Assessment of aquatic macroinvertebrate communities in the Autauga Creek watershed, Autauga County, Alabama, 2009

USGS Publications Warehouse

Mooty, Will S.; Gill, Amy C.

2011-01-01

Only four families within the Ephemeroptera, Plecoptera, and Trichoptera orders were found during a 1999 survey of aquatic macroinvertebrates in Autauga Creek, Autauga County, Alabama, by the Alabama Department of Environmental Management. The low number of taxa of Ephemeroptera, Plecoptera, and Trichoptera families indicated that the aquatic macroinvertebrate community was in poor condition, and the creek was placed on the Alabama Department of Environmental Management 303(d) list. The U.S. Geological Survey conducted a study in 2009 to provide data for the Alabama Department of Environmental Management and other water management agencies to re-evaluate aquatic macroinvertebrate communities in Autauga Creek to see if they meet Alabama Department of Environmental Management water-quality criteria. Aquatic macroinvertebrate communities were evaluated at three sites in the Autauga Creek watershed. Macroinvertebrates were sampled at two sites on Autauga Creek and one on Bridge Creek, the largest tributary to Autauga Creek. Water-quality field parameters were assessed at 11 sites. During the 2009 sampling, 12 families within the orders of Ephemeroptera, Plecoptera, Trichoptera were found at the Alabama Department of Environmental Management's assessment site whereas only four were found in 1999. The upstream site on Autauga Creek had consistently higher numbers of taxa than the Bridge Creek site and the lower site on Autauga Creek which is the Alabama Department of Environmental Management's assessment site. Chironomid richness was noticeably higher on the two Autauga Creek sites than the Bridge Creek site.

Two new species in the subfamily Perlinae (Plecoptera, Perlidae) from China.

PubMed

Wang, Hong-Liang; Wang, Guo-Quan; Li, Wei-Hai

2013-01-01

Two species in the genera Neoperla and Kamimuria (Plecoptera: Perlidae) from China are described as new: Kamimuria guangxia sp. n., and Neoperla mesostyla sp. n. The new species are compared to similar taxa.

Two new species in the subfamily Perlinae (Plecoptera, Perlidae) from China

PubMed Central

Wang, Hong–Liang; Wang, Guo–Quan; Li, Wei–Hai

2013-01-01

Abstract Two species in the genera Neoperla and Kamimuria (Plecoptera: Perlidae) from China are described as new: Kamimuria guangxia sp. n., and Neoperla mesostyla sp. n. The new species are compared to similar taxa. PMID:23840166

The decapod red pigment-concentrating hormone (Panbo-RPCH) is the first identified neuropeptide of the order Plecoptera and is interpreted as homoplastic character state.

PubMed

Gäde, Gerd; Marco, Heather G

2015-09-15

This paper presents the first neuropeptide structure, identified by mass spectrometry, in two species of Plectoptera (stoneflies) and in one species of the coleopteran family Lycidae. In all three species, the octapeptide Panbo-RPCH (first identified in Pandalus borealis as a red pigment-concentrating hormone: pGlu-Leu-Asn-Phe-Ser-Pro-Gly-Trp amide) is present. A review of the literature available on invertebrate neuropeptides that are identified or predicted from expressed sequence tags, transcriptome shotgun assemblies, and from fully sequenced genomes, show that Panbo-RPCH is found in Malacostraca (Crustacea) and certain hemipteran Heteroptera (Insecta). To date, Panbo-RPCH has not been shown present in non-Malacostracan crustaceans, nor in basal taxa of the Insecta (Archaeognatha, Zygentoma, Ephemeroptera, Odonata). The present data adds to knowledge on the distribution of Panbo-RPCH, and when taking into account the most accepted, current phylogenetics of the Crustacea-Hexapoda relationship, this distribution of Panbo-RPCH in Malacostraca, Plecoptera, some hemipteran Heteroptera and in Coleoptera (Lycidae) can best be explained by homoplasy, implying parallel evolution. Copyright © 2015 Elsevier Inc. All rights reserved.

Effects of Reservoir Releases on Water Quality, Macroinvertebrates, and Fish in Tailwaters: Field Study Results.

DTIC Science & Technology

1983-02-01

abundant at station 1 included Simuliidae, Culicidae, and Trichoptera. Organisms more common to natural streams, such as Ephemeroptera, Plecoptera ...20 4 Culicidae 65 36 Ceratopogonidae 4 2 Trichoptera 56 25 Ephemeroptera 10 180 Plecoptera 1 10 Coleoptera 13 2 Lepidoptera 9 0 Hydracarima. 2 24... Plecoptera 0 0 25 Coleoptera 18 0 27 Odonata 86 43 156 Hydracarina 670 258 204 Oligochaeta 3,929 612 854 Hirudinea 97 2 22 Nema toda 208 74 44 Amphipoda

Key to Plecoptera nymphs from the Brazilian Amazon (Insecta).

PubMed

Ribeiro, José Moacir Ferreira; Gorayeb, Inocêncio DE Sousa

2016-12-19

Nymphs of 22 species of Plecoptera from the Brazilian Amazon are keyed and illustrated to enhance their usefulness as water quality indicator taxa. Four described species of Anacroneuria, two species of Macrogynoplax, and two species of Enderleina have been associated with adults: Anacroneuria marlieri, A. manauensis, A. minuta, A. singularis, M. delicata, M. pulchra, E. froehlichi, and E. flinti. Nymphs of 14 additional morphospecies not yet associated with adults are included. Characters of the head, pronotum, mesonotum, and metanotum are used to distinguish late instar nymphs.

Louisiana waterthrush and benthic macroinvertebrate response to shale gas development

USGS Publications Warehouse

Wood, Petra; Frantz, Mack W.; Becker, Douglas A.

2016-01-01

Because shale gas development is occurring over large landscapes and consequently is affecting many headwater streams, an understanding of its effects on headwater-stream faunal communities is needed. We examined effects of shale gas development (well pads and associated infrastructure) on Louisiana waterthrush Parkesia motacilla and benthic macroinvertebrate communities in 12 West Virginia headwater streams in 2011. Streams were classed as impacted (n = 6) or unimpacted (n = 6) by shale gas development. We quantified waterthrush demography (nest success, clutch size, number of fledglings, territory density), a waterthrush Habitat Suitability Index, a Rapid Bioassessment Protocol habitat index, and benthic macroinvertebrate metrics including a genus-level stream-quality index for each stream. We compared each benthic metric between impacted and unimpacted streams with a Student's t-test that incorporated adjustments for normalizing data. Impacted streams had lower genus-level stream-quality index scores; lower overall and Ephemeroptera, Plecoptera, and Trichoptera richness; fewer intolerant taxa, more tolerant taxa, and greater density of 0–3-mm individuals (P ≤ 0.10). We then used Pearson correlation to relate waterthrush metrics to benthic metrics across the 12 streams. Territory density (no. of territories/km of stream) was greater on streams with higher genus-level stream-quality index scores; greater density of all taxa and Ephemeroptera, Plecoptera, and Trichoptera taxa; and greater biomass. Clutch size was greater on streams with higher genus-level stream-quality index scores. Nest survival analyses (n = 43 nests) completed with Program MARK suggested minimal influence of benthic metrics compared with nest stage and Habitat Suitability Index score. Although our study spanned only one season, our results suggest that shale gas development affected waterthrush and benthic communities in the headwater streams we studied. Thus, these ecological effects of

An annotated list of aquatic insects of Fort Sill, Oklahoma, excluding diptera with notes on several new state records

USGS Publications Warehouse

Zuellig, R.E.; Kondratieff, B.C.; Schmidt, J.P.; Durfee, R.S.; Ruiter, D.E.; Prather, I.E.

2006-01-01

Qualitative collections of aquatic insects were made at Fort Sill, Lawton, Oklahoma, between 2002 and 2004. Ephemeroptera, Plecoptera, Trichoptera, Odonata, Coleoptera, aquatic Heteroptera, Neuroptera, and Megaloptera were targeted. Additional records are included from a survey that took place in 1999. More than 11,000 specimens from more than 290 collections were examined. Based on the current understanding of aquatic insect systematics, 276 taxa distributed over 8 orders, 46 families, and 141 genera were identified. Twenty-three of the 276 taxa, Plauditus texanus Wiersema, Tricorythodes allectus (Needham), Palmacorixa nana walleyi Hungerford, Climacia chapini Partin and Gurney, Oxyethira forcipata Mosely, Oxyethira janella Denning, Triaenodes helo Milne, Ylodes frontalis (Banks), Acilius fraternus Harris, Coptotomus loticus Hilsenhoff, Coptotomus venustus (Say), Desmopachria dispersa Crotch, Graphoderus liberus (Say), Hydrovatus pustulatus (Melsheimer), Hygrotus acaroides (LeConte), Liodessus flavicollis (LeConte), Uvarus texanus (Sharp), Gyrinus woodruffi Fall, Haliplus fasciatus Aube, Haliplus lewisii Crotch, Haliplus tortilipenis Brigham & Sanderson, Chaetarthria bicolor Sharp, Epimetopus costatus complex, and Hydrochus simplex LeConte are reported from Oklahoma for the first time. The three most diverse orders included Coleoptera (86 species), Odonata (67 species) and Trichoptera (59 species), and the remaining taxa were distributed among Heteroptera, (30 species), Ephemeroptera (21 species), Plecoptera (6 species), Megaloptera (4 species), and Neuroptera (3 species). Based on previous published records, many of the species collected during this study were expected to be found at Fort Sill; however, 276 taxa of aquatic insects identified from such a small geographic area is noteworthy, especially when considering local climatic conditions and the relatively small size of Fort Sill (38,300 ha). Despite agricultural practices in Oklahoma, the dust bowl days

A Benthic Community Index for streams in the Northern Lakes and Forests Ecoregion

USGS Publications Warehouse

Butcher, Jason T.; Stewart, Paul M.; Simon, Thomas P.

2003-01-01

Encompassing the northern glaciated section of the Midwest United States, the Northern Lakes and Forests Ecoregion is characterized by mixed conifer and deciduous forests and wetlands. Sites were randomly selected in the ecoregion using the Environmental Protection Agency's Environmental Monitoring and Assessment Program designed to develop an index of biotic integrity for wadeable streams. Macroinvertebrates were sampled during the fall of 1998 and 1999 using a multi-habitat, composite-sample method. Two hundred forty-six invertebrate taxa in 97 families were collected from 94 sites. Ten of 42 candidate metrics satisfied metric selection criteria, including six structural metrics (number of Ephemeroptera taxa, number of Diptera taxa, richness, Shannon-Wiener diversity, percent Trichoptera abundance, and percent Crustacea and Mollusca abundance), two functional metrics (number of Filterer taxa and number of Scraper taxa), and two conditional metrics (number of Ephemeroptera, Trichoptera, and Plecoptera taxa and Hilsenhoff Biotic Index). These metrics were used to develop a Benthic Community Index to assess the biological integrity of wadeable streams in the ecoregion. Index values ranged from 10 to 50, and scores from impaired sites were significantly different than non-impaired sites (P<0.001). Index values were divided into three narrative interpretations of biological integrity (poor, fair, and good). After further testing, the index may provide a useful biological assessment tool for resource managers in the ecoregion.

Health assessment using aqua-quality indicators of alpine streams (Khunjerab National Park), Gilgit, Pakistan.

PubMed

Ali, Salar; Gao, Junfeng; Begum, Farida; Rasool, Atta; Ismail, Muhammad; Cai, Yongjiu; Ali, Shaukat; Ali, Shujaat

2017-02-01

This preliminary research was conducted to evaluate the alpine stream health by using water quality as an indicator in Khunjerab National park of the Karakoram ranges located in Pak-China boarder Pakistan having altitude of 3660 m. This study investigated the stream health in the context of the presence or absence of sensitive species, their diversity, and their taxa richness. The water and macroinvertebrate samples were collected from 17 different locations from upstream and downstream of the river by using random sampling method. Macroinvertebrate samples were obtained using kick net (500-μm mesh size) and hand-picking method (NYSDEC). A total of 710 counts including 41 families of macroinvertebrates were recorded comprising of 7 orders including: Ephemeroptera (46%) being the most dominant group, Plecoptera (33%), Trichoptera (5%), Chironomidae (Diptera) (14%), Heteroptera (1%), and Coleoptera (1%). Ephemeroptera, Trichoptera, and Plecoptera (EPT) were found in abundance at the main source, Qarchanai, Dhee, and Tourqeen Nullah, as compared to the other locations of the stream. The most dominant macroinvertebrate was Ephemeroptera whose relative abundance is Pi = 0.49 by using the Shannon index. However, different statistical tools, including principal component analysis (PCA), cluster analysis (CA), ANOVA, and linear regression model, show a strong correlation between water quality and macroinvertebrates. The overall results of the biological indicators showed better ecological health at downstream compared to upstream. This study will provide basic information and understanding about the macroinvertebrates for future researchers, and the data will be helpful for upcoming research programs on alpine streams for the discovery and occurrences of macroinvertebrates and associated fauna.

At last, a Pennsylvanian stem-stonefly (Plecoptera) discovered

PubMed Central

2011-01-01

Background Stem-relatives of many winged insect orders have been identified among Pennsylvanian fossils (Carboniferous Period). Owing to their presumed 'basal' position in insect phylogeny, stoneflies were expected to occur at this period. However, no relative has ever been designated convincingly. Results In this paper, we report specimens belonging to a new fossil insect species collected from the Tupo Formation (Pennsylvanian; China). The wing venation of Gulou carpenteri gen. et sp. nov. exhibits character states diagnostic of the order Plecoptera, but lack character states shared by unequivocal representatives of the order. Derived from this identification, the delimitation of the fossil species is ascertained based on comparison of several extant stonefly species. This comparative analysis allowed a trait present in G. carpenteri gen. et sp. nov., but rarely occurring in extant species, to be documented and highlighted as atavistic. Affinities of taxa formerly proposed as putative stem-stoneflies are reconsidered in the light of the new discovery. Conclusions Gulou carpenteri gen. et sp. nov. is considered the only genuine Plecoptera reported from the Pennsylvanian. Continuing efforts on the systematics of Pennsylvanian winged insects indicate a fauna more diverse than previously appreciated. It suggests that insects already had a long, yet undocumented, history by this time. PMID:21880126

Benthic Macro-Invertebrates of Bull Creek and Ramer Branch, Eglin AFB Reservation.

DTIC Science & Technology

1983-03-01

Oligochaeta, Coleoptera, Trichoptera, Plecoptera , Odonata, and Ephermeroptera. The faunas at the sites were similar with sites sharing from 69 to 82...Coleoptera (11.4 percent), Ephemeroptera (8.2 percent), Odonata (6.8 percent), Plecoptera (4.4 percent), and Oligochaeta (4.4 percent). In the light...Hexatoma sp. (Diptera); Stenelmis sp. (Coleoptera); Anisocentropus sp., Oecetis sp., and Agarodes sp. (Trichoptera); Allocapnia sp. ( Plecoptera ); Gomphus sp

An annotated checklist of the Greek Stonefly Fauna (Insecta: Plecoptera).

PubMed

Karaouzas, Ioannis; Andriopoulou, Argyro; Kouvarda, Theodora; Murányi, Dávid

2016-05-17

An overview of the Greek stonefly (Plecoptera) fauna is presented as an annotated index of all available published records. These records have resulted in an updated species list reflecting current taxonomy and species distributions of the Greek peninsula and islands. Currently, a total of 71 species and seven subspecies belonging to seven families and 19 genera are reported from Greece. There is high species endemicity of the Leuctridae and Nemouridae, particularly on the Greek islands. The endemics known from Greece comprise thirty species representing 42% of the Greek stonefly fauna. The remaining taxa are typical Balkan and Mediterranean species.

Biomonitoring of water quality of the Osumi, Devolli, and Shkumbini rivers through benthic macroinvertebrates and chemical parameters.

PubMed

Duka, Sonila; Pepa, Bledar; Keci, Erjola; Paparisto, Anila; Lazo, Pranvera

2017-04-16

Environmental monitoring of river water quality in Albania, using biological and chemical parameters, is a fast and effective way to assess the quality of water bodies.The aim of this study was to investigate Ephemeroptera, Plecoptera and Trichoptera (EPT), Biotic index-Richness using macroinvertebrates to assess the water quality, with special reference to nutrient (phosphorus and nitrogen) levels in the Devolli, Shkumbini and Osumi rivers. Our objective was to investigate the relationships between the measures of benthic macroinvertebrate communities and nutrient concentrations to assess water quality. The rivers' benthic macroinvertebrates were collected during different seasons in 2012. The biological and chemical parameters used in the current study identified them as quick indicators of water quality assessment. The total number of macroinvertebrate individuals (n = 15,006) (Osumi river: n = 5,546 organisms; Devolli river: n = 3,469 organisms; and Shkumbini river: n = 5,991 organisms), together with the EPT group (Ephemeroptera, Plecoptera, and Trichoptera), showed that the water quality at the river stations during the above-mentioned period belonged to Classes II and III (fair water quality and good water quality, respectively). The classification of the water quality was also based on the nitrogen and total phosphorus contents. The pollution tolerance levels of macroinvertebrate taxa varied from the non-tolerating forms encountered in environments with low pollution levels to the tolerating forms that are typical of environments with considerable pollution levels.

Assessment of Ecological Quality of the Tajan River in Iran Using a Multimetric Macroinvertebrate Index and Species Traits

NASA Astrophysics Data System (ADS)

Aazami, Jaber; Esmaili Sari, Abbas; Abdoli, Asghar; Sohrabi, Hormoz; Van den Brink, Paul J.

2015-07-01

The objectives of this study were to assess the biological water of the Iranian Tajan River using different metrics, i.e., a Multimetric Macroinvertebrate Index (MMI) and a traits-based method. Twenty-eight physico-chemical parameters, 10 habitat factors, and abundance of macroinvertebrates were obtained for 17 sites. The Shahid-Rajaie dam divides the Tajan River into an up- and downstream part, with different land uses. Eighteen metrics were used to represent four components of ecosystem quality, including tolerance (Hilsenhoff, SIGNAL), diversity (Margalef, Shannon-Wiener, Simpson, and Evenness), abundance (total number of taxa, individuals, Ephemeroptera, Plecoptera, Trichoptera, EPT, and Insects), and composition of assemblages (% Ephemeroptera, % Plecoptera, % Trichoptera, and % EPT Taxa). The integrated MMI was calculated by averaging the obtained scores of all indices. In the next step, we gathered information on 22 biological traits of macroinvertebrates to evaluate whether (group of) traits could be identified that are indicative for specific or general stress. Result showed a decrease in MMI from upstream (very good water quality) to downstream (bad) due to human activities. Industrial activities like pulping and papermaking operations or sand mining in the downstream part had more effects than agriculture and fish ponds in the upstream part. A redundancy analysis biplot showed the variation between the modalities of trait of macroinvertebrates and their correlation with physico-chemical parameters in Tajan River. The findings show that traits can be indicative for different kind of stress but that more effort has to be put in gathering data sets to disentangle the effect of habitat quality, pollution, and the physico-chemical properties of high- versus lowland rivers.

