance in the pressure region above 1 mtorr is critical for DAPI operation. The 550 g turbo pump was shown to have a relatively higher pumping speed above 1 mtorr and gave a scan time of 300 ms, almost half the value obtained with the larger, heavier HiPace 10 often used with miniature mass spectrometers. The 350 g scroll pump was also found to be an improvement over the diaphragm pumps generally used as backing pumps. With a coaxial low temperature plasma ion source, direct analysis of low volatility compounds glass slides was demonstrated, including 1 ng DNP (2,4-Dinitrophenol) and 10 ng TNT (2,4,6-trinitrotoluene) with Creare 550 g turbo pump as well as 10 ng cocaine and 20 ng DNP with Creare 130 g drag pump.

Variation of telencephalon morphology of the threespine stickleback (Gasterosteus aculeatus) in relation to inferred ecology.

PubMed

Park, Peter J; Bell, M A

2010-06-01

We tested the hypothesis that increased telencephalon size has evolved in threespine stickleback fish (Gasterosteus aculeatus) from structurally complex habitats using field-caught samples from one sea-run (ancestral) and 18 ecologically diverse freshwater (descendant) populations. Freshwater habitats ranged from shallow, structurally complex lakes with benthic-foraging stickleback (benthics), to deeper, structurally simple lakes in which stickleback depend more heavily on plankton for prey (generalists). Contrary to our expectations, benthics had smaller telencephala than generalists, but the shape of the telencephalon of the sea-run and benthic populations were more convex laterally. Convex telencephalon shape may indicate enlargement of the dorsolateral region, which is homologous with the tetrapod hippocampus. Telencephalon morphology is also sexually dimorphic, with larger, less convex telencephala in males. Freshwater stickleback from structurally complex habitats have retained the ancestral telencephalon morphology, but populations that feed more in open habitats on plankton have evolved larger, laterally concave telencephala.

Spaceborne Lidar in the Study of Marine Systems.

PubMed

Hostetler, Chris A; Behrenfeld, Michael J; Hu, Yongxiang; Hair, Johnathan W; Schulien, Jennifer A

2018-01-03

Satellite passive ocean color instruments have provided an unbroken ∼20-year record of global ocean plankton properties, but this measurement approach has inherent limitations in terms of spatial-temporal sampling and ability to resolve vertical structure within the water column. These limitations can be addressed by coupling ocean color data with measurements from a spaceborne lidar. Airborne lidars have been used for decades to study ocean subsurface properties, but recent breakthroughs have now demonstrated that plankton properties can be measured with a satellite lidar. The satellite lidar era in oceanography has arrived. Here, we present a review of the lidar technique, its applications in marine systems, a perspective on what can be accomplished in the near future with an ocean- and atmosphere-optimized satellite lidar, and a vision for a multiplatform virtual constellation of observational assets that would enable a three-dimensional reconstruction of global ocean ecosystems.

Benthic and Plankton Foraminifers in Hydrothermally Active Zones of the Mid-Atlantic Ridge (MAR)

NASA Astrophysics Data System (ADS)

Khusid, T. A.; Os'kina, N. S.; Lukashina, N. P.; Gablina, I. F.; Libina, N. V.; Matul, A. G.

2018-01-01

Comparison of benthic foraminiferal assemblages from the core obtained within the Peterburgskoe ore field (Mid-Atlantic Ridge) and from the core taken five kilometers away from the ore field revealed evident differences in their composition, in the appearance of their shells, and also in the benthic-plankton species ratio. It was noted that the foraminiferal assemblage from the ore-bearing sediments of the Petersburg field was characterized by a higher relative content of benthic species and a large number of chemically altered and broken shells. The first occurrence of the species Osangularia umbonifera, which is able to exist in lowoxygen and CaCO3-undersaturated bottom waters at the boundary of biogenic sediments surrounding the ore field and in the ore-bearing sediments, was established. In the core section sampled beyond the ore field, the composition of foraminiferal assemblages differs insignificantly from typical oceanic ones.

Spaceborne Lidar in the Study of Marine Systems

NASA Astrophysics Data System (ADS)

Hostetler, Chris A.; Behrenfeld, Michael J.; Hu, Yongxiang; Hair, Johnathan W.; Schulien, Jennifer A.

2018-01-01

Satellite passive ocean color instruments have provided an unbroken ˜20-year record of global ocean plankton properties, but this measurement approach has inherent limitations in terms of spatial-temporal sampling and ability to resolve vertical structure within the water column. These limitations can be addressed by coupling ocean color data with measurements from a spaceborne lidar. Airborne lidars have been used for decades to study ocean subsurface properties, but recent breakthroughs have now demonstrated that plankton properties can be measured with a satellite lidar. The satellite lidar era in oceanography has arrived. Here, we present a review of the lidar technique, its applications in marine systems, a perspective on what can be accomplished in the near future with an ocean- and atmosphere-optimized satellite lidar, and a vision for a multiplatform virtual constellation of observational assets that would enable a three-dimensional reconstruction of global ocean ecosystems.

Trophic ecology and vertical patterns of carbon and nitrogen stable isotopes in zooplankton from oxygen minimum zone regions

NASA Astrophysics Data System (ADS)

Williams, Rebecca L.; Wakeham, Stuart; McKinney, Rick; Wishner, Karen F.

2014-08-01

The unique physical and biogeochemical characteristics of oxygen minimum zones (OMZs) influence plankton ecology, including zooplankton trophic webs. Using carbon and nitrogen stable isotopes, this study examined zooplankton trophic webs in the Eastern Tropical North Pacific (ETNP) OMZ. δ13C values were used to indicate zooplankton food sources, and δ15N values were used to indicate zooplankton trophic position and nitrogen cycle pathways. Vertically stratified MOCNESS net tows collected zooplankton from 0 to 1000 m at two stations along a north-south transect in the ETNP during 2007 and 2008, the Tehuantepec Bowl and the Costa Rica Dome. Zooplankton samples were separated into four size fractions for stable isotope analyses. Particulate organic matter (POM), assumed to represent a primary food source for zooplankton, was collected with McLane large volume in situ pumps. The isotopic composition and trophic ecology of the ETNP zooplankton community had distinct spatial and vertical patterns influenced by OMZ structure. The most pronounced vertical isotope gradients occurred near the upper and lower OMZ oxyclines. Material with lower δ13C values was apparently produced in the upper oxycline, possibly by chemoautotrophic microbes, and was subsequently consumed by zooplankton. Between-station differences in δ15N values suggested that different nitrogen cycle processes were dominant at the two locations, which influenced the isotopic characteristics of the zooplankton community. A strong depth gradient in zooplankton δ15N values in the lower oxycline suggested an increase in trophic cycling just below the core of the OMZ. Shallow POM (0-110 m) was likely the most important food source for mixed layer, upper oxycline, and OMZ core zooplankton, while deep POM was an important food source for most lower oxycline zooplankton (except for samples dominated by the seasonally migrating copepod Eucalanus inermis). There was no consistent isotopic progression among the four zooplankton size classes for these bulk mixed assemblage samples, implying overlapping trophic webs within the total size range considered.

A New Submersible Imaging-in-flow Instrument to Monitor Nano- and Microplankton: Imaging FlowCytobot

NASA Astrophysics Data System (ADS)

Olson, R. J.; Sosik, H. M.; Shalapyonok, A.

2004-12-01

Understanding of how coastal plankton communities are regulated has traditionally been limited by undersampling, but cabled observatories now provide opportunities to deploy submersible sensors that have high power and data transmission requirements. We have developed an in situ instrument to carry out high-resolution, long term monitoring of phytoplankton and microzooplankton in the size range 10 to100 micrometers, to be deployed at cabled research facilities such as the Martha's Vineyard Coastal Observatory (MVCO). The new instrument is designed to complement FlowCytobot, a submersible flow cytometer currently deployed at MVCO that uses fluorescence and light scattering signals from a laser beam to characterize the smallest phytoplankton cells (less than 10 micrometers). Imaging FlowCytobot uses a combination of flow cytometric and video technology to capture images of organisms for identification and to measure chlorophyll fluorescence associated with each image. Images will be classified using neural net software, while the measurements of chlorophyll fluorescence will allow us to discriminate heterotrophic from phototrophic cells. The new instrument, like the original FlowCytobot is autonomous but remotely programmable. It utilizes a computer controlled syringe pump and distribution valve that allows periodic anti-fouling treatment and analysis of standard beads. Samples are analyzed continuously (0.25 to 2.5 ml per min) and data is sent over a fiber optic link to a remote computer for analysis. Preliminary results indicate that we can detect cells as small as 5 micrometers and discriminate several taxa of diatoms and dinoflagellates.

Oceanography promotes self-recruitment in a planktonic larval disperser.

PubMed

Teske, Peter R; Sandoval-Castillo, Jonathan; van Sebille, Erik; Waters, Jonathan; Beheregaray, Luciano B

2016-09-30

The application of high-resolution genetic data has revealed that oceanographic connectivity in marine species with planktonic larvae can be surprisingly limited, even in the absence of major barriers to dispersal. Australia's southern coast represents a particularly interesting system for studying planktonic larval dispersal, as the hydrodynamic regime of the wide continental shelf has potential to facilitate onshore retention of larvae. We used a seascape genetics approach (the joint analysis of genetic data and oceanographic connectivity simulations) to assess population genetic structure and self-recruitment in a broadcast-spawning marine gastropod that exists as a single meta-population throughout its temperate Australian range. Levels of self-recruitment were surprisingly high, and oceanographic connectivity simulations indicated that this was a result of low-velocity nearshore currents promoting the retention of planktonic larvae in the vicinity of natal sites. Even though the model applied here is comparatively simple and assumes that the dispersal of planktonic larvae is passive, we find that oceanography alone is sufficient to explain the high levels of genetic structure and self-recruitment. Our study contributes to growing evidence that sophisticated larval behaviour is not a prerequisite for larval retention in the nearshore region in planktonic-developing species.

Cultivation of Planktonic Anaerobic Ammonium Oxidation (Anammox) Bacteria Using Membrane Bioreactor

PubMed Central

Oshiki, Mamoru; Awata, Takanori; Kindaichi, Tomonori; Satoh, Hisashi; Okabe, Satoshi

2013-01-01

Enrichment cultures of anaerobic ammonium oxidation (anammox) bacteria as planktonic cell suspensions are essential for studying their ecophysiology and biochemistry, while their cultivation is still laborious. The present study aimed to cultivate two phylogenetically distinct anammox bacteria, “Candidatus Brocadia sinica” and “Ca. Scalindua sp.” in the form of planktonic cells using membrane bioreactors (MBRs). The MBRs were continuously operated for more than 250 d with nitrogen loading rates of 0.48–1.02 and 0.004–0.09 kgN m−3 d−1 for “Ca. Brocadia sinica” and “Ca. Scalindua sp.”, respectively. Planktonic anammox bacterial cells were successfully enriched (>90%) in the MBRs, which was confirmed by fluorescence in-situ hybridization and 16S rRNA gene sequencing analysis. The decay rate and half-saturation constant for NO2− of “Ca. Brocadia sinica” were determined to be 0.0029–0.0081 d−1 and 0.47 mgN L−1, respectively, using enriched planktonic cells. The present study demonstrated that MBR enables the culture of planktonic anammox bacterial cells, which are suitable for studying their ecophysiology and biochemistry. PMID:24200833

Photothermal method of determining calorific properties of coal

DOEpatents

Amer, N.M.

1983-05-16

Predetermined amounts of heat are generated within a coal sample by directing pump light pulses of predetermined energy content into a small surface region of the sample. A beam of probe light is directed along the sample surface and deflection of the probe beam from thermally induced changes of index of refraction in the fluid medium adjacent the heated region are detected. Deflection amplitude and the phase lag of the deflection, relative to the initiating pump light pulse, are indicative of the calorific value and the porosity of the sample. The method provides rapid, accurate and nondestructive analysis of the heat producing capabilities of coal samples. In the preferred form, sequences of pump light pulses of increasing durations are directed into the sample at each of a series of minute regions situated along a raster scan path enabling detailed analysis of variations of thermal properties at different areas of the sample and at different depths.

Retrospective study of Candida sp. contaminations of endoscopes at the University Hospital of Tlemcen (Algeria).

PubMed

Hassaine-Lahfa, I; Boucherit-Otmani, Z; Sari-Belkherroubi, L; Boucherit, K

2017-06-01

Improper cleaning and disinfection of endoscopes has been responsible for multiple nosocomial outbreaks and sometimes serious life-threatening infections. The aim of our study is, at first, to identify Candida species responsible for the contamination of endoscopes, and to determine the minimal inhibitory concentrations of planktonic (MIC) and sessile cells (SMIC) of amphotericin B (AmB) against our isolated strains. The present study was performed on four endoscopes in the department of gastroenterology at the University Hospital of Tlemcen (Algeria). A total of 300 samples from endoscopes were examined over a period of 3years. Thirty-four strains of Candida sp. were isolated, representing 11.33% of the considered samples. The number of isolated strains dropped significantly in the second and the third year compared to the first year of our study. After testing the antifungal property of amphotericin B, we showed clearly that the sessile cells of Candida sp. were much more resistant than their planktonic counterparts (suspended cells). The methods of sterilization of the endoscopes are very important; drying by compressed air is a critical step that reduces significantly the number of yeasts contamination. Copyright © 2017 Elsevier Masson SAS. All rights reserved.

Activation of phagocytic cells by Staphylococcus epidermidis biofilms: effects of extracellular matrix proteins and the bacterial stress protein GroEL on netosis and MRP-14 release.

PubMed

Dapunt, Ulrike; Gaida, Matthias M; Meyle, Eva; Prior, Birgit; Hänsch, Gertrud M

2016-07-01

The recognition and phagocytosis of free-swimming (planktonic) bacteria by polymorphonuclear neutrophils have been investigated in depth. However, less is known about the neutrophil response towards bacterial biofilms. Our previous work demonstrated that neutrophils recognize activating entities within the extracellular polymeric substance (EPS) of biofilms (the bacterial heat shock protein GroEL) and that this process does not require opsonization. Aim of this study was to evaluate the release of DNA by neutrophils in response to biofilms, as well as the release of the inflammatory cytokine MRP-14. Neutrophils were stimulated with Staphylococcus epidermidis biofilms, planktonic bacteria, extracted EPS and GroEL. Release of DNA and of MRP-14 was evaluated. Furthermore, tissue samples from patients suffering from biofilm infections were collected and evaluated by histology. MRP-14 concentration in blood samples was measured. We were able to show that biofilms, the EPS and GroEL induce DNA release. MRP-14 was only released after stimulation with EPS, not GroEL. Histology of tissue samples revealed MRP-14 positive cells in association with neutrophil infiltration and MRP-14 concentration was elevated in blood samples of patients suffering from biofilm infections. Our data demonstrate that neutrophil-activating entities are present in the EPS and that GroEL induces DNA release by neutrophils. © FEMS 2016. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Multisensor sampling of pelagic ecosystem variables in a coastal environment to estimate zooplankton grazing impact

NASA Astrophysics Data System (ADS)

Sutton, Tracey; Hopkins, Thomas; Remsen, Andrew; Burghart, Scott

2001-01-01

Sampling was conducted on the west Florida continental shelf ecosystem modeling site to estimate zooplankton grazing impact on primary production. Samples were collected with the high-resolution sampler, a towed array bearing electronic and optical sensors operating in tandem with a paired net/bottle verification system. A close biological-physical coupling was observed, with three main plankton communities: 1. a high-density inshore community dominated by larvaceans coincident with a salinity gradient; 2. a low-density offshore community dominated by small calanoid copepods coincident with the warm mixed layer; and 3. a high-density offshore community dominated by small poecilostomatoid and cyclopoid copepods and ostracods coincident with cooler, sub-pycnocline oceanic water. Both high-density communities were associated with relatively turbid water. Applying available grazing rates from the literature to our abundance data, grazing pressure mirrored the above bio-physical pattern, with the offshore sub-pycnocline community contributing ˜65% of grazing pressure despite representing only 19% of the total volume of the transect. This suggests that grazing pressure is highly localized, emphasizing the importance of high-resolution sampling to better understand plankton dynamics. A comparison of our grazing rate estimates with primary production estimates suggests that mesozooplankton do not control the fate of phytoplankton over much of the area studied (<5% grazing of daily primary production), but "hot spots" (˜25-50% grazing) do occur which may have an effect on floral composition.

Evaluation of Pump Pulsation in Respirable Size-Selective Sampling: Part III. Investigation of European Standard Methods

PubMed Central

Soo, Jhy-Charm; Lee, Eun Gyung; Lee, Larry A.; Kashon, Michael L.; Harper, Martin

2015-01-01

Lee et al. (Evaluation of pump pulsation in respirable size-selective sampling: part I. Pulsation measurements. Ann Occup Hyg 2014a;58:60–73) introduced an approach to measure pump pulsation (PP) using a real-world sampling train, while the European Standards (EN) (EN 1232-1997 and EN 12919-1999) suggest measuring PP using a resistor in place of the sampler. The goal of this study is to characterize PP according to both EN methods and to determine the relationship of PP between the published method (Lee et al., 2014a) and the EN methods. Additional test parameters were investigated to determine whether the test conditions suggested by the EN methods were appropriate for measuring pulsations. Experiments were conducted using a factorial combination of personal sampling pumps (six medium- and two high-volumetric flow rate pumps), back pressures (six medium- and seven high-flow rate pumps), resistors (two types), tubing lengths between a pump and resistor (60 and 90 cm), and different flow rates (2 and 2.5 l min−1 for the medium- and 4.4, 10, and 11.2 l min−1 for the high-flow rate pumps). The selection of sampling pumps and the ranges of back pressure were based on measurements obtained in the previous study (Lee et al., 2014a). Among six medium-flow rate pumps, only the Gilian5000 and the Apex IS conformed to the 10% criterion specified in EN 1232-1997. Although the AirChek XR5000 exceeded the 10% limit, the average PP (10.9%) was close to the criterion. One high-flow rate pump, the Legacy (PP = 8.1%), conformed to the 10% criterion in EN 12919-1999, while the Elite12 did not (PP = 18.3%). Conducting supplemental tests with additional test parameters beyond those used in the two subject EN standards did not strengthen the characterization of PPs. For the selected test conditions, a linear regression model [PPEN = 0.014 + 0.375 × PPNIOSH (adjusted R2 = 0.871)] was developed to determine the PP relationship between the published method (Lee et al., 2014a) and the EN methods. The 25% PP criterion recommended by Lee et al. (2014a), average value derived from repetitive measurements, corresponds to 11% PPEN. The 10% pass/fail criterion in the EN Standards is not based on extensive laboratory evaluation and would unreasonably exclude at least one pump (i.e. AirChek XR5000 in this study) and, therefore, the more accurate criterion of average 11% from repetitive measurements should be substituted. This study suggests that users can measure PP using either a real-world sampling train or a resistor setup and obtain equivalent findings by applying the model herein derived. The findings of this study will be delivered to the consensus committees to be considered when those standards, including the EN 1232-1997, EN 12919-1999, and ISO 13137-2013, are revised. PMID:25053700

Climate influence on Vibrio and associated human diseases during the past half-century in the coastal North Atlantic

PubMed Central

Vezzulli, Luigi; Grande, Chiara; Reid, Philip C.; Hélaouët, Pierre; Edwards, Martin; Höfle, Manfred G.; Brettar, Ingrid; Colwell, Rita R.; Pruzzo, Carla

2016-01-01

Climate change is having a dramatic impact on marine animal and plant communities but little is known of its influence on marine prokaryotes, which represent the largest living biomass in the world oceans and play a fundamental role in maintaining life on our planet. In this study, for the first time to our knowledge, experimental evidence is provided on the link between multidecadal climatic variability in the temperate North Atlantic and the presence and spread of an important group of marine prokaryotes, the vibrios, which are responsible for several infections in both humans and animals. Using archived formalin-preserved plankton samples collected by the Continuous Plankton Recorder survey over the past half-century (1958–2011), we assessed retrospectively the relative abundance of vibrios, including human pathogens, in nine areas of the North Atlantic and North Sea and showed correlation with climate and plankton changes. Generalized additive models revealed that long-term increase in Vibrio abundance is promoted by increasing sea surface temperatures (up to ∼1.5 °C over the past 54 y) and is positively correlated with the Northern Hemisphere Temperature (NHT) and Atlantic Multidecadal Oscillation (AMO) climatic indices (P < 0.001). Such increases are associated with an unprecedented occurrence of environmentally acquired Vibrio infections in the human population of Northern Europe and the Atlantic coast of the United States in recent years. PMID:27503882

Streptococcus mitis/human gingival fibroblasts co-culture: the best natural association in answer to the 2-hydroxyethyl methacrylate release

PubMed Central

Di Giulio, Mara; D'Ercole, Simonetta; Zara, Susi; Cataldi, Amelia; Cellini, Luigina

2012-01-01

One of the major components of dental polymerized resin-based restorative materials is 2-hydroxyethyl methacrylate (HEMA) and its release in monomeric form interferes with the oral cavity environment. This study aimed to evaluate HEMA monomeric effects on the co-culture of Streptococcus mitis and human gingival fibroblasts (HGFs). Streptococcus mitis DS12 and S. mitis ATCC 6249 were co-cultivated with HGF in the presence of HEMA (3 mM), for 48 and 72 h; the amount of sessile and planktonic cells, as well as the prokaryotic and eukaryotic cell viability were analyzed in treated and untreated samples. The treatment of S. mitis/HGFs with HEMA did not produce significant effects on the bacterial adhesion and induced an increase in planktonic S. mitis ATCC 6249 population after 48 and 72 h. HEMA increased significantly the planktonic S. mitis ATCC 6249 viability when co-cultured with HGFs, while a cytotoxic effect on HGFs, without bacteria, was recorded. An increase of bacterial aggregation on HGFs was also detected with HEMA. Data obtained in this study suggest that HEMA exhibits a toxic effect mainly on eukaryotic cells and this effect can be modulated by co-cultivation with the S. mitis cells which, in the presence of the monomer, enhance their aggregation rate on HGFs. PMID:22229269

Rhizarian 'Novel Clade 10' Revealed as Abundant and Diverse Planktonic and Terrestrial Flagellates, including Aquavolon n. gen.

PubMed

Bass, David; Tikhonenkov, Denis Victorovich; Foster, Rachel; Dyal, Patricia; Janouškovec, Jan; Keeling, Patrick J; Gardner, Michelle; Neuhauser, Sigrid; Hartikainen, Hanna; Mylnikov, Alexandre P; Berney, Cédric

2018-04-15

Rhizarian 'Novel Clade 10' (NC10) is frequently detected by 18S rRNA gene sequencing studies in freshwater planktonic samples. We describe a new genus and two species of eukaryovorous biflagellate protists, Aquavolon hoantrani n. gen. n. sp. and A. dientrani n. gen. n. sp., which represent the first morphologically characterized members of NC10, here named Aquavolonida ord. nov. The slightly metabolic cells possess naked heterodynamic flagella, whose kinetosomes lie at a right angle to each other and are connected by at least one fibril. Unlike their closest known relative Tremula longifila, they rotate around their longitudinal axis when swimming and only very rarely glide on surfaces. Screening of a wide range of environmental DNA extractions with lineage-specific PCR primers reveals that Aquavolonida consists of a large radiation of protists, which are most diversified in freshwater planktonic habitats and as yet undetected in marine environments. Earlier-branching lineages in Aquavolonida include less frequently detected organisms from soils and freshwater sediments. The 18S rRNA gene phylogeny suggests that Aquavolonida forms a common evolutionary lineage with tremulids and uncharacterized 'Novel Clade 12', which likely represents one of the deepest lineages in the Rhizaria, separate from Cercozoa (Filosa), Endomyxa, and Retaria. © 2018 The Authors Journal of Eukaryotic Microbiology published by Wiley Periodicals, Inc. on behalf of International Society of Protistologists.

40 CFR 90.424 - Dilute sampling procedures-CVS calibration.

Code of Federal Regulations, 2012 CFR

2012-07-01

.... Air temperature at CVS pump inlet PTI °C ±1.11 °C. Pressure depression at CVS pump inlet PPI kPa ±0... pump inlet depression that will yield a minimum of six data points for the total calibration. Allow the...: PB = barometric pressure, kPa PPI = Pump inlet depression, kPa. (iii) The correlation function at...

40 CFR 90.424 - Dilute sampling procedures-CVS calibration.

Code of Federal Regulations, 2014 CFR

2014-07-01

.... Air temperature at CVS pump inlet PTI °C ±1.11 °C. Pressure depression at CVS pump inlet PPI kPa ±0... pump inlet depression that will yield a minimum of six data points for the total calibration. Allow the...: PB = barometric pressure, kPa PPI = Pump inlet depression, kPa. (iii) The correlation function at...

40 CFR 90.424 - Dilute sampling procedures-CVS calibration.

Code of Federal Regulations, 2010 CFR

2010-07-01

.... Air temperature at CVS pump inlet PTI °C ±1.11 °C. Pressure depression at CVS pump inlet PPI kPa ±0... pump inlet depression that will yield a minimum of six data points for the total calibration. Allow the...: PB = barometric pressure, kPa PPI = Pump inlet depression, kPa. (iii) The correlation function at...

40 CFR 90.424 - Dilute sampling procedures-CVS calibration.

Code of Federal Regulations, 2013 CFR

2013-07-01

.... Air temperature at CVS pump inlet PTI °C ±1.11 °C. Pressure depression at CVS pump inlet PPI kPa ±0... pump inlet depression that will yield a minimum of six data points for the total calibration. Allow the...: PB = barometric pressure, kPa PPI = Pump inlet depression, kPa. (iii) The correlation function at...

40 CFR 90.424 - Dilute sampling procedures-CVS calibration.

Code of Federal Regulations, 2011 CFR

2011-07-01

.... Air temperature at CVS pump inlet PTI °C ±1.11 °C. Pressure depression at CVS pump inlet PPI kPa ±0... pump inlet depression that will yield a minimum of six data points for the total calibration. Allow the...: PB = barometric pressure, kPa PPI = Pump inlet depression, kPa. (iii) The correlation function at...

Arbitrary-detuning asynchronous optical sampling pump-probe spectroscopy of bacterial reaction centers.

PubMed

Antonucci, Laura; Bonvalet, Adeline; Solinas, Xavier; Jones, Michael R; Vos, Marten H; Joffre, Manuel

2013-09-01

A recently reported variant of asynchronous optical sampling compatible with arbitrary unstabilized laser repetition rates is applied to pump-probe spectroscopy. This makes possible the use of a 5.1 MHz chirped pulse oscillator as the pump laser, thus extending the available time window to almost 200 ns with a time resolution as good as about 320 fs. The method is illustrated with the measurement in a single experiment of the complete charge transfer dynamics of the reaction center from Rhodobacter sphaeroides.

How Plankton Swim: An Interdisciplinary Approach for Using Mathematics & Physics to Understand the Biology of the Natural World

ERIC Educational Resources Information Center

Clay, Tansy W.; Fox, Jennifer B.; Grunbaum, Daniel; Jumars, Peter A.

2008-01-01

The authors have developed and field-tested high school-level curricular materials that guide students to use biology, mathematics, and physics to understand plankton and how these tiny organisms move in a world where their intuition does not apply. The authors chose plankton as the focus of their materials primarily because the challenges faced…

Effects of Langmuir Circulations on the Plankton

DTIC Science & Technology

1999-09-30

remains the same as stated previously for this project. I wish to establish whether the plankton is affected by Langmuir Circulations (LCs). LCs are wind...particles from Optical Plankton Counter data) variables. This also has proved fruitful and has yielded results (below) different than those I originally...complement the standard, depth-integrated estimates of zooplankton abundance from bongo net deployments. This is proving to be a significant

Seasonal oxygen isotopic variations in living planktonic foraminifera off Bermuda

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

Williams, D.F.; Be, A.W.H.; Fairbanks, R.G.

1979-10-26

Seasonal variations in the oxygen-18/oxygen-16 ratio of calcite shells of living planktonic foraminifera in the Sargasso Sea off Bermuda are a direct function of surface water temperature. Seasonal occurrence as well as depth habitat are determining factors in the oxygen isotopic composition of planktonic foraminifera. These relationships may be used to determine the seasonal temperature contrast of oceans in the past.

A micro-fluidic treadmill for observing suspended plankton in the lab

NASA Astrophysics Data System (ADS)

Jaffe, J. S.; Laxton, B.; Garwood, J. C.; Franks, P. J. S.; Roberts, P. L.