Assessment of ecological quality of the Tajan River in Iran using a multimetric macroinvertebrate index and species traits.

PubMed

Aazami, Jaber; Esmaili Sari, Abbas; Abdoli, Asghar; Sohrabi, Hormoz; Van den Brink, Paul J

2015-07-01

The objectives of this study were to assess the biological water of the Iranian Tajan River using different metrics, i.e., a Multimetric Macroinvertebrate Index (MMI) and a traits-based method. Twenty-eight physico-chemical parameters, 10 habitat factors, and abundance of macroinvertebrates were obtained for 17 sites. The Shahid-Rajaie dam divides the Tajan River into an up- and downstream part, with different land uses. Eighteen metrics were used to represent four components of ecosystem quality, including tolerance (Hilsenhoff, SIGNAL), diversity (Margalef, Shannon-Wiener, Simpson, and Evenness), abundance (total number of taxa, individuals, Ephemeroptera, Plecoptera, Trichoptera, EPT, and Insects), and composition of assemblages (% Ephemeroptera, % Plecoptera, % Trichoptera, and % EPT Taxa). The integrated MMI was calculated by averaging the obtained scores of all indices. In the next step, we gathered information on 22 biological traits of macroinvertebrates to evaluate whether (group of) traits could be identified that are indicative for specific or general stress. Result showed a decrease in MMI from upstream (very good water quality) to downstream (bad) due to human activities. Industrial activities like pulping and papermaking operations or sand mining in the downstream part had more effects than agriculture and fish ponds in the upstream part. A redundancy analysis biplot showed the variation between the modalities of trait of macroinvertebrates and their correlation with physico-chemical parameters in Tajan River. The findings show that traits can be indicative for different kind of stress but that more effort has to be put in gathering data sets to disentangle the effect of habitat quality, pollution, and the physico-chemical properties of high- versus lowland rivers.

Biological Assessment of Newfoundland Rivers Based on the Depauperate Macroinvertebrate Fauna With Emphasis on the Mayfly, Stonefly and Caddisfly Fauna: a Cautionary Tale.

NASA Astrophysics Data System (ADS)

Colbo, M. H.; Cote, D.; Kendall, V.

2005-05-01

The fauna of insular Newfoundland compared to the mainland is depauperate, e.g., 35 spp of mayflies versus about 160 spp in Maine. The question is can this depauperate fauna provide good biomonitoring information? A comparative study using present /absent data from 85 sites in eastern Newfoundland was analyzed with particular reference to the Ephemeroptera, Plecoptera and Trichoptera fauna. The results indicated these data did differentiate regions sampling type and land use when run through a simple Principle Component Analysis (PCA). The PCA 1 and 2 components varied from no to a strong correlation with both Ephemeroptera and Trichoptera richness and taxa richness of the major feeding groups. However, applying previously published biotic indices of species that occur in Newfoundland did not provide satisfactory results. It appears these indices may reflect oxygen gradients rather than pollutant concentrations and in our cold well oxygenated streams yield unsatisfactory discrimination among natural and perturb streams.

Salinized rivers: degraded systems or new habitats for salt-tolerant faunas?

PubMed Central

Buchwalter, David; Davis, Jenny

2016-01-01

Anthropogenic salinization of rivers is an emerging issue of global concern, with significant adverse effects on biodiversity and ecosystem functioning. Impacts of freshwater salinization on biota are strongly mediated by evolutionary history, as this is a major factor determining species physiological salinity tolerance. Freshwater insects dominate most flowing waters, and the common lotic insect orders Ephemeroptera (mayflies), Plecoptera (stoneflies) and Trichoptera (caddisflies) are particularly salt-sensitive. Tolerances of existing taxa, rapid adaption, colonization by novel taxa (from naturally saline environments) and interactions between species will be key drivers of assemblages in saline lotic systems. Here we outline a conceptual framework predicting how communities may change in salinizing rivers. We envision that a relatively small number of taxa will be saline-tolerant and able to colonize salinized rivers (e.g. most naturally saline habitats are lentic; thus potential colonizers would need to adapt to lotic environments), leading to depauperate communities in these environments. PMID:26932680

Initial commented checklist of Iranian mayflies, with new area records and description of Procloeon caspicum sp. n. (Insecta, Ephemeroptera, Baetidae)

PubMed Central

Bojková, Jindřiška; Sroka, Pavel; Soldán, Tomáš; Namin, Javid Imanpour; Staniczek, Arnold H.; Polášek, Marek; Hrivniak, Ľuboš; Abdoli, Ashgar; Godunko, Roman J.

2018-01-01

Abstract An initial checklist of mayflies (Ephemeroptera) of Iran is compiled based on critical review of available literature data, complemented with new data from 38 localities of Gilan and Ardabil provinces. At present, altogether only 46 species and 25 genera are known from Iran, 18 species are reported as new to Iran in this study. Some previously published data are critically evaluated and doubtful taxa are excluded from the list. Basic analysis of the distribution and biogeography of recorded species is given. Procloeon (Pseudocentroptilum) caspicum Sroka, sp. n. is described based on mature larva and egg. Critical differential diagnostic characters distinguishing the species from related taxa are discussed in detail. PMID:29674922

Description of Neoperla yingshana sp. nov. (Plecoptera: Perlidae) from Hubei Province of China.

PubMed

Chen, Zhi-Teng; DU, Yu-Zhou

2017-12-05

A new species of the genus Neoperla (Plecoptera, Perlidae), N. yingshana Chen & Du sp. nov. from the Wujiashan National Forest Park, Hubei Province of central China is described, illustrated and compared with similar taxa. The new species is characterized by the aedeagal tube long with an upcurved, finger-like spinulose lobe subapically, and by the aedeagal sac plump, gradually tapering to a blunt tip with dense spinules on ventral surface and granules surrounding sac apex.

Aquatic Biota of Bank Stabilization Structures on the Missouri River, North Dakota.

DTIC Science & Technology

1982-05-01

ephemeroptera, plecoptera , hemiptera, and coleoptera that were absent from the former. 103. The results of ANOVA and Duncan’s multiple range tests showed that...0.3) t Nematoda 1.2 2.0 1.2 3.2 4.0 11.6 (Percent) t (0.1) (0.1) (0.4) (0.1) (0.1) Plecoptera Perlodidae Isoperla 4.0 4.0 (Percent) (0.1) t Hemiptera

Macroinvertebrate Response to Drought in Undisturbed Headwater Streams of Southwest Georgia.

NASA Astrophysics Data System (ADS)

Winn, R. T.; Griswold, M. W.; Golladay, S. W.; Crisman, T. L.

2005-05-01

Macroinvertebrates were sampled in four headwater streams for two years (2001-2003) to establish baseline conditions for a study evaluating forestry best management practices. The Palmer Drought Severity Index indicated that the study site experienced a prolonged moderate to severe drought prior to study initiation, with year one of the study characterized as a moderate drought, while year two encompassed drought and initial rainfall recovery. Benthic macroinvertebrates were collected in streams during year one (December 2001/February 2002) and year two (December 2002/February 2003) using a multi-habitat sampling procedure. Individuals were identified to the lowest practical taxonomic level (mostly genus), and metrics including abundance, total number of taxa, and Ephemeroptera, Plecoptera, and Trichoptera (EPT) taxa were calculated. Repeated measures ANOVA identified differences in macroinvertebrate assemblages due to sampling period, with lower values for December 2001 relative to February 2003. Abundance and EPT taxa showed an increasing relationship with average daily flow in successive samples of the study. Initiation of drought conditions prior to the study adversely affected species composition (low numbers of EPT taxa and long lived taxa) and trophic structure (co-dominance of shredders, collectors, and predators).

DEVELOPMENT OF A STREAM BENTHIC MACROINVERTEBRATE INTEGRITY INDEX (SBMII) FOR WADEABLE STREAMS IN THE MID-ATLANTIC HIGHLANDS REGION

EPA Science Inventory

The Stream Benthic Macroinvertebrate Integrity Index (SBMII), a multimetric biotic index for assessing biological conditions of wadeable streams, was developed using seven macroinvertebrate metrics (Ephemeroptera richness, Plecoptera richness, Trichoptera richness, Collector-Filt...

Two new species of Protonemura (Plecoptera: Nemouridae) from China, with biogeographical notes on the genus.

PubMed

Li, Weihai; Murányi, Dávid; Yang, Ding

2017-04-26

Two new species of the genus Protonemura (Plecoptera: Nemouridae: Amphinemurinae) are described from China, P. bifurcata sp. n. from a holotype male from Taiwan and P. datongensis sp. n. from males and females collected in Datong County of the high altitude Tibetan Plateau of Qinghai Province, China. The new taxa are compared with related congeners respectively. A new combination, Indonemoura filigera (Kawai) comb. n, is proposed for Protonemura filigera Kawai, 1969. The distribution of Protonemura in the East Palaearctic and the Oriental Region is discussed and mapped.

An application of bioassessment metrics and multivariate techniques to evaluate central Nebraska streams

USGS Publications Warehouse

Frenzel, S.A.

1996-01-01

Ninety-one stream sites in central Nebraska were classified into four clusters on the basis of a cluster analysis (TWINSPAN) of macroinvertebrate data. Rapid bioassessment protocol scores for macroinvertebrate species were significantly different among sites grouped by teh first division into two clusters. This division may have distinguished sites on the basis of water-quality imparement. Individual metrics that differed between clusters of sites were the Hilsenhoff Biotic Index, the number of Ephemeroptera, Plecoptera, and Trichoptera (EPT) taxa, and the ratio of individuals in EPT to Chironomidae taxa. Canonical correspondence analysis of 57 of 91 sites showed that stream width, site altitude, latitude, soil permeability, water temperature, and mean annual precipitation were the most important environmental variables describing variance in the species-environment relation. Stream width and soil permeability reflected streamflow characteristics of a site, whereas site altitude and latitude were factors related to general climatic conditions. Mean annual precipitation related to both streamflow and climatic conditions.

Response of benthic invertebrate assemblages to metal exposure and bioaccumulation associated with hard-rock mining in northwestern streams, USA

USGS Publications Warehouse

Maret, T.R.; Cain, D.J.; MacCoy, D.E.; Short, T.M.

2003-01-01

Benthic macroinvertebrate assemblages, environmental variables, and associated mine density were evaluated during the summer of 2000 at 18 reference and test sites in the Coeur d'Alene and St. Regis River basins, northwestern USA as part of the US Geological Survey's National Water-Quality Assessment Program. Concentrations of Cd, Pb, and Zn in water and (or) streambed sediment at test sites in basins where production mine density was ???0.2 mines/km2 (in a 500-m stream buffer) were significantly higher than concentrations at reference sites. Zn and Pb were identified as the primary contaminants in water and streambed sediment, respectively. These metal concentrations often exceeded acute Ambient Water Quality Criteria for aquatic life and the National Oceanic and Atmospheric Administration Probable Effect Level for streambed sediment. Regression analysis identified significant correlations between production mine density in each basin and Zn concentrations in water and Pb in streambed sediment (r2 = 0.69 and 0.65, p < 0.01). Metal concentrations in caddisfly tissue, used to verify site-specific exposures of benthos, also were highest at sites downstream from intensive mining. Benthic invertebrate taxa richness and densities were lower at sites downstream than upstream of areas of intensive hard-rock mining and associated metal enrichment. Benthic invertebrate metrics that were most effective in discriminating changes in assemblage structure between reference and mining sites were total number of taxa, number of Ephemeroptera, Plecoptera, and Trichoptera (EPT) taxa, and densities of total individuals, EPT individuals, and metal-sensitive Ephemeroptera individuals.

A new species of Neoperla from China, with a redescription of the female of N. mnong Stark, 1987 (Plecoptera, Perlidae).

PubMed

Chen, Zhi-Teng; Du, Yu-Zhou

2016-01-01

A new species of the Neoperla clymene group (Plecoptera, Perlidae), Neoperla chebalinga sp. n. from Guangdong Province of southern China is described, illustrated, and compared with related taxa. The new species is characterized by the slender aedeagal tube, strongly sclerotized dorsally, and weakly sclerotized ventrally with an upcurved, medial, finger-like membranous lobe. Additionally the aedeagal sac gradually tapers to a blunt apex with a dorsoapical patch of spines. A supplementary description of the female of Neoperla mnong Stark, 1987 from Guangdong Province, China is also given.

Partitioning taxonomic diversity of aquatic insect assemblages and functional feeding groups in Neotropical Savanna headwater streams

EPA Science Inventory

Biological diversity can be divided into: alpha (α, local), beta (β, difference in assemblage composition among locals), and gamma (γ, total diversity). We assessed the partitioning of taxonomic diversity of Ephemeroptera, Plecoptera and Trichoptera (EPT) and of functional feedin...

A new species of Nemoura (Plecoptera: Nemouridae) from Jiangsu Province, China, with new illustrations for Nemoura nankinensis Wu.

PubMed

Chen, Zhi-Teng; DU, Yu-Zhou

2017-04-12

A new species of Nemoura (Plecoptera: Nemouridae), N. fusiformis sp. nov. from Jiangsu Province, China, is described and illustrated. The new species is characterized by a strongly sclerotized large hook formed by outer margin of the outer lobe of the paraproct and by the outer sclerite of cercus with a sub-triangular medial process. The new species is compared with similar taxa. Additionally, supplementary illustrations for N. nankinensis Wu, 1926 are also provided.

A new species of Neoperla from China, with a redescription of the female of N. mnong Stark, 1987 (Plecoptera, Perlidae)

PubMed Central

Chen, Zhi-Teng; Du, Yu-Zhou

2016-01-01

Abstract A new species of the Neoperla clymene group (Plecoptera, Perlidae), Neoperla chebalinga sp. n. from Guangdong Province of southern China is described, illustrated, and compared with related taxa. The new species is characterized by the slender aedeagal tube, strongly sclerotized dorsally, and weakly sclerotized ventrally with an upcurved, medial, finger-like membranous lobe. Additionally the aedeagal sac gradually tapers to a blunt apex with a dorsoapical patch of spines. A supplementary description of the female of Neoperla mnong Stark, 1987 from Guangdong Province, China is also given. PMID:27667948

Refernce Conditions for Streams in the Grand Prairie Natural Division of Illinois

NASA Astrophysics Data System (ADS)

Sangunett, B.; Dewalt, R.

2005-05-01

As part of the Critical Trends Assessment Program (CTAP) of the Illinois Department of Natural Resources (IDNR), 12 potential reference quality stream sites in the Grand Prairie Natural Division were evaluated in May 2004. This agriculturally dominated region, located in east central Illinois, is the most highly modified in the state. The quality of these sites was assessed using a modified Hilsenhoff Biotic Index and species richness of Ephemeroptera, Plecoptera, and Trichoptera (EPT) insect orders and a 12 parameter Habitat Quality Index (HQI). Illinois EPA high quality fish stations, Illinois Natural History Survey insect collection data, and best professional knowledge were used to choose which streams to evaluate. For analysis, reference quality streams were compared to 37 randomly selected meandering streams and 26 randomly selected channelized streams which were assessed by CTAP between 1997 and 2001. The results showed that the reference streams exceeded both taxa richness and habitat quality of randomly selected streams in the region. Both random meandering sites and reference quality sites increased in taxa richness and HQI as stream width increased. Randomly selected channelized streams had about the same taxa richness and HQI regardless of width.

Phylogenetic system and zoogeography of the Plecoptera.

PubMed

Zwick, P

2000-01-01

Information about the phylogenetic relationships of Plecoptera is summarized. The few characters supporting monophyly of the order are outlined. Several characters of possible significance for the search for the closest relatives of the stoneflies are discussed, but the sister-group of the order remains unknown. Numerous characters supporting the presently recognized phylogenetic system of Plecoptera are presented, alternative classifications are discussed, and suggestions for future studies are made. Notes on zoogeography are appended. The order as such is old (Permian fossils), but phylogenetic relationships and global distribution patterns suggest that evolution of the extant suborders started with the breakup of Pangaea. There is evidence of extensive recent speciation in all parts of the world.

Temporal and spatial responses of Chironomidae (Diptera) and other benthic invertebrates to urban stormwater runoff

Treesearch

Susan E. Gresens; Kenneth T. Belt; Jamie A. Tang; Daniel C. Gwinn; Patricia A. Banks

2007-01-01

In a longitudinal study of two streams whose lower reaches received unattenuated urban stormwater runoff, physical disturbance by stormflow was less important than the persistant unidentified chemical impacts of urban stormwater in limiting the distribution of Chironomidae, and Ephemeroptera, Trichoptera and Plecoptera (EPT). A hierarchical spatial analysis showed that...

Climatic and Catchment-Scale Predictors of Chinese Stream Insect Richness Differ between Taxonomic Groups

PubMed Central

Tonkin, Jonathan D.; Shah, Deep Narayan; Kuemmerlen, Mathias; Li, Fengqing; Cai, Qinghua; Haase, Peter; Jähnig, Sonja C.

2015-01-01

Little work has been done on large-scale patterns of stream insect richness in China. We explored the influence of climatic and catchment-scale factors on stream insect (Ephemeroptera, Plecoptera, Trichoptera; EPT) richness across mid-latitude China. We assessed the predictive ability of climatic, catchment land cover and physical structure variables on genus richness of EPT, both individually and combined, in 80 mid-latitude Chinese streams, spanning a 3899-m altitudinal gradient. We performed analyses using boosted regression trees and explored the nature of their influence on richness patterns. The relative importance of climate, land cover, and physical factors on stream insect richness varied considerably between the three orders, and while important for Ephemeroptera and Plecoptera, latitude did not improve model fit for any of the groups. EPT richness was linked with areas comprising high forest cover, elevation and slope, large catchments and low temperatures. Ephemeroptera favoured areas with high forest cover, medium-to-large catchment sizes, high temperature seasonality, and low potential evapotranspiration. Plecoptera richness was linked with low temperature seasonality and annual mean, and high slope, elevation and warm-season rainfall. Finally, Trichoptera favoured high elevation areas, with high forest cover, and low mean annual temperature, seasonality and aridity. Our findings highlight the variable role that catchment land cover, physical properties and climatic influences have on stream insect richness. This is one of the first studies of its kind in Chinese streams, thus we set the scene for more in-depth assessments of stream insect richness across broader spatial scales in China, but stress the importance of improving data availability and consistency through time. PMID:25909190

New Data on the Presence of Hemocyanin in Plecoptera: Recomposing a Puzzle

PubMed Central

Amore, Valentina; Gaetani, Brunella; Angeles Puig, Maria; Fochetti, Romolo

2011-01-01

The specific role of hemocyanin in Plecoptera (stoneflies) is still not completely understood, since none of the hypotheses advanced have proven fully convincing. Previous data show that mRNA hemocyanin sequences are not present in all Plecoptera, and that hemocyanin does not seem to be uniformly distributed within the order. All species possess hexamerins, which are multifunction proteins that probably originated from hemocyanin. In order to obtain an increasingly detailed picture on the presence and distribution of hemocyanin across the order, this study presents new data regarding nymphs and adults of selected Plecoptera species. Results confirm that the hemocyanin expression differs among nymphs in the studied stonefly species. Even though previous studies have found hemocyanin in adults of two stonefly species it was not detected in the present study, even in species where nymphs show hemocyanin, suggesting that the physiological need of this protein can change during life cycle. The phylogenetic pattern obtained using hemocyanin sequences matches the accepted scheme of traditional phylogeny based on morphology, anatomy, and biology. It is remarkable to note that the hemocyanin conserved region acts like a phylogenetic molecular marker within Plecoptera. PMID:22236413

New data on the presence of hemocyanin in Plecoptera: recomposing a puzzle.

PubMed

Amore, Valentina; Gaetani, Brunella; Puig, Maria Angeles; Fochetti, Romolo

2011-01-01

The specific role of hemocyanin in Plecoptera (stoneflies) is still not completely understood, since none of the hypotheses advanced have proven fully convincing. Previous data show that mRNA hemocyanin sequences are not present in all Plecoptera, and that hemocyanin does not seem to be uniformly distributed within the order. All species possess hexamerins, which are multifunction proteins that probably originated from hemocyanin. In order to obtain an increasingly detailed picture on the presence and distribution of hemocyanin across the order, this study presents new data regarding nymphs and adults of selected Plecoptera species. Results confirm that the hemocyanin expression differs among nymphs in the studied stonefly species. Even though previous studies have found hemocyanin in adults of two stonefly species it was not detected in the present study, even in species where nymphs show hemocyanin, suggesting that the physiological need of this protein can change during life cycle. The phylogenetic pattern obtained using hemocyanin sequences matches the accepted scheme of traditional phylogeny based on morphology, anatomy, and biology. It is remarkable to note that the hemocyanin conserved region acts like a phylogenetic molecular marker within Plecoptera.

A summary of the benthic-invertebrate and fish-community data from streams in the Indianapolis metropolitan area, Indiana, 1981-2012

USGS Publications Warehouse

Voelker, David C.; Bunch, Aubrey R.; Dobrowolski, Edward G.; Shoda, Megan E.

2015-01-01

Beginning in 1994, the Ephemeroptera, Plecoptera, and Trichoptera (EPT) Index and Hilsenhoff Biotic Index (HBI) were calculated. Beginning in 1999, the Invertebrate Community Index (ICI) also was calculated from the benthic-invertebrate data. Fish-community data were collected periodically from 1999 to 2012, from which an Index of Biotic Integrity (IBI) was calculated.

A comparison of selected diversity, similarity, and biotic indices for detecting changes in benthic-invertebrate community structure and stream quality

USGS Publications Warehouse

Lydy, M.J.; Crawford, Charles G.; Frey, J.W.

2000-01-01

Implementation of advanced wastewater treatment at the two municipal wastewater-treatment plants for Indianapolis, Indiana, resulted in substantial improvement in the quality of the receiving stream and significant changes in the benthic-invertebrate community. Diversity, similarity, and biotic indices were compared to determine which indices best reflected changes in the composition of the biota in the river. None of the indices perfectly reflected the changes in river quality or community structure. Similarity indices, especially percentage similarity, exhibit the most promise of the three classes of indices. Diversity indices were least useful, wrongly indicating that water quality deteriorated after the upgrade of the wastewater-treatment plants. The most descriptive tool in analyzing the data was the percentage of Ephemeroptera, Plecoptera, and Trichoptera (EPT) taxa present. Using a mixture of indices and other analytical tools, such as EPT, in the analysis of biological data will ensure the most effective investigations of water quality.

Evaluating adequacy of the representative stream reach used in invertebrate monitoring programs

USGS Publications Warehouse

Rabeni, C.F.; Wang, N.; Sarver, R.J.

1999-01-01

Selection of a representative stream reach is implicitly or explicitly recommended in many biomonitoring protocols using benthic invertebrates. We evaluated the adequacy of sampling a single stream reach selected on the basis of its appearance. We 1st demonstrated the precision of our within-reach sampling. Then we sampled 3 or 4 reaches (each ~20x mean width) within an 8-16 km segment on each of 8 streams in 3 ecoregions and calculated 4 common metrics: 1) total taxa; 2) Ephemeroptera, Plecoptera, and Trichoptera taxa; 3) biotic index; and 4) Sharmon's diversity index. In only 6% of possible cases was the coefficient of variation for any of the metrics reduced >10% by sampling additional reaches. Sampling a 2nd reach on a stream improved the ability to detect impairment by an average of only 9.3%. Sampling a 3rd reach on a stream additionally improved ability to detect impairment by only 4.5%. We concluded that a single well-chosen reach, if adequately sampled, can be representative of an entire stream segment, and sampling additional reaches within a segment may not be cost effective.

[Fresh water macroinvertebrates of Costa Rica I].

PubMed

Springer, Monika; Ramirez, Alonso; Hanson, Paul

2010-12-01

This is the first in a series of three volumes on the freshwater macroinvertebrates of Costa Rica. The present volume includes an introductory chapter summarizing the major types of freshwater environments, the biology of freshwater macroinvertebrates (habitats, food, respiration, osmoregulation, etc.), ecological and economic importance, conservation and a synopis of the major groups, followed by a simplified key. The next two chapters discuss collecting methods and biomonitoring. These are followed by chapters on mayflies (Ephemeroptera: 10 families), dragonflies (Odonata: 13 families), stoneflies (Plecoptera: 1 family) and caddisflies (Trichoptera: 15 families). Both in this volume and in those to follow, the chapters treating individual taxa include a summary of the natural history, importance, taxonomy, collecting methods, morphology and an illustrated key to the families; each family is discussed separately and an illustrated key to genera is provided; each chapter ends with a bibliography and a table listing all the genera with information on number of species, distribution, habitat and tolerance to water pollution. While the emphasis is on families and genera known from Costa Rica, additional taxa occurring elsewhere in Central America are mentioned. The present volume also includes numerous color plates of aquatic macroinvertebrates.

Tolerance values of benthic macroinvertebrates for stream biomonitoring: assessment of assumptions underlying scoring systems worldwide.

PubMed

Chang, Feng-Hsun; Lawrence, Justin E; Rios-Touma, Blanca; Resh, Vincent H

2014-04-01

Tolerance values (TVs) based on benthic macroinvertebrates are one of the most widely used tools for monitoring the biological impacts of water pollution, particularly in streams and rivers. We compiled TVs of benthic macroinvertebrates from 29 regions around the world to test 11 basic assumptions about pollution tolerance, that: (1) Arthropoda are < tolerant than non-Arthropoda; (2) Insecta < non-Insecta; (3) non-Oligochaeta < Oligochaeta; (4) other macroinvertebrates < Oligochaeta + Chironomidae; (5) other macroinvertebrate taxa < Isopoda + Gastropoda + Hirudinea; (6) Ephemeroptera + Plecoptera + Trichoptera (EPT) < Odonata + Coleoptera + Heteroptera (OCH); (7) EPT < non-EPT insects; (8) Diptera < Insecta; (9) Bivalvia < Gastropoda; (10) Baetidae < other Ephemeroptera; and (11) Hydropsychidae < other Trichoptera. We found that the first eight of these 11 assumptions were supported despite regional variability. In addition, we examined the effect of Best Professional Judgment (BPJ) and non-independence of TVs among countries by performing all analyses using subsets of the original dataset. These subsets included a group based on those systems using TVs that were derived from techniques other than BPJ, and groups based on methods used for TV assignment. The results obtained from these subsets and the entire dataset are similar. We also made seven a priori hypotheses about the regional similarity of TVs based on geography. Only one of these was supported. Development of TVs and the reporting of how they are assigned need to be more rigorous and be better described.

The Diet of the Brown Trout Salmo trutta (L.) during the Reproductive Period: Size-Related and Sexual Effects

NASA Astrophysics Data System (ADS)

Montori, Albert; Tierno de Figueroa, J. Manuel; Santos, Xavier

2006-10-01

We investigated the autumnal diet of the brown trout Salmo trutta, in a Prepyrenean stream (NW Iberian Peninsula) focusing on intraspecific dietary differences related to size and sex. The diet of trout included 18 types of prey, with Plecoptera and Ephemeroptera nymphs and Diptera larvae as the most consumed taxa. Large trout ate larger prey, than did small trout, and also increased the consumption of terrestrial-surface prey with respect to aquatic-benthic prey. As terrestrial-surface preys were larger than aquatic-benthic prey, the size-related differences in the diet of trout were related to gape-limitations. Although male and female trout did not differ in size, we found that males foraged on a more diverse type of prey than females, probably owing to male territoriality during the reproductive period. This study provides new evidence of dietary plasticity in the brown trout and confirms the importance of local dietary studies to better understand factors which drive trophic ecology of predators.

Agriculture and stream water quality: A biological evaluation of erosion control practices

NASA Astrophysics Data System (ADS)

Lenat, David R.

1984-07-01

Agricultural runoff affects many streams in North Carolina. However, there is is little information about either its effect on stream biota or any potential mitigation by erosion control practices. In this study, benthic macroinvertebrates were sampled in three different geographic areas of North Carolina, comparing control watersheds with well-managed and poorly managed watersheds. Agricultural streams were characterized by lower taxa richness (especially for intolerant groups) and low stability. These effects were most evident at the poorly managed sites. Sedimentation was the apparent major problem, but some changes at agricultural sites implied water quality problems. The groups most intolerant of agricultural runoff were Ephemeroptera, Plecoptera and Trichoptera. Tolerant species were usually filter-feeders or algal grazers, suggesting a modification of the food web by addition of particulate organic matter and nutrients. This study clearly indicates that agricultural runoff can severely impact stream biota. However, this impact can be greatly mitigated by currently recommended erosion control practices.

Reach-scale stream restoration in agricultural streams of southern Minnesota alters structural and functional responses of macroinvertebrates

USGS Publications Warehouse

Dolph, Christine L.; Eggert, Susan L.; Magner, Joe; Ferrington, Leonard C.; Vondracek, Bruce C.

2015-01-01

Recent studies suggest that stream restoration at the reach scale may not increase stream biodiversity, raising concerns about the utility of this conservation practice. We examined whether reach-scale restoration in disturbed agricultural streams was associated with changes in macroinvertebrate community structure (total macroinvertebrate taxon richness, total macroinvertebrate density, Ephemeroptera, Plecoptera, Trichoptera [EPT] taxon richness, % abundance of EPT taxa) or secondary production (macroinvertebrate biomass over time). We collected macroinvertebrate samples over the course of 1 y from restored and unrestored reaches of 3 streams in southern Minnesota and used generalized least-square (GLS) models to assess whether measures of community structure were related to reach type, stream site, or sampling month. After accounting for effects of stream site and time, we found no significant difference in total taxon richness or % abundance of EPT taxa between restored and unrestored reaches. However, the number of EPT taxa and macroinvertebrate density were significantly higher in restored than in unrestored reaches. We compared secondary production estimates among study reaches based on 95th-percentile confidence intervals generated via bootstrapping. In each study stream, secondary production was significantly (2–3×) higher in the restored than in the unrestored reach. Higher productivity in the restored reaches was largely a result of the disproportionate success of a few dominant, tolerant taxa. Our findings suggest that reach-scale restoration may have ecological effects that are not detected by measures of total taxon richness alone.

A DNA Barcode Library for North American Ephemeroptera: Progress and Prospects

PubMed Central

Webb, Jeffrey M.; Jacobus, Luke M.; Funk, David H.; Zhou, Xin; Kondratieff, Boris; Geraci, Christy J.; DeWalt, R. Edward; Baird, Donald J.; Richard, Barton; Phillips, Iain; Hebert, Paul D. N.

2012-01-01

DNA barcoding of aquatic macroinvertebrates holds much promise as a tool for taxonomic research and for providing the reliable identifications needed for water quality assessment programs. A prerequisite for identification using barcodes is a reliable reference library. We gathered 4165 sequences from the barcode region of the mitochondrial cytochrome c oxidase subunit I gene representing 264 nominal and 90 provisional species of mayflies (Insecta: Ephemeroptera) from Canada, Mexico, and the United States. No species shared barcode sequences and all can be identified with barcodes with the possible exception of some Caenis. Minimum interspecific distances ranged from 0.3–24.7% (mean: 12.5%), while the average intraspecific divergence was 1.97%. The latter value was inflated by the presence of very high divergences in some taxa. In fact, nearly 20% of the species included two or three haplotype clusters showing greater than 5.0% sequence divergence and some values are as high as 26.7%. Many of the species with high divergences are polyphyletic and likely represent species complexes. Indeed, many of these polyphyletic species have numerous synonyms and individuals in some barcode clusters show morphological attributes characteristic of the synonymized species. In light of our findings, it is imperative that type or topotype specimens be sequenced to correctly associate barcode clusters with morphological species concepts and to determine the status of currently synonymized species. PMID:22666447

Potential impacts of global warming on the diversity and distribution of stream insects in South Korea.

PubMed

Li, Fengqing; Kwon, Yong-Su; Bae, Mi-Jung; Chung, Namil; Kwon, Tae-Sung; Park, Young-Seuk

2014-04-01

Globally, the East Asian monsoon region is one of the richest environments in terms of biodiversity. The region is undergoing rapid human development, yet its river ecosystems have not been well studied. Global warming represents a major challenge to the survival of species in this region and makes it necessary to assess and reduce the potential consequences of warming on species of conservation concern. We projected the effects of global warming on stream insect (Ephemeroptera, Odonata, Plecoptera, and Trichoptera [EOPT]) diversity and predicted the changes of geographical ranges for 121 species throughout South Korea. Plecoptera was the most sensitive (decrease of 71.4% in number of species from the 2000s through the 2080s) order, whereas Odonata benefited (increase of 66.7% in number of species from the 2000s through the 2080s) from the effects of global warming. The impact of global warming on stream insects was predicted to be minimal prior to the 2060s; however, by the 2080s, species extirpation of up to 20% in the highland areas and 2% in the lowland areas were predicted. The projected responses of stream insects under global warming indicated that species occupying specific habitats could undergo major reductions in habitat. Nevertheless, habitat of 33% of EOPT (including two-thirds of Odonata and one-third of Ephemeroptera, Plecoptera, and Trichoptera) was predicted to increase due to global warming. The community compositions predicted by generalized additive models varied over this century, and a large difference in community structure in the highland areas was predicted between the 2000s and the 2080s. However, stream insect communities, especially Odonata, Plecoptera, and Trichoptera, were predicted to become more homogenous under global warming. © 2013 Society for Conservation Biology.

The nearly complete mitochondrial genome of a stonefly species, Styloperla sp. (Plecoptera: Styloperlidae).

PubMed

Chen, Zhi-Teng; Wu, Hai-Yan; Du, Yu-Zhou

2016-07-01

We report the nearly complete mitochondrial genome of a stonefly species, Styloperla sp. (Plecoptera: Styloperlidae), which is a circular molecule of 15,416 bp in length and consists of 13 protein-coding genes, 2 ribosomal RNAs, 20 transfer RNAs and a partial control region (645 bp). Using the 13 protein-coding genes of 8 stoneflies and 3 other related species, we constructed a phylogenetic tree to verify the accuracy of the new determined mitogenome sequences. Our results provide basic data for further study of phylogeny in Plecoptera.

Assessment tools for urban catchments: developing biological indicators based on benthic macroinvertebrates

USGS Publications Warehouse

Purcell, A.H.; Bressler, D.W.; Paul, M.J.; Barbour, M.T.; Rankin, E.T.; Carter, J.L.; Resh, V.H.

2009-01-01

Biological indicators, particularly benthic macroinvertebrates, are widely used and effective measures of the impact of urbanization on stream ecosystems. A multimetric biological index of urbanization was developed using a large benthic macroinvertebrate dataset (n = 1,835) from the Baltimore, Maryland, metropolitan area and then validated with datasets from Cleveland, Ohio (n = 79); San Jose, California (n = 85); and a different subset of the Baltimore data (n = 85). The biological metrics used to develop the multimetric index were selected using several criteria and were required to represent ecological attributes of macroinvertebrate assemblages including taxonomic composition and richness (number of taxa in the insect orders of Ephemeroptera, Plecoptera, and Trichoptera), functional feeding group (number of taxa designated as filterers), and habit (percent of individuals which cling to the substrate). Quantile regression was used to select metrics and characterize the relationship between the final biological index and an urban gradient (composed of population density, road density, and urban land use). Although more complex biological indices exist, this simplified multimetric index showed a consistent relationship between biological indicators and urban conditions (as measured by quantile regression) in three climatic regions of the United States and can serve as an assessment tool for environmental managers to prioritize urban stream sites for restoration and protection.

Benthic invertebrates and quality of streambed sediments in the White River and selected tributaries in and near Indianapolis, Indiana, 1994-96

USGS Publications Warehouse

Voelker, David C.; Renn, Danny E.