2016-02-01

A significant obstacle to laboratory studies of interactions between small organisms ( mm) and their fluid environment is our ability to obtain high-resolution images while allowing freedom of motion. This is because as the organisms sink, they will often move out of the field of view of the observation system. One solution to this problem is to impose a water circulation pattern that preserves their location relative to the camera system while imaging the organisms away from the glass walls. To accomplish this we have designed and created a plankton treadmill. Our computer-controlled system consists of a digital video camera attached to a macro or microscope and a micro-fluidic pump whose flow is regulated to maintain a suspended organism's position relative to the field of view. Organisms are detected and tracked in real time in the video frames, allowing a control algorithm to compensate for any vertical movement by adjusting the flow. The flow control can be manually adjusted using on-screen controls, semi-automatically adjusted to allow the user to select a particular organism to be tracked or fully automatic through the use of classification and tracking algorithms. Experiments with a simple cm-sized cuvette and a number of organisms that are both positively and negatively buoyant have demonstrated the success of the system in permitting longer observation times than would be possible in the absence of a controlled-flow environment. The subjects were observed using a new dual-view, holographic imaging system that provides 3-dimensional microscopic observations with relatively isotropic resolution. We will present the system design, construction, the control algorithm, and some images obtained with the holographic system, demonstrating its effectiveness. Small particles seeded into the flow clearly show the 3D flow fields around the subjects as they freely sink or swim.

Exploring the co-evolution of marine ecology and environment in silico

NASA Astrophysics Data System (ADS)

Ridgwell, A.

2015-12-01

Species do not live in isolation, but adapt and ultimately, evolve, in relationship with other species as well as with their chemical and physical environment. In the marine environment, this interaction is intimately two-way - the surface biogeochemical environment modulates the makeup of the pelagic ecosystem, yet at the same time, the ecosystem assemblage, by setting the strength of the biological pump and ultimately, in regulating the carbon and nutrient inventory of the ocean and atmospheric pCO2, influences the surface geochemical environment. Feedbacks, both negative and positive, must therefore exist between plankton ecology and global biogeochemical cycles. This has implications for understanding the geological record and particularly the response and recovery of marine ecosystems following major environmental perturbation, but also complicates making projections of future ocean changes. To address a coupled system such as this, new numerical tools are needed as traditional 'functional type' marine ecosystem models are generally incapable of accounting for short-term adaptation, let alone long-term evolution. What is needed is the combination of a plankton model able to simulate a highly diverse ecology plus 'genetic' mutation (changes in trait value(s)) and extinction, *and* an Earth system model capable of simulating long-term evolution of the climatology and geochemistry of the ocean. The Earth system model 'cGENIE' - http://mycgenie.seao2.org generally fills the second criteria, so for this presentation I will focus on the structure of the ecosystem model, the associated methodology, and numerical techniques for dealing with what will turn out to be an exceptionally large number of ocean tracers. If you are really lucky, there may even be some preliminary results :)

Biosorption of phenanthrene by pure algae and field-collected planktons and their fractions.

PubMed

Zhang, Dainan; Ran, Chenyang; Yang, Yu; Ran, Yong

2013-09-01

The biosorption isotherms for phenanthrene (Phen) by cultured algae, field-collected plankton, and market algae samples (OSs) and their fractions (lipid-LP, lipid free carbon-LF, alkaline nonhydrolyzable carbon-ANHC, and acid nonhydrolyzable carbon-NHC) were established. All the biosorption isotherms are well fitted by the Freundlich model. The biosorption isotherms for the ANHC and NHC fractions are nonlinear and for the other fractions are linear. It was found that the NHC fractions are chemically and structurally different from other fractions by using elemental analysis and Fourier transformed infrared spectroscopy (FTIR), consisting mainly of aliphatic polymethylene carbon. The average KOC values for Phen at Ce=0.005Sw are 10706±2768mLg(-1) and 95843±55817mLg(-1) for the bulk market algal samples and their NHC isolates, respectively. As the NHC fraction for Porphyra contains higher polymethylene carbon than that for Seaweed or Spirulina, it exhibits higher biosorption capacity. Moreover, the logKOC values are significantly higher for the field-collected samples than for the market algae and cultured algae samples. The multivariate correlation shows that the logKOC values are positively related to the LP contents, and negatively to the C/N ratios for the original algal samples. Furthermore, the logKOC values are negatively related to the polarity indices (O/C and O+N/C) for the original samples and their fractions excluding LP fractions. These observations help to understand the role of polarity, LP and NHC fractions, and aliphatic structures in the biosorption of Phen, which requires more attention in the examination of sorption processes in the natural environment. Copyright © 2013 Elsevier Ltd. All rights reserved.

gbpA as a Novel qPCR Target for the Species-Specific Detection of Vibrio cholerae O1, O139, Non-O1/Non-O139 in Environmental, Stool, and Historical Continuous Plankton Recorder Samples

PubMed Central

Vezzulli, Luigi; Stauder, Monica; Grande, Chiara; Pezzati, Elisabetta; Verheye, Hans M.; Owens, Nicholas J. P.; Pruzzo, Carla

2015-01-01

The Vibrio cholerae N-acetyl glucosamine-binding protein A (GbpA) is a chitin-binding protein involved in V. cholerae attachment to environmental chitin surfaces and human intestinal cells. We previously investigated the distribution and genetic variations of gbpA in a large collection of V. cholerae strains and found that the gene is consistently present and highly conserved in this species. Primers and probe were designed from the gbpA sequence of V. cholerae and a new Taq-based qPCR protocol was developed for diagnostic detection and quantification of the bacterium in environmental and stool samples. In addition, the positions of primers targeting the gbpA gene region were selected to obtain a short amplified fragment of 206 bp and the protocol was optimized for the analysis of formalin-fixed samples, such as historical Continuous Plankton Recorder (CPR) samples. Overall, the method is sensitive (50 gene copies), highly specific for V. cholerae and failed to amplify strains of the closely-related species Vibrio mimicus. The sensitivity of the assay applied to environmental and stool samples spiked with V. cholerae ATCC 39315 was comparable to that of pure cultures and was of 102 genomic units/l for drinking and seawater samples, 101 genomic units/g for sediment and 102 genomic units/g for bivalve and stool samples. The method also performs well when tested on artificially formalin-fixed and degraded genomic samples and was able to amplify V. cholerae DNA in historical CPR samples, the earliest of which date back to August 1966. The detection of V. cholerae in CPR samples collected in cholera endemic areas such as the Benguela Current Large Marine Ecosystem (BCLME) is of particular significance and represents a proof of concept for the possible use of the CPR technology and the developed qPCR assay in cholera studies. PMID:25915771

gbpA as a Novel qPCR Target for the Species-Specific Detection of Vibrio cholerae O1, O139, Non-O1/Non-O139 in Environmental, Stool, and Historical Continuous Plankton Recorder Samples.

PubMed

Vezzulli, Luigi; Stauder, Monica; Grande, Chiara; Pezzati, Elisabetta; Verheye, Hans M; Owens, Nicholas J P; Pruzzo, Carla

2015-01-01

The Vibrio cholerae N-acetyl glucosamine-binding protein A (GbpA) is a chitin-binding protein involved in V. cholerae attachment to environmental chitin surfaces and human intestinal cells. We previously investigated the distribution and genetic variations of gbpA in a large collection of V. cholerae strains and found that the gene is consistently present and highly conserved in this species. Primers and probe were designed from the gbpA sequence of V. cholerae and a new Taq-based qPCR protocol was developed for diagnostic detection and quantification of the bacterium in environmental and stool samples. In addition, the positions of primers targeting the gbpA gene region were selected to obtain a short amplified fragment of 206 bp and the protocol was optimized for the analysis of formalin-fixed samples, such as historical Continuous Plankton Recorder (CPR) samples. Overall, the method is sensitive (50 gene copies), highly specific for V. cholerae and failed to amplify strains of the closely-related species Vibrio mimicus. The sensitivity of the assay applied to environmental and stool samples spiked with V. cholerae ATCC 39315 was comparable to that of pure cultures and was of 102 genomic units/l for drinking and seawater samples, 101 genomic units/g for sediment and 102 genomic units/g for bivalve and stool samples. The method also performs well when tested on artificially formalin-fixed and degraded genomic samples and was able to amplify V. cholerae DNA in historical CPR samples, the earliest of which date back to August 1966. The detection of V. cholerae in CPR samples collected in cholera endemic areas such as the Benguela Current Large Marine Ecosystem (BCLME) is of particular significance and represents a proof of concept for the possible use of the CPR technology and the developed qPCR assay in cholera studies.

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

Kirkbride, James M. R.; Causier, Sarah K.; Dalton, Andrew R.

This paper details infra-red pump and probe studies on nitric oxide conducted with two continuous wave quantum cascade lasers both operating around 5 μm. The pump laser prepares a velocity selected population in a chosen rotational quantum state of the v = 1 level which is subsequently probed using a second laser tuned to a rotational transition within the v = 2 ← v = 1 hot band. The rapid frequency scan of the probe (with respect to the molecular collision rate) in combination with the velocity selective pumping allows observation of marked rapid passage signatures in the transient absorptionmore » profiles from the polarized vibrationally excited sample. These coherent transient signals are influenced by the underlying hyperfine structure of the pump and probe transitions, the sample pressure, and the coherent properties of the lasers. Pulsed pump and probe studies show that the transient absorption signals decay within 1 μs at 50 mTorr total pressure, reflecting both the polarization and population dephasing times of the vibrationally excited sample. The experimental observations are supported by simulation based upon solving the optical Bloch equations for a two level system.« less

Food availability on the shore: Linking epilithic and planktonic microalgae to the food ingested by two intertidal gastropods.

PubMed

Ding, Meng-Wen; Wang, Zhao-Kai; Dong, Yun-Wei

2018-05-01

Research on the interaction of primary producers and consumers is crucial for understanding trophic transfer in intertidal food webs. This study explores the association between epilithic and planktonic microalgae, and gut contents of two targeted intertidal gastropods, the periwinkle Echinolittorina radiata (splash zone) and the limpet Cellana toreuma (mid-intertidal zone). With the application of gut fluorescence technique and metabarcoding, this study investigates the quantity and composition of two different sources of microalgae (epilithic and planktonic) and the food ingested by the gastropods. The results suggest the following findings: 1) The planktonic microalgae have higher compositional similarity to the gut contents of grazing gastropods. 2) Increased gut pigment content in C. toreuma is observed with increasing abundance of epilithic and planktonic microalgae. However, there was no such pattern observed for E. radiata. This difference could be attributed to potentially divergent foraging behaviours of the two species that inhabit different shore heights. Copyright © 2018 Elsevier Ltd. All rights reserved.

Thermal nonlinear optical response of meso-tetraphenylporphyrin under aggregation conditions versus that in the absence of aggregation

NASA Astrophysics Data System (ADS)

Rasouli, Saifollah; Sakha, Fereshteh; Mojarrad, Aida G.; Zakavi, Saeed

2018-05-01

In this work, measurement of thermally induced nonlinear refractive index of meso-tetraphenylporphyrin (H2TPP) at different concentrations in 1,2-dicoloroethane using a double-grating interferometer set-up in a pump-probe configuration is reported. The formation of aggregates of H2TPP at concentrations greater than ca. 5 × 10-5 M was evident by deviation from Beer's law. An almost focused pump beam passes through the solution. A part of the pump beam energy is absorbed by the sample and therefore a thermal lens is generated in the sample. An expanded probe beam propagates through the sample and indicates the sample refractive index changes. Just after the sample a band-pass filter cuts off the pump beam from the path but the distorted probe beam passes through a double-grating interferometer consisting of two similar diffraction gratings with a few centimetres distance. A CCD camera is installed after the interferometer in which on its sensitive area two diffraction orders of the gratings are overlying and producing interference pattern. The refractive index changes of the sample are obtained from the phase distribution of the successive interference patterns recorded at different times after turning on of the pump beam using Fourier transform method. In this study, for different concentrations of H2TPP in 1,2-dichloroethane solution the thermal nonlinear refractive index is determined. Also, we present the measurement of the temperature changes induced by the pump beam in the solution. We found that value of nonlinear refractive index increased by increasing the concentration up to a concentration of 5 × 10-4 M and then decreased at higher concentrations. In addition, we have investigated the stability of the observed thermal nonlinearity after a period of two weeks from the sample preparation.

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

Schreiber, B.

Status ss reported for the research program to determine if Acantharia, a plankton having a SrSO/sub 4/ skeleton, plays a part in the capture and distribution of Sr natural and radioactive isotopes in the food chain. A positive correlation was found between the Sr content in plankton and the relative amounts of Acantharia in the plankton. Work was started on the determination of radiostrontium and on the reproductive activity of Acantharia. (D.L.C.)

Long-Term Trends in Calcifying Plankton and pH in the North Sea

PubMed Central

Beare, Doug; McQuatters-Gollop, Abigail; van der Hammen, Tessa; Machiels, Marcel; Teoh, Shwu Jiau; Hall-Spencer, Jason M.

2013-01-01

Relationships between six calcifying plankton groups and pH are explored in a highly biologically productive and data-rich area of the central North Sea using time-series datasets. The long-term trends show that abundances of foraminiferans, coccolithophores, and echinoderm larvae have risen over the last few decades while the abundances of bivalves and pteropods have declined. Despite good coverage of pH data for the study area there is uncertainty over the quality of this historical dataset; pH appears to have been declining since the mid 1990s but there was no statistical connection between the abundance of the calcifying plankton and the pH trends. If there are any effects of pH on calcifying plankton in the North Sea they appear to be masked by the combined effects of other climatic (e.g. temperature), chemical (nutrient concentrations) and biotic (predation) drivers. Certain calcified plankton have proliferated in the central North Sea, and are tolerant of changes in pH that have occurred since the 1950s but bivalve larvae and pteropods have declined. An improved monitoring programme is required as ocean acidification may be occurring at a rate that will exceed the environmental niches of numerous planktonic taxa, testing their capacities for acclimation and genetic adaptation. PMID:23658686

Linking planktonic biomass and metabolism to net gas fluxes in northern temperate lakes

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

Giorgio, P.A. del; Cole, J.J.; Caraco, N.F.

1999-06-01

Plankton communities in oligotrophic waters are characteristically dominated by the biomass of heterotrophs, including bacteria, micro-, and macrozooplankton. It has been generally assumed that these inverted biomass pyramids are the direct result of high specific production rates of phytoplankton and a tight coupling between producers and consumers. There are, however, at least two alternative hypotheses: (1) heterotrophic biomass turnover is much slower in oligotrophic than eutrophic systems; and (2) oligotrophic planktonic communities are significantly subsidized by allochthonous organic matter. In this study the authors assessed these hypotheses by establishing the relationship between plankton biomass structure, plankton function, and whole-lake gasmore » (O{sub 2} and CO{sub 2}) fluxes in 20 temperate lakes that span a large range in primary production. The authors show that the balance of phytoplankton production and community respiration (P/R ratio) is always below unity in unproductive lakes where heterotrophic biomass (H) is high relative to autotrophic biomass (A), suggesting that these planktonic food webs function as heterotrophic systems and must be subsidized by allochthonous organic matter. Further, rates of phytoplankton specific production are not highest in communities characterized by dominance of heterotrophic biomass. All except the most productive lakes were supersaturated in CO{sub 2} and undersaturated in O{sub 2}.« less

Bioprospecting Marine Plankton

PubMed Central

Abida, Heni; Ruchaud, Sandrine; Rios, Laurent; Humeau, Anne; Probert, Ian; De Vargas, Colomban; Bach, Stéphane; Bowler, Chris

2013-01-01

The ocean dominates the surface of our planet and plays a major role in regulating the biosphere. For example, the microscopic photosynthetic organisms living within provide 50% of the oxygen we breathe, and much of our food and mineral resources are extracted from the ocean. In a time of ecological crisis and major changes in our society, it is essential to turn our attention towards the sea to find additional solutions for a sustainable future. Remarkably, while we are overexploiting many marine resources, particularly the fisheries, the planktonic compartment composed of zooplankton, phytoplankton, bacteria and viruses, represents 95% of marine biomass and yet the extent of its diversity remains largely unknown and underexploited. Consequently, the potential of plankton as a bioresource for humanity is largely untapped. Due to their diverse evolutionary backgrounds, planktonic organisms offer immense opportunities: new resources for medicine, cosmetics and food, renewable energy, and long-term solutions to mitigate climate change. Research programs aiming to exploit culture collections of marine micro-organisms as well as to prospect the huge resources of marine planktonic biodiversity in the oceans are now underway, and several bioactive extracts and purified compounds have already been identified. This review will survey and assess the current state-of-the-art and will propose methodologies to better exploit the potential of marine plankton for drug discovery and for dermocosmetics. PMID:24240981

NHEXAS PHASE I MARYLAND STUDY--PAHS IN AIR ANALYTICAL RESULTS

EPA Science Inventory

The PAHs in Air data set contains analytical results for measurements of up to 11 PAHs in 127 air samples over 51 households. Twenty-four-hour samples were taken over a one-week period using a continuous pump and solenoid apparatus pumping a standardized air volume through an UR...

NHEXAS PHASE I MARYLAND STUDY--METALS IN AIR ANALYTICAL RESULTS

EPA Science Inventory

The Metals in Air data set contains analytical results for measurements of up to 4 metals in 458 air samples over 79 households. Twenty-four-hour samples were taken over a one-week period using a continuous pump and solenoid apparatus by pumping a standardized air volume through...

Exposure to regular gasoline and ethanol oxyfuel during refueling in Alaska.

PubMed Central

Backer, L C; Egeland, G M; Ashley, D L; Lawryk, N J; Weisel, C P; White, M C; Bundy, T; Shortt, E; Middaugh, J P

1997-01-01

Although most people are thought to receive their highest acute exposures to gasoline while refueling, relatively little is actually known about personal, nonoccupational exposures to gasoline during refueling activities. This study was designed to measure exposures associated with the use of an oxygenated fuel under cold conditions in Fairbanks, Alaska. We compared concentrations of gasoline components in the blood and in the personal breathing zone (PBZ) of people who pumped regular unleaded gasoline (referred to as regular gasoline) with concentrations in the blood of those who pumped an oxygenated fuel that was 10% ethanol (E-10). A subset of participants in a wintertime engine performance study provided blood samples before and after pumping gasoline (30 using regular gasoline and 30 using E-10). The biological and environmental samples were analyzed for selected aromatic volatile organic compounds (VOCs) found in gasoline (benzene, ethylbenzene, toluene, m-/p-xylene, and o-xylene); the biological samples were also analyzed for three chemicals not found in gasoline (1,4-dichlorobenzene, chloroform, and styrene). People in our study had significantly higher levels of gasoline components in their blood after pumping gasoline than they had before pumping gasoline. The changes in VOC levels in blood were similar whether the individuals pumped regular gasoline or the E-10 blend. The analysis of PBZ samples indicated that there were also measurable levels of gasoline components in the air during refueling. The VOC levels in PBZ air were similar for the two groups. In this study, we demonstrate that people are briefly exposed to low (ppm and sub-ppm) levels of known carcinogens and other potentially toxic compounds while pumping gasoline, regardless of the type of gasoline used. Images Figure 1. Figure 2. Figure 3. PMID:9347900

Identification of human-induced perturbations in Daya Bay, China: Evidence from plankton size structure

NASA Astrophysics Data System (ADS)

Ma, Yan'e.; Ke, Zhixin; Huang, Liangmin; Tan, Yehui

2014-01-01

Plankton size structures were investigated based on estimated individual biovolumes at six typical stations of Daya Bay in the summer (August 2010) and winter (January 2011). The biomass size distribution (BSD) and the number size spectra (NSS) of plankton were established to analyze plankton size structures from taxonomic and ataxonomic perspectives, respectively. In Daya Bay, the phytoplankton individual biovolume was in the range of 64-496,757 μm3, and the zooplankton individual biovolume was in the range of 1.15×106-5.23×1011 μm3. The average biomasses of phytoplankton and zooplankton were 1.60 mg L-1 and 1.19 mg L-1 in the summer, and .42 mg L-1 and .35 mg L-1 in the winter, respectively. The ranges of the NSS slope were -1.94 to -.75, -2.60 to -.69, and -2.11 to -1.64 for phytoplankton, zooplankton, and total plankton, respectively. The ranges of the NSS intercepts were 13.17 to 23.97, -3.19 to 38.88, and 20.14 to 27.86 for phytoplankton, zooplankton, and total plankton, respectively. Our results indicate that the thermal water discharge from nuclear power plants, aquaculture and riverine nutrients significantly influenced the BSD and NSS patterns of plankton in Daya Bay. Moreover, the influence of aquaculture was more significant in the summer, and the influence of thermal water discharge was more significant in the winter. In general, a steeper NSS slope usually suggested more human-induced perturbations. The NSS parameters well reflected the horizontal variations of the environmental characteristics between these stations.

Comparative assessment of antibiotic susceptibility of coagulase-negative staphylococci in biofilm versus planktonic culture as assessed by bacterial enumeration or rapid XTT colorimetry.

PubMed

Cerca, Nuno; Martins, Silvia; Cerca, Filipe; Jefferson, Kimberly K; Pier, Gerald B; Oliveira, Rosário; Azeredo, Joana

2005-08-01

To quantitatively compare the antibiotic susceptibility of biofilms formed by the coagulase-negative staphylococci (CoNS) Staphylococcus epidermidis and Staphylococcus haemolyticus with the susceptibility of planktonic cultures. Several CoNS strains were grown planktonically or as biofilms to determine the effect of the mode of growth on the level of susceptibility to antibiotics with different mechanisms of action. The utility of a new, rapid colorimetric method that is based on the reduction of a tetrazolium salt (XTT) to measure cell viability was tested by comparison with standard bacterial enumeration techniques. A 6 h kinetic study was performed using dicloxacillin, cefazolin, vancomycin, tetracycline and rifampicin at the peak serum concentration of each antibiotic. In planktonic cells, inhibitors of cell wall synthesis were highly effective over a 3 h period. Biofilms were much less susceptible than planktonic cultures to all antibiotics tested, particularly inhibitors of cell wall synthesis. The susceptibility to inhibitors of protein and RNA synthesis was affected by the biofilm phenotype to a lesser degree. Standard bacterial enumeration techniques and the XTT method produced equivalent results both in biofilms and planktonic assays. This study provides a more accurate comparison between the antibiotic susceptibilities of planktonic versus biofilm populations, because the cell densities in the two populations were similar and because we measured the concentration required to inhibit bacterial metabolism rather than to eradicate the entire bacterial population. While the biofilm phenotype is highly resistant to antibiotics that target cell wall synthesis, it is fairly susceptible to antibiotics that target RNA and protein synthesis.

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

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.

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

Toxicity of waters from the St. Lawrence River at Massena Area-of-Concern to the plankton species Selenastrum capricornutum and Ceriodaphnia dubia

USGS Publications Warehouse

Baldigo, Barry P.; Duffy, Brian T.; Nally, Christopher J.; David, Anthony M.

2012-01-01

In 1972, the US and Canada committed to restore the chemical, physical, and biological integrity of the Great Lakes Ecosystem under the first Great Lakes Water Quality Agreement. During subsequent amendments, part of the St. Lawrence River at Massena NY, and segments of three tributaries, were designated as one Area of Concern (AOC) due to various beneficial use impairments (BUIs). Plankton beneficial use was designated impaired within this AOC because phytoplankton and zooplankton population data were unavailable or needed “further assessment”. Contaminated sediments from industrial waste disposal have been largely remediated, thus, the plankton BUI may currently be obsolete. The St. Lawrence River at Massena AOC remedial action plan established two criteria which may be used to assess the plankton BUI; the second states that, “in the absence of community structure data, plankton bioassays confirm no toxicity impact in ambient waters”. This study was implemented during 2011 to determine whether this criterion was achieved. Acute toxicity and chronic toxicity of local waters were quantified seasonally using standardized bioassays with green alga Selenastrum capricornutum and water flea Ceriodaphnia dubia to test the hypothesis that waters from sites within the AOC were no more toxic than were waters from adjacent reference sites. The results of univariate and multivariate analyses confirm that ambient waters from most AOC sites (and seasons) were not toxic to both species. Assuming both test species represent natural plankton assemblages, the quality of surface waters throughout most of this AOC should not seriously impair the health of resident plankton communities.

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

Spatial organization of Pseudomonas aeruginosa biofilms probed by combined matrix-assisted laser desorption ionization mass spectrometry and confocal Raman microscopy.

PubMed

Masyuko, Rachel N; Lanni, Eric J; Driscoll, Callan M; Shrout, Joshua D; Sweedler, Jonathan V; Bohn, Paul W

2014-11-21

Bacteria growing as surface attached biofilms differ significantly from planktonic cells in several important traits that are reflected in the spatiotemporal organization of the cells and the extracellular polymeric substances they secrete. The structural and chemical features that define these biofilms are explored here using a combination of matrix-assisted laser desorption ionization mass spectrometry (MALDI MS) and confocal Raman microspectroscopies (CRM) to characterize and compare the composition and distribution of biomolecules found in biofilms and planktonic cells of the bacterium Pseudomonas aeruginosa. Three-day old P. aeruginosa biofilms show dramatic differences in molecular composition compared to planktonic cultures. CRM reveals that wild-type planktonic cell Raman spectra are characterized by bands linked to cellular constituents and are dominated by contributions from DNA- and RNA-related bands. In contrast, biofilm spectra are dominated by bands characteristic of glycolipids - rhamnolipids - polysaccharides and by secreted proteins. LDI MS was applied in turn to identify the rhamnolipids present in the biofilm. Experiments were also conducted using an acyl homoserine lactone quorum sensing-deficient mutant (ΔlasIΔrhlI), which is incapable of producing rhamnolipids. CRM and LDI MS analyses revealed that while molecular composition of the planktonic quorum sensing-deficient cells is similar to that of the wild-type planktonic cells, several compositional differences are observed in the mutant after biofilm growth, including complete absence of detectable rhamnolipids. CRM vibrational spectra of the mutant cells are very similar for planktonic and biofilm growth conditions, indicating that biofilm formation is greatly hindered in the absence of functioning quorum sensing machinery.

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

Competition between autotrophic and heterotrophic microbial plankton for inorganic nutrients induced by variability in estuarine biophysicochemical conditions

NASA Astrophysics Data System (ADS)

Williams, A.; Quigg, A.

2016-02-01

Competition for inorganic nutrients between autotrophic and heterotrophic fractions of microbial plankton (0.2-20μm) was investigated at two stations in a sub-tropical estuary, Galveston Bay, Texas. Competition potential between these groups is enhanced because individuals are similar in size, reducing variability among their nutrient uptake efficiencies. Further, in estuaries, allochthonous supplements to autochthonous carbon may satisfy heterotrophic requirements, allowing alternative factors to limit abundance. The relative abundance of autotrophs and heterotrophs stained with SYBR Green I and enumerated on a Beckman Coulter Gallios flow cytometer were evaluated monthly during a year-long study. Shifts in the relative in situ abundance were significantly related to temperature, dissolved inorganic nitrogen (DIN), phosphorous (Pi), and total organic carbon (TOC) concentrations revealing opposing gradients of limitation by different abiotic factors. In corresponding in vitro nutrient enrichment bioassays the relative contribution of autotrophic or heterotrophic microbial plankton to significant enrichment responses varied. Only during macro- (>20μm) phytoplankton blooms do autotrophic microbial plankton respond to nutrient enrichment. Contrastingly, the heterotrophic microbial plankton responded to nutrient enrichment primarily when temperature limitation was alleviated. Therefore, the potential for autotrophic and heterotrophic microbial plankton competition for limiting nutrients is highest when autotrophic microbial plankton are also competing with larger phytoplankton during bloom events. Based on this evidence, we hypothesize that the autotrophic microbial fraction has a competitive advantage over the heterotrophs for inorganic nutrients in Galveston Bay. The observed microbial competition during estuarine phytoplankton blooms may have important consequences on biogeochemical processes including carbon and nutrient cycling.

Precipitation and temperature drive seasonal variation in bioaccumulation of polycyclic aromatic hydrocarbons in the planktonic food webs of a subtropical shallow eutrophic lake in China.