2000-01-01

During this study, 369 benthic-invertebrate samples were collected at 21 sites and 33 streambed-sediment samples were collected at 14 sites to help develop and evaluate control strategies to mediate the impact of point and nonpoint sources of pollution on the White River and selected tributaries in and near Indianapolis, Indiana. Data analyses show that 124 taxa were identified and that most of the benthic invertebrates found belong to one of three taxa: the pollution-tolerant Diptera and the pollution-intolerant Ephemeroptera and Trichoptera. The Hilsenhoff Biotic Index, which was calculated from the number of arthropods and their tolerance to pollution, ranged from 4.4 (very good) to 9.4 (very poor) on the White River, and from 4.9 (good) to 9.1 (very poor) on the tributaries. The Ephemeroptera, Plecoptera, and Trichoptera (EPT) Richness Index, which was calculated from the number of taxa in pollution-intolerant species, ranged from 0 to 9 for the White River and from 0 to 9 for the tributaries. A high EPT Richness Index value reflects a great diversity of pollution-intolerant invertebrates at a site and generally indicates good water quality. A comparison of data collected during the 1994 through 1996 study to data collected during a 1981 through 1987 study indicates that the proportion of pollution-tolerant taxa increased in the immediate vicinity of Indianapolis. This increase may be an indicator that the water quality in the immediate vicinity of Indianapolis has declined since the earlier study. Comparison of the Hilsenhoff Biotic Index values, however, indicates there has been no change since the previous study. In the analysis of streambed sediments, small amounts of 12 metals were detected. Of those, only lead exceeded sediment-quality guidelines for the protection of aquatic life in three samples from two sites. Thirteen insecticides were detected in the streambed sediments, and of those only chlordane exceeded sediment-quality guidelines for the

Biomonitoring for deposited sediment using benthic invertebrates: A test on 4 Missouri streams

USGS Publications Warehouse

Zweig, L.D.; Rabeni, Charles F.

2001-01-01

The response of stream benthic invertebrates to surficially deposited fine sediment was investigated in 4 Missouri streams. Twenty to 24 sampling sites in each stream were selected based on similarities of substrate particle-size distributions, depths, and current velocities but for differences in amounts of deposited sediment, which ranged from 0 to 100% surface cover. Deposited sediment was quantified 2 ways: a visual estimate of % surface cover, and a measurement of substrate embeddedness, which were highly correlated with each other and with the amount of sand. Invertebrates were collected using a kicknet for a specified time in a 1-m2 area. Five commonly used biomonitoring metrics (taxa richness, density, Ephemeroptera, Plecoptera, and Trichoptera [EPT] richness, EPT density, and EPT/Chironomidae richness) were consistently significantly correlated across streams to deposited sediment. Shannon diversity index, Chironomidae richness, Chironomidae density, a biotic index, and % dominant taxon did not relate to increasing levels of deposited sediment. Tolerance values representing taxa responses to deposited sediment were developed for 30 taxa. Deposited-sediment tolerance values were not correlated with biotic index tolerance values, indicating a different response by taxa to deposited sediment than to organic enrichment. Deposited-sediment tolerance values were used to develop the Deposited Sediment Biotic Index (DSBI). The DSBI was calculated for all samples (n = 85) to characterize sediment impairment of the sampled streams. DSBI values for each site were highly correlated with measures of deposited sediment. Model validation by a resampling procedure confirmed that the DSBI is a potentially useful tool for assessing ecological effects of deposited sediment.

Development and Validation of an Aquatic Fine Sediment Biotic Index

NASA Astrophysics Data System (ADS)

Relyea, Christina D.; Minshall, G. Wayne; Danehy, Robert J.

2012-01-01

The Fine Sediment Biotic Index (FSBI) is a regional, stressor-specific biomonitoring index to assess fine sediment (<2 mm) impacts on macroinvertebrate communities in northwestern US streams. We examined previously collected data of benthic macroinvertebrate assemblages and substrate particle sizes for 1,139 streams spanning 16 western US Level III Ecoregions to determine macroinvertebrate sensitivity (mostly at species level) to fine sediment. We developed FSBI for four ecoregion groupings that include nine of the ecoregions. The grouping were: the Coast (Coast Range ecoregion) (136 streams), Northern Mountains (Cascades, N. Rockies, ID Batholith ecoregions) (428 streams), Rockies (Middle Rockies, Southern Rockies ecoregions) (199 streams), and Basin and Plains (Columbia Plateau, Snake River Basin, Northern Basin and Range ecoregions) (262 streams). We excluded rare taxa and taxa identified at coarse taxonomic levels, including Chironomidae. This reduced the 685 taxa from all data sets to 206. Of these 93 exhibited some sensitivity to fine sediment which we classified into four categories: extremely, very, moderately, and slightly sensitive; containing 11, 22, 30, and 30 taxa, respectively. Categories were weighted and a FSBI score calculated by summing the sensitive taxa found in a stream. There were no orders or families that were solely sensitive or resistant to fine sediment. Although, among the three orders commonly regarded as indicators of high water quality, the Plecoptera (5), Trichoptera (3), and Ephemeroptera (2) contained all but one of the species or species groups classified as extremely sensitive. Index validation with an independent data set of 255 streams found FSBI scores to accurately predict both high and low levels of measured fine sediment.

Evaluating aquatic invertebrate vulnerability to insecticides based on intrinsic sensitivity, biological traits, and toxic mode of action.

PubMed

Rico, Andreu; Van den Brink, Paul J

2015-08-01

In the present study, the authors evaluated the vulnerability of aquatic invertebrates to insecticides based on their intrinsic sensitivity and their population-level recovery potential. The relative sensitivity of invertebrates to 5 different classes of insecticides was calculated at the genus, family, and order levels using the acute toxicity data available in the US Environmental Protection Agency ECOTOX database. Biological trait information was linked to the calculated relative sensitivity to evaluate correlations between traits and sensitivity and to calculate a vulnerability index, which combines intrinsic sensitivity and traits describing the recovery potential of populations partially exposed to insecticides (e.g., voltinism, flying strength, occurrence in drift). The analysis shows that the relative sensitivity of arthropods depends on the insecticide mode of action. Traits such as degree of sclerotization, size, and respiration type showed good correlation to sensitivity and can be used to make predictions for invertebrate taxa without a priori sensitivity knowledge. The vulnerability analysis revealed that some of the Ephemeroptera, Plecoptera, and Trichoptera taxa were vulnerable to all insecticide classes and indicated that particular gastropod and bivalve species were potentially vulnerable. Microcrustaceans (e.g., daphnids, copepods) showed low potential vulnerability, particularly in lentic ecosystems. The methods described in the present study can be used for the selection of focal species to be included as part of ecological scenarios and higher tier risk assessments. © 2015 SETAC.

Macroinvertebrate community change associated with the severity of streamflow alteration

USGS Publications Warehouse

Carlisle, Daren M.; Eng, Kenny; Nelson, S.M.

2014-01-01

Natural streamflows play a critical role in stream ecosystems, yet quantitative relations between streamflow alteration and stream health have been elusive. One reason for this difficulty is that neither streamflow alteration nor ecological responses are measured relative to their natural expectations. We assessed macroinvertebrate community condition in 25 mountain streams representing a large gradient of streamflow alteration, which we quantified as the departure of observed flows from natural expectations. Observed flows were obtained from US Geological Survey streamgaging stations and discharge records from dams and diversion structures. During low-flow conditions in September, samples of macroinvertebrate communities were collected at each site, in addition to measures of physical habitat, water chemistry and organic matter. In general, streamflows were artificially high during summer and artificially low throughout the rest of the year. Biological condition, as measured by richness of sensitive taxa (Ephemeroptera, Plecoptera and Trichoptera) and taxonomic completeness (O/E), was strongly and negatively related to the severity of depleted flows in winter. Analyses of macroinvertebrate traits suggest that taxa losses may have been caused by thermal modification associated with streamflow alteration. Our study yielded quantitative relations between the severity of streamflow alteration and the degree of biological impairment and suggests that water management that reduces streamflows during winter months is likely to have negative effects on downstream benthic communities in Utah mountain streams. 

Stonefly (Plecoptera) Feeding Modes: Variation Along a California River Continuum

Treesearch

Richard L. Bottorff; Allen W. Knight

1989-01-01

The distribution of Plecoptera along a California river was used to test several predictions of the River Continuum Concept about how functional feeding groups should change along a stream's length. Stoneflies were collected from stream orders 1-6 (123 km) of the Cosumnes River continuum in the central Sierra Nevada. The 69 stonefly species collected were...

Results of Macroinvertebrate Sampling Conducted at 33 SRS Stream Locations, July--August 1993

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

Specht, W.L.

1994-12-01

In order to assess the health of the macroinvertebrate communities of SRS streams, the macroinvertebrate communities at 30 stream locations on SRS were sampled during the summer of 1993, using Hester-Dendy multiplate samplers. In addition, three off-site locations in the Upper Three Runs drainage were sampled in order to assess the potential for impact from off-site activities. In interpreting the data, it is important to recognize that these data were from a single set of collections. Macroinvertebrate communities often undergo considerable temporal variation, and are also greatly influenced by such factors as water depth, water velocity, and available habitat. Thesemore » stations were selected with the intent of developing an on-going sampling program at a smaller number of stations, with the selection of the stations to be based largely upon the results of this preliminary sampling program. When stations within a given stream showed similar results, fewer stations would be sampled in the future. Similarly, if a stream appeared to be perturbed, additional stations or chemical analyses might be added so that the source of the perturbation could be identified. In general, unperturbed streams will contain more taxa than perturbed streams, and the distribution of taxa among orders or families will differ. Some groups of macroinvertebrates, such as Ephemeroptera (mayflies), Plecoptera (stoneflies) and Trichoptera (caddisflies), which are collectively called EPT taxa, are considered to be relatively sensitive to most kinds of stream perturbation; therefore a reduced number of EPT taxa generally indicates that the stream has been subject to chemical or physical stressors. In coastal plain streams, EPT taxa are generally less dominant than in streams with rocky substrates, while Chironomidae (midges) are more abundant. (Abstract Truncated)« less

Korean species of the genus Perlomyia Banks, 1906 (Plecoptera: Leuctridae).

PubMed

Murányi, Dávid; Jeon, Mi Jeong; Hwang, Jeong Mi; Seo, Hong Yul

2014-11-04

Eight species of the genus Perlomyia (Plecoptera: Leuctridae) are reported from Korea, six are new records for the Korean Peninsula. Two species, known only as unassociated females are described under informal unnamed designations. Previous Korean records are discussed, taxonomic characters of the Korean specimens and Korean distribution are presented for these species. Zoogeographic notes on the Asian Perlomyia are also given.

Antennal sensilla of the stonefly Dinocras cephalotes (Plecoptera: Perlidae).

PubMed

Rebora, Manuela; Tierno de Figueroa, José Manuel; Piersanti, Silvana

2016-11-01

Plecoptera, one of the most primitive groups of Neoptera, are important aquatic insects usually employed as bioindicators of high water quality. Notwithstanding the well-developed antennae of the adult, its sensory abilities are so far not well known. The present paper describes at ultrastructural level under scanning and transmission electron microscopy the antennal sensilla of the adult stonefly Dinocras cephalotes (Plecoptera, Perlidae). Adult males and females show a filiform antenna constituted of a scape, a pedicel and a flagellum composed of very numerous segments with no clear sexual dimorphism in the number and distribution of the antennal sensilla. The most represented sensilla are sensilla trichodea, with different length, whose internal structure reveal their mechanosensory function, sensilla chaetica, with an apical pore, with an internal structure revealing a typical gustatory function, porous pegs representing single-walled olfactory sensilla, digitated pegs with hollow cuticular spoke channels representing double-walled olfactory sensilla, pegs in pits for which we hypothesize a thermo-hygrosensory function. The diversity of described sensilla is discussed in relation to known biological aspects of the studied species. This opens new perspectives in the study of the behavior of these aquatic insects during their adult stage. Copyright © 2016 Elsevier Ltd. All rights reserved.

Effects of extreme floods on macroinvertebrate assemblages in tributaries to the Mohawk River, New York, USA

USGS Publications Warehouse

Calderon, Mirian R.; Baldigo, Barry P.; Smith, Alexander J.; Endreny, Theodore A.

2017-01-01

Climate change is forecast to bring more frequent and intense precipitation to New York which has motivated research into the effects of floods on stream ecosystems. Macroinvertebrate assemblages were sampled at 13 sites in the Mohawk River basin during August 2011, and again in October 2011, following historic floods caused by remnants of Hurricane Irene and Tropical Storm Lee. The annual exceedance probabilities of floods at regional flow-monitoring sites ranged from 0.5 to 0.001. Data from the first 2 surveys, and from additional surveys done during July and October 2014, were assessed to characterize the severity of flood impacts, effect of seasonality, and recovery. Indices of total taxa richness; Ephemeroptera, Plecoptera, and Trichoptera (EPT) richness; Hilsenhoff's biotic index; per cent model affinity; and nutrient biotic index-phosphorus were combined to calculate New York State Biological Assessment Profile scores. Analysis of variance tests were used to determine if the Biological Assessment Profile, its component metrics, relative abundance, and diversity differed significantly (p ≤ .05) among the four surveys. Only total taxa richness and Shannon–Wiener diversity increased significantly, and abundance decreased significantly, following the floods. No metrics differed significantly between the July and August 2014 surveys which indicates that the differences denoted between the August and October 2011 surveys were caused by the floods. Changes in taxa richness, EPT richness, and diversity were significantly correlated with flood annual exceedance probabilities. This study increased our understanding of the resistance and resilience of benthic macroinvertebrate communities by showing that their assemblages were relatively impervious to extreme floods across the region.

Complete mitochondrial genome of the stonefly Cryptoperla stilifera Sivec (Plecoptera: Peltoperlidae) and the phylogeny of Polyneopteran insects.

PubMed

Wu, Hai-Yan; Ji, Xiao-Yu; Yu, Wei-Wei; Du, Yu-Zhou

2014-03-10

We present the complete mitogenome of a stonefly, Cryptoperla stilifera Sivec (Plecoptera; Peltoperlidae). The mitogenome was a circular molecule consisting of 15,633 nucleotides, 37 genes and a A+T-rich region. C. stilifera mitogenome was similar to Pteronarcys princeps mitogenome (Plecoptera; Pteronarcyidae). All transfer RNA genes (tRNAs) had typical cloverleaf secondary structures except for trnSer (AGN), where the stem-loop structure of the dihydrouridine (DHU) arm was missing. The A+T-rich region of C. stilifera had two stem-loops and each had two interlink. Three conserved sequence blocks (CSBs) were present in the A+T-rich regions of C. stilifera, Peltoperla tarteri and Peltoperla arcuata. Moreover, many polynucleotide stretches (Poly N, N=A, T and C) in the A+T-rich region of C. stilifera Phylogenetic relationships of Polyneopteran species were constructed based on the nucleotide sequences of 13 protein coding genes (PCGs). Both maximum likelihood (ML) and Bayesian inference (BI) analyses supported Grylloblattodea as the sister group to Plecoptera+Dermaptera and Embiidina and Phasmatodea as sister groups. Copyright © 2014 Elsevier B.V. All rights reserved.

The complete mitochondrial genome of a stonefly species, Togoperla sp. (Plecoptera: Perlidae).

PubMed

Wang, Kai; Wang, Yuyu; Yang, Ding

2016-05-01

The complete mitochondrial (mt) genome of a stonefly species, Togoperla sp. (Plecoptera: Perlidae), was sequenced. The 15,723 bp long genome has the standard metazoan complement of 37 genes and an A+T-rich region, which is the same as the insect ancestral genome arrangement.

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

NASA Astrophysics Data System (ADS)

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

2005-05-01

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

The influence of sawmill wood wastes on the distribution and population of macroinvertebrates at Benin River, Niger Delta area, Nigeria.

PubMed

Arimoro, Francis O; Osakwe, Emeka I

2006-05-01

The impact of sawmill wood wastes on the distribution of benthic macroinvertebrates at the Sapele section of Benin River, Niger Delta, Nigeria, was investigated from March 2005 to August 2005. A total of 434 individuals were collected by kick-sampling method, representing 21 taxa of benthic macroinvertebrates. Three stations, 1, 2, and 3, were selected from upstream of the site, receiving wood wastes discharge, the impacted site and its down stream, respectively. Among the water quality variables, conductivity, dissolved oxygen, biochemical oxigen demand (BOD(5)), nitrate-nitrogen, phosphate-phosphorus, transparency, and alkalinity were significantly different (P<0.05) among the stations. Orthogonal comparison by Duncan's multiple range test showed that station 2 (the impacted site) was the cause of the difference. More sensitive species such as Ephemeroptera or Plecoptera were completely absent from station 2, the impacted site. Species abundance was similar in station 1 and 3, indicating that the wood wastes must have adversely affected the distribution of these macroinvertebrates, especially the intolerant species. The wood waste discharge not only altered the water chemistry, but also stimulated the abundance of less-sensitive macroinvertebrate species.

Benthic invertebrates in the headwaters of the Wye and Severn: effects of forestry and clear-felling

NASA Astrophysics Data System (ADS)

Gee, J. H. R.; Smith, B. D.

Invertebrate communities were recorded in three surveys between 1974 and 1994 of headwaters of the Wye and Severn at Plynlimon: the Afon Gwy (unforested), the Afon Hore (initially forested) and the Afon Hafren (forested throughout). The data cover periods before and after the clear-felling of a large area of coniferous forest in the catchment of the Hore. All three streams contained invertebrates characteristic of acidic, upland conditions and had similar species richness. Differences in assemblage composition within streams between surveys could be related to differences in method or timing of sampling. All assemblages were dominated by Insecta, particularly Plecoptera and Diptera, whereas Ephemeroptera, Moilusca, Crustacca and some families of Trichoptera (notably Hydropsychidae and Philopotamidae) were poorly represented. The forested streams (Hafren and Hore) contained similar assemblages which differed from those in the unforested stream (Gwy) in containing lower densities of Ephemeroptera and Oligochacta and much higher densities of nemourid and leuctrid Plecoptera. Clear-felling of the Hore catchment resulted in changes in physical and chemical conditions (including a reduction of stream pH, and increases in dissolved aluminium concentration and summer water temperature) but no related change in the invertebrate assemblage. The apparent failure of invertebrates to respond as expected to substantial changes in local environmental conditions may reflect either a lack of understanding of causal links between invertebrates and environmental factors, or the over-riding influence of the dynamics of recruitment to populations.

A Multimetric Benthic Macroinvertebrate Index for the Assessment of Stream Biotic Integrity in Korea

PubMed Central

Jun, Yung-Chul; Won, Doo-Hee; Lee, Soo-Hyung; Kong, Dong-Soo; Hwang, Soon-Jin

2012-01-01

At a time when anthropogenic activities are increasingly disturbing the overall ecological integrity of freshwater ecosystems, monitoring of biological communities is central to assessing the health and function of streams. This study aimed to use a large nation-wide database to develop a multimetric index (the Korean Benthic macroinvertebrate Index of Biological Integrity—KB-IBI) applicable to the biological assessment of Korean streams. Reference and impaired conditions were determined based on watershed, chemical and physical criteria. Eight of an initial 34 candidate metrics were selected using a stepwise procedure that evaluated metric variability, redundancy, sensitivity and responsiveness to environmental gradients. The selected metrics were number of taxa, percent Ephemeroptera-Plecoptera-Trichoptera (EPT) individuals, percent of a dominant taxon, percent taxa abundance without Chironomidae, Shannon’s diversity index, percent gatherer individuals, ratio of filterers and scrapers, and the Korean saprobic index. Our multimetric index successfully distinguished reference from impaired conditions. A scoring system was established for each core metric using its quartile range and response to anthropogenic disturbances. The multimetric index was classified by aggregating the individual metric ..scores and the value range was quadrisected to provide a narrative criterion (Poor, Fair, Good and Excellent) to describe the biological integrity of the streams in the study. A validation procedure showed that the index is an effective method for evaluating stream conditions, and thus is appropriate for use in future studies measuring the long-term status of streams, and the effectiveness of restoration methods. PMID:23202765

Changes in species composition of water insects during 25-year monitoring of the Danube floodplains affected by the Gabčíkovo waterworks.

PubMed

Krno, Iľja; Beracko, Pavel; Navara, Tomáš; Šporka, Ferdinand; Mišíková Elexová, Emília

2018-06-20

This study was based on the complex environmental monitoring of the Danube River in Slovakia. Out of 23 monitored sites, three were chosen for the aim of this study. The three sites were sampled regularly three times per year during a 25-year period, which started in 1990, 2 years before the Gabčíkovo waterworks became operational. Each site represented one of the main potamal types, which we recognised according to the habitat characteristics as eupotamal, parapotamal and plesiopotamal. In order to assess changes which occurred during the 25 years, we studied taxocoenoses of Ephemeroptera, Plecoptera and Trichoptera, which sensitively reflect anthropogenic impacts. The changes caused by the Gabčíkovo waterworks manifested in a decrease of the species diversity in eupotamal because of the disappearance of rheophilous taxa. In the parapotamal and plesiopotamal sites, the initial decrease was followed by a partial recovery of biodiversity due to the artificial floodings. After they were stopped, the decrease occurred again and until 2015, the insect taxa became rare. Conversely, in the eupotamal site, there was an increasing trend in biodiversity since 2011 until 2015. Overall increase in the floodplain index values indicated a loss of connectivity between the floodplain habitats and their fauna with the main channel during the last 25 years. In this paper, we also extended the floodplain index with data on habitat values and indication weight for several stonefly species.

Effects of heavy metals on benthic macroinvertebrate communities in New Zealand streams

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

Hickey, C.W.; Clements, W.H.

1998-11-01

The authors performed chemical analyses of heavy metals in water and periphyton, toxicity tests with Daphnia magna and an indigenous mayfly (Deleatidium sp.), and field surveys of benthic macroinvertebrates to estimate the degree of metal pollution in three catchments in the Coromandel Peninsula of New Zealand. Good agreement was found between toxicity tests and measures of benthic community structure, particularly at stations with the highest metal levels. Responses of benthic communities at stations with low or moderate levels of metal contamination were variable and were probably confounded by factors other than heavy metals. Effects of heavy metals on benthic communitiesmore » in New Zealand streams were similar to those reported for metal-polluted streams in North America and Europe, suggesting that responses to metal contamination are predictable. Abundance and species richness of mayflies, number of taxa in the orders Ephemeroptera, Plecoptera, and Trichoptera, and total taxonomic richness were the best indicators of heavy metals in New Zealand streams. In contrast, the quantitative macroinvertebrate community index (QMCI), a biotic index proposed for assessing effects of organic enrichment in New Zealand streams, could not distinguish between reference and metal-polluted streams. The poor performance of the QMCI was primarily due to incorrect tolerance scores for some taxa to heavy metals. Because of concerns regarding the subjective assignment of tolerance values to species, the authors recommend that tolerance values for dominant species in New Zealand streams should be verified experimentally in stream microcosms.« less

Three new species of Anacroneuria Klapálek (Plecoptera: Perlidae) from Panama.

PubMed

Gutiérrez-Fonseca, Pablo E

2015-05-13

In Central America, the Plecoptera is represented by the genera Anacroneuria and Perlesta, both from the Perlidae family. A total of 45 species have been reported for the region, of which 16 have been found in Panama, all of the genus Anacroneuria. Three new species for Panama are described in this study: Anacroneuria darien, A. embera, and A. laru.

A new species of Nemoura (Plecoptera: Nemouridae) from South of the Russian Far East.

PubMed

Teslenko, Valentina A

2015-08-13

A new species of Plecoptera from the Nemoura ovocercia group, Nemoura khasanensis sp. n. from the Primorsky Region, south of the Russian Far East, is described and illustrated. The diagnostic characters for separation from other members of the oviocercia group are provided.

Invertebrates as indicators for chemical stress in sewage-influenced stream systems: toxic and endocrine effects in gammarids and reactions at the community level in two tributaries of Lake Constance, Schussen and Argen.

PubMed

Peschke, Katharina; Geburzi, Jonas; Köhler, Heinz-R; Wurm, Karl; Triebskorn, Rita

2014-08-01

The present study investigates the impact of releases from waste water treatment plants and storm water overflow basins on gammarids and other macrozoobenthos. The study relates to a recent upgrading of a waste water treatment plant (Langwiese) at the Schussen river, an important tributary to Lake Constance. Samples were taken at different sites at the Schussen river upstream and downstream of a storm water overflow basin and the waste water treatment plant Langwiese and, in parallel, at the Argen river, a less polluted reference stream. We assessed the influence of water quality on the distribution of macrozoobenthos and on the health of gammarid populations by a variety of ecotoxicological methods including biomarkers prior to the expansion of the waste water treatment plant. Through histopathological studies, the impact of parasites on host tissue health was evaluated. Analyses of heat shock protein (hsp70) levels allowed us to draw conclusions about the proteotoxicity-related stress status of the organisms. Furthermore, gammarid populations from all sites were investigated in respect to sex ratio, parasitism rate, and fecundity. Macrozoobenthos community integrity was determined by means of the saprobic index and the abundance as well as by the number of taxa. In gammarids, the sex ratio was significantly shifted towards females, fecundity was significantly decreased, and the hsp70 level was significantly increased downstream of the waste water treatment plant Langwiese, compared to the upstream sampling site. Similarly, these effects could be detected downstream of three small storm water overflow basins. In the macrozoobenthos communities, the abundance of taxa, the number of taxa, the number of ephemeroptera, plecoptera, and trichoptera taxa (EPT-taxa), and the number of sensitive taxa decreased downstream of the storm water overflow basin Mariatal as well as downstream of the waste water treatment plant Langwiese. Our study showed, that waste water

Predator density and dissolved oxygen affect body condition of Stenonema tripunctatum (Ephemeroptera, Heptageniidae) from intermittent streams

Treesearch

Joseph W. Love; Christopher M. Taylor; Melvin L. Warren

2005-01-01

The effects of population density, fish density, and dissolved oxygen on body condition of late-instar nymphs of Stenonema tripunctatum (Ephemeroptera, Heptageniidae) were investigated using nymphs sampled from isolated, upland stream pools over summer in central Arkansas, USA. All three factors exhibited high variation among pools. Body condition...

Aquatic assemblages of the highly urbanized Santa Ana River Basin, California

USGS Publications Warehouse

Brown, Larry R.; Burton, Carmen; Belitz, Kenneth

2005-01-01

We assessed the structure of periphyton, benthic macroinvertebrate, and fish assemblages and their associations with environmental variables at 17 sites on streams of the highly urbanized Santa Ana River basin in Southern California. All assemblages exhibited strong differences between highly urbanized sites in the valley and the least-impacted sites at the transition between the valley and undeveloped mountains. Results within the urbanized area differed among taxa. Periphyton assemblages were dominated by diatoms (>75% of total taxa). Periphyton assemblages within the urbanized area were not associated with any of the measured environmental variables, suggesting that structure of urban periphyton assemblages might be highly dependent on colonization dynamics. The number of Ephemeroptera, Trichoptera, and Plecoptera (EPT) taxa included in macroinvertebrate assemblages ranged from 0 to 6 at urbanized sites. Benthic macroinvertebrate assemblages had significant correlations with several environmental variables within the urban area, suggesting that stream size and permanence were important determinants of distribution among the species able to survive conditions in urban streams. Only 4 of 16 fish species collected were native to the drainage. Fish assemblages of urbanized sites included two native species, arroyo chub Gila orcuttii and Santa Ana sucker Catostomus santaanae, at sites that were intermediate in coefficient of variation of bank-full width, depth, bed substrate, and water temperature. Alien species dominated urbanized sites with lesser or greater values for these variables. These results suggest that urban streams can be structured to enhance populations of native fishes. Continued study of urban streams in the Santa Ana River basin and elsewhere will contribute to the basic understanding of ecological principles and help preserve the maximum ecological value of streams in highly urbanized areas.

Chironomidae traits and life history strategies as indicators of anthropogenic disturbance.

PubMed

Serra, Sónia R Q; Graça, Manuel A S; Dolédec, Sylvain; Feio, Maria João

2017-07-01

In freshwater ecosystems, Chironomidae are currently considered indicators of poor water quality because the family is often abundant in degraded sites. However, it incorporates taxa with a large ecological and physiological diversity and different sensitivity to impairment. Yet, the usual identification of Chironomidae at coarse taxonomic levels (family or subfamily) masks genus and species sensitivities. In this study, we investigate the potential of taxonomic and functional (traits) composition of Chironomidae to detect anthropogenic disturbance. In this context, we tested some a priori hypotheses regarding the ability of Chironomidae taxonomic and trait compositions to discriminate Mediterranean streams affected by multiple stressors from least-disturbed streams. Both taxonomic and Eltonian trait composition discriminated sites according to their disturbance level. Disturbance resulted in the predicted increase of Chironomidae with higher number of stages with hibernation/diapause and of taxa with resistance forms and unpredicted increase of the proportion of taxa with longer life cycles and few generations per year. Life history strategies (LHS), corresponding to multivoltine Chironomidae that do not invest in hemoglobin and lack strong spring synchronization, were well adapted to all our Mediterranean sites with highly changeable environmental conditions. Medium-size animals favored in disturbed sites where the Mediterranean hydrological regime is altered, but the reduced number of larger-size/carnivore Chironomids suggests a limitation to secondary production. Results indicate that Chironomidae genus and respective traits could be a useful tool in the structural and functional assessment of Mediterranean streams. The ubiquitous nature of Chironomidae should be also especially relevant in the assessment of water bodies naturally poor in other groups such as the Ephemeroptera, Plecoptera, and Trichoptera, such as the lowland rivers with sandy substrates, lakes

Lost and found: the Plecoptera types of Blanchard and Mabille, with further contributions to the stoneflies of Chile.

PubMed

Murányi, Dávid; Gamboa, Maribet; Vera, Alejandro

2016-12-01

Types of five of the six Plecoptera species described by Émile Blanchard and the holotype of the single stonefly described by Jules François Mabille were discovered in the National Museum Prague, Czech Republic. The identity of P. myrmidon Mabille, 1891 and P. pictetii Blanchard, 1854 are confirmed as Potamoperla myrmidon and Pictetoperla gayi (Pictet, 1841), respectively. Perla virescentipennis Blanchard, 1851 is considered as Diamphipnopsis virescentipennis comb. n., with Diamphipnosis samali Illies, 1960 syn. n. as a junior subjective synonym, and Diamphipnoa chillanae nom. n. is proposed for D. virescentipennis sensu Illies 1960. Lectotypes are designated for three species: Nemoura rufescens Blanchard, 1851 is redescribed as Austronemoura rufescens (Blanchard, 1851) comb. n., with Perla infuscata Blanchard, 1851 syn. n. and Perla blanchardi Jakobson & Bianchi, 1905 syn. n. designated as junior subjective synonyms, whereas Perla stictica Blanchard, 1851 is treated as Neonemura stictica (Blanchard, 1851) comb. n., nomen dubium. Paralectotypes of these three species belong to further four taxa. Due to the missing syntypes, Perla lineatocollis Blanchard, 1851 is treated as a nomen dubium of uncertain suborder assignment. Specimens of the Blanchard collections that cannot regarded as types are enumerated belonging to six species. Recent collections of 15 species from Chile are also reported.

Responses of macroinvertebrate community metrics to a wastewater discharge in the Upper Blue River of Kansas and Missouri, USA

USGS Publications Warehouse

Poulton, Barry C.; Graham, Jennifer L.; Rasmussen, Teresa J.; Stone, Mandy L.

2015-01-01

The Blue River Main wastewater treatment facility (WWTF) discharges into the upper Blue River (725 km2), and is recently upgraded to implement biological nutrient removal. We measured biotic condition upstream and downstream of the discharge utilizing the macroinvertebrate protocol developed for Kansas streams. We examined responses of 34 metrics to determine the best indicators for discriminating site differences and for predicting biological condition. Significant differences between sites upstream and downstream of the discharge were identified for 15 metrics in April and 12 metrics in August. Upstream biotic condition scores were significantly greater than scores at both downstream sites in April (p = 0.02), and in August the most downstream site was classified as non-biologically supporting. Thirteen EPT taxa (Ephemeroptera, Plecoptera, Trichoptera) considered intolerant of degraded stream quality were absent at one or both downstream sites. Increases in tolerance metrics and filtering macroinvertebrates, and a decline in ratio of scrapers to filterers all indicated effects of increased nutrient enrichment. Stepwise regressions identified several significant models containing a suite of metrics with low redundancy (R2 = 0.90 - 0.99). Based on the rapid decline in biological condition downstream of the discharge, the level of nutrient removal resulting from the facility upgrade (10% - 20%) was not enough to mitigate negative effects on macroinvertebrate communities.

Assessment of Instream Restoration in the Cache River, Illinois: Macroinvertebrate Community Structure on Rock Weirs Compared to Snag and Streambed Habitats

NASA Astrophysics Data System (ADS)

Walther, D. A.; Whiles, M. R.

2005-05-01

Rock weirs were constructed in a degraded section of the Cache River in southern Illinois in 2001 and 2003 to prevent channel incision and protect riparian wetlands. We sampled macroinvertebrates in two older weirs and in two sites downstream of the restored section in April 2003, October 2003, and April 2004 to evaluate differences in community structure between weir, snag, and streambed (scoured clay) habitats. Three recently constructed weirs were also sampled in April 2004. Functional composition differed among sample dates and habitats. Although collector-gatherers consistently dominated streambed habitats, functional composition on weirs and snags was more variable. Filterer and predator biomass was generally higher on weirs, and snags harbored the only shredders collected in the system (Pycnopsyche spp.). Weirs generally supported higher biomass of Ephemeroptera, Plecoptera, and Trichoptera than other habitats. For example, mean EPT biomass on weirs in 2003 (April=187 mgAFDM/m2; October=899 mgAFDM/m2) was 4 to 10-fold higher than EPT biomass in snag or streambed habitats. Late instar Pycnopsyche contributed 41% of snag biomass in April 2004, resulting in EPT biomass similar to rock weirs. Results indicate rock weirs provide suitable stable substrate for macroinvertebrates and may enhance populations of sensitive EPT taxa in degraded systems.

Constructed Pools-and-Riffles: Application and Assessment in Illinois.

NASA Astrophysics Data System (ADS)

Day, D. M.; Dodd, H. R.; Carney, D. A.; Holtrop, A. M.; Whiles, M. R.; White, B.; Roseboom, D.; Kinney, W.; Keefer, L. L.; Beardsley, J.

2005-05-01

The diversity of Illinois' streams provides a broad range of conditions, and thus a variety of restoration techniques may be required to adequately compensate for watershed alterations. Resource management agencies and research institutions in the state have collaborated on a variety of applied research initiatives to assess the efficacy of various stream protection and restoration techniques. Constructed pool-and-riffle structures have received significant attention because they tend to address watershed processes (i.e., channel evolution model) and may benefit biotic communities and processes along with physical habitat. Constructed pools-and-riffles have been applied primarily to address geomorphic instability, yet understanding biological responses can provide further rationale for their use and design specifications. In three stream systems around the state, fish were collected pre- and post- installation of structures, using primarily electrofishing techniques (e.g., electric seine & backpack). In general, within the first five years after installation, changes in fish communities have included a shift from high-abundance, small cyprinid-dominated assemblages to low-density Centrarchidae and Catostomidae assemblages. Changes in macro invertebrates at selected sites included increases in filter feeders and sensitive taxa such as the Ephemeroptera, Plecoptera, and Trichoptera (EPT). Ongoing assessments will be critical for understanding long-term influences on stream ecosystem structure and function.

Mayflies, stoneflies, and caddisflies of streams and marshes of Indiana Dunes National Lakeshore, USA

PubMed Central

DeWalt, R. Edward; South, Eric J.; Robertson, Desiree R.; Marburger, Joy E.; Smith, Wendy W.; Brinson, Victoria

2016-01-01

Abstract United States National Parks have protected natural communities for one hundred years. Indiana Dunes National Lakeshore (INDU) is a park unit along the southern boundary of Lake Michigan in Indiana, USA. An inventory of 19 sites, consisting of a seep, 12 streams, four marshes, a bog, and a fen were examined for mayflies (Ephemeroptera), stoneflies (Plecoptera), and caddisflies (Trichoptera) (EPT taxa). Volunteers and authors collect 35 ultraviolet light traps during summer 2013 and supplementary benthic and adult sampling added species not attracted by lights or that were only present in colder months. Seventy-eight EPT species were recovered: 12 mayflies, two stoneflies, and 64 caddisflies. The EPT richness found at INDU was a low proportion of the number of species known from Indiana: caddisflies contributed only 32.7% of known state fauna, mayflies and stoneflies contributed 8.4% and 2.3%, respectively. Site EPT richness ranged from one for a seep to 34 for an 8 m-wide stream. Richness in streams generally increased with stream size. Seven new state records and rare species are reported. The number of EPT species at INDU is slightly larger than that found at Isle Royale National Park in 2013, and the community composition and evenness between orders were different. PMID:26877693

Perlesta ephelida, a new Nearctic stonefly species (Plecoptera, Perlidae).