PubMed

Tao, Yuqiang; Yu, Jing; Xue, Bin; Yao, Shuchun; Wang, Sumin

2017-04-01

Hydrophobic organic contaminants (HOCs) are toxic and ubiquitous in aquatic environments and pose great risks to aquatic organisms. Bioaccumulation by plankton is the first step for HOCs to enter aquatic food webs. Trophic status is considered to dominate variations in bioaccumulation of HOCs in plankton in temperate and frigid deep oligotrophic waters. However, long-term driving factors for bioaccumulation of HOCs in planktonic food webs of subtropical shallow eutrophic waters have not been well investigated. China has the largest subtropical lake density in the Northern Hemisphere. Due to limited field data, long-term variations in the bioaccumulation of HOCs in these lakes are almost unknown. Here we take Lake Xuanwu as an example to investigate long-term variations in the bioaccumulation, and biomagnification of polycyclic aromatic hydrocarbon (PAHs) in planktonic food webs of subtropical shallow eutrophic lakes in China, and elucidate the driving factors. Our results indicate that temperature rather than nutrients dominates long-term dynamics of planktonic biomass in this lake. Precipitation significantly enhances the concentrations of the PAHs, and total suspended particles, and consequently affects the distribution of the PAHs in the water column. Biomass dilution induced by temperature dominates bioaccumulation of the PAHs by both phytoplankton and zooplankton (copepods and cladocerans). Biomagnification of the PAHs from phytoplankton to zooplankton is positively correlated with temperature. Our study suggests that temperature and precipitation drive long-term variations in the bioaccumulation of the PAHs in the planktonic food webs of this subtropical shallow eutrophic lake. Lake Xuanwu has a similar mean annual temperature, annual precipitation, sunshine duration, and nutrient levels as other subtropical shallow eutrophic lakes in China. This study may also help to understand the bioaccumulation of HOCs in planktonic food webs of other subtropical shallow eutrophic lakes. Copyright © 2017 Elsevier B.V. All rights reserved.

Identification and Evaluation of Biocides for ROWPU Systems. Revision

DTIC Science & Technology

1992-07-01

triggered, oxygen supply capable of delivering one OF CONSTRUCTION liter/second or more. If the victim is breathing, oxygen Lined- steel . stainless steel or...activity of free - living (i.e., planktonic) and surface-associated environmental bacteria. Viable bacteria are recognized in microscopic preparations by...immediately after being manufactured. Gamma irradiation of membrane samples, and spiral-wound elements, should be used in conjunction with free radical

Synthetical Analysis for Morphology, biological Species, and stable Isotopes (SAMSI) of single-cell planktonic foraminifer

NASA Astrophysics Data System (ADS)

Ujiie, Y.; Kimoto, K.; Ishimura, T.

2017-12-01

Planktonic foraminifers are widely used in the studies of paleontology and paleoceanography, because the morphology of their calcareous shells is enough highly variable to identify the morphospecies and the chemical composition of the shells reflect ambient seawater condition. Although the morphospecies were believed to represent environments associating with latitudinal temperature range of the world ocean, molecular phylogeographic studies have unveiled the presence of multiple biological species in a single morphospecies and their species-specific distributions. This implicates the actual complexity of planktonic foraminiferal ecology. Conversely, these biological species have a high potential for providing novel ecological and environmental information to us. In order to reassess the morphological and geochemical characters of biological species, the DNA extraction method with the guanidium isothiocyanate buffer was developed to preserve the calcareous shells. The present study carefully tested the physical and chemical damages of the DNA extraction process to the shells, by our novel approaches with geochemical analysis of the shells after non-destructive analysis for morphometrics on a same specimen. First, we checked the changes of the shell densities between pre- and post-DNA extraction by using the micro-focus X-ray CT (MXCT) scanning. Based on the simultaneous measurement of a sample and the standard material, we confirmed no significant changes to the shell densities through the DNA extraction process. As a next step, we compared stable oxygen and carbon isotopes among individuals of three sample sets: (1) no chemical and incubation as control, (2) incubation in the DNA extraction buffer at 65-70°C for 40 minutes as standard way, and (3) incubation in the DNA extraction buffer at 65-70°C for 120 minutes, by using the microscale isotopic analytical system (MICAL3c). Consequently, there were no significant differences among the three sample sets. These examinations clearly certified that we define morphological and geochemical features from same specimens after genetic identification. Thus, our novel approach (SAMSI) provides future studies to establish the accurate ecological and environmental proxies both in the modern and past oceans.

Impact of climate change on zooplankton communities, seabird populations and arctic terrestrial ecosystem—A scenario

NASA Astrophysics Data System (ADS)

Stempniewicz, Lech; Błachowiak-Samołyk, Katarzyna; Węsławski, Jan M.

2007-11-01

Many arctic terrestrial ecosystems suffer from a permanent deficiency of nutrients. Marine birds that forage at sea and breed on land can transport organic matter from the sea to land, and thus help to initiate and sustain terrestrial ecosystems. This organic matter initiates the emergence of local tundra communities, increasing primary and secondary production and species diversity. Climate change will influence ocean circulation and the hydrologic regime, which will consequently lead to a restructuring of zooplankton communities between cold arctic waters, with a dominance of large zooplankton species, and Atlantic waters in which small species predominate. The dominance of large zooplankton favours plankton-eating seabirds, such as the little auk ( Alle alle), while the presence of small zooplankton redirects the food chain to plankton-eating fish, up through to fish-eating birds (e.g., guillemots Uria sp.). Thus, in regions where the two water masses compete for dominance, such as in the Barents Sea, plankton-eating birds should dominate the avifauna in cold periods and recess in warmer periods, when fish-eaters should prevail. Therefore under future anthropogenic climate scenarios, there could be serious consequences for the structure and functioning of the terrestrial part of arctic ecosystems, due in part to changes in the arctic marine avifauna. Large colonies of plankton-eating little auks are located on mild mountain slopes, usually a few kilometres from the shore, whereas colonies of fish-eating guillemots are situated on rocky cliffs at the coast. The impact of guillemots on the terrestrial ecosystems is therefore much smaller than for little auks because of the rapid washing-out to sea of the guano deposited on the seabird cliffs. These characteristics of seabird nesting sites dramatically limit the range of occurrence of ornithogenic soils, and the accompanying flora and fauna, to locations where talus-breeding species occur. As a result of climate warming favoring the increase of ichthyiofagous cliff-nesting seabirds, we can expect that large areas of ornithogenic tundra around the colonies of plankton-eating seabirds situated far from the sea may disappear, while areas of tundra in the vicinity of cliffs inhabited by fish-eating seabirds, with low total production and supporting few large herbivores, will likely increase, but only imperceptibly. This may lead to habitat fragmentation with negative consequences for populations of tundra-dependent birds and mammals, and the possibility of a substantial decrease in biodiversity of tundra plant and animal communities.

Mechanisms of Candida biofilm drug resistance

PubMed Central

Taff, Heather T; Mitchell, Kaitlin F; Edward, Jessica A; Andes, David R

2013-01-01

Candida commonly adheres to implanted medical devices, growing as a resilient biofilm capable of withstanding extraordinarily high antifungal concentrations. As currently available antifungals have minimal activity against biofilms, new drugs to treat these recalcitrant infections are urgently needed. Recent investigations have begun to shed light on the mechanisms behind the profound resistance associated with the biofilm mode of growth. This resistance appears to be multifactorial, involving both mechanisms similar to conventional, planktonic antifungal resistance, such as increased efflux pump activity, as well as mechanisms specific to the biofilm lifestyle. A unique biofilm property is the production of an extracellular matrix. Two components of this material, β-glucan and extracellular DNA, promote biofilm resistance to multiple antifungals. Biofilm formation also engages several stress response pathways that impair the activity of azole drugs. Resistance within a biofilm is often heterogeneous, with the development of a subpopulation of resistant persister cells. In this article we review the molecular mechanisms underlying Candida biofilm antifungal resistance and their relative contributions during various growth phases. PMID:24059922

Effects of raised CO2 concentration on the egg production rate and early development of two marine copepods (Acartia steueri and Acartia erythraea).

PubMed

Kurihara, Haruko; Shimode, Shinji; Shirayama, Yoshihisa

2004-11-01

Direct injection of CO(2) into the deep ocean is receiving increasing attention as a way to mitigate increasing atmospheric CO(2) concentration. To assess the potential impact of the environmental change associated with CO(2) sequestration in the ocean, we studied the lethal and sub-lethal effects of raised CO(2) concentration in seawater on adult and early stage embryos of marine planktonic copepods. We found that the reproduction rate and larval development of copepods are very sensitive to increased CO(2) concentration. The hatching rate tended to decrease, and nauplius mortality rate to increase, with increased CO(2) concentration. These results suggest that the marine copepod community will be negatively affected by the disposal of CO(2). This could decrease on the carbon export flux to the deep ocean and change the biological pump. Clearly, further studies are needed to determine whether ocean CO(2) injection is an acceptable strategy to reduce anthropogenic CO(2).

Carbon and nitrogen isotopic compositions of particulate organic matter in four large river systems across the United States

USGS Publications Warehouse

Kendall, C.; Silva, S.R.; Kelly, V.J.

2001-01-01

Riverine particulate organic matter (POM) samples were collected bi-weekly to monthly from 40 sites in the Mississippi, Colorado, Rio Grande, and Columbia River Basins (USA) in 1996-97 and analysed for carbon and nitrogen stable isotopic compositions. These isotopic compositions and C : N ratios were used to identify four endmember sources of POM: Plankton, fresh terrestrial plant material, aquatic plants, and soil organic material. This large-scale study also incorporated ancillary chemical and hydrologic data to refine and extend the interpretations of POM sources beyond the source characterizations that could be done solely with isotopic and elemental ratios. The ancillary data were especially useful for differentiating between seasonal changes in POM source materials and the effects of local nutrient sources and in-stream biogeochemical processes. Average values of ??13 C and C : N for all four river systems suggested that plankton is the dominant source of POM in these rivers, with higher percentages of plankton downstream of reservoirs. Although the temporal patterns in some rivers are complex, the low ??13C and C : N values in spring and summer probably indicate plankton blooms, whereas relatively elevated values in fall and winter are consistent with greater proportions of decaying aquatic vegetation and/or terrestrial material. Seasonal shifts in the ??13C of POM when the C : N remains relatively constant probably indicate changes in the relative rates of photosynthesis and respiration. Periodic inputs of plant detritus are suggested by C : N ratios >15, principally on the Columbia and Ohio Rivers. The ??15N and ??13C also reflect the importance of internal and external sources of dissolved carbon and nitrogen, and the degree of in-stream processing. Elevated ??15N values at some sites probably reflect inputs from sewage and/or animal waste. This information on the spatial and temporal variation in sources of POM in four major river systems should prove useful in future food web and nutrient transport studies.

Examination of a high resolution laser optical plankton counter and FlowCAM for measuring plankton concentration and size

NASA Astrophysics Data System (ADS)

Kydd, Jocelyn; Rajakaruna, Harshana; Briski, Elizabeta; Bailey, Sarah

2018-03-01

Many commercial ships will soon begin to use treatment systems to manage their ballast water and reduce the global transfer of harmful aquatic organisms and pathogens in accordance with upcoming International Maritime Organization regulations. As a result, rapid and accurate automated methods will be needed to monitoring compliance of ships' ballast water. We examined two automated particle counters for monitoring organisms ≥ 50 μm in minimum dimension: a High Resolution Laser Optical Plankton Counter (HR-LOPC), and a Flow Cytometer with digital imaging Microscope (FlowCAM), in comparison to traditional (manual) microscopy considering plankton concentration, size frequency distributions and particle size measurements. The automated tools tended to underestimate particle concentration compared to standard microscopy, but gave similar results in terms of relative abundance of individual taxa. For most taxa, particle size measurements generated by FlowCAM ABD (Area Based Diameter) were more similar to microscope measurements than were those by FlowCAM ESD (Equivalent Spherical Diameter), though there was a mismatch in size estimates for some organisms between the FlowCAM ABD and microscope due to orientation and complex morphology. When a single problematic taxon is very abundant, the resulting size frequency distribution curves can become skewed, as was observed with Asterionella in this study. In particular, special consideration is needed when utilizing automated tools to analyse samples containing colonial species. Re-analysis of the size frequency distributions with the removal of Asterionella from FlowCAM and microscope data resulted in more similar curves across methods with FlowCAM ABD having the best fit compared to the microscope, although microscope concentration estimates were still significantly higher than estimates from the other methods. The results of our study indicate that both automated tools can generate frequency distributions of particles that might be particularly useful if correction factors can be developed for known differences in well-studied aquatic ecosystems.

Evaluation of pump pulsation in respirable size-selective sampling: Part III. Investigation of European standard methods.

PubMed

Soo, Jhy-Charm; Lee, Eun Gyung; Lee, Larry A; Kashon, Michael L; Harper, Martin

2014-10-01

Lee et al. (Evaluation of pump pulsation in respirable size-selective sampling: part I. Pulsation measurements. Ann Occup Hyg 2014a;58:60-73) introduced an approach to measure pump pulsation (PP) using a real-world sampling train, while the European Standards (EN) (EN 1232-1997 and EN 12919-1999) suggest measuring PP using a resistor in place of the sampler. The goal of this study is to characterize PP according to both EN methods and to determine the relationship of PP between the published method (Lee et al., 2014a) and the EN methods. Additional test parameters were investigated to determine whether the test conditions suggested by the EN methods were appropriate for measuring pulsations. Experiments were conducted using a factorial combination of personal sampling pumps (six medium- and two high-volumetric flow rate pumps), back pressures (six medium- and seven high-flow rate pumps), resistors (two types), tubing lengths between a pump and resistor (60 and 90 cm), and different flow rates (2 and 2.5 l min(-1) for the medium- and 4.4, 10, and 11.2 l min(-1) for the high-flow rate pumps). The selection of sampling pumps and the ranges of back pressure were based on measurements obtained in the previous study (Lee et al., 2014a). Among six medium-flow rate pumps, only the Gilian5000 and the Apex IS conformed to the 10% criterion specified in EN 1232-1997. Although the AirChek XR5000 exceeded the 10% limit, the average PP (10.9%) was close to the criterion. One high-flow rate pump, the Legacy (PP=8.1%), conformed to the 10% criterion in EN 12919-1999, while the Elite12 did not (PP=18.3%). Conducting supplemental tests with additional test parameters beyond those used in the two subject EN standards did not strengthen the characterization of PPs. For the selected test conditions, a linear regression model [PPEN=0.014+0.375×PPNIOSH (adjusted R2=0.871)] was developed to determine the PP relationship between the published method (Lee et al., 2014a) and the EN methods. The 25% PP criterion recommended by Lee et al. (2014a), average value derived from repetitive measurements, corresponds to 11% PPEN. The 10% pass/fail criterion in the EN Standards is not based on extensive laboratory evaluation and would unreasonably exclude at least one pump (i.e. AirChek XR5000 in this study) and, therefore, the more accurate criterion of average 11% from repetitive measurements should be substituted. This study suggests that users can measure PP using either a real-world sampling train or a resistor setup and obtain equivalent findings by applying the model herein derived. The findings of this study will be delivered to the consensus committees to be considered when those standards, including the EN 1232-1997, EN 12919-1999, and ISO 13137-2013, are revised. Published by Oxford University Press on behalf of the British Occupational Hygiene Society 2014.

Effects of intravenous delivery systems on infused red blood cells.

PubMed

Gibson, J S; Leff, R D; Roberts, R J

1984-03-01

The effects of various intravenous delivery systems on the integrity of infused red blood cells (RBCs) were studied. Using a factorial design, whole blood and packed RBCs were infused through i.v. delivery systems employing various combinations of i.v. tubing diameter and length, needle gauge, infusion rate (5 and 50 ml/hr), type of infusion pump (piston, diaphragm, or peristaltic operation), and type of blood product. The age and temperature of the blood filter used were held constant. A 5-ml sample of the blood product obtained during each experimental run was analyzed for plasma free-hemoglobin to assess the degree of hemolysis. Osmotic fragility of the RBCs was evaluated by measuring the percentage of hemolysis in the blood products in various concentrations of sodium chloride solution. Type of blood product and i.v. pump were the only variables significantly influencing RBC hemolysis. In both blood products, a greater degree of hemolysis occurred with the peristaltic-type pump than with the other types of pumps. In packed RBCs, the diaphragm-type pump produced greater hemolysis than the piston-type pump, but hemolysis was similar in whole-blood samples. Regardless of the type of pump, more hemolysis occurred in whole blood at the 5-ml/hr infusion rate than at the 50-ml/hr rate, but the converse was true in packed RBCs. Samples of both blood products were less osmotically fragile than their respective controls at sodium chloride concentrations ranging from 0.30 to 0.50%.(ABSTRACT TRUNCATED AT 250 WORDS)

Photothermal method of determining calorific properties of coal

DOEpatents

Amer, Nabil M.

1985-01-01

Predetermined amounts of heat are generated within a coal sample (11) by directing pump light pulses (14) of predetermined energy content into a small surface region (16) of the sample (11). A beam (18) of probe light is directed along the sample surface (19) and deflection of the probe beam (18) from thermally induced changes of index of refraction in the fluid medium adjacent the heated region (16) are detected. Deflection amplitude and the phase lag of the deflection, relative to the initiating pump light pulse (14), are indicative of the calorific value and the porosity of the sample (11). The method provides rapid, accurate and non-destructive analysis of the heat producing capabilities of coal samples (11). In the preferred form, sequences of pump light pulses (14) of increasing durations are directed into the sample (11) at each of a series of minute regions (16) situated along a raster scan path (21) enabling detailed analysis of variations of thermal properties at different areas of the sample (11) and at different depths.

Dynamics of plankton populations in upwelling areas. [by remote sensors

NASA Technical Reports Server (NTRS)

Szekielda, K.

1974-01-01

Recent investigations of the upwelling area along the NW Coast of Africa which include studies with satellites are discussed. The detection of patchiness in temperature and plankton distribution in the upwelling area is of special interest because they can be investigated from space synoptically with repeated coverage. The recent satellite missions provide recordings in the infrared region of the electromagnetic spectrum (EMR) as well as in the visible part. The information from those two parts of the EMR is useful for establishing the sea surface temperature and plankton distribution in upwelling areas. The temperature distribution as observed with infrared sensors and the patchiness in plankton patterns are discussed as observed with the most recent satellites, namely the Earth Resources Technology Satellite (ERTS) and NOAA-2.

A displacement pump procedure to load extracts for automated gel permeation chromatography.

PubMed

Daft, J; Hopper, M; Hensley, D; Sisk, R

1990-01-01

Automated gel permeation chromatography (GPC) effectively separates lipids from pesticides in sample extracts that contain fat. Using a large syringe to load sample extracts manually onto GPC models having 5 mL holding loops is awkward, slow, and potentially hazardous. Loading with a small-volume displacement pump, however, is convenient and fast (ca 1 loop every 20 s). And more importantly, the analyst is not exposed to toxic organic vapors because the loading pump and its connecting lines do not leak in the way that a syringe does.

Targeting intracellular Staphylococcus aureus to lower recurrence of orthopaedic infection.

PubMed

Dusane, Devendra H; Kyrouac, Douglas; Petersen, Iris; Bushrow, Luke; Calhoun, Jason H; Granger, Jeffrey F; Phieffer, Laura S; Stoodley, Paul

2018-04-01

Staphylococcus aureus is often found in orthopaedic infections and may be protected from commonly prescribed antibiotics by forming biofilms or growing intracellularly within osteoblasts. To investigate the effect of non-antibiotic compounds in conjunction with antibiotics to clear intracellular and biofilm forming S. aureus causing osteomyelitis. SAOS-2 osteoblast-like cell lines were infected with S. aureus BB1279. Antibiotics (vancomycin, VAN; and dicloxacillin, DICLOX), bacterial efflux pump inhibitors (piperine, PIP; carbonyl cyanide m-chlorophenyl hydrazone, CCCP), and bone morphogenetic protein (BMP-2) were evaluated individually and in combination to kill intracellular bacteria. We present direct evidence that after gentamicin killed extracellular planktonic bacteria and antibiotics had been stopped, seeding from the infected osteoblasts grew as biofilms. VAN was ineffective in treating the intracellular bacteria even at 10× MIC; however in presence of PIP or CCCP the intracellular S. aureus was significantly reduced. Bacterial efflux pump inhibitors (PIP and CCCP) were effective in enhancing permeability of antibiotics within the osteoblasts and facilitated killing of intracellular S. aureus. Confocal laser scanning microscopy (CLSM) showed increased uptake of propidium iodide within osteoblasts in presence of PIP and CCCP. BMP-2 had no effect on growth of S. aureus either alone or in combination with antibiotics. Combined application of antibiotics and natural agents could help in the treatment of osteoblast infected intracellular bacteria and biofilms associated with osteomyelitis. © 2017 Orthopaedic Research Society. Published by Wiley Periodicals, Inc. J Orthop Res 36:1086-1092, 2018. © 2017 Orthopaedic Research Society. Published by Wiley Periodicals, Inc.

The role of North Atlantic Ocean circulation and biological sequestration on atmospheric CO2 uptake during the last deglaciation (CL Division Outstanding ECS Award Lecture)

NASA Astrophysics Data System (ADS)

Muschitiello, Francesco; D'Andrea, William J.; Dokken, Trond M.; Schmittner, Andreas

2017-04-01

Understanding the impact of ocean circulation on the global atmospheric CO2 budget is of paramount importance for anticipating the consequences of projected future changes in Atlantic Meridional Overturning Circulation (AMOC). In particular, the efficiency of the oceanic biological pump can impact atmospheric CO2 through changes in vertical carbon export mediated by variations in the nutrient inventory of the North Atlantic basin. However, the causal relationship between North Atlantic Ocean circulation, biological carbon sequestration, and atmospheric CO2 is poorly understood. Here we present new high-resolution planktic-benthic 14C data and biomarker records from an exceptionally well-dated marine core from the Nordic Seas spanning the last deglaciation ( 15,000-10,000 years BP). The records document for the first time large and rapid atmospheric CO2 drawdowns and increase in plankton stocks during major North Atlantic cooling events. Using transient climate simulations from a fully coupled climate-biosphere model, we show that minor perturbations of the North Atlantic biological pump resulting from surface freshening and AMOC weakening can have a major impact on the global atmospheric CO2 budget. Furthermore, our data help clarifying the timing and magnitude of the deglacial CO2 signal recorded in Antarctic ice cores. We conclude that the global CO2 budget is more sensitive to perturbations in North Atlantic circulation than previously thought, which has significance in the future debate of the AMOC response to anthropogenic warming.

Study on the Pumped Materials along Rail Bed in Taiwan

NASA Astrophysics Data System (ADS)

Kuo, Chihping; Hsu, Chihhao; Wu, Chinwei; Wang, Hongyi

2016-04-01

The Neiwan Line is a railway branch line in Taiwan operated by the Taiwan Railways Administration. It is located in Hsinchu County. This line was completed on 11 September 1951. Although this line is a branch line, its standards are comparable to those of a main line except that it is not electrified. The materials for constructing railway subgrade were general in-situ topsoil which deposited in Pliocene. This line suffers the subgrade mud pumping frequently. Railway subgrade mud pumping is one of the most common defects on railway constructions. Most cases of the pumping phenomenon are caused in mud, say silt or ML in USCS. However, field observation and loggings show that not only silt but also other kinds of soil, such as sand or clay, pump as well in this study. Thirty pumping samples were collected in a sectional zone which length is about 12kM. In the 30 samples, 12 ones are Sand, 10 ones are Silt, 6 ones are Clay, and 2 ones are Gravel. Under very similar conditions, such as natural geological material, train operations, the reasons why different soil caused pumping is well discussed in this paper.

Incorporation of inorganic mercury (Hg²⁺) in pelagic food webs of ultraoligotrophic and oligotrophic lakes: the role of different plankton size fractions and species assemblages.

PubMed

Soto Cárdenas, Carolina; Diéguez, Maria C; Ribeiro Guevara, Sergio; Marvin-DiPasquale, Mark; Queimaliños, Claudia P

2014-10-01

In lake food webs, pelagic basal organisms such as bacteria and phytoplankton incorporate mercury (Hg(2+)) from the dissolved phase and pass the adsorbed and internalized Hg to higher trophic levels. This experimental investigation addresses the incorporation of dissolved Hg(2+) by four plankton fractions (picoplankton: 0.2-2.7 μm; pico+nanoplankton: 0.2-20 μm; microplankton: 20-50 μm; and mesoplankton: 50-200 μm) obtained from four Andean Patagonian lakes, using the radioisotope (197)Hg(2+). Species composition and abundance were determined in each plankton fraction. In addition, morphometric parameters such as surface and biovolume were calculated using standard geometric models. The incorporation of Hg(2+) in each plankton fraction was analyzed through three concentration factors: BCF (bioconcentration factor) as a function of cell or individual abundance, SCF (surface concentration factor) and VCF (volume concentration factor) as functions of individual exposed surface and biovolume, respectively. Overall, this investigation showed that through adsorption and internalization, pico+nanoplankton play a central role leading the incorporation of Hg(2+) in pelagic food webs of Andean lakes. Larger planktonic organisms included in the micro- and mesoplankton fractions incorporate Hg(2+) by surface adsorption, although at a lesser extent. Mixotrophic bacterivorous organisms dominate the different plankton fractions of the lakes connecting trophic levels through microbial loops (e.g., bacteria-nanoflagellates-crustaceans; bacteria-ciliates-crustaceans; endosymbiotic algae-ciliates). These bacterivorous organisms, which incorporate Hg from the dissolved phase and through their prey, appear to explain the high incorporation of Hg(2+) observed in all the plankton fractions. Copyright © 2014 Elsevier B.V. All rights reserved.

Comparative assessment of antibiotic susceptibility of coagulase-negative staphylococci in biofilm versus planktonic culture as assessed by bacterial enumeration or rapid XTT colorimetry

PubMed Central

Cerca, Nuno; Martins, Silvia; Cerca, Filipe; Jefferson, Kimberly K.; Pier, Gerald B.; Oliveira, Rosário; Azeredo, Joana

2005-01-01

Objectives To quantitatively compare the antibiotic susceptibility of biofilms formed by the coagulase-negative staphylococci (CoNS) Staphylococcus epidermidis and Staphylococcus haemolyticus with the susceptibility of planktonic cultures. Methods Several CoNS strains were grown planktonically or as biofilms to determine the effect of the mode of growth on the level of susceptibility to antibiotics with different mechanisms of action. The utility of a new, rapid colorimetric method that is based on the reduction of a tetrazolium salt (XTT) to measure cell viability was tested by comparison with standard bacterial enumeration techniques. A 6 h kinetic study was performed using dicloxacillin, cefazolin, vancomycin, tetracycline and rifampicin at the peak serum concentration of each antibiotic. Results In planktonic cells, inhibitors of cell wall synthesis were highly effective over a 3 h period. Biofilms were much less susceptible than planktonic cultures to all antibiotics tested, particularly inhibitors of cell wall synthesis. The susceptibility to inhibitors of protein and RNA synthesis was affected by the biofilm phenotype to a lesser degree. Standard bacterial enumeration techniques and the XTT method produced equivalent results both in biofilms and planktonic assays. Conclusions This study provides a more accurate comparison between the antibiotic susceptibilities of planktonic versus biofilm populations, because the cell densities in the two populations were similar and because we measured the concentration required to inhibit bacterial metabolism rather than to eradicate the entire bacterial population. While the biofilm phenotype is highly resistant to antibiotics that target cell wall synthesis, it is fairly susceptible to antibiotics that target RNA and protein synthesis. PMID:15980094

Incorporation of inorganic mercury (Hg2+) in pelagic food webs of ultraoligotrophic and oligotrophic lakes: the role of different plankton size fractions and species assemblages

USGS Publications Warehouse

Soto Cárdenas, Carolina; Diéguez, Maria C.; Ribeiro Guevara, Sergio; Marvin-DiPasquale, Mark; Queimaliños, Claudia P.

2014-01-01

In lake food webs, pelagic basal organisms such as bacteria and phytoplankton incorporate mercury (Hg2+) from the dissolved phase and pass the adsorbed and internalized Hg to higher trophic levels. This experimental investigation addresses the incorporation of dissolved Hg2+ by four plankton fractions (picoplankton: 0.2–2.7 μm; pico + nanoplankton: 0.2–20 μm; microplankton: 20–50 μm; and mesoplankton: 50–200 μm) obtained from four Andean Patagonian lakes, using the radioisotope 197Hg2+. Species composition and abundance were determined in each plankton fraction. In addition, morphometric parameters such as surface and biovolume were calculated using standard geometric models. The incorporation of Hg2+ in each plankton fraction was analyzed through three concentration factors: BCF (bioconcentration factor) as a function of cell or individual abundance, SCF (surface concentration factor) and VCF (volume concentration factor) as functions of individual exposed surface and biovolume, respectively. Overall, this investigation showed that through adsorption and internalization, pico + nanoplankton play a central role leading the incorporation of Hg2+ in pelagic food webs of Andean lakes. Larger planktonic organisms included in the micro- and mesoplankton fractions incorporate Hg2+ by surface adsorption, although at a lesser extent. Mixotrophic bacterivorous organisms dominate the different plankton fractions of the lakes connecting trophic levels through microbial loops (e.g., bacteria–nanoflagellates–crustaceans; bacteria–ciliates–crustaceans; endosymbiotic algae–ciliates). These bacterivorous organisms, which incorporate Hg from the dissolved phase and through their prey, appear to explain the high incorporation of Hg2+ observed in all the plankton fractions.

Unlocking the ice house: Oligocene-Miocene oxygen isotopes, eustasy, and margin erosion

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

Miller, K.G.; Wright, J.D.; Fairbanks, R.G.

1991-04-10

Benthic foraminiferal {delta}{sup 18}O records place limits on the history of glaciation, suggesting the presence of ice sheets at least intermittently since the earliest Oligocene. The best indicator of ice growth is a coeval increase in global benthic and western equatorial planktonic {delta}{sup 18}O records. Although planktonic isotope records from the western equatorial regions are limited, subtropical planktonic foraminifera may also record such ice volume changes. It is difficult to apply these established principles to the Cenozoic {delta}{sup 18}O record because of the lack of adequate data and problems in stratigraphic correlations that obscure isotope events. The authors improved Oligocenemore » to Miocene correlations of {delta}{sup 18}O records and erected eight oxygen isotope zones (Oi1-Oi2, Mi1-Mi6). Benthic foraminiferal {delta}{sup 18}O increases which can be linked with {delta}{sup 18}O increases in subtropical planktonic foraminifera and with intervals of glacial sedimentation on or near Antarctica. These new correlations of middle Miocene benthic and western equatorial planktonic {delta}{sup 18}O records show remarkable agreement in timing and amplitude. They interpret benthic-planktonic covariance to reflect substantial ice volume increases near the bases of Zones Mi2 (circa 16.1 Ma), Mi3 (circa 13.6 Ma), and possibly Mi5 (circa 11.3 Ma). Possible glacioeustatic lowerings are associated with the {delta}{sup 18}O increases which culminated with the bases of Zone Mi4 (circa 12.6 Ma) and Mi6 (circa 9.6 Ma), although low-latitude planktonic {delta}{sup 18}O records are required to test this. These inferred glacioeustatic lowerings can be linked to seismic and rock disconformities.« less

220D-F2 from Rubus ulmifolius kills Streptococcus pneumoniae planktonic cells and pneumococcal biofilms.

PubMed

Talekar, Sharmila J; Chochua, Sopio; Nelson, Katie; Klugman, Keith P; Quave, Cassandra L; Vidal, Jorge E

2014-01-01

Streptococcus pneumoniae (pneumococcus) forms organized biofilms to persist in the human nasopharynx. This persistence allows the pneumococcus to produce severe diseases such as pneumonia, otitis media, bacteremia and meningitis that kill nearly a million children every year. While bacteremia and meningitis are mediated by planktonic pneumococci, biofilm structures are present during pneumonia and otitis media. The global emergence of S. pneumoniae strains resistant to most commonly prescribed antibiotics warrants further discovery of alternative therapeutics. The present study assessed the antimicrobial potential of a plant extract, 220D-F2, rich in ellagic acid, and ellagic acid derivatives, against S. pneumoniae planktonic cells and biofilm structures. Our studies first demonstrate that, when inoculated together with planktonic cultures, 220D-F2 inhibited the formation of pneumococcal biofilms in a dose-dependent manner. As measured by bacterial counts and a LIVE/DEAD bacterial viability assay, 100 and 200 µg/ml of 220D-F2 had significant bactericidal activity against pneumococcal planktonic cultures as early as 3 h post-inoculation. Quantitative MIC's, whether quantified by qPCR or dilution and plating, showed that 80 µg/ml of 220D-F2 completely eradicated overnight cultures of planktonic pneumococci, including antibiotic resistant strains. When preformed pneumococcal biofilms were challenged with 220D-F2, it significantly reduced the population of biofilms 3 h post-inoculation. Minimum biofilm inhibitory concentration (MBIC)50 was obtained incubating biofilms with 100 µg/ml of 220D-F2 for 3 h and 6 h of incubation. 220D-F2 also significantly reduced the population of pneumococcal biofilms formed on human pharyngeal cells. Our results demonstrate potential therapeutic applications of 220D-F2 to both kill planktonic pneumococcal cells and disrupt pneumococcal biofilms.

Energy density of zooplankton and fish larvae in the southern Catalan Sea (NW Mediterranean)

NASA Astrophysics Data System (ADS)

Barroeta, Ziortza; Olivar, M. Pilar; Palomera, Isabel

2017-06-01

In marine communities, energy of small planktonic organisms is transferred to their predators through feeding. The energy accumulated as organic substances by the different plankton organisms (Energetic Density content, ED) has been analysed in high latitudes and tropical areas, but not in the Mediterranean Sea. In this study, we approach this type of investigation for Mediterranean plankton through measures of total calorimetric content using an oxygen bomb calorimeter. We examined the spatiotemporal variation in the ED of microplankton (50-200 μm) and mesozooplankton (200-2000 μm), and two plankton-consumers, sardine (Sardina pilchardus) and anchovy (Engraulis encrasicolus) larvae. The study was carried out during the winter and summer of 2013 off the Ebro River Delta (NW Mediterranean Sea). Both plankton fractions showed a more coastal distribution and higher biomasses during winter, the period of sardine larvae occurrences, in front of a wider cross-shelf distribution and lower biomasses in summer, when anchovy appeared. ED values increased with the size of each plankton component, i.e., microzooplankton < mesozooplankton < fish larvae. A tendency for higher plankton ED in the winter period was observed, although being only significant for coastal zone, associated to the more productive waters there. Sardine and anchovy larvae showed an increasing trend in the amount of energy during development, with significantly lower ED between early larvae (6-10 mm standard length) and late postflexion stages (16-20 mm standard length). Small larvae of both species departed from a similarly low ED content, but in the next two size classes sardine larvae showed higher ED values than anchovy, being significantly higher in the 16-20 mm size class. Information on larval feeding patterns and larval growth rates for each species were used to discuss differences in energy allocation strategies.

Assimilation of Diazotrophic Nitrogen into Pelagic Food Webs

PubMed Central

Woodland, Ryan J.; Holland, Daryl P.; Beardall, John; Smith, Jonathan; Scicluna, Todd; Cook, Perran L. M.

2013-01-01

The fate of diazotrophic nitrogen (ND) fixed by planktonic cyanobacteria in pelagic food webs remains unresolved, particularly for toxic cyanophytes that are selectively avoided by most herbivorous zooplankton. Current theory suggests that ND fixed during cyanobacterial blooms can enter planktonic food webs contemporaneously with peak bloom biomass via direct grazing of zooplankton on cyanobacteria or via the uptake of bioavailable ND (exuded from viable cyanobacterial cells) by palatable phytoplankton or microbial consortia. Alternatively, ND can enter planktonic food webs post-bloom following the remineralization of bloom detritus. Although the relative contribution of these processes to planktonic nutrient cycles is unknown, we hypothesized that assimilation of bioavailable ND (e.g., nitrate, ammonium) by palatable phytoplankton and subsequent grazing by zooplankton (either during or after the cyanobacterial bloom) would be the primary pathway by which ND was incorporated into the planktonic food web. Instead, in situ stable isotope measurements and grazing experiments clearly documented that the assimilation of ND by zooplankton outpaced assimilation by palatable phytoplankton during a bloom of toxic Nodularia spumigena Mertens. We identified two distinct temporal phases in the trophic transfer of ND from N. spumigena to the plankton community. The first phase was a highly dynamic transfer of ND to zooplankton with rates that covaried with bloom biomass while bypassing other phytoplankton taxa; a trophic transfer that we infer was routed through bloom-associated bacteria. The second phase was a slowly accelerating assimilation of the dissolved-ND pool by phytoplankton that was decoupled from contemporaneous variability in N. spumigena concentrations. These findings provide empirical evidence that ND can be assimilated and transferred rapidly throughout natural plankton communities and yield insights into the specific processes underlying the propagation of ND through pelagic food webs. PMID:23840744

Assimilation of diazotrophic nitrogen into pelagic food webs.

PubMed

Woodland, Ryan J; Holland, Daryl P; Beardall, John; Smith, Jonathan; Scicluna, Todd; Cook, Perran L M

2013-01-01

The fate of diazotrophic nitrogen (N(D)) fixed by planktonic cyanobacteria in pelagic food webs remains unresolved, particularly for toxic cyanophytes that are selectively avoided by most herbivorous zooplankton. Current theory suggests that N(D) fixed during cyanobacterial blooms can enter planktonic food webs contemporaneously with peak bloom biomass via direct grazing of zooplankton on cyanobacteria or via the uptake of bioavailable N(D) (exuded from viable cyanobacterial cells) by palatable phytoplankton or microbial consortia. Alternatively, N(D) can enter planktonic food webs post-bloom following the remineralization of bloom detritus. Although the relative contribution of these processes to planktonic nutrient cycles is unknown, we hypothesized that assimilation of bioavailable N(D) (e.g., nitrate, ammonium) by palatable phytoplankton and subsequent grazing by zooplankton (either during or after the cyanobacterial bloom) would be the primary pathway by which N(D) was incorporated into the planktonic food web. Instead, in situ stable isotope measurements and grazing experiments clearly documented that the assimilation of N(D) by zooplankton outpaced assimilation by palatable phytoplankton during a bloom of toxic Nodularia spumigena Mertens. We identified two distinct temporal phases in the trophic transfer of N(D) from N. spumigena to the plankton community. The first phase was a highly dynamic transfer of N(D) to zooplankton with rates that covaried with bloom biomass while bypassing other phytoplankton taxa; a trophic transfer that we infer was routed through bloom-associated bacteria. The second phase was a slowly accelerating assimilation of the dissolved-N(D) pool by phytoplankton that was decoupled from contemporaneous variability in N. spumigena concentrations. These findings provide empirical evidence that N(D) can be assimilated and transferred rapidly throughout natural plankton communities and yield insights into the specific processes underlying the propagation of N(D) through pelagic food webs.

In Vivo Pharmacokinetics/Pharmacodynamics of Colistin and Imipenem in Pseudomonas aeruginosa Biofilm Infection

PubMed Central

Wu, Hong; Ciofu, Oana; Song, Zhijun; Høiby, Niels

2012-01-01

Many Pseudomonas aeruginosa isolates from the airways of patients with cystic fibrosis (CF) are sensitive to antibiotics in susceptibility testing, but eradication of the infection is difficult. The main reason is the biofilm formation in the airways of patients with CF. The pharmacokinetics (PKs) and pharmacodynamics (PDs) of antimicrobials can reliably be used to predict whether antimicrobial regimens will achieve the maximum bactericidal effect against infections. Unfortunately, however, most PK/PD studies of antimicrobials have been done on planktonic cells and very few PK/PD studies have been done on biofilms, partly due to the lack of suitable models in vivo. In the present study, a biofilm lung infection model was developed to provide an objective and quantitative evaluation of the PK/PD profile of antimicrobials. Killing curves were set up to detect the antimicrobial kinetics on planktonic and biofilm P. aeruginosa cells in vivo. Colistin showed concentration-dependent killing, while imipenem showed time-dependent killing on both planktonic and biofilm P. aeruginosa cells in vivo. The parameter best correlated to the elimination of bacteria in lung by colistin was the area under the curve (AUC) versus MIC (AUC/MIC) for planktonic cells or the AUC versus minimal biofilm inhibitory concentration (MBIC; AUC/MBIC) for biofilm cells. The best-correlated parameter for imipenem was the time that the drug concentration was above the MIC for planktonic cells (TMIC) or time that the drug concentration was above the MBIC (TMBIC) for biofilm cells. However, the AUC/MIC of imipenem showed a better correlation with the efficacy of imipenem for biofilm infections (R2 = 0.89) than planktonic cell infections (R2 = 0.38). The postantibiotic effect (PAE) of colistin and imipenem was shorter in biofilm infections than planktonic cell infections in this model. PMID:22354300

In-well time-of-travel approach to evaluate optimal purge duration during low-flow sampling of monitoring wells

USGS Publications Warehouse

Harte, Philip T.

2017-01-01

A common assumption with groundwater sampling is that low (<0.5 L/min) pumping rates during well purging and sampling captures primarily lateral flow from the formation through the well-screened interval at a depth coincident with the pump intake. However, if the intake is adjacent to a low hydraulic conductivity part of the screened formation, this scenario will induce vertical groundwater flow to the pump intake from parts of the screened interval with high hydraulic conductivity. Because less formation water will initially be captured during pumping, a substantial volume of water already in the well (preexisting screen water or screen storage) will be captured during this initial time until inflow from the high hydraulic conductivity part of the screened formation can travel vertically in the well to the pump intake. Therefore, the length of the time needed for adequate purging prior to sample collection (called optimal purge duration) is controlled by the in-well, vertical travel times. A preliminary, simple analytical model was used to provide information on the relation between purge duration and capture of formation water for different gross levels of heterogeneity (contrast between low and high hydraulic conductivity layers). The model was then used to compare these time–volume relations to purge data (pumping rates and drawdown) collected at several representative monitoring wells from multiple sites. Results showed that computation of time-dependent capture of formation water (as opposed to capture of preexisting screen water), which were based on vertical travel times in the well, compares favorably with the time required to achieve field parameter stabilization. If field parameter stabilization is an indicator of arrival time of formation water, which has been postulated, then in-well, vertical flow may be an important factor at wells where low-flow sampling is the sample method of choice.

Coupling Behavior and Vertical Distribution of Pteropods in Coastal Waters Using Data from the Video Plankton Recorder

DTIC Science & Technology

1997-09-30

COUPLING BEHAVIOR AND VERTICAL DISTRIBUTION OF PTEROPODS IN COASTAL WATERS USING DATA FROM THE VIDEO PLANKTON RECORDER Scott M. Gallager Woods Hole...OBJECTIVES The general hypothesis being tested is that the vertical distribution of the pteropod Limacina retroversa is predictable as a function of light...the plankton, to a dynamic description of its instantaneous swimming behavior. 3) To couple objectives 1 and 2 through numerical modeling of pteropod

Sheldon spectrum and the plankton paradox: two sides of the same coin-a trait-based plankton size-spectrum model.

PubMed

Cuesta, José A; Delius, Gustav W; Law, Richard

2018-01-01

The Sheldon spectrum describes a remarkable regularity in aquatic ecosystems: the biomass density as a function of logarithmic body mass is approximately constant over many orders of magnitude. While size-spectrum models have explained this phenomenon for assemblages of multicellular organisms, this paper introduces a species-resolved size-spectrum model to explain the phenomenon in unicellular plankton. A Sheldon spectrum spanning the cell-size range of unicellular plankton necessarily consists of a large number of coexisting species covering a wide range of characteristic sizes. The coexistence of many phytoplankton species feeding on a small number of resources is known as the Paradox of the Plankton. Our model resolves the paradox by showing that coexistence is facilitated by the allometric scaling of four physiological rates. Two of the allometries have empirical support, the remaining two emerge from predator-prey interactions exactly when the abundances follow a Sheldon spectrum. Our plankton model is a scale-invariant trait-based size-spectrum model: it describes the abundance of phyto- and zooplankton cells as a function of both size and species trait (the maximal size before cell division). It incorporates growth due to resource consumption and predation on smaller cells, death due to predation, and a flexible cell division process. We give analytic solutions at steady state for both the within-species size distributions and the relative abundances across species.

Temporal and Spatial Patterns of Plankton and Microbial Dynamics in the Offshore Gulf of Mexico After the Deepwater Horizon Oil Spill

NASA Astrophysics Data System (ADS)

Sutor, M.; Longnecker, K.

2016-02-01

The oligotrophic regions of the world oceans represent large and important marine ecosystems. The vast majority of animals in these zones are plankton and marine microbes and they play a key role in the export of carbon and organic matter to seafloor benthic communities and higher trophic levels. There is little published data on the ecology of plankton and microbes in the offshore waters of the Northern Gulf of Mexico. In the wake of the Deepwater Horizon oil spill, which was a primarily oceanic event, it is clear that understanding the microbial and planktonic community and how it responded to this event is critical to interpret any observed changes at higher trophic levels (i.e. fish). We conducted three cruises in the spring of 2011, 2012, and 2013 and measured the primary production, respiration, bacterial production, and community composition of plankton and marine microbes. The data show that there are important differences in these parameters between the surface waters and the deep chlorophyll maximum and proximity to the spill site in 2011. Spatial patterns in relation to the spill site are not pronounced in 2012 and 2013. These data represent an important estimate of the microbial and planktonic community ecology of this region and demonstrate the important role the deep chlorophyll maximum plays in this system.

Surface distribution of brachyuran megalopae and ichthyoplankton in the Columbia River plume during transition from downwelling to upwelling conditions

NASA Astrophysics Data System (ADS)

Roegner, G. Curtis; Daly, Elizabeth A.; Brodeur, Richard D.

2013-06-01

In the California Current coastal boundary zone, the spring transition between downwelling and upwelling conditions, along with the fluctuating structure of the Columbia River plume, creates highly dynamic interactions. In this study, we investigated whether the surface distribution of brachyuran larvae and ichthyoplankton would track the dynamics of the Columbia River plume. By happenstance, the cruise period coincided with the spring transition from downwelling to sustained upwelling conditions in 2010, a year when the transition was delayed and Columbia River flow was substantially higher than average. We used time series of wind and freshwater input to evaluate the influence of physical forcing on oceanographic patterns, and sampled hydrography and surface plankton concentrations within a 182 km2 grid off Willapa Bay, WA. Additionally, two longer transects, one cross-shelf and the other along-shore, were made to discern the extent of plume influence on larval crab and fish abundance. We found that plume waters that were trapped in a northward-flowing coastal-boundary current during downwelling conditions were advected offshore after several days of upwelling-favorable winds. Neustonic collections of brachyuran larvae and ichthyoplankton varied in response to this large seaward advective event. Megalopae of cancrid crabs exhibited patterns of both offshore transport (Cancer oregonensis/productus) and nearshore retention (C. magister). Additionally, abundant numbers of large juvenile widow (Sebastes entomelas) and yellowtail (S. flavidus) rockfish of a size appropriate for settlement were sampled during a period when ocean conditions favored high recruitment success. These results demonstrated that the response of planktonic crab larvae and ichthyoplankton to large-scale advection varied by species, with larger and more vagile fish exhibiting less evidence of passive transport than smaller crab larvae. Importantly, portions of the planktonic fish and crab community were able to maintain nearshore distributions in favorable settlement habitat, despite physical advection offshore.

Plankton community structure and connectivity in the Kimberley-Browse region of NW Australia

NASA Astrophysics Data System (ADS)

McKinnon, A. D.; Duggan, S.; Holliday, D.; Brinkman, R.

2015-02-01

We describe the zooplankton and ichthyoplankton communities of coastal waters of the Kimberley coast (North West Australia), sampled in macrotidal Camden Sound during both the wet and dry seasons of 2011, and compare these to six other Kimberley embayments during the wet season of 2013. Zooplankton abundance in Camden Sound was 7038 ± 3913 SD ind. m-3 in the wet season and 1892 ± 708 SD ind. m-3 in the dry season, with copepods accounting for 85% by number. In all, 78 species of copepods were recorded, with the families Paracalanidae and Oithonidae dominant. In Camden Sound, 48 families of larval fish occurred, with ichthyoplankton more abundant in the wet season than the dry season (1.16 ± 0.2 ind. m-3 cf 0.76 ± 0.2 ind. m-3). Larval gobiids (Subfamily Gobiinae) were most abundant, with other common families associated with either pelagic or soft-bottom habitats as adults. Multivariate analyses of both copepod and ichthyoplankton communities demonstrated strong seasonal contrasts, although an along-shelf gradient in copepod community composition was apparent along the embayments sampled in 2013. There was little spatial variation in plankton communities within Camden Sound as a result of the large tidal range (up to 11.7 m, with 2.5 m-1 velocities), although gradients in abundance and composition on cross-shelf transects occurred in the more northern embayments that had a lower tidal range, such as Napier Broome Bay. Copepod communities of the Kimberley-Browse region were placed in regional perspective by multivariate analyses of similar data collected in the eastern Indian Ocean at Scott Reef, in the Arafura Sea and on the southern North West (NW) shelf. The plankton communities of the NW shelf form a series of along-shore metacommunities linked by advection, with weaker cross-shelf connectivity. The presence of the larvae of mesopelagic fishes of the family Myctophidae in coastal waters confirms seasonal cross-shelf connectivity.

Perfluorinated alkyl substances in water, sediment, plankton and fish from Korean rivers and lakes: a nationwide survey.

PubMed

Lam, Nguyen-Hoang; Cho, Chon-Rae; Lee, Jung-Sick; Soh, Ho-Young; Lee, Byoung-Cheun; Lee, Jae-An; Tatarozako, Norihisa; Sasaki, Kazuaki; Saito, Norimitsu; Iwabuchi, Katsumi; Kannan, Kurunthachalam; Cho, Hyeon-Seo

2014-09-01

Water, sediment, plankton, and blood and liver tissues of crucian carp (Carassius auratus) and mandarin fish (Siniperca scherzeri) were collected from six major rivers and lakes in South Korea (including Namhan River, Bukhan River, Nakdong River, Nam River, Yeongsan River and Sangsa Lake) and analyzed for perfluorinated alkyl substances (PFASs). Perfluorooctane sulfonate (PFOS) was consistently detected at the greatest concentrations in all media surveyed with the maximum concentration in water of 15 ng L(-1) and in biota of 234 ng mL(-1) (fish blood). A general ascending order of PFAS concentration of water0.80, p<0.001) were observed between PFOS concentration in blood and liver tissues of both crucian carp and mandarin fish. This result suggests that blood can be used for nonlethal monitoring of PFOS in fish. Overall, the rank order of mean bioconcentration factors (BCFs) of PFOS in biota was; phytoplankton (196 L/kg)

Concentrations of plutonium and americium in plankton from the western Mediterranean Sea.

PubMed

Sanchez-Cabeza, Joan-Albert; Merino, Juan; Masqué, Pere; Mitchell, Peter I; Vintró, L León; Schell, William R; Cross, Lluïsa; Calbet, Albert

2003-07-20

Understanding the transfer of radionuclides through the food chain leading to man and in particular, the uptake of transuranic nuclides by plankton, is basic to assess the potential radiological risk of the consumption of marine products by man. The main sources of transuranic elements in the Mediterranean Sea in the past were global fallout and the Palomares accident, although at present smaller amounts are released from nuclear establishments in the northwestern region. Plankton from the western Mediterranean Sea was collected and analyzed for plutonium and americium in order to study their biological uptake. The microplankton fractions accounted for approximately 50% of the total plutonium contents in particulate form. At Garrucha (Palomares area), microplankton showed much higher 239,240 Pu activity, indicating the contamination with plutonium from the bottom sediments. Concentration factors were within the range of the values recommended by the International Atomic Energy Agency. Continental shelf mesoplankton was observed to efficiently concentrate transuranics. In open seawaters, concentrations were much lower. We speculate that sediments might play a role in the transfer of transuranics to mesoplankton in coastal waters, although we cannot discard that the difference in species composition may also play a role. In Palomares, both 239,240 Pu and 241Am showed activities five times higher than the mean values observed in continental shelf mesoplankton. As the plutonium isotopic ratios in the contaminated sample were similar to those found in material related to the accident, the contamination was attributed to bomb debris from the Palomares accident. Concentration factors in mesoplankton were also in relatively good agreement with the ranges recommended by IAEA. In the Palomares station the highest concentration factor was observed in the sample that showed predominance of the dynoflagellate Ceratium spp. Mean values of the enrichment factors showed, on average, discrimination rather than enrichment in the primary producer trophic chain.

Biogeography of Radiolaria Polycystina (Protista) in the World Ocean

NASA Astrophysics Data System (ADS)

Boltovskoy, Demetrio; Correa, Nancy

2016-12-01

Analysis of 307 species of Radiolaria Polycystina in a worldwide dataset of 4774 plankton, sediment trap, and surface sediment samples allows recognizing six major biogeographic Domains. Five of them are circumglobal (Polar North, Polar South, Bi-Subpolar, Transitional and Tropical-Subtropical), and one is restricted to the Eastern Equatorial Pacific. Each Domain is characterized by a particular suite of species, all of which, however, occur widely, albeit sparsely, in one or more other Domains. Of the eight environmental variables evaluated, temperature correlates best with the partitions established. Species distributions in the water column and in the sediments are generally in agreement, but in the sediments cold water forms extend farther towards the equator than do warm water radiolarians towards the poles. In the Recent sedimentary record of planktonic Foraminifera the same phenomenon is magnified by the higher dissolution rates of warm water species, as compared with the cold water ones. Of the three major oceans, the Pacific was the most speciose, but estimates based on data corrected for sample-size show much smaller inter-oceanic differences, with ∼10 radiolarians probably being absent from either basin. The radiolarian biogeographic pattern is generally similar to those based on other planktonic and nektonic open-ocean organisms, but the degree of uniqueness of the Domains, as well as the position of the intervening boundaries, are variable, which reflects methodological differences, as well as taxon-specific traits. Partitions of the World Ocean defined on the basis of species ranges resemble the major divisions (presumably functionally homogeneous units) established on the basis of physical traits and chlorophyll fields, but secondary divisions nested within the latter are not reflected by any of the biogeographic schemes based on species distribution ranges. This conflict raises questions about the importance of several physical mechanisms for structuring pelagic communities, and/or on the coupling of structure and function in the pelagic realm.

Lack of congruence in species diversity indices and community structures of planktonic groups based on local environmental factors.

PubMed

Doi, Hideyuki; Chang, Kwang-Hyeon; Nishibe, Yuichiro; Imai, Hiroyuki; Nakano, Shin-ichi

2013-01-01

The importance of analyzing the determinants of biodiversity and community composition by using multiple trophic levels is well recognized; however, relevant data are lacking. In the present study, we investigated variations in species diversity indices and community structures of the plankton taxonomic groups-zooplankton, rotifers, ciliates, and phytoplankton-under a range of local environmental factors in pond ecosystems. For each planktonic group, we estimated the species diversity index by using linear models and analyzed the community structure by using canonical correspondence analysis. We showed that the species diversity indices and community structures varied among the planktonic groups and according to local environmental factors. The observed lack of congruence among the planktonic groups may have been caused by niche competition between groups with similar trophic guilds or by weak trophic interactions. Our findings highlight the difficulty of predicting total biodiversity within a system, based upon a single taxonomic group. Thus, to conserve the biodiversity of an ecosystem, it is crucial to consider variations in species diversity indices and community structures of different taxonomic groups, under a range of local conditions.

Micro- and nanotechnologies in plankton research

NASA Astrophysics Data System (ADS)

Mohammed, Javeed Shaikh

2015-05-01

A better understanding of the vast range of plankton and their interactions with the marine environment would allow prediction of their large-scale impact on the marine ecosystem, and provide in-depth knowledge on pollution and climate change. Numerous technologies, especially lab-on-a-chip microsystems, are being used to this end. Marine biofouling is a global issue with significant economic consequences. Ecofriendly polymer nanotechnologies are being developed to combat marine biofouling. Furthermore, nanomaterials hold great potential for bioremediation and biofuel production. Excellent reviews covering focused topics in plankton research exist, with only a handful discussing both micro- and nanotechnologies. This work reviews both micro- and nanotechnologies applied to broad-ranging plankton research topics including flow cytometry, chemotaxis/toxicity assays, biofilm formation, marine antifouling/fouling-release surfaces and coatings, green energy, green nanomaterials, microalgae immobilization, and bioremediation. It is anticipated that developments in plankton research will see engineered exploitation of micro- and nanotechnologies. The current review is therefore intended to promote micro-/nanotechnology researchers to team up with limnologists/oceanographers, and develop novel strategies for understanding and green exploitation of the complex marine ecosystem.