PubMed

Grubbs, Scott A; Dewalt, R Edward

2012-01-01

A new Nearctic species of Perlidae (Insecta, Plecoptera), Perlesta ephelidasp. n., is described from the male, female, and egg stages. This species has been previously reported as, or confused with, Perlesta shubuta Stark from several central and eastern U.S. states. Perlesta ephelida is distinctive from Perlesta shubuta and other regional Nearctic congeners mainly according to male genitalic and egg characteristics. Perlesta ephelida is a widely-distributed eastern Nearctic species, whereas Perlesta shubuta appears to be restricted to a narrow latitudinal belt in the Gulf Coast region from Louisiana east conservatively to the Florida panhandle. The egg of Perlesta shubuta is depicted with scanning electron microscopy for the first time.

The role of physical habitat and sampling effort on estimates of benthic macroinvertebrate taxonomic richness at basin and site scales.

PubMed

Silva, Déborah R O; Ligeiro, Raphael; Hughes, Robert M; Callisto, Marcos

2016-06-01

Taxonomic richness is one of the most important measures of biological diversity in ecological studies, including those with stream macroinvertebrates. However, it is impractical to measure the true richness of any site directly by sampling. Our objective was to evaluate the effect of sampling effort on estimates of macroinvertebrate family and Ephemeroptera, Plecoptera, and Trichoptera (EPT) genera richness at two scales: basin and stream site. In addition, we tried to determine which environmental factors at the site scale most influenced the amount of sampling effort needed. We sampled 39 sites in the Cerrado biome (neotropical savanna). In each site, we obtained 11 equidistant samples of the benthic assemblage and multiple physical habitat measurements. The observed basin-scale richness achieved a consistent estimation from Chao 1, Jack 1, and Jack 2 richness estimators. However, at the site scale, there was a constant increase in the observed number of taxa with increased number of samples. Models that best explained the slope of site-scale sampling curves (representing the necessity of greater sampling effort) included metrics that describe habitat heterogeneity, habitat structure, anthropogenic disturbance, and water quality, for both macroinvertebrate family and EPT genera richness. Our results demonstrate the importance of considering basin- and site-scale sampling effort in ecological surveys and that taxa accumulation curves and richness estimators are good tools for assessing sampling efficiency. The physical habitat explained a significant amount of the sampling effort needed. Therefore, future studies should explore the possible implications of physical habitat characteristics when developing sampling objectives, study designs, and calculating the needed sampling effort.

Stream Health Sensitivity to Landscape Changes due to Bioenergy Crops Expansion

NASA Astrophysics Data System (ADS)

Nejadhashemi, A.; Einheuser, M. D.; Woznicki, S. A.

2012-12-01

Global demand for bioenergy has increased due to uncertainty in oil markets, environmental concerns, and expected increases in energy consumption worldwide. To develop a sustainable biofuel production strategy, the adverse environmental impacts of bioenergy crops expansion should be understood. To study the impact of bioenergy crops expansion on stream health, the adaptive neural-fuzzy inference system (ANFIS) was used to predict macroinvertebrate and fish stream health measures. The Hilsenhoff Biotic Index (HBI), Family Index of Biological Integrity (Family IBI), and Number of Ephemeroptera, Plecoptera, and Trichoptera taxa (EPT taxa) were used as macroinvertebrate measures, while the Index of Biological Integrity (IBI) was used for fish. A high-resolution biophysical model built using the Soil and Water Assessment Tool was used to obtain water quantity and quality variables for input into the ANFIS stream health predictive models. Twenty unique crop rotations were developed to examine impacts of bioenergy crops expansion on stream health in the Saginaw Bay basin. Traditional intensive row crops generated more pollution than current landuse conditions, while second-generation biofuel crops associated with less intensive agricultural activities resulted in water quality improvement. All three macroinvertebrate measures were negatively impacted during intensive row crop productions but improvement was predicted when producing perennial crops. However, the expansion of native grass, switchgrass, and miscanthus production resulted in reduced IBI relative to first generation row crops. This study demonstrates that ecosystem complexity requires examination of multiple stream health measures to avoid potential adverse impacts of landuse change on stream health.

Prescribed-fire effects on an aquatic community of a southwest montane grassland system

USGS Publications Warehouse

Caldwell, Colleen A.; Jacobi, Gerald Z.; Anderson, Michael C.; Parmenter, Robert R.; McGann, Jeanine; Gould, William R.; DuBey, Robert; Jacobi, M. Donna

2013-01-01

The use of prescription fire has long been recognized as a reliable management tool to suppress vegetative succession processes and to reduce fuel loading to prevent catastrophic wildfires, but very little attention has been paid to the effects on aquatic systems. A late-fall prescribed burn was implemented to characterize effects on an aquatic community within a montane grassland system in north-central New Mexico. The fire treatment was consistent with protocols of a managed burn except that the fire was allowed to burn through the riparian area to the treatment stream to replicate natural fire behavior. In addition to summer and fall preburn assessment of the treatment and reference stream, we characterized immediate postfire effects (within a week for macroinvertebrates and within 6 months for fish) and seasonal effects over a 2-year period. Responses within the treatment stream were compared with an unburned reference stream adjacent to the prescription burn. During the burn, the diel range in air temperature increased by 5°C while diel range in water temperature did not change. Carbon–nitrogen ratios did not differ between treatment and reference streams, indicating the contribution of ash from the surrounding grassland was negligible. Although total taxa and species richness of aquatic macroinvertebrates were not altered, qualitative indices revealed departure from preburn condition due to loss of sensitive taxa (mayflies [order Ephemeroptera] and stoneflies [order Plecoptera]) and an increase in tolerant taxa (midges [order Chironomidae]) following the burn. Within 1 year of the burn, these attributes returned to preburn conditions. The density and recruitment of adult Brown Trout Salmo trutta did not differ between pre- and postburn collections, nor did fish condition differ. Fire is rarely truly replicated within a given study. Although our study represents one replication, the results will inform managers about the importance in timing (seasonality

A New species and records of Gripopterygidae (Plecoptera) from Rio Grande do Sul State, Southern Brazil.

PubMed

Novaes, Marcos Carneiro; Da Conceição Bispo, Pitágoras

2016-10-17

Specimens of Gripopterygidae (Plecoptera) from Rio Grande do Sul State, southern Brazil were studied. A new species, Tupiperla sepeensis n. sp. is described. Tupiperla misionera Froehlich 2002 is a new record for Brazil and Gripopteryx reticulata Brauer 1866 and Tupiperla tessellata Brauer 1866 are new records for southern Brazil.

Perlesta ephelida, a new Nearctic stonefly species (Plecoptera, Perlidae)

PubMed Central

Grubbs, Scott A.; DeWalt, R. Edward

2012-01-01

Abstract A new Nearctic species of Perlidae (Insecta, Plecoptera), Perlesta ephelida sp. n., is described from the male, female, and egg stages. This species has been previously reported as, or confused with, Perlesta shubuta Stark from several central and eastern U.S. states. Perlesta ephelida is distinctive from Perlesta shubuta and other regional Nearctic congeners mainly according to male genitalic and egg characteristics. Perlesta ephelida is a widely-distributed eastern Nearctic species, whereas Perlesta shubuta appears to be restricted to a narrow latitudinal belt in the Gulf Coast region from Louisiana east conservatively to the Florida panhandle. The egg of Perlesta shubuta is depicted with scanning electron microscopy for the first time. PMID:22679381

The first fossil salmonfly (Insecta: Plecoptera: Pteronarcyidae), back to the Middle Jurassic.

PubMed

Cui, Yingying; Béthoux, Olivier; Kondratieff, Boris; Shih, Chungkun; Ren, Dong

2016-10-18

The fossil record of Plecoptera (stoneflies) is considered relatively complete, with stem-groups of each of the three major lineages, viz. Antarctoperlaria, Euholognatha and Systellognatha (and some of their families) represented in the Mesozoic. However, the family Pteronarcyidae (the salmonflies; including two genera, Pteronarcys and Pteronarcella) has no fossil record to date, and the family has been suggested to have diverged recently. In this paper, we report on a set of specimens belonging to a new fossil species of stonefly, discovered from the Middle Jurassic Daohugou locality (China). Our comparative analysis of wing venation and body characters demonstrates that the new species belongs to the Pteronarcyidae, and is more closely related to Pteronarcys than to Pteronarcella. However, it differs from all known species of the former genus. It is therefore assigned to a new genus and named Pteroliriope sinitshenkovae gen. et sp. nov. under the traditional nomenclatural procedure. The cladotypic nomenclatural procedure is also employed, with the resulting combination Pteroliriope nec Pteronarcys sinitshenkovae sp. nov. The first discovery of a fossil member of the Pteronarcyidae demonstrates that the corresponding lineage is not a very recent offshoot but was already present ca. 165 million years ago. This discovery concurs with the view that divergence of most stonefly families took place very early, probably in the Triassic, or even in the Permian. This contribution demonstrates the need for (re-)investigations of the systematics of fossil stoneflies to refine divergence date estimates for Plecoptera lineages.

The first two mitochondrial genomes from Taeniopterygidae (Insecta: Plecoptera): Structural features and phylogenetic implications.

PubMed

Chen, Zhi-Teng; Du, Yu-Zhou

2018-05-01

The complete mitochondrial genomes (mitogenomes) of Taeniopteryx ugola and Doddsia occidentalis (Plecoptera: Taeniopterygidae) were firstly sequenced from the family Taeniopterygidae. The 15,353-bp long mitogenome of T. ugola and the 16,020-bp long mitogenome of D. occidentalis each contained 37 genes including 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs), two ribosomal RNA genes (rRNAs) and a control region (CR). The mitochondrial gene arrangement of the two taeniopterygids and other stoneflies was identical with the putative ancestral mitogenome of Drosophila yakuba. Most PCGs used standard ATN start codons and TAN termination codons. Twenty-one of the 22 tRNAs in each mitogenome could fold into the cloverleaf secondary structures, while the dihydrouridine (DHU) arm of trnSer (AGN) was reduced or absent. Stem-loop (SL) structures, poly-T stretch, poly-[AT] n stretch and tandem repeats were found in the CRs of the two mitogenomes. The phylogenetic analyses using Bayesian inference (BI) and maximum likelihood methods (ML) generated identical results, both supporting the monophyly of all stonefly families and the two infraorders, Systellognatha and Euholognatha. Taeniopterygidae was grouped with another two families from Euholognatha. The relationships within Plecoptera were recovered as (((Perlidae+Peltoperlidae)+((Pteronarcyidae+Chloroperlidae)+Styloperlidae))+((Capniidae+Taeniopterygidae)+Nemouridae))+Gripopterygidae. Copyright © 2017 Elsevier B.V. All rights reserved.

Additive effects prevail: The response of biota to multiple stressors in an intensively monitored watershed.

PubMed

Gieswein, Alexander; Hering, Daniel; Feld, Christian K

2017-09-01

Freshwater ecosystems are impacted by a range of stressors arising from diverse human-caused land and water uses. Identifying the relative importance of single stressors and understanding how multiple stressors interact and jointly affect biology is crucial for River Basin Management. This study addressed multiple human-induced stressors and their effects on the aquatic flora and fauna based on data from standard WFD monitoring schemes. For altogether 1095 sites within a mountainous catchment, we used 12 stressor variables covering three different stressor groups: riparian land use, physical habitat quality and nutrient enrichment. Twenty-one biological metrics calculated from taxa lists of three organism groups (fish, benthic invertebrates and aquatic macrophytes) served as response variables. Stressor and response variables were subjected to Boosted Regression Tree (BRT) analysis to identify stressor hierarchy and stressor interactions and subsequently to Generalised Linear Regression Modelling (GLM) to quantify the stressors standardised effect size. Our results show that riverine habitat degradation was the dominant stressor group for the river fauna, notably the bed physical habitat structure. Overall, the explained variation in benthic invertebrate metrics was higher than it was in fish and macrophyte metrics. In particular, general integrative (aggregate) metrics such as % Ephemeroptera, Plecoptera and Trichoptera (EPT) taxa performed better than ecological traits (e.g. % feeding types). Overall, additive stressor effects dominated, while significant and meaningful stressor interactions were generally rare and weak. We concluded that given the type of stressor and ecological response variables addressed in this study, river basin managers do not need to bother much about complex stressor interactions, but can focus on the prevailing stressors according to the hierarchy identified. Copyright © 2017 Elsevier B.V. All rights reserved.

Biological assessment and streambed-sediment chemistry of streams in the Indianapolis metropolitan area, Indiana, 2003–2008

USGS Publications Warehouse

Voelker, David C.

2012-01-01

During 2003–2008, the U.S. Geological Survey sampled 13 sites in the Indianapolis metropolitan area in Indiana for benthic invertebrates, fish communities, and streambed-sediment chemistry. Data from seven White River sites and six tributary sites complement surface-water chemistry data collected by the Indianapolis Department of Public Works. The information is being used to assess changes in water quality in conjunction with the City's programs to reduce combined sewer overflows and other point and nonpoint sources of pollution in the Indianapolis area. During the study, 233 benthic-invertebrate taxa were identified from which the Ephemeroptera, Plecoptera, and Trichoptera (EPT) Index, the Hilsenhoff Biotic Index (HBI), and the Invertebrate Community Index (ICI) were calculated. EPT index scores ranged from 2 to 16 on the White River and from 2 to 17 on the tributaries. EPT index scores indicate that these pollution-intolerant taxa are more prevalent upstream from and away from the combined-sewer areas of Indianapolis. HBI scores from sites on the White River ranged from 4.67 (good) to 9.55 (very poor), whereas on the tributaries, scores ranged from 4.21 (very good) to 8.14 (poor). Lower HBI scores suggest that less organic pollution was present and, like the EPT scores, indicate better conditions where combined-sewer overflows (CSOs) are not present. Similarly, ICI scores indicated better conditions upstream from the CSO outfalls on the White River. White River scores ranged from 12 to 46, where higher ICI scores indicate better conditions in the benthic-invertebrate community. ICI scores at the tributary sites ranged from 12 to 52, with the highest scores on streams without CSOs.

Natural variability of biochemical biomarkers in the macro-zoobenthos: Dependence on life stage and environmental factors.

PubMed

Scarduelli, Lucia; Giacchini, Roberto; Parenti, Paolo; Migliorati, Sonia; Di Brisco, Agnese Maria; Vighi, Marco

2017-11-01

Biomarkers are widely used in ecotoxicology as indicators of exposure to toxicants. However, their ability to provide ecologically relevant information remains controversial. One of the major problems is understanding whether the measured responses are determined by stress factors or lie within the natural variability range. In a previous work, the natural variability of enzymatic levels in invertebrates sampled in pristine rivers was proven to be relevant across both space and time. In the present study, the experimental design was improved by considering different life stages of the selected taxa and by measuring more environmental parameters. The experimental design considered sampling sites in 2 different rivers, 8 sampling dates covering the whole seasonal cycle, 4 species from 3 different taxonomic groups (Plecoptera, Perla grandis; Ephemeroptera, Baetis alpinus and Epeorus alpicula; Tricoptera, Hydropsyche pellucidula), different life stages for each species, and 4 enzymes (acetylcholinesterase, glutathione S-transferase, alkaline phosphatase, and catalase). Biomarker levels were related to environmental (physicochemical) parameters to verify any kind of dependence. Data were statistically elaborated using hierarchical multilevel Bayesian models. Natural variability was found to be relevant across both space and time. The results of the present study proved that care should be paid when interpreting biomarker results. Further research is needed to better understand the dependence of the natural variability on environmental parameters. Environ Toxicol Chem 2017;36:3158-3167. © 2017 SETAC. © 2017 SETAC.

A Framework to Assess the Impacts of Climate Change on ...

EPA Pesticide Factsheets

Climate change is projected to alter watershed hydrology and potentially amplify nonpoint source pollution transport. These changes have implications for fish and macroinvertebrates, which are often used as measures of aquatic ecosystem health. By quantifying the risk of adverse impacts to aquatic ecosystem health at the reach-scale, watershed climate change adaptation strategies can be developed and prioritized. The objective of this research was to quantify the impacts of climate change on stream health in seven Michigan watersheds. A process-based watershed model, the Soil and Water Assessment Tool (SWAT), was linked to adaptive neuro-fuzzy inferenced (ANFIS) stream health models. SWAT models were used to simulate reach-scale flow regime (magnitude, frequency, timing, duration, and rate of change) and water quality variables. The ANFIS models were developed based on relationships between the in-stream variables and sampling points of four stream health indicators: the fish index of biotic integrity (IBI), macroinvertebrate family index of biotic integrity (FIBI), Hilsenhoff biotic index (HBI), and number of Ephemeroptera, Plecoptera, and Trichoptera (EPT) taxa. The combined SWAT-ANFIS models extended stream health predictions to all watershed reaches. A climate model ensemble from the Coupled Model Intercomparison Project Phase 5 (CMIP5) was used to develop projections of changes to flow regime (using SWAT) and stream health indicators (using ANFIS) from a ba

Stream Communities Along a Catchment Land-Use Gradient: Subsidy-Stress Responses to Pastoral Development

NASA Astrophysics Data System (ADS)

Niyogi, Dev K.; Koren, Mark; Arbuckle, Chris J.; Townsend, Colin R.

2007-02-01

When native grassland catchments are converted to pasture, the main effects on stream physicochemistry are usually related to increased nutrient concentrations and fine-sediment input. We predicted that increasing nutrient concentrations would produce a subsidy-stress response (where several ecological metrics first increase and then decrease at higher concentrations) and that increasing sediment cover of the streambed would produce a linear decline in stream health. We predicted that the net effect of agricultural development, estimated as percentage pastoral land cover, would have a nonlinear subsidy-stress or threshold pattern. In our suite of 21 New Zealand streams, epilithic algal biomass and invertebrate density and biomass were higher in catchments with a higher proportion of pastoral land cover, responding mainly to increased nutrient concentration. Invertebrate species richness had a linear, negative relationship with fine-sediment cover but was unrelated to nutrients or pastoral land cover. In accord with our predictions, several invertebrate stream health metrics (Ephemeroptera-Plecoptera-Trichoptera density and richness, New Zealand Macroinvertebrate Community Index, and percent abundance of noninsect taxa) had nonlinear relationships with pastoral land cover and nutrients. Most invertebrate health metrics usually had linear negative relationships with fine-sediment cover. In this region, stream health, as indicated by macroinvertebrates, primarily followed a subsidy-stress pattern with increasing pastoral development; management of these streams should focus on limiting development beyond the point where negative effects are seen.