Reverse transcriptase genes are highly abundant and transcriptionally active in marine plankton assemblages

PubMed Central

Lescot, Magali; Hingamp, Pascal; Kojima, Kenji K; Villar, Emilie; Romac, Sarah; Veluchamy, Alaguraj; Boccara, Martine; Jaillon, Olivier; Iudicone, Daniele; Bowler, Chris; Wincker, Patrick; Claverie, Jean-Michel; Ogata, Hiroyuki

2016-01-01

Genes encoding reverse transcriptases (RTs) are found in most eukaryotes, often as a component of retrotransposons, as well as in retroviruses and in prokaryotic retroelements. We investigated the abundance, classification and transcriptional status of RTs based on Tara Oceans marine metagenomes and metatranscriptomes encompassing a wide organism size range. Our analyses revealed that RTs predominate large-size fraction metagenomes (>5 μm), where they reached a maximum of 13.5% of the total gene abundance. Metagenomic RTs were widely distributed across the phylogeny of known RTs, but many belonged to previously uncharacterized clades. Metatranscriptomic RTs showed distinct abundance patterns across samples compared with metagenomic RTs. The relative abundances of viral and bacterial RTs among identified RT sequences were higher in metatranscriptomes than in metagenomes and these sequences were detected in all metatranscriptome size fractions. Overall, these observations suggest an active proliferation of various RT-assisted elements, which could be involved in genome evolution or adaptive processes of plankton assemblage. PMID:26613339

Abundance, composition, and distribution of crustacean zooplankton in relation to hypolimnetic oxygen depletion in west-central Lake Erie

USGS Publications Warehouse

Heberger, Roy F.; Reynolds, James B.

1977-01-01

Samples of crustacean zooplankton were collected monthly in west-central Lake Erie in April and June to October 1968, and in July and August 1970, before and during periods of hypolimnetic dissolved oxygen (DO) depletion. The water column at offshore stations was thermally stratified from June through September 1968, and the hypolimnion contained no DO in mid-August of 1968 or 1970. Composition, abundance, and vertical distribution of crustacean zooplankton changed coincidentally with oxygen depletion. From July to early August, zooplankton abundance dropped 79% in 1968 and 50% in 1970. The declines were attributed largely to a sharp decrease in abundance of planktonic Cyclops bicuspidatus thomasi. Zooplankton composition shifted from mainly cyclopoid copepods in July to mainly cladocerans and copepod nauplii in middle to late August. We believe that mortality of adults and dormancy of copepodites in response to anoxia was the probable reason for the late summer decline in planktonic C. b. thomasi.

A new apparatus to induce lysis of planktonic microbial cells by shock compression, cavitation and spray

NASA Astrophysics Data System (ADS)

Schiffer, A.; Gardner, M. N.; Lynn, R. H.; Tagarielli, V. L.

2017-03-01

Experiments were conducted on an aqueous growth medium containing cultures of Escherichia coli (E. coli) XL1-Blue, to investigate, in a single experiment, the effect of two types of dynamic mechanical loading on cellular integrity. A bespoke shock tube was used to subject separate portions of a planktonic bacterial culture to two different loading sequences: (i) shock compression followed by cavitation, and (ii) shock compression followed by spray. The apparatus allows the generation of an adjustable loading shock wave of magnitude up to 300 MPa in a sterile laboratory environment. Cultures of E. coli were tested with this apparatus and the spread-plate technique was used to measure the survivability after mechanical loading. The loading sequence (ii) gave higher mortality than (i), suggesting that the bacteria are more vulnerable to shear deformation and cavitation than to hydrostatic compression. We present the results of preliminary experiments and suggestions for further experimental work; we discuss the potential applications of this technique to sterilize large volumes of fluid samples.

The double LHPR system, a high speed micro- and macroplankton sampler

NASA Astrophysics Data System (ADS)

Williams, R.; Collins, N. R.; Conway, D. V. P.

1983-03-01

A double-net sampling system, consisting of two separate Longhurst-Hardy Plankton Recorders, capable of being towed at speeds up to 3 m s -1 and capturing plankton organisms such as copepod nauplii, with the minimum of damage is described. The systems are mounted in a Lowestoft sampler and connected to 53 and 280-μm mesh nets; both nets are fitted with doors opened by a variable timer unit. The system is suitable for neritic and oceanic deployment. The ratio of the area of the net mouth to the net open area ( R) for the 280-μm net is 9 and for the 53-μm net it is 14 to 121 depending on the nose cone used. The R values are considerably better than those of previous described systems. Examples are given showing how the instrument has been used to resolve spatially the vertical distribution of the nauplii and copepodite stages of Calanus helgolandicus.

Plastic particles in coastal pelagic ecosystems of the Northeast Pacific ocean.

PubMed

Doyle, Miriam J; Watson, William; Bowlin, Noelle M; Sheavly, Seba B

2011-02-01

The purpose of this study was to examine the distribution, abundance and characteristics of plastic particles in plankton samples collected routinely in Northeast Pacific ecosystems, and to contribute to the development of ideas for future research into the occurrence and impact of small plastic debris in marine pelagic ecosystems. Plastic debris particles were assessed from zooplankton samples collected as part of the National Oceanic and Atmospheric Administration's (NOAA) ongoing ecosystem surveys during two research cruises in the Southeast Bering Sea in the spring and fall of 2006 and four research cruises off the U.S. west coast (primarily off southern California) in spring, summer and fall of 2006, and in January of 2007. Nets with 0.505 mm mesh were used to collect surface samples during all cruises, and sub-surface samples during the four cruises off the west coast. The 595 plankton samples processed indicate that plastic particles are widely distributed in surface waters. The proportion of surface samples from each cruise that contained particles of plastic ranged from 8.75 to 84.0%, whereas particles were recorded in sub-surface samples from only one cruise (in 28.2% of the January 2007 samples). Spatial and temporal variability was apparent in the abundance and distribution of the plastic particles and mean standardized quantities varied among cruises with ranges of 0.004-0.19 particles/m³, and 0.014-0.209 mg dry mass/m³. Off southern California, quantities for the winter cruise were significantly higher, and for the spring cruise significantly lower than for the summer and fall surveys (surface data). Differences between surface particle concentrations and mass for the Bering Sea and California coast surveys were significant for pair-wise comparisons of the spring but not the fall cruises. The particles were assigned to three plastic product types: product fragments, fishing net and line fibers, and industrial pellets; and five size categories: <1 mm, 1-2.5 mm, >2.5-5 mm, >5-10 mm, and >10 mm. Product fragments accounted for the majority of the particles, and most were less than 2.5 mm in size. The ubiquity of such particles in the survey areas and predominance of sizes <2.5 mm implies persistence in these pelagic ecosystems as a result of continuous breakdown from larger plastic debris fragments, and widespread distribution by ocean currents. Detailed investigations of the trophic ecology of individual zooplankton species, and their encounter rates with various size ranges of plastic particles in the marine pelagic environment, are required in order to understand the potential for ingestion of such debris particles by these organisms. Ongoing plankton sampling programs by marine research institutes in large marine ecosystems are good potential sources of data for continued assessment of the abundance, distribution and potential impact of small plastic debris in productive coastal pelagic zones. © 2010 Elsevier Ltd. All rights reserved.

Automated species-level identification and segmentation of planktonic foraminifera using convolutional neural networks

NASA Astrophysics Data System (ADS)

Marchitto, T. M., Jr.; Mitra, R.; Zhong, B.; Ge, Q.; Kanakiya, B.; Lobaton, E.

2017-12-01

Identification and picking of foraminifera from sediment samples is often a laborious and repetitive task. Previous attempts to automate this process have met with limited success, but we show that recent advances in machine learning can be brought to bear on the problem. As a `proof of concept' we have developed a system that is capable of recognizing six species of extant planktonic foraminifera that are commonly used in paleoceanographic studies. Our pipeline begins with digital photographs taken under 16 different illuminations using an LED ring, which are then fused into a single 3D image. Labeled image sets were used to train various types of image classification algorithms, and performance on unlabeled image sets was measured in terms of precision (whether IDs are correct) and recall (what fraction of the target species are found). We find that Convolutional Neural Network (CNN) approaches achieve precision and recall values between 80 and 90%, which is similar precision and better recall than human expert performance using the same type of photographs. We have also trained a CNN to segment the 3D images into individual chambers and apertures, which can not only improve identification performance but also automate the measurement of foraminifera for morphometric studies. Given that there are only 35 species of extant planktonic foraminifera larger than 150 μm, we suggest that a fully automated characterization of this assemblage is attainable. This is the first step toward the realization of a foram picking robot.

Insights into discriminating environmental quality status using taxonomic distinctness based on a small species pool of ciliated protozoa in marine ecosystems.

PubMed

Jiang, Yong; Xu, Henglong; Warren, Alan

2014-01-15

The objective of this study was to determine the feasibility of developing a protocol for assessing marine water quality based on taxonomic relatedness within a small pool of planktonic ciliates. An annual dataset was compiled based on samples collected biweekly at five sites, with a gradient of environmental stress, during a 1-year cycle in Jiaozhou Bay, northern China. A total of 60 species, belonging to 17 genera 10 families, 5 orders and 2 classes of the phylum Ciliophora, were identified. Among five orders, Tintinnida showed a low variability mainly at species level whereas the other orders (especially Strombidiida and Choreotrichida, although with the exception of the genus Strombidium) represented a high variability at higher taxonomic ranks (e.g. family or order). Mantel analyses showed that spatial patterns of the ciliate assemblages, with tinitinnids and Strombidium spp. excluded, were significantly correlated with those of the total planktonic ciliate communities in terms of their response to environmental status. The average taxonomic distinctness (Δ(+)) based on the small species pool was significantly negatively correlated with the changes in concentrations of nutrients (P<0.05). Furthermore, the paired indices of Δ(+) and the variation in taxonomic distinctness (Λ(+)) showed a clear departure from the expected taxonomic pattern. These findings suggest that it is possible to assess the status of marine water quality using the taxonomic relatedness within a small pool of planktonic ciliates. © 2013.

Miniature thermo-electric cooled cryogenic pump

DOEpatents

Keville, R.F.

1997-11-18

A miniature thermo-electric cooled cryogenic pump is described for removing residual water molecules from an inlet sample prior to sample analysis in a mass spectroscopy system, such as ion cyclotron resonance (ICR) mass spectroscopy. The cryogenic pump is a battery operated, low power (<1.6 watts) pump with a {Delta}T=100 C characteristic. The pump operates under vacuum pressures of 5{times}10{sup {minus}4} Torr to ultra high vacuum (UHV) conditions in the range of 1{times}10{sup {minus}7} to 3{times}10{sup {minus}9} Torr and will typically remove partial pressure, 2{times}10{sup {minus}7} Torr, residual water vapor. The cryogenic pump basically consists of an inlet flange piece, a copper heat sink with a square internal bore, four two tier Peltier (TEC) chips, a copper low temperature square cross sectional tubulation, an electronic receptacle, and an exit flange piece, with the low temperature tubulation being retained in the heat sink at a bias angle of 5{degree}, and with the TECs being positioned in parallel to each other with a positive potential being applied to the top tier thereof. 2 figs.

Miniature thermo-electric cooled cryogenic pump

DOEpatents

Keville, Robert F.

1997-01-01

A miniature thermo-electric cooled cryogenic pump for removing residual water molecules from an inlet sample prior to sample analysis in a mass spectroscopy system, such as ion cyclotron resonance (ICR) mass spectroscopy. The cryogenic pump is a battery operated, low power (<1.6 watts) pump with a .DELTA.T=100.degree. C. characteristic. The pump operates under vacuum pressures of 5.times.10.sup.-4 Torr to ultra high vacuum (UHV) conditions in the range of 1.times.10.sup.-7 to 3.times.10.sup.-9 Torr and will typically remove partial pressure, 2.times.10.sup.-7 Torr, residual water vapor. The cryogenic pump basically consists of an inlet flange piece, a copper heat sink with a square internal bore, four two tier Peltier (TEC) chips, a copper low temperature square cross sectional tubulation, an electronic receptacle, and an exit flange piece, with the low temperature tubulation being retained in the heat sink at a bias angle of 5.degree., and with the TECs being positioned in parallel to each other with a positive potential being applied to the top tier thereof.

Oceanic heterotrophic dinoflagellates: distribution, abundance, and role as microzooplankton

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

Lessard, E.J.

1984-01-01

The primary objectives of this thesis were to determine the distribution and abundance of heterotrophic dinoflagellates across the Gulf Stream system off Cape Hatteras and to assess the potential grazing impact of these microheterotrophs in plankton communities. A list of species encountered in this study and their trophic status based on epifluorescence is presented, as well as observations on the presence of external or internal symbionts. The abundance of heterotrophic dinoflagellates across the Gulf Stream region off Cape Hatteras was determined from bimonthly net tow samples over a year and from whole water samples in March. Their average abundance wasmore » twice that of net ciliates in the net plankton and ten times that of ciliates in the nanoplankton. An isotope technique was developed to measure grazing rates of individual dinoflaggellates and other microzooplankton which cannot be separated in natural populations on the basis of size. /sup 3/H-thymidine and /sup 14/C-bicarbonate were used to label natural heterotrophic (bacteria and bacterivores) and autotrophic (phytoplankton and herbivores) food, respectively. Estimates of the grazing impact of heterotrophic kinoflagellates relative to other groups of heterotrophs on phytoplankton and bacteria were made by combining abundance data and clearance rates. Such calculations suggested that heterotrophic dinoflagellates may be an important group of grazers in oceanic waters.« less

Seasonal variation in the occurrence of planktic bivalve larvae in the Schleswig-Holstein Wadden Sea

NASA Astrophysics Data System (ADS)

Pulfrich, Andrea

1997-03-01

In the late 1980s, recruitment failures of the mussel Mytilus edulis led to economic problems in the mussel fishing and cultivation industries of northwestern Europe. As part of a collaborative study to gain a better understanding of the mechanisms affecting recruitment processes of mussels, plankton samples were collected regularly over a four-year period (1990-1993) from three stations in the Schleswig-Holstein Wadden Sea. The bivalve component of the plankton was dominated by the Solenidae, which was almost exclusively represented by Ensis americanus (= directus). M. edulis was the second most abundant species. Abundances of mussel larvae peaked 2 to 4 weeks after spawning maxima in the adult populations. Although variations in timing and amplitude of the total larval densities occurred, annual abundances of M. edulis larvae remained stable during the study period, and regional abundance differences were insignificant. A close relationship was found between peaks in larval abundance and phytoplankton blooms. Differences in larval concentrations in the ebb and the flow currents were insignificant. Planktic mussel larvae measured between 200 μm and 300 μm, and successive cohorts were recognizable in the majority of samples. Most larvae were found to originate from local stocks, although imports from outside the area do occur.

The Ocean Gene Atlas: exploring the biogeography of plankton genes online.

PubMed

Villar, Emilie; Vannier, Thomas; Vernette, Caroline; Lescot, Magali; Cuenca, Miguelangel; Alexandre, Aurélien; Bachelerie, Paul; Rosnet, Thomas; Pelletier, Eric; Sunagawa, Shinichi; Hingamp, Pascal

2018-05-21

The Ocean Gene Atlas is a web service to explore the biogeography of genes from marine planktonic organisms. It allows users to query protein or nucleotide sequences against global ocean reference gene catalogs. With just one click, the abundance and location of target sequences are visualized on world maps as well as their taxonomic distribution. Interactive results panels allow for adjusting cutoffs for alignment quality and displaying the abundances of genes in the context of environmental features (temperature, nutrients, etc.) measured at the time of sampling. The ease of use enables non-bioinformaticians to explore quantitative and contextualized information on genes of interest in the global ocean ecosystem. Currently the Ocean Gene Atlas is deployed with (i) the Ocean Microbial Reference Gene Catalog (OM-RGC) comprising 40 million non-redundant mostly prokaryotic gene sequences associated with both Tara Oceans and Global Ocean Sampling (GOS) gene abundances and (ii) the Marine Atlas of Tara Ocean Unigenes (MATOU) composed of >116 million eukaryote unigenes. Additional datasets will be added upon availability of further marine environmental datasets that provide the required complement of sequence assemblies, raw reads and contextual environmental parameters. Ocean Gene Atlas is a freely-available web service at: http://tara-oceans.mio.osupytheas.fr/ocean-gene-atlas/.

Global Paleoclimatic Data for 6000 Yr B.P. (1985) (NDP-011)

DOE Data Explorer

Webb, III, T. [Department of Geological Sciences, Brown University, Providence, Rhode Island (USA)

2012-01-01

To determine regional and global climatic variations during the past 6000 years, pollen, lake level, and marine plankton data from 797 stations were compiled to form a global data set. Radiocarbon dating and dated tephras were used to determine the ages of the specimens. The data available for the pollen data are site number, site name, latitude, longitude, elevation, and percentages of various taxa. For lake-level data, the data are site number, site name, latitude, longitude, and lake-level status. And for marine plankton, the data are site number, site name, latitude, longitude, water depth, date, dating control code, depth of sample, interpolated age of sample, estimated winter and summer sea-surface temperatures, and percentages of various taxa. The data are in 55 files: 5 files for each of 9 geographic regions and 10 supplemental files. The files for each region include (1) a FORMAT file describing the format and contents of the data for that region, (2) an INDEX file containing descriptive information about each site and its data, (3) a DATA file containing the data and available climatic estimates, (4) a PUBINDEX file indexing the bibliographic references associated with each site, and (5) a REFERENCE file containing the bibliographic references. The files range in size from 2 to 66 kB.

Effects of the Leeuwin Current on the Distribution of Carnivorous Macrozooplankton in the Shelf Waters off Southern Western Australia

NASA Astrophysics Data System (ADS)

Gaughan, D. J.; Fletcher, W. J.

1997-07-01

Plankton samples were collected using 500-μm nets in the surface waters (up to a depth of 70 m) of the continental shelf in three regions (Albany, Bremer Bay and Esperance) off southern Western Australia in July 1992 (winter) and January 1993 (summer). The carnivorous zooplankton of these samples were characterized by low species richness and high variability in abundance. Abundances of most of the major taxa collected differed significantly between seasons and many also differed between regions. Siphonophores and chaetognaths dominated the carnivorous plankton, with lower abundances of hydromedusae and raptorial copepods. The most abundant siphonophores were Chelophyes appendiculataand Eudoxoides spiralisin summer and winter, respectively. The most abundant chaetognaths were Sagitta minimain summer, with Pterosagitta dracoand Sagitta enflatadominant during winter. Overall, the numbers of species of both siphonophores and chaetognaths were highest during winter. At this time, there was also a trend for decreasing numbers of species in an easterly direction between Albany and Esperance, which was probably due to the presence of subtropical species entrained within the warm Leeuwin Current, which was flowing east along the continental shelf during winter. During summer, when the current was not present in this region, there was an even spread of fewer species along the coast.

Effects of the Leeuwin Current on the Distribution of Carnivorous Macrozooplankton in the Shelf Waters off Southern Western Australia

NASA Astrophysics Data System (ADS)

Gaughan, D. J.; Fletcher, W. J.

1997-07-01

Plankton samples were collected using 500-μm nets in the surface waters (up to a depth of 70 m) of the continental shelf in three regions (Albany, Bremer Bay and Esperance) off southern Western Australia in July 1992 (winter) and January 1993 (summer). The carnivorous zooplankton of these samples were characterized by low species richness and high variability in abundance. Abundances of most of the major taxa collected differed significantly between seasons and many also differed between regions. Siphonophores and chaetognaths dominated the carnivorous plankton, with lower abundances of hydromedusae and raptorial copepods. The most abundant siphonophores wereChelophyes appendiculataandEudoxoides spiralisin summer and winter, respectively. The most abundant chaetognaths wereSagitta minimain summer, withPterosagitta dracoandSagitta enflatadominant during winter. Overall, the numbers of species of both siphonophores and chaetognaths were highest during winter. At this time, there was also a trend for decreasing numbers of species in an easterly direction between Albany and Esperance, which was probably due to the presence of subtropical species entrained within the warm Leeuwin Current, which was flowing east along the continental shelf during winter. During summer, when the current was not present in this region, there was an even spread of fewer species along the coast.

Missouri River Environmental Inventory. Measurements of the Species Diversity of Planktonic and Microbenthic Organisms.

DTIC Science & Technology

1973-01-01

protozoan species in the benthos of the unchannelized river were found to be the ciliate Paramecium aurelia and the flagelleted species of the genus...the ciliate Vorticella and the ciliate Paramecium aurelia were found to be the most dominant. Or. the basis of total numbers, the plankton was...the benthos at Synder Bend or DeSoto Bend Oxbows during the spring months. The dominant ciliates in the plankton at Synder Bend Oxbow were Paramecium

Relationship between diversity and the vertical structure of the upper ocean

NASA Astrophysics Data System (ADS)

Longhurst, Alan R.

1985-12-01

The sources of diversity in the plankton ecosystem of the upper 250 m in the eastern tropical Pacific Ocean are explored in the data from LHPR plankton profiles. Though there is good evidence for resource partitioning among feeding guilds of congeners, and for specialization in predation—both known to create diversity in simple aquatic ecosystems—the existence of a stable vertical structure, including a thermocline, may be one of the more important causes of variation in regional plankton diversity in the euphotic zone.

Winter-summer succession of unicellular eukaryotes in a meso-eutrophic coastal system.

PubMed

Christaki, Urania; Kormas, Konstantinos A; Genitsaris, Savvas; Georges, Clément; Sime-Ngando, Télesphore; Viscogliosi, Eric; Monchy, Sébastien

2014-01-01

The objective of this study was to explore the succession of planktonic unicellular eukaryotes by means of 18S rRNA gene tag pyrosequencing in the eastern English Channel (EEC) during the winter to summer transition. The 59 most representative (>0.1%, representing altogether 95% of total reads), unique operational taxonomic units (OTUs) from all samples belonged to 18 known high-level taxonomic groups and 1 unaffiliated clade. The five most abundant OTUs (69.2% of total reads) belonged to Dinophyceae, Cercozoa, Haptophyceae, marine alveolate group I, and Fungi. Cluster and network analysis between samples distinguished the winter, the pre-bloom, the Phaeocystis globosa bloom and the post-bloom early summer conditions. The OTUs-based network revealed that P. globosa showed a relatively low number of connections-most of them negative-with all other OTUs. Fungi were linked to all major taxonomic groups, except Dinophyceae. Cercozoa mostly co-occurred with the Fungi, the Bacillariophyceae and several of the miscellaneous OTUs. This study provided a more detailed exploration into the planktonic succession pattern of the EEC due to its increased depth of taxonomic sampling over previous efforts based on classical monitoring observations. Data analysis implied that the food web concept in a coastal system based on predator-prey (e.g. grazer-phytoplankton) relationships is just a part of the ecological picture; and those organisms exploiting a variety of strategies, such as saprotrophy and parasitism, are persistent and abundant members of the community.

Centrifugal Pump Effect on Average Particle Diameter of Oil-Water Emulsion

NASA Astrophysics Data System (ADS)

Morozova, A.; Eskin, A.

2017-11-01

In this paper we review the process of oil-water emulsion particles fragmentation in a turbulent flow created by a centrifugal pump. We examined the influence of time necessary for oil-water emulsion preparation on the particle size of oil products and the dependence of a centrifugal pump emulsifying capacity on the initial emulsion dispersion. The investigated emulsion contained the brand fuel oil M-100 and tap water; it was sprayed with a nozzle in a gas-water flare. After preparation of the emulsion, the centrifugal pump was turned on and the emulsion samples were taken before and after the pump passing in 15, 30 and 45 minutes of spraying. To determine the effect the centrifugal pump has on the dispersion of the oil-water emulsion, the mean particle diameter of the emulsion particles was determined by the optical and microscopic method before and after the pump passing. A dispersion analysis of the particles contained in the emulsion was carried out by a laser diffraction analyzer. By analyzing the pictures of the emulsion samples, it was determined that after the centrifugal pump operation a particle size of oil products decreases. This result is also confirmed by the distribution of the obtained analyzer where the content of fine particles with a diameter less than 10 μm increased from 12% to 23%. In case of increasing emulsion preparation time, a particle size of petroleum products also decreases.

SIMMAX: A modern analog technique to deduce Atlantic sea surface temperatures from planktonic foraminifera in deep-sea sediments

NASA Astrophysics Data System (ADS)

Pflaumann, Uwe; Duprat, Josette; Pujol, Claude; Labeyrie, Laurent D.

1996-02-01

We present a data set of 738 planktonic foraminiferal species counts from sediment surface samples of the eastern North Atlantic and the South Atlantic between 87°N and 40°S, 35°E and 60°W including published Climate: Long-Range Investigation, Mapping, and Prediction (CLIMAP) data. These species counts are linked to Levitus's [1982] modern water temperature data for the four caloric seasons, four depth ranges (0, 30, 50, and 75 m), and the combined means of those depth ranges. The relation between planktonic foraminiferal assemblages and sea surface temperature (SST) data is estimated using the newly developed SIMMAX technique, which is an acronym for a modern analog technique (MAT) with a similarity index, based on (1) the scalar product of the normalized faunal percentages and (2) a weighting procedure of the modern analog's SSTs according to the inverse geographical distances of the most similar samples. Compared to the classical CLIMAP transfer technique and conventional MAT techniques, SIMMAX provides a more confident reconstruction of paleo-SSTs (correlation coefficient is 0.994 for the caloric winter and 0.993 for caloric summer). The standard deviation of the residuals is 0.90°C for caloric winter and 0.96°C for caloric summer at 0-m water depth. The SST estimates reach optimum stability (standard deviation of the residuals is 0.88°C) at the average 0- to 75-m water depth. Our extensive database provides SST estimates over a range of -1.4 to 27.2°C for caloric winter and 0.4 to 28.6°C for caloric summer, allowing SST estimates which are especially valuable for the high-latitude Atlantic during glacial times. An electronic supplement of this material may be obtained on adiskette or Anonymous FTP from KOSMOS.AGU.ORG. (LOGIN toAGU's FTP account using ANONYMOUS as the username and GUESTas the password. Go to the right directory by typing CD APPEND. TypeLS to see what files are available. Type GET and the name of the file toget it. Finally type EXIT to leave the system.) (Paper 95PA01743,SIMMAX: A modern analog technique to deduce Atlantic sea surfacetemperatures from planktonic foraminifera in deep-sea sediments, UwePflaumann, Josette Duprat, Claude Pujol, and Laurent D. Labeyrie).Diskette may be ordered from American Geophysical Union, 2000Florida Avenue, N.W., Washington, DC 20009; Payment mustaccompany order.

Practical considerations for measuring hydrogen concentrations in groundwater

USGS Publications Warehouse

Chapelle, F.H.; Vroblesky, D.A.; Woodward, J.C.; Lovley, D.R.

1997-01-01

Several practical considerations for measuring concentrations of dissolved molecular hydrogen (H2) in groundwater including 1 sampling methods 2 pumping methods and (3) effects of well casing materials were evaluated. Three different sampling methodologies (a downhole sampler, a gas- stripping method, and a diffusion sampler) were compared. The downhole sampler and gas-stripping methods gave similar results when applied to the same wells, the other hand, appeared to The diffusion sampler, on overestimate H2 concentrations relative to the downhole sampler. Of these methods, the gas-stripping method is better suited to field conditions because it is faster (~ 30 min for a single analysis as opposed to 2 h for the downhole sampler or 8 h for the diffusion sampler), the analysis is easier (less sample manipulation is required), and the data computations are more straightforward (H2 concentrations need not be corrected for water sample volume). Measurement of H2 using the gas-stripping method can be affected by different pumping equipment. Peristaltic, piston, and bladder pumps all gave similar results when applied to water produced from the same well. It was observed, however, that peristaltic-pumped water (which draws water under a negative pressure) enhanced the gas-stripping process and equilibrated slightly faster than either piston or bladder pumps (which push water under a positive pressure). A direct current(dc) electrically driven submersible pump was observed to produce H2 and was not suitable for measuring H2 in groundwater. Measurements from two field sites indicate that iron or steel well casings, produce H2, which masks H2 concentrations in groundwater. PVC-cased wells or wells cased with other materials that do not produce H2 are necessary for measuring H2 concentrations in groundwater.Several practical considerations for measuring concentrations of dissolved molecular hydrogen in groundwater including sampling methods, pumping methods, and effects of well casing materials were evaluated. The downhole sampler and gas-stripping methods gave similar results when applied to the same wells. The diffusional sampler appears to overestimate H2 concentrations relative to the downhole sampler. Gas-stripping method is better for a single analysis and the data computations are more straightforward. Measurement of H2 using the gas-stripping method can be affected by different pumping equipment.

Stability of penicillin G sodium diluted with 0.9% sodium chloride injection or 5% dextrose injection and stored in polyvinyl chloride bag containers and elastomeric pump containers.

PubMed

Hossain, Mirza Akram; Friciu, Mihaela; Aubin, Sebastien; Leclair, Grégoire

2014-04-15

The stability of penicillin G sodium solutions stored in polyvinyl chloride (PVC) bags or elastomeric pump containers was studied. Test samples were prepared by diluting powdered penicillin G sodium (10 million units/10-mL vial) to solutions of 2,500 or 50,000 units/mL with 0.9% sodium chloride injection or 5% dextrose injection. The preparations were transferred to 250-mL PVC bags and elastomeric pump containers. All samples were prepared in triplicate and stored at 5°C. Chemical stability was measured by a stability-indicating high-performance liquid chromatographic (HPLC) assay and by pH evaluation. Particulate matter was evaluated according to compendial standards using a light-obscuration particle count test. Preparations were visually examined throughout the study. After 21 days of storage, all test samples remained chemically stable, with an HPLC assay recovery value of more than 90% of the initial value. After 28 days, all samples prepared with either diluent and stored in PVC bags, as well as the samples diluted to 2,500 units/mL with sodium chloride injection and stored in elastomeric pump containers, did not meet the recovery acceptance limit. For all test samples, the mean pH consistently decreased during storage, from about 6.4 to about 5.5. Particle counts remained acceptable throughout the study, and no change in appearance was observed. Penicillin G for injection (2,500 and 50,000 units/mL) diluted in 0.9% sodium chloride injection or 5% dextrose injection and stored at 5°C in PVC containers or elastomeric pump containers was physically and chemically stable for a period of at least 21 days.

The relationships between mercury and selenium in plankton and fish from a tropical food web.

PubMed

do A Kehrig, Helena; Seixas, Tércia G; Palermo, Elisabete A; Baêta, Aida P; Castelo-Branco, Christina W; Malm, Olaf; Moreira, Isabel

2009-01-01

Selenium (Se) has been shown to reduce mercury (Hg) bioavailability and trophic transfer in aquatic ecosystems. The study of methylmercury (MeHg) and Se bioaccumulation by plankton is therefore of great significance in order to obtain a better understanding of the estuarine processes concerning Hg and Se accumulation and biomagnification throughout the food web. In the western South Atlantic, few studies have documented trace element and MeHg in fish tissues. No previous study about trace elements and MeHg in plankton has been conducted concerning tropical marine food webs. Se, Hg, and MeHg were determined in two size classes of plankton, microplankton (70-290 microm) and mesoplankton (>or=290 microm), and also in muscle tissues and livers of four fish species of different trophic levels (Mugil liza, a planktivorous fish; Bagre spp., an omnivorous fish; Micropogonias furnieri, a benthic carnivorous fish; and Centropomus undecimalis, a pelagic carnivorous fish) from a polluted estuary in the Brazilian Southeast coast, Guanabara Bay. Biological and ecological factors such as body length, feeding habits, and trophic transfer were considered in order to outline the relationships between these two elements. The differences in trace element levels among the different trophic levels were investigated. Fish were collected from July 2004 to August 2005 at Guanabara Bay. Plankton was collected from six locations within the bay in August 2005. Total mercury (THg) was determined by cold vapor atomic absorption spectrometry (CV-AAS) with sodium borohydride as a reducing agent. MeHg analysis was conducted by digesting samples with an alcoholic potassium hydroxide solution followed by dithizone-toluene extraction. MeHg was then identified and quantified in the toluene layer by gas chromatography with an electron capture detector (GC-ECD). Se was determined by AAS using graphite tube with Pin platform and Zeeman background correction. Total mercury, MeHg, and Se increased with plankton size class. THg and Se values were below 2.0 and 4.8 microg g(-1) dry wt in microplankton and mesoplankton, respectively. A large excess of molar concentrations of Se in relation to THg was observed in both plankton size class and both fish tissues. Plankton presented the lowest concentrations of this element. In fish, the liver showed the highest THg and Se concentrations. THg and Se in muscle were higher in Centropomus undecimalis (3.4 and 25.5 nmol g(-1)) than in Micropogonias furnieri (2.9 and 15.3 nmol g(-1)), Bagre spp (1.3 and 3.4 nmol g(-1)) and Mugil liza (0.3 and 5.1 nmol g(-1)), respectively. The trophic transfer of THg and Se was observed between trophic levels from prey (considering microplankton and mesoplankton) to top predator (fish). The top predators in this ecosystem, Centropomus undecimalis and Micropogonias furnieri, presented similar MeHg concentrations in muscles and liver. Microplankton presented lower ratios of methylmercury to total mercury concentration (MeHg/THg) (34%) than those found in mesoplankton (69%) and in the muscle of planktivorous fish, Mugil liza (56%). The other fish species presented similar MeHg/THg in muscle tissue (of around 100%). M. liza showed lower MeHg/THg in the liver than C. undecimalis (35%), M. furnieri (31%) and Bagre spp. (22%). Significant positive linear relationships were observed between the molar concentrations of THg and Se in the muscle tissue of M. furnieri and M. liza. These fish species also showed significant inverse linear relationships between hepatic MeHg and Se, suggesting a strong antagonistic effect of Se on MeHg assimilation and accumulation. Differences found among the concentrations THg, MeHg, and Se in microplankton, mesozooplankton, and fishes were probably related to the preferred prey and bioavailability of these elements in the marine environment. The increasing concentration of MeHg and Se at successively higher trophic levels of the food web of Guanabara Bay corresponds to a transfer between trophic levels from the lower trophic level to the top-level predator, suggesting that MeHg and Se were biomagnified throughout the food web. Hg and Se were positively correlated with the fish standard length, suggesting that larger and older fish bioaccumulated more of these trace elements. THg, MeHg, and Se were a function of the plankton size. There is a need to assess the role of selenium in mercury accumulation in tropical ecosystems. Without further studies of the speciation of selenium in livers of fishes from this region, the precise role of this element, if any, cannot be verified in positively affecting mercury accumulation. Further studies of this element in the study of marine species should include liver samples containing relatively high concentrations of mercury. A basin-wide survey of selenium in fishes is also recommended.

Protein and carbohydrate in P-POM collected from the fishing ground in Minnan-Taiwan Bank

NASA Astrophysics Data System (ADS)

Su, Yongquan; Zhang, Huan

1992-06-01

The analysis of the protein and carbohydrate in P-POM (Plankton and Particulate Organic Matter) samples collected from the fishing ground in Minnan-Taiwan Bank in five voyages (April, June, July, August and November, 1988) shows that the protein and carbohydrate contents and amounts in samples from four stations (501, 401, 301, 201) along the coast and another four stations (404, 304, 403, 204) south and southeast of the shoal were higher than those in April and November, indicating that this phenomenon is related to the upwelling in the two regions in summer.

Biodiversity of plankton by species oscillations and chaos

NASA Astrophysics Data System (ADS)

Huisman, Jef; Weissing, Franz J.

1999-11-01

Biodiversity has both fascinated and puzzled biologists. In aquatic ecosystems, the biodiversity puzzle is particularly troublesome, and known as the `paradox of the plankton'. Competition theory predicts that, at equilibrium, the number of coexisting species cannot exceed the number of limiting resources. For phytoplankton, only a few resources are potentially limiting: nitrogen, phosphorus, silicon, iron, light, inorganic carbon, and sometimes a few trace metals or vitamins. However, in natural waters dozens of phytoplankton species coexist. Here we offer a solution to the plankton paradox. First, we show that resource competition models can generate oscillations and chaos when species compete for three or more resources. Second, we show that these oscillations and chaotic fluctuations in species abundances allow the coexistence of many species on a handful of resources. This model of planktonic biodiversity may be broadly applicable to the biodiversity of many ecosystems.

Application of calcium oxide (CaO, heated scallop-shell powder) for the reduction of Listeria monocytogenes biofilms on eggshell surfaces.

PubMed

Park, S Y; Jung, S-J; Kang, I; Ha, S-D

2018-05-01

This study investigated bactericidal activity of 0.05 to 0.50% calcium oxide (CaO) against planktonic cells in tryptic soy broth (TSB) and biofilms of Listeria monocytogenes on eggshell surfaces. The bactericidal activity of CaO against planktonic cells and biofilms of L. monocytogens significantly (P < 0.05) increased log reductions with increasing concentrations of CaO. Exposure to 0.05 to 0.50% CaO for one min reduced planktonic cells in TSB cell suspensions by 0.47 to 3.86 log10CFU/mL and biofilm cells on the shell surfaces by 0.14 to 2.32 log10CFU/cm2. The Hunter colors of eggshells ("L" for lightness, "a" for redness, and "b" for yellowness), shell thickness (puncture force), and sensory quality (egg taste and yolk color) were not changed by 0.05 to 0.50% CaO treatment. The nonlinear Weibull model was used to calculate CR = 3 values as the CaO concentration of 3 log (99.9%) reduction for planktonic cells (R2 = 0.96, RMSE = 0.26) and biofilms (R2 = 0.95, RMSE = 0.18) of L. monocytogens. The CR = 3 value, 0.31% CaO for planktonic cells, was significantly (P < 0.05) lower than 0.57% CaO for biofilms. CaO could be an alternative disinfectant to reduce planktonic cells and biofilms L. monocytogenes on eggshell surface in egg processing plants.

Serratia marcescens resistance profile and its susceptibility to photodynamic antimicrobial chemotherapy.

PubMed

Parente, Ticiana Mont Alverne Lopes; Rebouças, Emanuela de Lima; Santos, Vitor Coutinho Vieira Dos; Barbosa, Francisco Cesar Barroso; Zanin, Iriana Carla Junqueira

2016-06-01

Some authors have reported the antimicrobial action of photodynamic antimicrobial chemotherapy (PACT) on bacteria related to nosocomial infections but there are few studies evaluating PACT on Serratia marcescens grown as planktonic cultures or as biofilms. The purpose of this study was to analyze the S. marcescens resistance profile and its susceptibility to PACT. Initially, 55 S. marcescens strains isolated from environmental, oral and extra-oral infections were tested by antimicrobial resistance to cefotaxime (CTX), imipenem (IPM), ciprofloxacin (CIP), tobramycin (TOB) and doxycycline (DOX) using E-test(®). Following, isolates grown as planktonic cultures or biofilms were submitted to PACT using the association of a light-emitting diode and toluidine blue (TBO). The E-test(®) results demonstrated intermediated sensitive strains to CTX, IMP, TOB, and DOX; and resistant strains to CTX, TOB, DOX and CIP. Also, CTX and IMP demonstrated variation when CLSI 2007 and CLSI 2015 were compared. Planktonic cultures and biofilms submitted to PACT demonstrated counts varying from 10(11) to 10(7) for planktonic cultures and 10(10) to 10(7) for biofilms. There were no statistical differences in the results when planktonic cultures and biofilms were compared. Increase in the profile of S. marcescens resistance was observed when CLSI 2007 and CLSI 2015 were compared. Also, IMP remains as the drug with lower rate of resistance. Additionally, both S. marcescens planktonic cultures and early biofilms are susceptible to PACT under tested conditions. Copyright © 2016 Elsevier B.V. All rights reserved.

ISOLATION AND DETECTION OF GIARDIA CYSTS FROM WATER USING DIRECT IMMUNOFLUORESCENCE.

USGS Publications Warehouse

Sorenson, Stephen K.; Riggs, John L.; Dileanis, Peter D.; Suk, Thomas J.

1986-01-01

A water-sampling apparatus used for the isolation and detection of Giardia cysts in water has been designed and tested. The sampling apparatus uses one of a variety of pumps or waterline pressure to move water through a filter. Two of the optional pumps are lightweight enough to make the apparatus portable and thus suitable for sampling in remote areas. This technique of sample processing produces good cyst recovery in much less time than is required with previously established methods. Giardia cysts are identified using direct immunofluorescence.

Evaluation of a depth proportional intake device for automatic pumping samplers

Treesearch

Rand E. Eads; Robert B. Thomas

1983-01-01

Abstract - A depth proportional intake boom for portable pumping samplers was used to collect suspended sediment samples in two coastal streams for three winters. The boom pivots on the stream bed while a float on the downstream end allows debris to depress the boom and pass without becoming trapped. This equipment modifies point sampling by maintaining the intake...

Tidal sampler

DOEpatents

Hayes, David W.

1978-01-01

An apparatus for pumping a sample of water or other liquid that uses the energy generated from the rise and fall of the liquid level to force a sample of the liquid into a collection vessel. A suction vessel and booster vessel with interconnecting tubing and check valves are responsive to an oscillating liquid level to pump a portion of said liquid into a collection vessel.

A compact LIBS system for industrial applications

NASA Astrophysics Data System (ADS)

Noharet, B.; Sterner, C.; Irebo, T.; Gurell, J.; Bengtson, A.; Vainik, R.; Karlsson, H.; Illy, E.

2015-03-01

In recent years, laser-induced breakdown spectroscopy (LIBS) has been established as a promising analytical tool for online chemical analysis. The emitted light spectrum is analyzed for instantaneous determination of the elemental composition of the sample, enabling on-line classification of materials. Two major strengths of the technique are the possibilities to perform both fast and remote chemical analysis to determine the elemental composition of the samples under test. In order to reduce the size of LIBS systems, the use of a compact Q-switched diode-pumped solid-state laser (DPSSL) in a LIBS system is evaluated for the industrial sorting of aluminium alloys. The DPSSL, which delivers 150μJ pulses of high beam quality at more than 7KHz repetition rate, provides irradiance on the target that is appropriate for LIBS measurements. The experimental results indicate that alloy classification and quantitative analysis are possible on scrap aluminium samples placed 50 cm apart from the focusing and collecting lenses, without sample preparation. Similar calibration curves and limits of detection are obtained for traditional high-energy low-frequency flashlamp-pumped and low-energy high-frequency diode-pumped lasers, showing the applicability of compact diode-pumped lasers for industrial LIBS applications.

The diel migrations and distributions within a mesopelagic community in the North East Atlantic. 7. Siphonophores

NASA Astrophysics Data System (ADS)

Pugh, P. R.

Siphonophores are by far the dominant macroplanktonic-micronektonic taxon of animals present in the 48 hr series of samples as a whole. A total of 35 species were identified, with four of these making up over 90% of the total numbers. Details of how the siphonophore population was estimated are discussed, but few species underwent clear cut diel vertical migration although there was considerable variability in their distributions over the sampling periods. The hydrography of the sampling area was investigated in relation to its possible effects on the faunal assemblages, and the important role of siphonophores as carnivores in the planktonic food chain was discussed.

Validation of a multilevel sampling device to determine the vertical variability of chlorinated solvent in a contaminated aquifer.

PubMed

Barnier, C; Palmier, C; Atteia, O

2013-01-01

The vertical heterogeneity of contaminant concentrations in aquifers is well known, but obtaining representative samples is still a subject of debate. In this paper, the question arises from sites where numerous fully screened wells exist and there is a need to define the vertical distribution of contaminants. For this purpose, several wells were investigated with different techniques on a site contaminated with chlorinated solvents. A core-bored well shows that a tetrachloroethene (PCE) phase is sitting on and infiltrating a less permeable layer. Downstream of the cored well, the following sampling techniques were compared on fully screened wells: low flow pumping at several depths, pumping between packers and a new multilevel sampler for fully screened wells. Concerning low flow rate pumping, very low gradients were found, which may be due to the existence of vertical flow inside the well or in the gravel pack. Sampling between packers gave results comparable with the cores, separating a layer with PCE and trichloroethene from another one with cis 1,2-dichloroethene and vinyl chloride as major compounds. Detailed sampling according to pumped volume shows that even between packers, cleaning of the inter-packer volume is necessary before each sampling. Lastly, the proposed new multilevel sampler gives results similar to the packers but has the advantages of much faster sampling and a constant vertical positioning, which is fairly important for long-term monitoring in highly stratified aquifers.

Fiber-based modulated optical reflectance configuration allowing for offset pump and probe beams

NASA Astrophysics Data System (ADS)

Fleming, A.; Folsom, C.; Jensen, C.; Ban, H.

2016-12-01

A new fiber-based modulated optical reflectance configuration is developed in this work. The technique maintains the fiber-based heating laser (pump) and detection laser (probe) in close proximity at a fixed separation distance in a ceramic ferrule. The pump beam periodically heats the sample inducing thermal waves into the sample. The probe beam measures the temperature response at a known distance from the pump beam over a range of heating modulation frequencies. The thermal diffusivity of the sample may be calculated from the phase response between the input heat flux and the temperature response of a sample having a reflective surface. The unique measurement configuration is ideal for in situ measurements and has many advantages for laboratory-based systems. The design and development of the system are reported along with theoretical justification for the experimental design. The thermal diffusivities of Ge and SiC are measured and found to be within 10% of reported literature values. The diffusivity for SiO2 is measured with a relative difference of approximately 100% from the literature value when the ferrule is in contact with the sample. An additional measurement was made on the SiO2 sample with the ferrule not in contact resulting in a difference of less than 2% from the literature value. The difference in the SiO2 measurement when the ferrule is in contact with the sample is likely due to a parallel heat transfer path through the dual-fiber ferrule assembly.

Fiber-based modulated optical reflectance configuration allowing for offset pump and probe beams.

PubMed

Fleming, A; Folsom, C; Jensen, C; Ban, H

2016-12-01

A new fiber-based modulated optical reflectance configuration is developed in this work. The technique maintains the fiber-based heating laser (pump) and detection laser (probe) in close proximity at a fixed separation distance in a ceramic ferrule. The pump beam periodically heats the sample inducing thermal waves into the sample. The probe beam measures the temperature response at a known distance from the pump beam over a range of heating modulation frequencies. The thermal diffusivity of the sample may be calculated from the phase response between the input heat flux and the temperature response of a sample having a reflective surface. The unique measurement configuration is ideal for in situ measurements and has many advantages for laboratory-based systems. The design and development of the system are reported along with theoretical justification for the experimental design. The thermal diffusivities of Ge and SiC are measured and found to be within 10% of reported literature values. The diffusivity for SiO 2 is measured with a relative difference of approximately 100% from the literature value when the ferrule is in contact with the sample. An additional measurement was made on the SiO 2 sample with the ferrule not in contact resulting in a difference of less than 2% from the literature value. The difference in the SiO 2 measurement when the ferrule is in contact with the sample is likely due to a parallel heat transfer path through the dual-fiber ferrule assembly.

The Complex Conductivity Signature of Geobacter Species in Geological Media

NASA Astrophysics Data System (ADS)

Brown, I.; Atekwana, E. A.; Sarkisova, S.; Achang, M.

2013-12-01

The Complex Conductivity (CC) technique is a promising biogeophysical approach for sensing microbially-induced changes in geological media because of its low-invasive character and sufficient sensitivity to enhanced microbial activity in the near subsurface. Geobacter species have been shown to play important roles in the bioremediation of groundwater contaminated with petroleum and landfill leachate. This capability is based on the ability of Geobacter species to reduce Fe(III) by transferring of electrons from the reduced equivalents to Fe(III) rich minerals through respiration chain and special metallic-like conductors - pili. Only the cultivation of Geobacter species on Fe(III) oxides specifically express pili biosynthesis. Moreover, mutants that cannot produce pili are unable to reduce Fe(III) oxides. However, little is known about the contribution of these molecular conductors (nanowires) to the generation of complex conductivity signatures in geological media. Here, we present the results about the modulation of CC signatures in geological media by Geobacter sulfurreducens (G.s.). Cultures of wild strain G.s. and its pilA(-) mutant were anaerobically cultivated in the presence of the pair of such donors and acceptors of electrons: acetate - fumarate, and acetate - magnetite under anaerobic conditions. Each culture was injected in CC sample holders filled either with N2-CO2 mix (planktonic variant) or with this gases mix and glass beads, d=1 mm, (porous medium variant). Both strains of G.s. proliferated well in a medium supplemented with acetate-fumarate. However, pilA(-) mutant did not multiply in a medium supplemented with ox-red pair yeast extract - magnetite. This observation confirmed that only wild pilA(+) strain is capable of the dissimilatory reduction of Fe(III) within magnetite molecule. The measurement of CC responses from planktonic culture of G.s. wild strain grown with acetate-fumarate did not show linear correlation with their magnitudes but were substantially different from CC responses in sterile medium and pilA(-) mutant planktonic culture. Complex conductivity responses in planktonic cultures of both pilA(+) and pilA(-) strains grown with acetate-fumarate pair were significantly different from magnitudes of φ and σ' in a sterile medium. No notable difference between CC signatures from planktonic cultures of both pilA(+) and pilA(-) strains grown with acetate-fumarate was found. This result has been anticipated because the cultivation of G.s. with ox-red pair acetate-fumarate does not induce the pili biosynthesis. In contrast, the presence of the cells of G.s. pilA(+) strain grown with magnetite in both planktonic and porous media notable shifted to the right of the relaxation peaks of both φ and σ'. Our results taking together suggest that only Geobacter cells administrating Fe(III) dissimilatory reduction and possessing pili can modulate CC responses from subsurface porous media. More experiments and techniques, including different types of microscopy, will be conducted to confirm these observations.

The in vitro effect of xylitol on chronic rhinosinusitis biofilms.

PubMed

Jain, R; Lee, T; Hardcastle, T; Biswas, K; Radcliff, F; Douglas, R

2016-12-01

Biofilms have been implicated in chronic rhinosinusitis (CRS) and may explain the limited efficacy of antibiotics. There is a need to find more effective, non-antibiotic based therapies for CRS. This study examines the effects of xylitol on CRS biofilms and planktonic bacteria. Crystal violet assay and spectrophotometry were used to quantify the effects of xylitol (5% and 10% solutions) against Staphylococcus epidermidis, Pseudomonas aeruginosa, and Staphylococcus aureus. The disruption of established biofilms, inhibition of biofilm formation and effects on planktonic bacteria growth were investigated and compared to saline and no treatment. Xylitol 5% and 10% significantly reduced biofilm biomass (S. epidermidis), inhibited biofilm formation (S. aureus and P. aeruginosa) and reduced growth of planktonic bacteria (S. epidermidis, S. aureus, and P. aeruginosa). Xylitol 5% inhibited formation of S. epidermidis biofilms more effectively than xylitol 10%. Xylitol 10% reduced S. epidermidis planktonic bacteria more effectively than xylitol 5%. Saline, xylitol 5% and 10% disrupted established biofilms of S. aureus when compared with no treatment. No solution was effective against established P. aeruginosa biofilm. Xylitol has variable activity against biofilms and planktonic bacteria in vitro and may have therapeutic efficacy in the management of CRS.

Longitudinal differentiation among pelagic populations in a planktic foraminifer

PubMed Central

Ujiié, Yurika; Asami, Takahiro; de Garidel-Thoron, Thibault; Liu, Hui; Ishitani, Yoshiyuki; de Vargas, Colomban

2012-01-01

Evolutionary processes in marine plankton have been assumed to be dependent on the oceanic circulation system, which transports plankton between populations in marine surface waters. Gene flow facilitated by oceanic currents along longitudinal gradients may efficiently impede genetic differentiation of pelagic populations in the absence of confounding marine environmental effects. However, how responsible oceanic currents are for the geographic distribution and dispersal of plankton is poorly understood. We examined the phylogeography of the planktic foraminifer Pulleniatina obliquiloculata in the Indo-Pacific Warm Pool (IPWP) by using partial small subunit ribosomal DNA (SSU rDNA) sequences. We found longitudinal clines in the frequencies of three distinct genetic types in the IPWP area. These frequencies were correlated with environmental factors that are characteristic of three water masses in the IPWP. Noteworthy, populations inhabiting longitudinally distant water masses at the Pacific and Indian sides of the IPWP were genetically different, despite transportation of individuals via oceanic currents. These results demonstrate that populations of pelagic plankton have diverged genetically among different water masses within a single climate zone. Changes of the oceanic circulation system could have impacted the geographic patterns of dispersal and divergence of pelagic plankton. PMID:22957176

The inhibitory effect of Thymus vulgaris extracts on the planktonic form and biofilm structures of six human pathogenic bacteria

PubMed Central

Mohsenipour, Zeinab; Hassanshahian, Mehdi

2015-01-01

Objective: Microorganisms are responsible for many problems in industry and medicine because of biofilm formation. Therefore, this study was aimed to examine the effect of Thymus vulgaris (T. vulgaris) extracts on the planktonic form and biofilm structures of six pathogenic bacteria. Materials and methods: Antimicrobial activities of the plant extracts against the planktonic form of the bacteria were determined using the disc diffusion method. MIC and MBC values were evaluated using macrobroth dilution technique. Anti-biofilm effects were assessed by microtiter plate method. Results: According to disc diffusion test (MIC and MBC), the ability of Thymus vulgaris (T. vulgaris ) extracts for inhibition of bacteria in planktonic form was confirmed. In dealing with biofilm structures, the inhibitory effect of the extracts was directly correlated to their concentration. Except for the inhibition of biofilm formation, efficacy of each extract was independent from type of solvent. Conclusion: According to the potential of Thymus vulgaris (T. vulgaris) extracts to inhibit the test bacteria in planktonic and biofilm form, it can be suggested that Thymus vulgaris (T. vulgaris) extracts can be applied as antimicrobial agents against the pathogenic bacteria particularly in biofilm forms. PMID:26442753

Proteomics of drug resistance in Candida glabrata biofilms.

PubMed

Seneviratne, C Jayampath; Wang, Yu; Jin, Lijian; Abiko, Y; Samaranayake, Lakshman P

2010-04-01

Candida glabrata is a fungal pathogen that causes a variety of mucosal and systemic infections among compromised patient populations with higher mortality rates. Previous studies have shown that biofilm mode of the growth of the fungus is highly resistant to antifungal agents compared with the free-floating or planktonic mode of growth. Therefore, in the present study, we used 2-D DIGE to evaluate the differential proteomic profiles of C. glabrata under planktonic and biofilm modes of growth. Candida glabrata biofilms were developed on polystyrene surfaces and age-matched planktonic cultures were obtained in parallel. Initially, biofilm architecture, viability, and antifungal susceptibility were evaluated. Differentially expressed proteins more than 1.5-fold in DIGE analysis were subjected to MS/MS. The transcriptomic regulation of these biomarkers was evaluated by quantitative real-time PCR. Candida glabrata biofilms were highly resistant to the antifungals and biocides compared with the planktonic mode of growth. Candida glabrata biofilm proteome when compared with its planktonic proteome showed upregulation of stress response proteins, while glycolysis enzymes were downregulated. Similar trend could be observed at transcriptomic level. In conclusion, C. glabrata biofilms possess higher amount of stress response proteins, which may potentially contribute to the higher antifungal resistance seen in C. glabrata biofilms.

Ether Lipids of Planktonic Archaea in the Marine Water Column

PubMed Central

Hoefs, M.; Schouten, S.; De Leeuw, J. W.; King, L. L.; Wakeham, S. G.; Damste, J.

1997-01-01

Acyclic and cyclic biphytanes derived from the membrane ether lipids of archaea were found in water column particulate and sedimentary organic matter from several oxic and anoxic marine environments. Compound-specific isotope analyses of the carbon skeletons suggest that planktonic archaea utilize an isotopically heavy carbon source such as algal carbohydrates and proteins or dissolved bicarbonate. Due to their high preservation potential, these lipids provide a fossil record of planktonic archaea and suggest that they have thrived in marine environments for more than 50 million years. PMID:16535669

The summertime plankton community at South Georgia (Southern Ocean): Comparing the historical (1926/1927) and modern (post 1995) records

NASA Astrophysics Data System (ADS)

Ward, Peter; Meredith, Michael P.; Whitehouse, Mick J.; Rothery, Peter

2008-09-01

The earliest comprehensive plankton sampling programme in the Southern Ocean was undertaken during the early part of last century by Discovery Investigations to gain a greater scientific understanding of whale stocks and their summer feeding grounds. An initial survey was carried out around South Georgia during December 1926 and January 1927 to describe the distribution of plankton during the summer, and to serve as a baseline against which to compare future surveys. We have reanalysed phytoplankton and zooplankton data from this survey and elucidated patterns of community distribution and compared them with our recent understanding of the ecosystem based on contemporary data. Analysis of Discovery data identified five groups of stations with characteristic phytoplankton communities which were almost entirely consistent with the original analysis conducted by [Hardy A.C., Gunther, E.R., 1935. The plankton of the South Georgia whaling grounds and adjacent waters 1926-1927. Discovery Report 11, 1-456]. Major groupings were located at the western end of the island and over the northern shelf where Corethron spp. were dominant, and to the south and east where a more diverse flora included high abundances of Nitzschia seriata. Major zooplankton-station groupings were located over the inner shelf which was characterised by a high abundance of Drepanopus forcipatus and in oceanic water >500 m deep that were dominated by Foraminifera, Oithona spp., Ctenocalanus vanus, and Calanoides acutus. Stations along the middle and outer shelf regions to the north and west, were characterised by low overall abundance. There was some evidence that groupings of stations to the north of the island originated in different water masses on either side of the Southern Antarctic Circumpolar Current Front, the major frontal system in the deep ocean close to South Georgia. However, transect lines during 1926/1927 did not extend far enough offshore to sample this frontal region adequately. Interannual variability of zooplankton abundance was assessed from stations which were sampled repeatedly during seven recent British Antarctic Survey cruises (1995-2005) to the region and following taxonomic harmonization and numerical standardization (ind. m -3), a subset of 45 taxonomic categories of zooplankton (species and higher taxa) from 1926/1927, were compared with similar data obtained during the BAS cruises using a linear model. Initially comparisons were restricted to BAS stations that lay within 40 km of Discovery stations although a comparison was also made using all available data. Despite low abundance values in 1926/1927, in neither comparison did Discovery data differ significantly from BAS data. Calculation of the percentage similarity index across cruises did not reveal any systematic differences in species composition between 1926 and 1927 and the present. In the light of ocean warming trends, the existence of more subtle changes in species composition is not ruled out, but an absence of finely resolved time-series data make this impossible to determine.