Evaluation of coal-mining impacts using numerical classification of benthic invertebrate data from streams draining a heavily mined basin in eastern Tennessee

USGS Publications Warehouse

Bradfield, A.D.

1986-01-01

Coal-mining impacts on Smoky Creek, eastern Tennessee were evaluated using water quality and benthic invertebrate data. Data from mined sites were also compared with water quality and invertebrate fauna found at Crabapple Branch, an undisturbed stream in a nearby basin. Although differences in water quality constituent concentrations and physical habitat conditions at sampling sites were apparent, commonly used measures of benthic invertebrate sample data such as number of taxa, sample diversity, number of organisms, and biomass were inadequate for determining differences in stream environments. Clustering algorithms were more useful in determining differences in benthic invertebrate community structure and composition. Normal (collections) and inverse (species) analyses based on presence-absence data of species of Ephemeroptera, Plecoptera, and Tricoptera were compared using constancy, fidelity, and relative abundance of species found at stations with similar fauna. These analyses identified differences in benthic community composition due to seasonal variations in invertebrate life histories. When data from a single season were examined, sites on tributary streams generally clustered separately from sites on Smoky Creek. These analyses compared with differences in water quality, stream size, and substrate characteristics between tributary sites and the more degraded main stem sites, indicated that numerical classification of invertebrate data can provide discharge-independent information useful in rapid evaluations of in-stream environmental conditions. (Author 's abstract)

The complete mitochondrial genome of the stonefly Dinocras cephalotes (Plecoptera, Perlidae).

PubMed

Elbrecht, Vasco; Poettker, Lisa; John, Uwe; Leese, Florian

2015-06-01

The complete mitochondrial genome of the perlid stonefly Dinocras cephalotes (Curtis, 1827) was sequenced using a combined 454 and Sanger sequencing approach using the known sequence of Pteronarcys princeps Banks, 1907 (Pteronarcyidae), to identify homologous 454 reads. The genome is 15,666 bp in length and includes 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNA genes and a control region. Gene order resembles that of basal arthropods. The base composition of the genome is A (33.5%), T (29.0%), C (24.4%) and G (13.1%). This is the second published mitogenome for the order Plecoptera and will be useful in future phylogenetic analysis.

An Inventory of Aquatic Macroinvertebrates and Calculation of Selected Biotic Indices for the U.S. Army Atterbury Reserve Forces Training Area near Edinburgh, Indiana, September 2000 - August 2002

USGS Publications Warehouse

Robinson, Bret A.

2004-01-01

Biotic indices (indicators of water-quality conditions) were calculated from the macroinvertebrate data. Ephemeroptera, Plecoptera, Trichoptera Richness Index values calculated for 23 samples collected from 16 sites ranged from 5 to 15, with more than 75 percent of the values falling within the range of 7 to 11. Hilsenhoff Biotic Index scores and Invertebrate Community Index scores calculated for samples collected at three sites indicate that water quality at these sites ranged from good to poor. The one site with a poor water-quality index score had a small drainage area. The small drainage area and dry conditions during the sampling period may have contributed to the poor scores calculated for this site.

Composition and Longitudinal Patterns of Aquatic Insect Emergence in Small Rivers of Palawan Island, the Philippines

NASA Astrophysics Data System (ADS)

Freitag, Hendrik

2004-09-01

This study presents the first emergence trap samples from streams in the Philippines and Greater Sunda. Aquatic insect emergence from two small rivers and longitudinal patterns including estuaries are compared. A decline of total emergence towards estuaries was observed, affecting all major orders. Diptera, namely Chironomidae, dominated all sites. High abundances in Ceratopogonidae, Odonata, and Coleoptera were found, compared to other emergence studies from tropical and temperate latitudes. Ephemeroptera displayed a highly variable contribution to the emergence from Palawan as well as in other comparative studies either supported by the appropriate conditions for certain functional groups or limited by environmental variables such as pH. Trichoptera are likely to tolerate a wider range of environmental conditions and they are consequently able to fill further niches where Ephemeroptera are under-represented. Except for scarce abundances of Plecoptera observed in this and other studies from the tropics, no substantial differences in emergence composition at order level existed between temperate and tropical rivers, however, with a remarkable local variation. Components of riparian and non-aquatic insects and non-emergent fauna contributing to the collections are discussed based on trap features. (

A new species of Megaperlodes Yokoyama et al. 1990 (Plecoptera, Perlodidae) from the South of the Russian Far East.

PubMed

Teslenko, Valentina A

2015-01-08

A new species of Plecoptera Megaperlodes tiunovi sp. n., from the South of the Russian Far East is described and illustrated. The relationships with its close relatives are discussed. Newly discovered features are added to the diagnosis of the genus Megaperlodes, especially previously overlooked eversible lobes within the paraprocts, egg structure, and wing venation.

Predictors of elevational biodiversity gradients change from single taxa to the multi-taxa community level

PubMed Central

Peters, Marcell K.; Hemp, Andreas; Appelhans, Tim; Behler, Christina; Classen, Alice; Detsch, Florian; Ensslin, Andreas; Ferger, Stefan W.; Frederiksen, Sara B.; Gebert, Friederike; Haas, Michael; Helbig-Bonitz, Maria; Hemp, Claudia; Kindeketa, William J.; Mwangomo, Ephraim; Ngereza, Christine; Otte, Insa; Röder, Juliane; Rutten, Gemma; Schellenberger Costa, David; Tardanico, Joseph; Zancolli, Giulia; Deckert, Jürgen; Eardley, Connal D.; Peters, Ralph S.; Rödel, Mark-Oliver; Schleuning, Matthias; Ssymank, Axel; Kakengi, Victor; Zhang, Jie; Böhning-Gaese, Katrin; Brandl, Roland; Kalko, Elisabeth K.V.; Kleyer, Michael; Nauss, Thomas; Tschapka, Marco; Fischer, Markus; Steffan-Dewenter, Ingolf

2016-01-01

The factors determining gradients of biodiversity are a fundamental yet unresolved topic in ecology. While diversity gradients have been analysed for numerous single taxa, progress towards general explanatory models has been hampered by limitations in the phylogenetic coverage of past studies. By parallel sampling of 25 major plant and animal taxa along a 3.7 km elevational gradient on Mt. Kilimanjaro, we quantify cross-taxon consensus in diversity gradients and evaluate predictors of diversity from single taxa to a multi-taxa community level. While single taxa show complex distribution patterns and respond to different environmental factors, scaling up diversity to the community level leads to an unambiguous support for temperature as the main predictor of species richness in both plants and animals. Our findings illuminate the influence of taxonomic coverage for models of diversity gradients and point to the importance of temperature for diversification and species coexistence in plant and animal communities. PMID:28004657

Macroinvertebrate distribution and aquatic ecology in the Ruoergai (Zoige) Wetland, the Yellow River source region

NASA Astrophysics Data System (ADS)

Zhao, Na; Xu, Mengzhen; Li, Zhiwei; Wang, Zhaoyin; Zhou, Hanmi

2017-09-01

The Ruoergai (Zoige) Wetland, the largest plateau peatland in the world, is located in the Yellow River source region. The discharge of the Yellow River increases greatly after flowing through the Ruoergai Wetland. The aquatic ecosystem of the Ruoergai Wetland is crucial to the whole Yellow River basin. The Ruoergai wetland has three main kinds of water bodies: rivers, oxbow lakes, and marsh wetlands. In this study, macroinvertebrates were used as indicators to assess the aquatic ecological status because their assemblage structures indicate long-term changes in environments with high sensitivity. Field investigations were conducted in July, 2012 and in July, 2013. A total of 72 taxa of macroinvertebrates belonging to 35 families and 67 genera were sampled and identified. Insecta was the dominant group in the Ruoergai Basin. The alpha diversity of macroinvertebrates at any single sampling site was low, while the alpha diversity on a basin-wide scale was much higher. Macroinvertebrate assemblages in rivers, oxbow lakes, and marsh wetlands differ markedly. Hydrological connectivity was a primary factor causing the variance of the bio-community. The river channels had the highest alpha diversity of macroinvertebrates, followed by marsh wetlands and oxbow lakes. The density and biomass of Gastropoda, collector filterers, and scrapers increased from rivers to oxbow lakes and then to marsh wetlands. The river ecology was particular in the Ruoergai Wetland with the high beta diversity of macroinvertebrates, the low alpha diversity of macroinvertebrates, and the low taxa richness, density, and biomass of EPT (Ephemeroptera, Plecoptera, Trichoptera). To maintain high alpha diversity of macroinvertebrates macroinvertebrates in the Ruoergai Wetland, moderate connectivity of oxbow lakes and marsh wetlands with rivers and measures to control headwater erosion are both crucial.

Effects of urbanization on benthic macroinvertebrate communities in streams, Anchorage, Alaska

USGS Publications Warehouse

Ourso, Robert T.

2001-01-01

The effect of urbanization on stream macroinvertebrate communities was examined by using data gathered during a 1999 reconnaissance of 14 sites in the Municipality of Anchorage, Alaska. Data collected included macroinvertebrate abundance, water chemistry, and trace elements in bed sediments. Macroinvertebrate relative-abundance data were edited and used in metric and index calculations. Population density was used as a surrogate for urbanization. Cluster analysis (unweighted-paired-grouping method) using arithmetic means of macroinvertebrate presence-absence data showed a well-defined separation between urbanized and nonurbanized sites as well as extracted sites that did not cleanly fall into either category. Water quality in Anchorage generally declined with increasing urbanization (population density). Of 59 variables examined, 31 correlated with urbanization. Local regression analysis extracted 11 variables that showed a significant impairment threshold response and 6 that showed a significant linear response. Significant biological variables for determining the impairment threshold in this study were the Margalef diversity index, Ephemeroptera-Plecoptera-Trichoptera taxa richness, and total taxa richness. Significant thresholds were observed in the water-chemistry variables conductivity, dissolved organic carbon, potassium, and total dissolved solids. Significant thresholds in trace elements in bed sediments included arsenic, iron, manganese, and lead. Results suggest that sites in Anchorage that have ratios of population density to road density greater than 70, storm-drain densities greater than 0.45 miles per square mile, road densities greater than 4 miles per square mile, or population densities greater than 125-150 persons per square mile may require further monitoring to determine if the stream has become impaired. This population density is far less than the 1,000 persons per square mile used by the U.S. Census Bureau to define an urban area.

Influence of agricultural, industrial, and anthropogenic stresses on the distribution and diversity of macroinvertebrates in Juru River Basin, Penang, Malaysia.

PubMed

Al-Shami, Salman A; Md Rawi, Che Salmah; Ahmad, Abu Hassan; Abdul Hamid, Suhaila; Mohd Nor, Siti Azizah

2011-07-01

Abundance and diversity of benthic macroinvertebrates as well as physico-chemical parameters were investigated in five rivers of the Juru River Basin in northern Peninsula Malaysia: Ceruk Tok Kun River (CTKR), Pasir River (PR), Permatang Rawa River (PRR), Kilang Ubi River (KUR), and Juru River (JR). The physico-chemical parameters and calculated water quality index (WQI) were significantly different among the investigated rivers (ANOVA, P<0.05). The WQI classified CTKR, PR, and JR into class III (slightly polluted). However, PRR and KUR fell into class IV (polluted). High diversity and abundance of macroinvertebrates, especially the intolerant taxa, Ephemeroptera, Plecoptera, and Trichoptera, were observed in the least polluted river, CTKR. Decreasing abundance of macroinvertebrates followed the deterioration of river water quality with the least number of the most tolerant taxa collected from PR. On the basis of composition and sensitivity of macroinvertebrates to pollutants in each river, the highest Biological Monitoring Working Party (BMWP) index score of 93 was reported in CTKR (good water quality). BMWP scores in PRR and JR were 38.7 and 20.1, respectively, classifying both of them into "moderate water quality" category. Poor water quality was reported in PR and KUR. The outcome of the multivariate analysis (CCA) was highly satisfactory, explaining 43.32% of the variance for the assemblages of macroinvertebrates as influenced by 19 physical and chemical variables. According to the CCA model, we assert that there were three levels of stresses on macroinvertebrate communities in the investigated rivers: Level 1, characterized of undisturbed or slightly polluted as in the case of CTKR; Level 2, characterized by a lower habitat quality (the JR) compared to the CTKR; and Level 3 showed severe environmental stresses (PRR, PR, and KUR) primarily contributed by agricultural, industrial, and municipal discharges. Copyright © 2011 Elsevier Inc. All rights reserved.

Multilevel Hierarchical Modeling of Benthic Macroinvertebrate Responses to Urbanization in Nine Metropolitan Regions across the Conterminous United States

USGS Publications Warehouse

Kashuba, Roxolana; Cha, YoonKyung; Alameddine, Ibrahim; Lee, Boknam; Cuffney, Thomas F.

2010-01-01

Multilevel hierarchical modeling methodology has been developed for use in ecological data analysis. The effect of urbanization on stream macroinvertebrate communities was measured across a gradient of basins in each of nine metropolitan regions across the conterminous United States. The hierarchical nature of this dataset was harnessed in a multi-tiered model structure, predicting both invertebrate response at the basin scale and differences in invertebrate response at the region scale. Ordination site scores, total taxa richness, Ephemeroptera, Plecoptera, Trichoptera (EPT) taxa richness, and richness-weighted mean tolerance of organisms at a site were used to describe invertebrate responses. Percentage of urban land cover was used as a basin-level predictor variable. Regional mean precipitation, air temperature, and antecedent agriculture were used as region-level predictor variables. Multilevel hierarchical models were fit to both levels of data simultaneously, borrowing statistical strength from the complete dataset to reduce uncertainty in regional coefficient estimates. Additionally, whereas non-hierarchical regressions were only able to show differing relations between invertebrate responses and urban intensity separately for each region, the multilevel hierarchical regressions were able to explain and quantify those differences within a single model. In this way, this modeling approach directly establishes the importance of antecedent agricultural conditions in masking the response of invertebrates to urbanization in metropolitan regions such as Milwaukee-Green Bay, Wisconsin; Denver, Colorado; and Dallas-Fort Worth, Texas. Also, these models show that regions with high precipitation, such as Atlanta, Georgia; Birmingham, Alabama; and Portland, Oregon, start out with better regional background conditions of invertebrates prior to urbanization but experience faster negative rates of change with urbanization. Ultimately, this urbanization

A new species of Isoperla (Insecta, Plecoptera) from the Karawanken, with considerations on the Southern Limestone Alps as centers of endemism.

PubMed

Graf, Wolfram; Konar, Martin; Murányi, Dávid; Orci, Kirill Márk; Vitecek, Simon

2014-01-01

A new species of the genus Isoperla (Plecoptera, Perlodidae), belonging to the oxylepis species-group is described, and the male mating call is characterized. Its range falls within a small region of the Southern Limestone Alps which is well known to be one endemism-centre of aquatic insects.

Contribution to the knowledge of Moroccan and Maghrebin stoneflies (Plecoptera).

PubMed

Errochdi, Sanae; Alami, Majida El; Vinçon, Gilles; Abdaoui, Abdelali; Ghamizi, Mohamed

2014-07-16

An overview of Moroccan stoneflies is presented as an annotated summary of published and unpublished records from 115 localities. These records have resulted in an updated species list reflecting taxonomic corrections and noteworthy range extensions for several species. A total of 28 species, belonging to 15 genera and seven families, is now known from Morocco with the greatest diversity found in the Rif Mountains (23 species) and the lowest in eastern Morocco with three species. The majority of Moroccan stoneflies are typical Mediterranean species (86%). The Moroccan endemics comprise nine species (32% of the Moroccan fauna). The Plecoptera fauna of Morocco is compared to that of Algeria and Tunisia. Thirty-eight stonefly species are reported from the entire Maghreb region. Protonemura khroumiriensis Béjaoui & Boumaïza, 2009 is considered a synonym of P. drahamensis Vinçon & Pardo, 2006.

A new species of Isoperla (Insecta, Plecoptera) from the Karawanken, with considerations on the Southern Limestone Alps as centers of endemism

PubMed Central

Graf, Wolfram; Konar, Martin; Murányi, Dávid; Orci, Kirill Márk; Vitecek, Simon

2014-01-01

Abstract A new species of the genus Isoperla (Plecoptera, Perlodidae), belonging to the oxylepis species-group is described, and the male mating call is characterized. Its range falls within a small region of the Southern Limestone Alps which is well known to be one endemism-centre of aquatic insects. PMID:25408608

Comparison of the complete mitochondrial genome of the stonefly Sweltsa longistyla (Plecoptera: Chloroperlidae) with mitogenomes of three other stoneflies.

PubMed

Chen, Zhi-Teng; Du, Yu-Zhou

2015-03-01

The complete mitochondrial genome of the stonefly, Sweltsa longistyla Wu (Plecoptera: Chloroperlidae), was sequenced in this study. The mitogenome of S. longistyla is 16,151bp and contains 37 genes including 13 protein-coding genes (PCGs), 22 tRNA genes, two rRNA genes, and a large non-coding region. S. longistyla, Pteronarcys princeps Banks, Kamimuria wangi Du and Cryptoperla stilifera Sivec belong to the Plecoptera, and the gene order and orientation of their mitogenomes were similar. The overall AT content for the four stoneflies was below 72%, and the AT content of tRNA genes was above 69%. The four genomes were compact and contained only 65-127bp of non-coding intergenic DNAs. Overlapping nucleotides existed in all four genomes and ranged from 24 (P. princeps) to 178bp (K. wangi). There was a 7-bp motif ('ATGATAA') of overlapping DNA and an 8-bp motif (AAGCCTTA) conserved in three stonefly species (P. princeps, K. wangi and C. stilifera). The control regions of four stoneflies contained a stem-loop structure. Four conserved sequence blocks (CSBs) were present in the A+T-rich regions of all four stoneflies. Copyright © 2014 Elsevier B.V. All rights reserved.

Discovery of a new stonefly genus with three new species from mid-Cretaceous Burmese amber (Plecoptera: Perlidae).