Data from pumping and injection tests and chemical sampling in the geothermal aquifer at Klamath Falls, Oregon

USGS Publications Warehouse

Benson, S.M.; Janik, C.J.; Long, D.C.; Solbau, R.D.; Lienau, P.J.

1984-01-01

A seven-week pumping and injection tests in the geothermal aquifer at Klamath Falls, Oregon, in 1983 provided new information on hydraulic properties of the aquifer. The Open-File Data Report on the tests includes graphs of water levels measured in 50 wells, temperature measurement in 17 wells , daily air-temperatures in relation to discharge of thermal water from more than 70 pumped and artesian wells, tables of monthly mean air temperatures and estimates of discharges of thermal water during a normal year, and tables of chemical and isotopic analyses on samples from 12 wells. The water-level measurements reflect the effects of pumping, injection, and recovery over about 1.7 square miles of the hot-well area of Klamath Falls. The pumped well, City Well No 1, and the injection well at the Klamath County Museum are components of a proposed District Heating Plan. The study was funded principally under contracts from the U.S. Department of Energy to the Lawrence Berkeley Laboratory, Stanford University, and the Oregon Institute of Technology, with coordination and chemical sampling provided under the Geothermal Research Program, U.S. Geological Survey. Support was received from the City of Klamath Falls, Klamath County Chamber of Commerce, Citizens for Responsible Geothermal Development, and many citizen volunteers. (USGS)

pCO2 effects on species composition and growth of an estuarine phytoplankton community

NASA Astrophysics Data System (ADS)

Grear, Jason S.; Rynearson, Tatiana A.; Montalbano, Amanda L.; Govenar, Breea; Menden-Deuer, Susanne

2017-05-01

The effects of ongoing changes in ocean carbonate chemistry on plankton ecology have important implications for food webs and biogeochemical cycling. However, conflicting results have emerged regarding species-specific responses to pCO2 enrichment and thus community responses have been difficult to predict. To assess community level effects (e.g., production) of altered carbonate chemistry, studies are needed that capitalize on the benefits of controlled experiments but also retain features of intact ecosystems that may exacerbate or ameliorate the effects observed in single-species or single cohort experiments. We performed incubations of natural plankton communities from Narragansett Bay, RI, USA in winter at ambient bay temperatures (5-13 °C), light and nutrient concentrations. Three levels of controlled and constant CO2 concentrations were imposed, simulating past, present and future conditions at mean pCO2 levels of 224, 361, and 724 μatm respectively. Samples for carbonate analysis, chlorophyll a, plankton size-abundance, and plankton species composition were collected daily and phytoplankton growth rates in three different size fractions (<5, 5-20, and >20 μm) were measured at the end of the 7-day incubation period. Community composition changed during the incubation period with major increases in relative diatom abundance, which were similar across pCO2 treatments. At the end of the experiment, 24-hr growth responses to pCO2 levels varied as a function of cell size. The smallest size fraction (<5 μm) grew faster at the elevated pCO2 level. In contrast, the 5-20 μm size fraction grew fastest in the Present treatment and there were no significant differences in growth rate among treatments in the >20 μm size fraction. Cell size distribution shifted toward smaller cells in both the Past and Future treatments but remained unchanged in the Present treatment. Similarity in Past and Future treatments for cell size distribution and growth rate (5-20 μm size fraction) illustrate non-monotonic effects of altered pCO2 on ecological indicators and may be related to opposing physiological effects of high CO2 and low pH both within and among species. Interaction of these effects with other factors (e.g., nutrients, light, temperature, grazing, initial species composition) may explain variability among published studies. The absence of clear treatment-specific effects at the community level suggests that extrapolation of species-specific responses or experiments with only present day and future pCO2 treatments levels could produce misleading predictions of ocean acidification impacts on plankton production.

40 CFR 89.422 - Dilute sampling procedures-CVS calibration.

Code of Federal Regulations, 2011 CFR

2011-07-01

... Pressure depression at CVS pump inlet PPI kPa ±.055 kPa Pressure head at CVS pump outlet PPO kPa ±.055 kPa... restricted condition in an increment of pump inlet depression that will yield a minimum of six data points... depression, (kPa). (iii) The correlation function at each test point is then calculated from the calibration...

40 CFR 89.422 - Dilute sampling procedures-CVS calibration.

Code of Federal Regulations, 2013 CFR

2013-07-01

... Pressure depression at CVS pump inlet PPI kPa ±.055 kPa Pressure head at CVS pump outlet PPO kPa ±.055 kPa... restricted condition in an increment of pump inlet depression that will yield a minimum of six data points... depression, (kPa). (iii) The correlation function at each test point is then calculated from the calibration...

40 CFR 89.422 - Dilute sampling procedures-CVS calibration.

Code of Federal Regulations, 2010 CFR

2010-07-01

... Pressure depression at CVS pump inlet PPI kPa ±.055 kPa Pressure head at CVS pump outlet PPO kPa ±.055 kPa... restricted condition in an increment of pump inlet depression that will yield a minimum of six data points... depression, (kPa). (iii) The correlation function at each test point is then calculated from the calibration...

40 CFR 89.422 - Dilute sampling procedures-CVS calibration.

Code of Federal Regulations, 2012 CFR

2012-07-01

... Pressure depression at CVS pump inlet PPI kPa ±.055 kPa Pressure head at CVS pump outlet PPO kPa ±.055 kPa... restricted condition in an increment of pump inlet depression that will yield a minimum of six data points... depression, (kPa). (iii) The correlation function at each test point is then calculated from the calibration...

40 CFR 89.422 - Dilute sampling procedures-CVS calibration.

Code of Federal Regulations, 2014 CFR

2014-07-01

... Pressure depression at CVS pump inlet PPI kPa ±.055 kPa Pressure head at CVS pump outlet PPO kPa ±.055 kPa... restricted condition in an increment of pump inlet depression that will yield a minimum of six data points... depression, (kPa). (iii) The correlation function at each test point is then calculated from the calibration...

The Continuous Plankton Imaging and Classification Sensor (CPICS): A Sensor for Quantifying Mesoplankton Biodiversity and Community Structure

NASA Astrophysics Data System (ADS)

Gallager, S. M.

2016-02-01

Marine ecosystems are changing at a variety of time scales as a function of a diverse suite of forcing functions both natural and anthropogenic. Establishing a continuous plankton time series consisting of scales from rapid (seconds) to long-term (decades), provides a sentinel for ecosystem change. The key is to measure plankton biodiversity at sufficiently fast time scales that allow disentanglement of physical (transport) and biological (growth) properties of an ecosystem. CPICS is a plankton and particle imaging microscope system that is designed to produce crisp darkfield images of light scattering material in aquatic environments. The open flow design is non-invasive and non-restrictive providing images of very fragile plankton in their natural orientation. Several magnifications are possible from 0.5 to 5x forming a field of view of 10cm to 1mm, respectively. CPICS has been installed on several cabled observing systems called OceanCubes off the coast of Okinawa and Tokyo, Japan providing a continuous stream of plankton images to a machine vision image classifier located at WHOI. Image features include custom algorithms for texture, color pattern, morphology and shape, which are extracted from in-focus target. The features are then used to train a classifier (e.g., Random Forest) resulting in classifications that are tested using cross-validation, confusion matrices and ROC curves. High (>90%) classification accuracies are possible depending on the number of training categories and target complexity. A web-based utility allows access to raw images, training sets, classifiers and classification results. Combined with chemical and physical data from the observatories, an ecologically meaningful plankton index of biodiversity and its variance is developed using a combination of species and taxon groups, which provides an approach for understanding ecosystem change without the need to identify all targets to species. http://oceancubes.whoi.edu/instruments/CPICS

No observed effect of ocean acidification on nitrogen biogeochemistry in a summer Baltic Sea plankton community

NASA Astrophysics Data System (ADS)

Paul, A. J.; Achterberg, E. P.; Bach, L. T.; Boxhammer, T.; Czerny, J.; Haunost, M.; Schulz, K.-G.; Stuhr, A.; Riebesell, U.

2015-10-01

Nitrogen fixation by filamentous cyanobacteria supplies significant amounts of new nitrogen (N) to the Baltic Sea. This balances N loss processes such as denitrification and anammox and forms an important N source supporting primary and secondary production in N-limited post-spring bloom plankton communities. Laboratory studies suggest that filamentous diazotrophic cyanobacteria growth and N2-fixation rates are sensitive to ocean acidification with potential implications for new N supply to the Baltic Sea. In this study, our aim was to assess the effect of ocean acidification on diazotroph growth and activity as well as the contribution of diazotrophically-fixed N to N supply in a natural plankton assemblage. We enclosed a natural plankton community in a summer season in the Baltic Sea near the entrance to the Gulf of Finland in six large-scale mesocosms (volume ~ 55 m3) and manipulated fCO2 over a range relevant for projected ocean acidification by the end of this century (average treatment fCO2: 365-1231 μatm). The direct response of diazotroph growth and activity was followed in the mesocosms over a 47 day study period during N-limited growth in the summer plankton community. Diazotrophic filamentous cyanobacteria abundance throughout the study period and N2-fixation rates (determined only until day 21 due to subsequent use of contaminated commercial 15N-N2 gas stocks) remained low. Thus estimated new N inputs from diazotrophy were too low to relieve N limitation and stimulate a summer phytoplankton bloom. Instead regeneration of organic N sources likely sustained growth in the plankton community. We could not detect significant CO2-related differences in inorganic or organic N pools sizes, or particulate matter N : P stoichiometry. Additionally, no significant effect of elevated CO2 on diazotroph activity was observed. Therefore, ocean acidification had no observable impact on N cycling or biogeochemistry in this N-limited, post-spring bloom plankton assemblage in the Baltic Sea.

No observed effect of ocean acidification on nitrogen biogeochemistry in a summer Baltic Sea plankton community

NASA Astrophysics Data System (ADS)

Paul, Allanah J.; Achterberg, Eric P.; Bach, Lennart T.; Boxhammer, Tim; Czerny, Jan; Haunost, Mathias; Schulz, Kai-Georg; Stuhr, Annegret; Riebesell, Ulf

2016-07-01

Nitrogen fixation by filamentous cyanobacteria supplies significant amounts of new nitrogen (N) to the Baltic Sea. This balances N loss processes such as denitrification and anammox, and forms an important N source supporting primary and secondary production in N-limited post-spring bloom plankton communities. Laboratory studies suggest that filamentous diazotrophic cyanobacteria growth and N2-fixation rates are sensitive to ocean acidification, with potential implications for new N supply to the Baltic Sea. In this study, our aim was to assess the effect of ocean acidification on diazotroph growth and activity as well as the contribution of diazotrophically fixed N to N supply in a natural plankton assemblage. We enclosed a natural plankton community in a summer season in the Baltic Sea near the entrance to the Gulf of Finland in six large-scale mesocosms (volume ˜ 55 m3) and manipulated fCO2 over a range relevant for projected ocean acidification by the end of this century (average treatment fCO2: 365-1231 µatm). The direct response of diazotroph growth and activity was followed in the mesocosms over a 47 day study period during N-limited growth in the summer plankton community. Diazotrophic filamentous cyanobacteria abundance throughout the study period and N2-fixation rates (determined only until day 21 due to subsequent use of contaminated commercial 15N-N2 gas stocks) remained low. Thus estimated new N inputs from diazotrophy were too low to relieve N limitation and stimulate a summer phytoplankton bloom. Instead, regeneration of organic N sources likely sustained growth in the plankton community. We could not detect significant CO2-related differences in neither inorganic nor organic N pool sizes, or particulate matter N : P stoichiometry. Additionally, no significant effect of elevated CO2 on diazotroph activity was observed. Therefore, ocean acidification had no observable impact on N cycling or biogeochemistry in this N-limited, post-spring bloom plankton assemblage in the Baltic Sea.

Temporal variation of autotrophic picoplankton contribution to coastal phytoplankton communities over a seasonal cycle: A case study

NASA Astrophysics Data System (ADS)

Koçum, Esra

2017-04-01

Autotrophic pico-plankton form the smallest component of phytoplankton and refers to cells smaller than 2 µM. It is phylogenetically diverse and have both prokaryotic and eukaryotic components. Prokaryotic pico-autotrophs are unicellular cyanobacteria, represented mainly by Prochlorococcus and Synechococcus genera. Pico-eukaryotes are more diverse and include members of Chlorophyta, Cryptophyta, Haptophyta and Heterokontophyta. Owing to their higher nutrient acquisition capacity, relative share of pico-plankton in autotrophic production and biomass can be significant and even dominant in oligotrophic regions such as in warm tropical waters. They also fare better than larger members of phytoplankton communities under light limitation and under increasing temperature. Recent work has shown that autotrophic pico-plankton can be a significant component of coastal phytoplankton. In view of the global warming related increase in the sea surface temperature and nutrient enrichment of coastal waters, it is necessary to understand variation in the relative share of different sized groups in phytoplankton communities of coastal ecosystems including pico-plankton biomass as it shows the potential for development of microbial food web. Here, an interpretation of temporal patterns detected in the biomass and the relative contribution of pico-sized (< 2 µm) members of phytoplankton was made using data collected from two coastal sites over a year. The findings revealed the significant spatio-temporal variation in both actual pico-plankton biomass and its relative share in phytoplankton. The average biomass values of pico-plankton were 0.23 ± 0.02 µ g chl a L-1 and 0.15 ± 0.01 µg chl a L-1 at nutrient-poor and nutrient-rich sites; respectively. The temporal pattern of change displayed by picoplankton biomass was not seasonal at nutrient rich site while at nutrient poor site it was seasonal with low values measured over winter suggesting it was the seasonal changes leading to the emergence of temporal pattern of change in pico-plankton abundance observed at this site.

Effect of octenidine hydrochloride on planktonic cells and biofilms of Listeria monocytogenes.

PubMed

Amalaradjou, Mary Anne Roshni; Norris, Carol E; Venkitanarayanan, Kumar

2009-06-01

Listeria monocytogenes is a food-borne pathogen capable of forming biofilms and persisting in food processing environments for extended periods of time, thereby potentially contaminating foods. The efficacy of octenidine hydrochloride (OH) for inactivating planktonic cells and preformed biofilms of L. monocytogenes was investigated at 37, 21, 8, and 4 degrees C in the presence and absence of organic matter (rehydrated nonfat dry milk). OH rapidly killed planktonic cells and biofilms of L. monocytogenes at all four temperatures. Moreover, OH was equally effective in killing L. monocytogenes biofilms on polystyrene and stainless steel matrices in the presence and absence of organic matter. The results underscore OH's ability to prevent establishment of L. monocytogenes biofilms by rapidly killing planktonic cells and to eliminate preformed biofilms, thus suggesting that it could be used as a disinfectant to prevent L. monocytogenes from persisting in food processing environments.

Effect of Octenidine Hydrochloride on Planktonic Cells and Biofilms of Listeria monocytogenes▿

PubMed Central

Amalaradjou, Mary Anne Roshni; Norris, Carol E.; Venkitanarayanan, Kumar

2009-01-01

Listeria monocytogenes is a food-borne pathogen capable of forming biofilms and persisting in food processing environments for extended periods of time, thereby potentially contaminating foods. The efficacy of octenidine hydrochloride (OH) for inactivating planktonic cells and preformed biofilms of L. monocytogenes was investigated at 37, 21, 8, and 4°C in the presence and absence of organic matter (rehydrated nonfat dry milk). OH rapidly killed planktonic cells and biofilms of L. monocytogenes at all four temperatures. Moreover, OH was equally effective in killing L. monocytogenes biofilms on polystyrene and stainless steel matrices in the presence and absence of organic matter. The results underscore OH's ability to prevent establishment of L. monocytogenes biofilms by rapidly killing planktonic cells and to eliminate preformed biofilms, thus suggesting that it could be used as a disinfectant to prevent L. monocytogenes from persisting in food processing environments. PMID:19376913

A resource-based game theoretical approach for the paradox of the plankton.

PubMed

Huang, Weini; de Araujo Campos, Paulo Roberto; Moraes de Oliveira, Viviane; Fagundes Ferrreira, Fernando

2016-01-01

The maintenance of species diversity is a central focus in ecology. It is not rare to observe more species than the number of limiting resources, especially in plankton communities. However, such high species diversity is hard to achieve in theory under the competitive exclusion principles, known as the plankton paradox. Previous studies often focus on the coexistence of predefined species and ignore the fact that species can evolve. We model multi-resource competitions using evolutionary games, where the number of species fluctuates under extinction and the appearance of new species. The interspecific and intraspecific competitions are captured by a dynamical payoff matrix, which has a size of the number of species. The competition strength (payoff entries) is obtained from comparing the capability of species in consuming resources, which can change over time. This allows for the robust coexistence of a large number of species, providing a possible solution to the plankton paradox.

A resource-based game theoretical approach for the paradox of the plankton

PubMed Central

de Araujo Campos, Paulo Roberto; Moraes de Oliveira, Viviane

2016-01-01

The maintenance of species diversity is a central focus in ecology. It is not rare to observe more species than the number of limiting resources, especially in plankton communities. However, such high species diversity is hard to achieve in theory under the competitive exclusion principles, known as the plankton paradox. Previous studies often focus on the coexistence of predefined species and ignore the fact that species can evolve. We model multi-resource competitions using evolutionary games, where the number of species fluctuates under extinction and the appearance of new species. The interspecific and intraspecific competitions are captured by a dynamical payoff matrix, which has a size of the number of species. The competition strength (payoff entries) is obtained from comparing the capability of species in consuming resources, which can change over time. This allows for the robust coexistence of a large number of species, providing a possible solution to the plankton paradox. PMID:27602293

The effect of a plasma needle on bacteria in planktonic samples and on peripheral blood mesenchymal stem cells

NASA Astrophysics Data System (ADS)

Lazović, Saša; Puač, Nevena; Miletić, Maja; Pavlica, Dušan; Jovanović, Milena; Bugarski, Diana; Mojsilović, Slavko; Maletić, Dejan; Malović, Gordana; Milenković, Pavle; Petrović, Zoran

2010-08-01

In this paper, we study the application of a plasma needle to induce necrosis in planktonic samples containing a single breed of bacteria. Two different types of bacteria, Staphylococcus aureus (ATCC 25923) and Escherichia coli (ATCC 25922), were covered in this study. In all experiments with bacteria, the samples were liquid suspensions of several different concentrations of bacteria prepared according to the McFarland standard. The second system studied in this paper was human peripheral blood mesenchymal stem cells (hPB-MSC). In the case of hPB-MSC, two sets of experiments were performed: when cells were covered with a certain amount of liquid (indirect) and when the cell sample was in direct contact with the plasma. Most importantly, the study is made with the aim to see the effects when the living cells are in a liquid medium, which normally acts as protection against the many agents that may be released by plasmas. It was found that a good effect may be expected for a wide range of initial cell densities and operating conditions causing destruction of several orders of magnitude even under the protection of a liquid. It was established independently that a temperature increase could not affect the cells under the conditions of our experiment, so the effect could originate only from the active species produced by the plasma. In the case of those hPB-MSC that were not protected by a liquid, gas flow proved to produce a considerable effect, presumably due to poor adhesion of the cells, but in a liquid the effect was only due to the plasma. Further optimization of the operation may be attempted, opening up the possibility of localized in vivo sterilization.

Archaeal community in a human-disturbed watershed in southeast China: diversity, distribution, and responses to environmental changes.

PubMed

Hu, Anyi; Wang, Hongjie; Li, Jiangwei; Liu, Jing; Chen, Nengwang; Yu, Chang-Ping

2016-05-01

The response of freshwater bacterial community to anthropogenic disturbance has been well documented, yet the studies of freshwater archaeal community are rare, especially in lotic environments. Here, we investigated planktonic and benthic archaeal communities in a human-perturbed watershed (Jiulong River Watershed, JRW) of southeast China by using Illumina 16S ribosomal RNA gene amplicon sequencing. The results of taxonomic assignments indicated that SAGMGC-1, Methanobacteriaceae, Methanospirillaceae, and Methanoregulaceae were the four most abundant families in surface waters, accounting for 12.65, 23.21, 18.58 and 10.97 % of planktonic communities, whereas Nitrososphaeraceae and Miscellaneous Crenarchaeotic Group occupied more than 49 % of benthic communities. The compositions of archaeal communities and populations in waters and sediments were significantly different from each other. Remarkably, the detection frequencies of families Methanobacteriaceae and Methanospirillaceae, and genera Methanobrevibacter and Methanosphaera in planktonic communities correlated strongly with bacterial fecal indicator, suggesting some parts of methanogenic Archaea may come from fecal contamination. Because soluble reactive phosphorus (SRP) and the ratio of dissolved inorganic nitrogen to SRP instead of nitrogen nutrients showed significant correlation with several planktonic Nitrosopumilus- and Nitrosotalea-like OTUs, Thaumarchaeota may play an unexplored role in biogeochemical cycling of river phosphorus. Multivariate statistical analyses revealed that the variation of α-diversity of planktonic archaeal community was best explained by water temperature, whereas nutrient concentrations and stoichiometry were the significant drivers of β-diversity of planktonic and benthic communities. Taken together, these results demonstrate that the structure of archaeal communities in the JRW is sensitive to anthropogenic disturbances caused by riparian human activities.

Evolution of antibiotic resistance in biofilm and planktonic P. aeruginosa populations exposed to sub-inhibitory levels of ciprofloxacin.

PubMed

Ahmed, Marwa N; Porse, Andreas; Sommer, Morten Otto Alexander; Høiby, Niels; Ciofu, Oana

2018-05-14

The opportunistic Gram-negative pathogen Pseudomonas aeruginosa , known for its intrinsic and acquired antibiotic resistance, has a notorious ability to form biofilms, which often facilitate chronic infections. The evolutionary paths to antibiotic resistance have mainly been investigated in planktonic cultures and are less studied in biofilms. We experimentally evolved P. aeruginosa PAO1 colony-biofilms and stationary-phase planktonic cultures for seven passages in the presence of sub-inhibitory levels (0.1 mg/L) of ciprofloxacin (CIP) and performed a genotypic (whole bacterial population sequencing) and phenotypic assessment of the populations. We observed a higher proportion of CIP resistance in the CIP-evolved biofilm populations compared to planktonic populations exposed to the same drug concentrations. However, the minimal inhibitory concentrations (MICs) of ciprofloxacin were lower in CIP-resistant isolates selected from biofilm population compared to the MICs of CIP-resistant isolates from the planktonic cultures. We found common evolutionary trajectories between the different lineages, with mutations in known CIP resistance determinants as well as growth condition-dependent adaptations. A general trend towards a reduction in type IV-pili dependent motility (twitching) in CIP-evolved populations, and towards loss of virulence associated traits in the populations evolved in the absence of antibiotic, was observed. In conclusion, our data indicate that biofilms facilitate the development of low-level mutational resistance, probably due to the lower effective drug exposure compared to planktonic cultures. These results provide a framework for the selection process of resistant variants and the evolutionary mechanisms in the two different growth conditions. Copyright © 2018 American Society for Microbiology.

Xylella fastidiosa Differentially Accumulates Mineral Elements in Biofilm and Planktonic Cells

PubMed Central

Cobine, Paul A.; Cruz, Luisa F.; Navarrete, Fernando; Duncan, Daniel; Tygart, Melissa; De La Fuente, Leonardo

2013-01-01

Xylella fastidiosa is a bacterial plant pathogen that infects numerous plant hosts. Disease develops when the bacterium colonizes the xylem vessels and forms a biofilm. Inductively coupled plasma optical emission spectroscopy was used to examine the mineral element content of this pathogen in biofilm and planktonic states. Significant accumulations of copper (30-fold), manganese (6-fold), zinc (5-fold), calcium (2-fold) and potassium (2-fold) in the biofilm compared to planktonic cells were observed. Other mineral elements such as sodium, magnesium and iron did not significantly differ between biofilm and planktonic cells. The distribution of mineral elements in the planktonic cells loosely mirrors the media composition; however the unique mineral element distribution in biofilm suggests specific mechanisms of accumulation from the media. A cell-to-surface attachment assay shows that addition of 50 to 100 µM Cu to standard X. fastidiosa media increases biofilm, while higher concentrations (>200 µM) slow cell growth and prevent biofilm formation. Moreover cell-to-surface attachment was blocked by specific chelation of copper. Growth of X. fastidiosa in microfluidic chambers under flow conditions showed that addition of 50 µM Cu to the media accelerated attachment and aggregation, while 400 µM prevented this process. Supplementation of standard media with Mn showed increased biofilm formation and cell-to-cell attachment. In contrast, while the biofilm accumulated Zn, supplementation to the media with this element caused inhibited growth of planktonic cells and impaired biofilm formation. Collectively these data suggest roles for these minerals in attachment and biofilm formation and therefore the virulence of this pathogen. PMID:23349991

Mixed species biofilms of Fusobacterium necrophorum and Porphyromonas levii impair the oxidative response of bovine neutrophils in vitro.

PubMed

Lockhart, Joey S; Buret, Andre G; Ceri, Howard; Storey, Douglas G; Anderson, Stefanie J; Morck, Douglas W

2017-10-01

Biofilms composed of anaerobic bacteria can result in persistent infections and chronic inflammation. Host immune cells have difficulties clearing biofilm-related infections and this can result in tissue damage. Neutrophils are a vital component of the innate immune system and help clear biofilms. The comparative neutrophilic response to biofilms versus planktonic bacteria remains incompletely understood, particularly in the context of mixed infections. The objective of this study was to generate mixed species anaerobic bacterial biofilms composed of two opportunistic pathogens, Fusobacterium necrophorum and Porphyromonas levii, and evaluate neutrophil responses to extracellular fractions from both biofilms and planktonic cell co-cultures of the same bacteria. Purified bovine neutrophils exposed to culture supernatants from mixed species planktonic bacteria showed elevated oxidative activity compared to neutrophils exposed to biofilms composed of the same bacteria. Bacterial lipopolysaccharide plays a significant role in the stimulation of neutrophils; biofilms produced substantially more lipopolysaccharide than planktonic bacteria under these experimental conditions. Removal of lipopolysaccharide significantly reduced neutrophil oxidative response to culture supernatants of planktonic bacteria. Oxidative responses to LPS-removed biofilm supernatants and LPS-removed planktonic cell supernatants were similar. The limited neutrophil response to biofilm bacteria observed in this study supports the reduced ability of the innate immune system to eradicate biofilm-associated infections. Lipopolysaccharide is likely important in neutrophil response; however, the presence of other extracellular, immune modifying molecules in the bacterial media also appears to be important in altering neutrophil function. Copyright © 2017 Elsevier Ltd. All rights reserved.

Xylella fastidiosa differentially accumulates mineral elements in biofilm and planktonic cells.

PubMed

Cobine, Paul A; Cruz, Luisa F; Navarrete, Fernando; Duncan, Daniel; Tygart, Melissa; De La Fuente, Leonardo

2013-01-01

Xylella fastidiosa is a bacterial plant pathogen that infects numerous plant hosts. Disease develops when the bacterium colonizes the xylem vessels and forms a biofilm. Inductively coupled plasma optical emission spectroscopy was used to examine the mineral element content of this pathogen in biofilm and planktonic states. Significant accumulations of copper (30-fold), manganese (6-fold), zinc (5-fold), calcium (2-fold) and potassium (2-fold) in the biofilm compared to planktonic cells were observed. Other mineral elements such as sodium, magnesium and iron did not significantly differ between biofilm and planktonic cells. The distribution of mineral elements in the planktonic cells loosely mirrors the media composition; however the unique mineral element distribution in biofilm suggests specific mechanisms of accumulation from the media. A cell-to-surface attachment assay shows that addition of 50 to 100 µM Cu to standard X. fastidiosa media increases biofilm, while higher concentrations (>200 µM) slow cell growth and prevent biofilm formation. Moreover cell-to-surface attachment was blocked by specific chelation of copper. Growth of X. fastidiosa in microfluidic chambers under flow conditions showed that addition of 50 µM Cu to the media accelerated attachment and aggregation, while 400 µM prevented this process. Supplementation of standard media with Mn showed increased biofilm formation and cell-to-cell attachment. In contrast, while the biofilm accumulated Zn, supplementation to the media with this element caused inhibited growth of planktonic cells and impaired biofilm formation. Collectively these data suggest roles for these minerals in attachment and biofilm formation and therefore the virulence of this pathogen.

Measurement of thermal conductivity of materials down to 4.5 K for development of cryosorption pumps

NASA Astrophysics Data System (ADS)

Verma, Ravi; Behera, Upendra; Kasthurirengan, S.; Shivaprakash, N. C.; Udgata, S. S.; Gangradey, R.

2017-02-01

Cryosorption pumps belong to the class of entrapment or capture vacuum pumps and they retain the gas molecules by sorption and / or by condensation on its internal surfaces. An important aspect in their development is the proper adhesion of the activated carbon granules onto the metallic panel and their cooling to the lowest possible temperature by using high thermal conductivity adhesives for adhering the activated carbons. Hence, the thermal conductivity data of the select adhesives and activated carbons down to 4.5 K are quite essential, but they are not available in open literature. Towards this, an experimental setup has been developed to measure the thermal conductivities of samples with high or low thermal conductivities from 300 K to 4.5 K, with liquid helium using a Janis SuperVariTemp cryostat. This paper presents the details of the experimental setup and the results of our studies on (i) standard samples and (ii) epoxy based adhesives samples. The above studies will enable to make the right choice of adhesives for the development of cryosorption pumps.

A new species of Caligus Müller, 1785 (Copepoda: Siphonostomatoida: Caligidae) from coral reef plankton in the Mexican Caribbean.

PubMed

Suárez-Morales, Eduardo; Gasca, Rebeca

2016-10-11

During a survey of the zooplankton community of a protected reef system on the southern coast of the Mexican Caribbean, many female and male specimens of an undescribed species of Caligus Müller, 1785 were collected. The new species closely resembles C. wilsoni Delamare Deboutteville & Nunez-Ruivo, 1958 and C. belones (Krøyer, 1863) and has affinities with C. balistae Steenstrup & Lütken, 1861 and C. longipedis Bassett-Smith, 1898, all known from the Caribbean Sea and adjacent waters of the north-western Atlantic Ocean. Caligus ilhoikimi sp. nov., is described in full and illustrations of both sexes are also provided. The new species differs from C. wilsoni and C. belones in several features, including the shape of the sternal furca, the shape and proportions of the genital complex and abdomen, the lack of accessory processes on the distal elements of leg 1 exopod, and the presence of a lateral spine on the third exopodal segment of leg 2. This is the seventh species of Caligus known from waters of the Atlantic seaboard of Mexico and the 32nd species of the genus recorded in Mexican waters. The specimens were caught with a plankton light trap. The unusually high number of individuals captured and the fact that the sample was monospecific (i.e. only adults of this caligid species were collected) suggests that it is a chiefly planktonic form. This is a mode of life recently revealed as being more common among caligids than previously thought.

Resting Stage of Plankton Diversity from Singapore Coastal Water: Implications for Harmful Algae Blooms and Coastal Management

NASA Astrophysics Data System (ADS)

Trottet, Aurore; Wilson, Bryan; Sew Wei Xin, Genevieve; George, Christaline; Casten, Lemuel; Schmoker, Claire; Rawi, Nurul Syazana Binte Modh; Chew Siew, Moon; Larsen, Ole; Eikaas, Hans S.; Tun, Karenne; Drillet, Guillaume

2018-02-01

Resting strategies of planktonic organisms are important for the ecological processes of coastal waters and their impacts should be taken into consideration in management of water bodies used by multiple industries. We combined different approaches to evaluate the importance of resting stages in Singapore coastal waters. We used molecular approaches to improve the knowledge on Singapore biodiversity, we sampled and extracted cysts from sediments to evaluate the density of resting stages in Johor Strait, and we compared systematically information on Singapore planktonic biodiversity to existing published information on resting stages from these reported organisms. This is the first study evaluating the importance of resting stages in Singapore waters. Above 120 species reported in Singapore are known to produce resting stages though no previous work has ever been done to evaluate the importance of these strategies in these waters. The results from the resting stage survey confirmed 0.66 to 5.34 cyst g-1 dry weight sediment were present in the Johor Strait suggesting that cysts may be flushed by tidal currents into and out of the strait regularly. This also suggest that the blooms occurring in Singapore are likely due to secondary growth of Harmful Algae Bloom species in the water rather than from direct germination of cysts from sediment. Finally, we discuss the importance of these resting eggs for three main national industries in Singapore (shipping, marine aquaculture and provision of drinking water through seawater desalination). We argue that this study will serve as a baseline for some of the future management of Singapore waters.

The effects of hydraulic works and wetlands function in the Salado-River basin (Buenos Aires, Argentina).

PubMed

Bazzuri, M E; Gabellone, N A; Solari, L C

2018-01-26

Man-made activities exert great influences on fluvial ecosystems, with lowland rivers being substantially modified through agricultural land use and populations. The recent construction of drainage canals in the upper stretch of the Salado-River basin caused the mobilization of huge amounts of salts formerly stored in the groundwater. The main aim of this work was to analyze the effect of the discharges of those canals into the Salado-River water, under different hydrologic conditions, and the role of the wetlands and shallow lakes placed along the canals' system. Physicochemical variables were measured and water samples were taken during times of high water, mean flows, drought, and extreme drought. The environmental variables and the plankton development were related to the hydrologic regime and reached minimum values during floods because of low temperatures and dilution. Local effects on the water's ionic composition became pronounced during droughts because of groundwater input. Nutrient concentrations were mainly associated with point wastewater discharges. Conductivity, ion concentrations, total plankton biomass, and species richness increased in the Salado-River downstream site, after the canals' discharges. The artificial-drainage system definitely promotes the incorporation of salts into the Salado-River basin. In this scenario, a careful hydraulic management is needed to take into account this issue of secondary salinization that threatens the economic exploitation of the region. The wetlands present in this study acted as service environments not only helping to reduce salt, nutrient, and suspended-solid concentrations downstream but also contributing a plethora of species and plankton biomass into the Salado-River main course.

Encounter with mesoscale eddies enhances survival to settlement in larval coral reef fishes

PubMed Central

Shulzitski, Kathryn; Sponaugle, Su; Hauff, Martha; Walter, Kristen D.; Cowen, Robert K.

2016-01-01

Oceanographic features, such as eddies and fronts, enhance and concentrate productivity, generating high-quality patches that dispersive marine larvae may encounter in the plankton. Although broad-scale movement of larvae associated with these features can be captured in biophysical models, direct evidence of processes influencing survival within them, and subsequent effects on population replenishment, are unknown. We sequentially sampled cohorts of coral reef fishes in the plankton and nearshore juvenile habitats in the Straits of Florida and used otolith microstructure analysis to compare growth and size-at-age of larvae collected inside and outside of mesoscale eddies to those that survived to settlement. Larval habitat altered patterns of growth and selective mortality: Thalassoma bifasciatum and Cryptotomus roseus that encountered eddies in the plankton grew faster than larvae outside of eddies and likely experienced higher survival to settlement. During warm periods, T. bifasciatum residing outside of eddies in the oligotrophic Florida Current experienced high mortality and only the slowest growers survived early larval life. Such slow growth is advantageous in nutrient poor habitats when warm temperatures increase metabolic demands but is insufficient for survival beyond the larval stage because only fast-growing larvae successfully settled to reefs. Because larvae arriving to the Straits of Florida from distant sources must spend long periods of time outside of eddies, our results indicate that they have a survival disadvantage. High productivity features such as eddies not only enhance the survival of pelagic larvae, but also potentially increase the contribution of locally spawned larvae to reef populations. PMID:27274058

Late Quaternary high resolution micropaleontological and sedimentological records in the Gulf of Cadiz.

NASA Astrophysics Data System (ADS)

Balestra, B.; Ducassou, E.; Zarikian, C.; Bout-Roumazeilles, V.; Flores, J. A.; Paytan, A.

2017-12-01

We present preliminary micropaleontological and sedimentological data from IODP Site U1390 (Expedition 339), located in the central middle slope of the Gulf of Cadiz, since the last glaciation. This site has been targeted for reconstruction of regional paleo-circulation as it shows particularly high sedimentation rates, throughout the Holocene and the Last Glacial Maximum (LGM). We use micropaleontological and sedimentological proxies to understand the bottom current variations through time and the ecological conditions at the sea surface (planktonic foraminifer, pteropod and nannofossil assemblages), and the sea bottom (ostracod assemblages). Eleven samples, chosen at transitions of planktonic foraminifer assemblages, have been dated by AMS radiocarbon analyses. Preliminary results from benthic ostracod assemblages show variations in bottom water ventilation and food supply. Planktonic foraminifer assemblages clearly show the well-known cold events of this period such as the Younger Dryas and Heinrich stadial associated to coarser sediment, and warmer phases such as the Bölling-Allerød associated to muddy sediment. Other bio-events within the Holocene period are also recorded. The preservation of the coccolithophore assemblages is good to moderate. Coccolith abundances (expressed in coccoliths/gr of sediment) show higher values during the Holocene and generally are like assemblages previously reported for the same area. Implications for characterization of the Holocene, the last termination and LGM ecological conditions at high resolution and their potential fluctuations (i.e. amplitude and magnitude) under the influence of the lower core of the Mediterranean Outflow Water (MOW), with this multi proxy approach based on sedimentological, and paleontological data will be discussed.

Thin magnesium layer confirmed as an antibacterial and biocompatible implant coating in a co‑culture model.

PubMed

Zaatreh, Sarah; Haffner, David; Strauss, Madlen; Dauben, Thomas; Zamponi, Christiane; Mittelmeier, Wolfram; Quandt, Eckhard; Kreikemeyer, Bernd; Bader, Rainer

2017-04-01

Implant-associated infections commonly result from biofilm‑forming bacteria and present severe complications in total joint arthroplasty. Therefore, there is a requirement for the development of biocompatible implant surfaces that prevent bacterial biofilm formation. The present study coated titanium samples with a thin, rapidly corroding layer of magnesium, which were subsequently investigated with respect to their antibacterial and cytotoxic surface properties using a Staphylococcus epidermidis (S. epidermidis) and human osteoblast (hOB) co‑culture model. Primary hOBs and S. epidermidis were co‑cultured on cylindrical titanium samples (Ti6Al4V) coated with pure magnesium via magnetron sputtering (5 µm thickness) for 7 days. Uncoated titanium test samples served as controls. Vital hOBs were identified by trypan blue staining at days 2 and 7. Planktonic S. epidermidis were quantified by counting the number of colony forming units (CFU). The quantification of biofilm‑bound S. epidermidis on the surfaces of test samples was performed by ultrasonic treatment and CFU counting at days 2 and 7. The number of planktonic and biofilm‑bound S. epidermidis on the magnesium‑coated samples decreased by four orders of magnitude when compared with the titanium control following 7 days of co‑culture. The number of vital hOBs on the magnesium‑coated samples was observed to increase (40,000 cells/ml) when compared with the controls (20,000 cells/ml). The results of the present study indicate that rapidly corroding magnesium‑coated titanium may be a viable coating material that possesses antibacterial and biocompatible properties. A co‑culture test is more rigorous than a monoculture study, as it accounts for confounding effects and assesses additional interactions that are more representative of in vivo situations. These results provide a foundation for the future testing of this type of surface in animals.

Thin magnesium layer confirmed as an antibacterial and biocompatible implant coating in a co-culture model

PubMed Central

Zaatreh, Sarah; Haffner, David; Strauss, Madlen; Dauben, Thomas; Zamponi, Christiane; Mittelmeier, Wolfram; Quandt, Eckhard; Kreikemeyer, Bernd; Bader, Rainer

2017-01-01

Implant-associated infections commonly result from biofilm-forming bacteria and present severe complications in total joint arthroplasty. Therefore, there is a requirement for the development of biocompatible implant surfaces that prevent bacterial biofilm formation. The present study coated titanium samples with a thin, rapidly corroding layer of magnesium, which were subsequently investigated with respect to their antibacterial and cytotoxic surface properties using a Staphylococcus epidermidis (S. epidermidis) and human osteoblast (hOB) co-culture model. Primary hOBs and S. epidermidis were co-cultured on cylindrical titanium samples (Ti6Al4V) coated with pure magnesium via magnetron sputtering (5 µm thickness) for 7 days. Uncoated titanium test samples served as controls. Vital hOBs were identified by trypan blue staining at days 2 and 7. Planktonic S. epidermidis were quantified by counting the number of colony forming units (CFU). The quantification of biofilm-bound S. epidermidis on the surfaces of test samples was performed by ultrasonic treatment and CFU counting at days 2 and 7. The number of planktonic and biofilm-bound S. epidermidis on the magnesium-coated samples decreased by four orders of magnitude when compared with the titanium control following 7 days of co-culture. The number of vital hOBs on the magnesium-coated samples was observed to increase (40,000 cells/ml) when compared with the controls (20,000 cells/ml). The results of the present study indicate that rapidly corroding magnesium-coated titanium may be a viable coating material that possesses antibacterial and biocompatible properties. A co-culture test is more rigorous than a monoculture study, as it accounts for confounding effects and assesses additional interactions that are more representative of in vivo situations. These results provide a foundation for the future testing of this type of surface in animals. PMID:28260022

A Field and Classroom Exercise for Measuring the Species Diversity of Freshwater Plankton Communities.

ERIC Educational Resources Information Center

Kirby, John M.; Reinking, Larry N.

1994-01-01

Utilizing the vast diversity of planktonic communities that exist in local, temperate ponds and lakes, the authors describe a simple exercise that gives students both a field and classroom experience in biodiversity. (ZWH)

C-IMAGE Teachers at Sea Maiden Voyages: Promoting Authentic Scientific Research in the Classroom

NASA Astrophysics Data System (ADS)

Hine, A. C.; Greely, T.; Lodge, A.

2012-12-01

The Center for Integrated Modeling & Analysis of Gulf Ecosystems (C-IMAGE) is one of eight consortia participating in the BP/Gulf of Mexico Research Initiative. C-IMAGE is a comprehensive research consortium of 13 national and international universities tasked with evaluating the environmental impacts of the 2010 Deepwater Horizon Oil Spill (DWH) on coastal ecosystems, the water column and the sea floor. The associated C-IMAGE research cruises provide a unique opportunity for Florida's K12 science educators to participate in the data collection and collaboration process alongside marine scientists as a member of the scientific crew. The mission of the C-IMAGE cruises is to help to answer several fundamental questions about the DWH event and subsequent impacts on the plankton population, reef and fish communities and the microbial communities. Deep sea sediment samples, plankton and fishes collected during these expeditions are the data sources. Sampling activities include the use of the SIPPER plankton sampler, multi-core sediment system and long line surveys to assess fish health. While at sea teachers participate in the at sea research and serve as the ship to shore communicator via social media (FB, Twitter, daily blogs) and LIVE video conferencing with formal and informal classrooms. Marine scientists, post-docs and graduate students participating in the C-IMAGE cruises collaborate with the teacher on board to communicate the science, technology and life at sea experiences to educational and general audiences. Upon return to shore, teachers will translate their At Sea learning experience to understandable inquiry-based lessons about the science and technology encompassing the northern Gulf of Mexico ecology, the DWH event and subsequent impacts. Lessons developed from the cruises will inform a future series of C-IMAGE Teacher Professional Developments during Phase 2 of Outreach activities. The results from three Gulf of Mexico expeditions (Aug-Nov) will be presented: related to teachers' working knowledge of research and sampling procedures as well as metrics for the potential value-added of social media as a mechanism for communicating research with formal and informal audiences. C-IMAGE teachers will engage in research with experts in biological and chemical modeling, marine resource assessment, sedimentary geochemistry and toxicology. This research is made possible by a grant from BP/The Gulf of Mexico Research Initiative. Contract #SA 12-10/GoMRI-007;

Badenian planktonic foraminifera as climate proxies at the southern margin of the Central Paratethys (Ugljevik, Bosnia and Herzegovina)

NASA Astrophysics Data System (ADS)

Theobalt, D.; Mandic, O.

2012-04-01

Badenian transgression is well exposed in the open coal pit Bogutovo Selo near Ugljevik in NE Bosnia and Herzegovina, located at the southern margin of the Pannonian Basin. Middle Miocene marine sediments superpose Late Oligocene lignite bearing lacustrine deposits. The studied succession is about 62 m thick and includes the uppermost part of the lake deposits, comprising clays, sands and coal seams, followed by marine sediments. These consist mainly of gray marls, which show some intercalations of thin, dark clay layers, volcanic ash layers and fossiliferous beds as well as carbonate bodies of different thicknesses. The presence of Orbulina suturalis allows a biostratigraphic correlation of the marine transgression horizon with the upper part of the Lower Badenian. 28 planktonic foraminiferal assemblages were investigated using quantitative analysis to evaluate the climate development during the initial marine flooding by the Paratethys Sea. Further on the samples were statistically treated to find out if there are significant differences in assemblages from the marine sediments deposited before and after the initial Serravallian cooling event coinciding with the onset of the Middle Badenian (Wielician) Salinity Crisis. 17 planktonic foraminiferal species were grouped by their palaeoclimatic significance into cool (Globigerina bulloides, G. praebulloides, G. diplostoma, G. concinna, G. tarchanensis, G. falconensis, Turborotalita quinqueloba), temperate (Globorotalia bykovae, G. transsylvanica, G. peripheroronda, Globoturborotalita woodi), warm-temperate (Globigerinella regularis, Tenuitellinata angustiumbilicata) and warm indicators (Globigerinoides trilobus, G. quadrilobatus, Orbulina suturalis, Globoquadrina cf. altispira). The counts were performed mainly on generic level. Upper Lower Badenian (Upper Lagenidae Zone) is represented in the marly succession in the lower part of the section, where the foraminiferal assemblages indicate warmer conditions with high percentages of warm water indicators. A distinct cooling is shown in the uppermost passage of the lower part, which is followed by a 13 m thick carbonate platform of Wielician age. This transition corresponds to the gradual shift from Greenhouse into Icehouse climate after the late Middle Miocene Climatic Optimum. The superposing marly deposits of the late Wielician age (Earliest Serravallian) contain planktonic foraminiferal assemblages that indicate cooler conditions. The general percentage of cool water indicators is much higher than in the lower Badenian sediments.

Localization and Tracking of Submerged Phytoplankton Bloom Patches by an Autonomous Underwater Vehicle

NASA Astrophysics Data System (ADS)

Godin, M. A.; Ryan, J. P.; Zhang, Y.; Bellingham, J. G.

2012-12-01

Observing plankton in their drifting frame of reference permits effective studies of marine ecology from the perspective of microscopic life itself. By minimizing variation caused simply by advection, observations in a plankton-tracking frame of reference focus measurement capabilities on the processes that influence the life history of populations. Further, the patchy nature of plankton populations motivates use of sensor data in real-time to resolve patch boundaries and adapt observing resources accordingly. We have developed capabilities for population-centric plankton observation and sampling by autonomous underwater vehicles (AUVs). Our focus has been on phytoplankton populations, both because of their ecological significance - as the core of the oceanic food web and yet potentially harmful under certain bloom conditions, as well as the accessibility of their signal to simple optical sensing. During the first field deployment of these capabilities in 2010, we tracked a phytoplankton patch containing toxigenic diatoms and found that their toxicity correlated with exposure to resuspended sediments. However, this first deployment was labor intensive as the AUV drove in a pre-programmed pattern centered around a patch-marking drifter; it required a boat deployment of the patch-marking drifter and required full-time operators to periodically estimate of the position of the patch with respect to the drifter and adjust the AUV path accordingly. In subsequent field experiments during 2011 and 2012, the Tethys-class long-range AUVs ran fully autonomous patch tracking algorithms which detected phytoplankton patches and continually updated estimates of each patch center by driving adaptive patterns through the patch. Iterations of the algorithm were generated to overcome the challenges of tracking advecting and evolving patches while minimizing human involvement in vehicle control. Such fully autonomous monitoring will be necessary to perform long-term in-situ observation of the full growth and decay cycle of bloom patches. Doing so will enhance our understanding of the temporal and spatial dynamics of bloom patches and the observable conditions that lead to bloom formation, ultimately improving our ability to predict the evolution of harmful algal blooms (HABs) and provide warnings for the fishing and tourism industries.

Temporal genetic structure in a poecilogonous polychaete: the interplay of developmental mode and environmental stochasticity

PubMed Central

2014-01-01

Background Temporal variation in the genetic structure of populations can be caused by multiple factors, including natural selection, stochastic environmental variation, migration, or genetic drift. In benthic marine species, the developmental mode of larvae may indicate a possibility for temporal genetic variation: species with dispersive planktonic larvae are expected to be more likely to show temporal genetic variation than species with benthic or brooded non-dispersive larvae, due to differences in larval mortality and dispersal ability. We examined temporal genetic structure in populations of Pygospio elegans, a poecilogonous polychaete with within-species variation in developmental mode. P. elegans produces either planktonic, benthic, or intermediate larvae, varying both among and within populations, providing a within-species test of the generality of a relationship between temporal genetic variation and larval developmental mode. Results In contrast to our expectations, our microsatellite analyses of P. elegans revealed temporal genetic stability in the UK population with planktonic larvae, whereas there was variation indicative of drift in temporal samples of the populations from the Baltic Sea, which have predominantly benthic and intermediate larvae. We also detected temporal variation in relatedness within these populations. A large temporal shift in genetic structure was detected in a population from the Netherlands, having multiple developmental modes. This shift could have been caused by local extiction due to extreme environmental conditions and (re)colonization by planktonic larvae from neighboring populations. Conclusions In our study of P. elegans, temporal genetic variation appears to be due to not only larval developmental mode, but also the stochastic environment of adults. Large temporal genetic shifts may be more likely in marine intertidal habitats (e.g. North Sea and Wadden Sea) which are more prone to environmental stochasticity than the sub-tidal Baltic habitats. Sub-tidal and/or brackish (less saline) habitats may support smaller P. elegans populations and these may be more susceptible to the effects of random genetic drift. Moreover, higher frequencies of asexual reproduction and the benthic larval developmental mode in these populations leads to higher relatedness and contributes to drift. Our results indicate that a general relationship between larval developmental mode and temporal genetic variation may not exist. PMID:24447386

Temporal genetic structure in a poecilogonous polychaete: the interplay of developmental mode and environmental stochasticity.

PubMed

Kesäniemi, Jenni E; Mustonen, Marina; Boström, Christoffer; Hansen, Benni W; Knott, K Emily

2014-01-22

Temporal variation in the genetic structure of populations can be caused by multiple factors, including natural selection, stochastic environmental variation, migration, or genetic drift. In benthic marine species, the developmental mode of larvae may indicate a possibility for temporal genetic variation: species with dispersive planktonic larvae are expected to be more likely to show temporal genetic variation than species with benthic or brooded non-dispersive larvae, due to differences in larval mortality and dispersal ability. We examined temporal genetic structure in populations of Pygospio elegans, a poecilogonous polychaete with within-species variation in developmental mode. P. elegans produces either planktonic, benthic, or intermediate larvae, varying both among and within populations, providing a within-species test of the generality of a relationship between temporal genetic variation and larval developmental mode. In contrast to our expectations, our microsatellite analyses of P. elegans revealed temporal genetic stability in the UK population with planktonic larvae, whereas there was variation indicative of drift in temporal samples of the populations from the Baltic Sea, which have predominantly benthic and intermediate larvae. We also detected temporal variation in relatedness within these populations. A large temporal shift in genetic structure was detected in a population from the Netherlands, having multiple developmental modes. This shift could have been caused by local extiction due to extreme environmental conditions and (re)colonization by planktonic larvae from neighboring populations. In our study of P. elegans, temporal genetic variation appears to be due to not only larval developmental mode, but also the stochastic environment of adults. Large temporal genetic shifts may be more likely in marine intertidal habitats (e.g. North Sea and Wadden Sea) which are more prone to environmental stochasticity than the sub-tidal Baltic habitats. Sub-tidal and/or brackish (less saline) habitats may support smaller P. elegans populations and these may be more susceptible to the effects of random genetic drift. Moreover, higher frequencies of asexual reproduction and the benthic larval developmental mode in these populations leads to higher relatedness and contributes to drift. Our results indicate that a general relationship between larval developmental mode and temporal genetic variation may not exist.

Maximum Oxygen Content of Flowing Eutectic NaK in a Stainless Steel System.

DTIC Science & Technology

EUTECTICS, ALKALI METAL ALLOYS), (*LIQUID METALS, OXYGEN), (*POTASSIUM ALLOYS, SODIUM ALLOYS), LIQUID METAL PUMPS , FLUID FLOW, CONCENTRATION...CHEMISTRY), HIGH TEMPERATURE, FLOWMETERS, STAINLESS STEEL, ELECTROMAGNETIC PUMPS , TEMPERATURE, SAMPLING, LIQUID METAL COOLANTS, OXIDES, CRYSTALLIZATION.

[The heating effect of the Er3+/Yb3+ doped Y2O3 nanometer powder by 980 nm laser diode pumping].

PubMed

Zheng, Long-Jiang; Gao, Xiao-Yang; Liu, Hai-Long; Li, Bing; Xu, Chen-Xi

2013-01-01

The Er3+ and Yb3+ doped Y2O3 Nano powder was prepared by sol-gel method. Based on 2H11/2 --> 4I15/2 and 4S3/2 --> 4I15/2 green conversion luminescence intensity rate of Er3+, the sample surface temperature changes caused by the increase in 980 nm diode laser pump power were studied. The results show that with pump power increasing, the sample surface temperature substantially rises. And the surface temperature reached to 820 K when the pump power was 1 000 mW. The phenomenon plays an important role in the analysis of upconversion process, especially with saturation power. And this feature has a potential application prospect in the biomedicine, soft tissue hole burning as well as the field of temperature sensing materials.

Software defined photon counting system for time resolved x-ray experiments.

PubMed

Acremann, Y; Chembrolu, V; Strachan, J P; Tyliszczak, T; Stöhr, J

2007-01-01

The time structure of synchrotron radiation allows time resolved experiments with sub-100 ps temporal resolution using a pump-probe approach. However, the relaxation time of the samples may require a lower repetition rate of the pump pulse compared to the full repetition rate of the x-ray pulses from the synchrotron. The use of only the x-ray pulse immediately following the pump pulse is not efficient and often requires special operation modes where only a few buckets of the storage ring are filled. We designed a novel software defined photon counting system that allows to implement a variety of pump-probe schemes at the full repetition rate. The high number of photon counters allows to detect the response of the sample at multiple time delays simultaneously, thus improving the efficiency of the experiment. The system has been successfully applied to time resolved scanning transmission x-ray microscopy. However, this technique is applicable more generally.

Accumulation of polycyclic aromatic hydrocarbons by Neocalanus copepods in Port Valdez, Alaska.

PubMed

Carls, Mark G; Short, Jeffrey W; Payne, James

2006-11-01

Sampling zooplankton is a useful strategy for observing trace hydrocarbon concentrations in water because samples represent an integrated average over a considerable effective sampling volume and are more representative of the sampled environment than discretely collected water samples. We demonstrate this method in Port Valdez, Alaska, an approximately 100 km(2) basin that receives about 0.5-2.4 kg of polynuclear aromatic hydrocarbons (PAH) per day. Total PAH (TPAH) concentrations (0.61-1.31 microg/g dry weight), composition, and spatial distributions in a lipid-rich copepod, Neocalanus were consistent with the discharge as the source of contamination. Although Neocalanus acquire PAH from water or suspended particulate matter, total PAH concentrations in these compartments were at or below method detection limits, demonstrating plankton can amplify trace concentrations to detectable levels useful for study.

The Effects of Industrial Wastes of Memphis and Shelby County on Primary Planktonic Producers

ERIC Educational Resources Information Center

Staub, R.; And Others

1970-01-01

Diversity and total numbers of plankton, particularly diatoms, were analyzed and correlated with physical factors of water. Diversity index values appear to provide an indication of pollution of water by industrial and domestic wastes. (AL)

Investigating Passively Floating and Weakly Swimming Organisms: An Activity for Beginning Marine Education Students.

ERIC Educational Resources Information Center

Schlenker, Richard M.

This document presents the outline of a marine biology science unit designed to introduce students to the study and collection of plankton. Extensive details on plankton collections and a seven-item quiz are included. (SL)