PubMed

Chen, Zhi-Teng; Wang, Bo; Du, Yu-Zhou

2018-02-11

A new fossil stonefly genus of the subfamily Acroneuriinae Klapálek, 1914 (Plecoptera: Perlidae), Largusoperla gen. nov. is reported based on three well-preserved specimens in mid-Cretaceous amber from northern Myanmar. Three new species of this new genus, L. acus sp. nov, L. flata sp. nov and L. arcus sp. nov. are described and illustrated. This is the first report of stonefly specimens from mid-Cretaceous Burmese amber. The taxonomic placement of the new genus is discussed.

Discovery of an alien species of mayfly in South America (Ephemeroptera).

PubMed

Salles, Frederico F; Gattolliat, Jean-Luc; Angeli, Kamila B; De-Souza, Márcia R; Gonçalves, Inês C; Nessimian, Jorge L; Sartori, Michel

2014-01-01

Despite its wide, almost worldwide distribution, the mayfly genus Cloeon Leach, 1815 (Ephemeroptera: Baetidae) is restricted in the Western hemisphere to North America, where a single species is reported. In the Neotropics, except for some species wrongly attributed to the genus in the past, there are no records of Cloeon. Recently, however, specimens of true Cloeon were collected along the coast of Espírito Santo, Southeastern Brazil. In order to verify the hypothesis that this species was recently introduced to Brazil, our aim was to identify the species based on morphological and molecular characters and to confirm the presence of true representatives of the genus in the Neotropics. Our results revealed that the specimens found in Brazil belong to the Afrotropical species C. smaeleni Lestage, 1924. The identity of the species, its distribution, along with its previous absence in regularly sampled sites, is a clear sign that the specimens of C. smaeleni found in Espírito Santo are introduced, well established, and that the colonization took place very recently.

Complete Mitochondrial Genome of Suwallia teleckojensis (Plecoptera: Chloroperlidae) and Implications for the Higher Phylogeny of Stoneflies

PubMed Central

Cao, Jin-Jun; Li, Wei-Hai

2018-01-01

Stoneflies comprise an ancient group of insects, but the phylogenetic position of Plecoptera and phylogenetic relations within Plecoptera have long been controversial, and more molecular data is required to reconstruct precise phylogeny. Herein, we present the complete mitogenome of a stonefly, Suwallia teleckojensis, which is 16146 bp in length and consists of 13 protein-coding genes (PCGs), 2 ribosomal RNAs (rRNAs), 22 transfer RNAs (tRNAs) and a control region (CR). Most PCGs initiate with the standard start codon ATN. However, ND5 and ND1 started with GTG and TTG. Typical termination codons TAA and TAG were found in eleven PCGs, and the remaining two PCGs (COII and ND5) have incomplete termination codons. All transfer RNA genes (tRNAs) have the classic cloverleaf secondary structures, with the exception of tRNASer(AGN), which lacks the dihydrouridine (DHU) arm. Secondary structures of the two ribosomal RNAs were shown referring to previous models. A large tandem repeat region, two potential stem-loop (SL) structures, Poly N structure (2 poly-A, 1 poly-T and 1 poly-C), and four conserved sequence blocks (CSBs) were detected in the control region. Finally, both maximum likelihood (ML) and Bayesian inference (BI) analyses suggested that the Capniidae was monophyletic, and the other five stonefly families form a monophyletic group. In this study, S. teleckojensis was closely related to Sweltsa longistyla, and Chloroperlidae and Perlidae were herein supported to be a sister group. PMID:29495588

Complete Mitochondrial Genome of Suwallia teleckojensis (Plecoptera: Chloroperlidae) and Implications for the Higher Phylogeny of Stoneflies.

PubMed

Wang, Ying; Cao, Jin-Jun; Li, Wei-Hai

2018-02-28

Stoneflies comprise an ancient group of insects, but the phylogenetic position of Plecoptera and phylogenetic relations within Plecoptera have long been controversial, and more molecular data is required to reconstruct precise phylogeny. Herein, we present the complete mitogenome of a stonefly, Suwallia teleckojensis , which is 16146 bp in length and consists of 13 protein-coding genes (PCGs), 2 ribosomal RNAs (rRNAs), 22 transfer RNAs (tRNAs) and a control region (CR). Most PCGs initiate with the standard start codon ATN. However, ND5 and ND1 started with GTG and TTG. Typical termination codons TAA and TAG were found in eleven PCGs, and the remaining two PCGs ( COII and ND5 ) have incomplete termination codons. All transfer RNA genes (tRNAs) have the classic cloverleaf secondary structures, with the exception of tRNA Ser(AGN) , which lacks the dihydrouridine (DHU) arm. Secondary structures of the two ribosomal RNAs were shown referring to previous models. A large tandem repeat region, two potential stem-loop (SL) structures, Poly N structure (2 poly-A, 1 poly-T and 1 poly-C), and four conserved sequence blocks (CSBs) were detected in the control region. Finally, both maximum likelihood (ML) and Bayesian inference (BI) analyses suggested that the Capniidae was monophyletic, and the other five stonefly families form a monophyletic group. In this study, S. teleckojensis was closely related to Sweltsa longistyla , and Chloroperlidae and Perlidae were herein supported to be a sister group.

Evaluation of biological data, Guanella Pass Area, Clear Creek and Park counties, Colorado, water years 1995-97

USGS Publications Warehouse

Cox-Lillis, Jennifer R.

2000-01-01

Macroinvertebrate and algal community samples were collected during a 3-year period at sites located near Guanella Pass, Colorado, to provide baseline characterization data. Water-quality sampling and habitat evaluations were used to aid in the interpretation of the biological data. The study was part of an environmental investigation for a proposed roadway reconstruction project on Guanella Pass. Discharge was strongly affected by snowmelt during May?July. Habitat scores were optimal (147?199), as determined by U.S. Environmental Protection Agency Rapid Bioassessment Protocol methods. Generally, low median concentrations of nitrogen and phosphorus (less than 0.02 milligram per liter) were detected at all sites. The water temperatures ranged from 0.4 to 11.2 degrees Celsius. The average pH for all sites was neutral, and specific conductivities were dilute (less than 160 microsiemens per centimeter at 25 degrees Celsius). The median suspended-sediment concentration was less than 20 milligrams per liter at all sites. During the study, 100 macroinvertebrate taxa were identified. The dominant taxonomic groups of macroinvertebrates were Diptera (true flies), Ephemeroptera (mayflies), Plecoptera (stoneflies), and Trichoptera (caddisflies). Macroinvertebrate density ranged from 6.6 to 4,300 organisms per square meter at sampled sites. Shannon-Weaver diversity values for the macroinvertebrate samples ranged from 1.6 to 4.5. Collector-gatherers dominated the functional feeding groups at most sites. Average abundance of Ephemeroptera, Plecoptera, and Trichoptera (EPT) was 56.7 percent; EPT:Chironomidae ratios were greater than 2:1 for every site except during water years 1996 and 1997. Chironomids were greater than EPT at four sites in water year 1996 and at one site in water year 1997. The percentage of macroinvertebrate community similarity between site pairs varied from 0 to 80 percent. The number of algal taxa identified was 280. The dominant algal divisions, in terms of

A new species of Anacroneuria Klapálek 1909 (Plecoptera: Perlidae) from Espírito Santo State, southeastern Brazil and comments on additional species.

PubMed

Novaes, Marcos Carneiro; Bispo, Pitágoras DA Conceição; Gonçalves, Maísa DE Carvalho

2016-12-14

Specimens of Perlidae (Plecoptera) from Espírito Santo State in southeastern Brazil were studied. A new species, Anacroneuria ruschii n. sp. is described. Brief remarks on A. debilis (Pictet) and Kempnyia neotropica (Jacobson & Bianchi) are also presented.

Spatial heterogeneity of stream environmental conditions and macroinvertebrates community in an agriculture dominated watershed and management implications for a large river (the Liao River, China) basin.

PubMed

Gao, Xin; Niu, Cuijuan; Chen, Yushun; Yin, Xuwang

2014-04-01

Understanding the effects of watershed land uses (e.g., agriculture, urban industry) on stream ecological conditions is important for the management of large river basins. A total of 41 and 56 stream sites (from first to fourth order) that were under a gradient of watershed land uses were monitored in 2009 and 2010, respectively, in the Liao River Basin, Northeast China. The monitoring results showed that a total of 192 taxa belonging to four phyla, seven classes, 21 orders and 91 families were identified. The composition of macroinvertebrate community in the Liao River Basin was dominated by aquatic insect taxa (Ephemeroptera and Diptera), Oligochaeta and Molluscs. The functional feeding group GC (Gatherer/Collector) was dominant in the whole basin. Statistical results showed that sites with less watershed impacts (lower order sites) were characterized by higher current velocity and habitat score, more sensitive taxa (e.g., Ephemeroptera), and the substrate was dominated by high percentage of cobble and pebble. The sites with more impacts from agriculture and urban industry (higher order sites) were characterized by higher biochemical (BOD5) and chemical oxygen demand (COD), more tolerant taxa (e.g., Chironominae), and the substrate was dominated by silt and sand. Agriculture and urban-industry activities have reduced habitat condition, increased organic pollutants, reduced macroinvertebrate abundance, diversity, and sensitive taxa in streams of the lower Liao River Basin. Restoration of degraded habitat condition and control of watershed organic pollutants could be potential management priorities for the Basin.

The first record of a species of Perlidae from Jiangsu Province, China: a new species of Neoperla (Plecoptera: Perlidae).

PubMed

Chen, Zhi-Teng; Du, Yu-Zhou

2015-06-23

A new species of Neoperla (Plecoptera, Perlidae), N. jiangsuensis Chen & Du from Jiangsu Province, China, is described and illustrated. Neoperla jiangsuensis is characterized by the aedeagal sac with two C-shaped rows of large stout spines laterally, a patch of small spines, and with an apical double ear-shaped membranous lobes. The new species is the first recorded species of Perlidae known from the eastern coastal province of Jiangsu, China.

Comparison of macroinvertebrate community structure between two riffle-based sampling protocols in Wyoming, Colorado, and Montana, 2000-2001

USGS Publications Warehouse

Peterson, David A.; Zumberge, Jeremy R.

2006-01-01

Samples of benthic macroinvertebrates were collected side-by-side from riffles at 12 stream sites in Wyoming, Colorado, and Montana during 2000-2001, following protocols established by the U.S. Geological Survey National Water-Quality Assessment (NAWQA) Program and the U.S. Environmental Protection Agency Environmental Monitoring and Assessment Program (EMAP). Samples from riffles were collected following NAWQA protocols, using a sampler with 425-micron net mesh-opening size from a total area of 1.25 m2 per sample in multiple riffles. Samples also were collected following EMAP protocols, using a sampler with 500-micron net mesh-opening size from a total area of 0.72 m2 per sample in multiple riffles. The taxonomic identification and enumeration of the samples followed procedures established for each program. Benthic macroinvertebrate community structure was compared between the data sets using individual metrics, a multimetric index, and multivariate analysis. Comparisons between the macroinvertebrate community structures were made after sequentially adjusting both data sets for: (1) ambiguous taxa, (2) taxonomic inconsistencies, and (3) differences in laboratory subsampling. After removal of ambiguous taxa, pair-wise differences in total taxa richness and Ephemeroptera taxa richness were statistically significant (p < 0.05). Differences between the data sets generally were not significant for richness of other taxa, tolerant taxa, semi-voltine taxa, functional feeding groups, diversity, and dominance. Sample scores calculated using the Wyoming Stream Integrity Index were not significantly different between the two data sets. After reconciling both data sets for taxonomic inconsistencies, total taxa richness and Ephemeroptera taxa richness remained significantly different between the data sets. After adjusting the data for differences in laboratory subsampling, the differences in taxa richness were no longer significant. Bray-Curtis similarity coefficients and non

The structure and ultrastructure of the egg capsule of Brachyptera risi (Plecoptera, Nemouroidea, Taeniopterygidae) with some remarks concerning choriogenesis.

PubMed

Michalik, Anna; Rościszewska, Elżbieta; Miliša, Marko

2015-02-01

The organization of the egg capsule of the euholognathan stonefly, which represents the family Taeniopterygidae (Nemuroidea) was investigated using light and electron microscopy techniques. The presence of a complex, multilayered egg capsule, composed of a vitelline envelope, multilayered chorion, and extrachorion is described. The morphology of the eggshell of Brachyptera risi was compared with that of euholognthan and systellognathan egg coverings and the ground plan of the egg capsule in Plecoptera was discussed. © 2014 Wiley Periodicals, Inc.

Macroinvertebrate diversity loss in urban streams from tropical forests.

PubMed

Docile, Tatiana N; Figueiró, Ronaldo; Portela, Clayton; Nessimian, Jorge L

2016-04-01

The increase of human activities in recent years has significantly interfered and affected aquatic ecosystems. In this present study, we investigate the effects of urbanization in the community structure of aquatic macroinvertebrates from Atlantic Forest streams. The sampling was conducted in the mountainous region of the State of Rio de Janeiro, Brazil in 10 urban and 10 preserved streams during the dry season (August-September) of 2012. The streams were characterized for its environmental integrity conditions and physico-chemical properties of water. The macroinvertebrates were sampled on rocky substrates with a kicknet. A total of 5370 individuals were collected from all streams and were distributed among Ephemeroptera, Odonata, Plecoptera, Hemiptera, Megaloptera, Coleoptera, Trichoptera, Lepidoptera, and Diptera. In urban sites, all those orders were found, except Megaloptera, while only Mollusca was not found in preserved streams. We performed a non-metric multidimensional scaling (NMDS) analysis that separated two groups distributed among sites in urban communities and another group outside this area. The dominance was significantly higher at urban sites, while the α diversity and equitability were greater in preserved sites. A canonical correspondence analysis (CCA) was also performed, indicating that most taxa associated with high values of the Habitat Integrity Index (HII) and a few genus of the order Diptera with the high values of ammonia, total nitrogen, associated to streams in urban sites. Urban and preserved streams differ by physical-chemical variables and aquatic macroinvertebrates. In urban streams, there is most dominance, while α diversity and equitability are higher in preserved streams.

Stream Invertebrate Communities, Water Quality, and Land-Use Patterns in an Agricultural Drainage Basin of Northeastern Nebraska, USA

NASA Astrophysics Data System (ADS)

Whiles, Matt R.; Brock, Brent L.; Franzen, Annette C.; Dinsmore, Steven C., II

2000-11-01

We used invertebrate bioassessment, habitat analysis, geographic information system analysis of land use, and water chemistry monitoring to evaluate tributaries of a degraded northeast Nebraska, USA, reservoir. Bimonthly invertebrate collections and monthly water chemistry samples were collected for two years on six stream reaches to identify sources contributing to reservoir degradation and test suitability of standard rapid bioassessment methods in this region. A composite biotic index composed of seven commonly used metrics was effective for distinguishing between differentially impacted sites and responded to a variety of disturbances. Individual metrics varied greatly in precision and ability to discriminate between relatively impacted and unimpacted stream reaches. A modified Hilsenhoff index showed the highest precision (reference site CV = 0.08) but was least effective at discriminating among sites. Percent dominance and the EPT (number of Ephemeroptera, Plecoptera, and Trichoptera taxa) metrics were most effective at discriminating between sites and exhibited intermediate precision. A trend of higher biotic integrity during summer was evident, indicating seasonal corrections should differ from other regions. Poor correlations were evident between water chemistry variables and bioassessment results. However, land-use factors, particularly within 18-m riparian zones, were correlated with bioassessment scores. For example, there was a strong negative correlation between percentage of rangeland in 18-m riparian zones and percentage of dominance in streams (r 2 = 0.90, P < 0.01). Results demonstrate that standard rapid bioassessment methods, with some modifications, are effective for use in this agricultural region of the Great Plains and that riparian land use may be the best predictor of stream biotic integrity.

Numerical experiments with model monophyletic and paraphyletic taxa

NASA Technical Reports Server (NTRS)

Sepkoski, J. J. Jr; Kendrick, D. C.; Sepkoski JJ, J. r. (Principal Investigator)

1993-01-01

The problem of how accurately paraphyletic taxa versus monophyletic (i.e., holophyletic) groups (clades) capture underlying species patterns of diversity and extinction is explored with Monte Carlo simulations. Phylogenies are modeled as stochastic trees. Paraphyletic taxa are defined in an arbitrary manner by randomly choosing progenitors and clustering all descendants not belonging to other taxa. These taxa are then examined to determine which are clades, and the remaining paraphyletic groups are dissected to discover monophyletic subgroups. Comparisons of diversity patterns and extinction rates between modeled taxa and lineages indicate that paraphyletic groups can adequately capture lineage information under a variety of conditions of diversification and mass extinction. This suggests that these groups constitute more than mere "taxonomic noise" in this context. But, strictly monophyletic groups perform somewhat better, especially with regard to mass extinctions. However, when low levels of paleontologic sampling are simulated, the veracity of clades deteriorates, especially with respect to diversity, and modeled paraphyletic taxa often capture more information about underlying lineages. Thus, for studies of diversity and taxic evolution in the fossil record, traditional paleontologic genera and families need not be rejected in favor of cladistically-defined taxa.

Effects of food availability and habitat features on the Ephemeroptera species composition at seasonal and spatial scales from neotropical floodplain rivers.

PubMed

Melo, S M; Ragonha, F H; Pinha, G D; Takeda, A M

2018-02-01

Brazilian floodplains have suffered great changes in their natural characteristics in recent decades, mainly in the flood pulse. The Upper Paraná River floodplain is one of the few places where are found remained areas in which such peculiar characteristics keep reflecting on its high biodiversity. Ephemeroptera nymphs are one of the higher density groups among benthic community, occurring in many water bodies like large rivers and secondary channels. We sought to understand which factors are needed for the species establishment and how much important is the species colonization, especially in environments with anthropogenic changes. The marginal areas, which are more structured with presence of macrophytes, showed the highest density and richness even in the Paraná River that has great human impact. We verified dominance of Americabaetis alphus, Tricorythopsis araponga, Tricorythopsis artigas on the Parana River, correlated with transparency, depth and electric conductivity, while the dominance of Traverella sp. was correlated with water temperature, especially in marginal areas. Consequently, the increasing transparency and electric conductivity due to the Porto Primavera dam in Parana River can be favoring those Ephemeroptera species. We demonstrated the importance of preserving the wetlands of Ivinhema River State Park mainly for Guajirolus sp., which was only registered in this region. Therefore, our study provides support for understanding gaps from previously studies using artificial substrates in three large rivers which are of great importance to the upper Paraná River floodplain.

A longitudinal assessment of the aquatic macroinvertebrate community in the channelized lower Missouri River

USGS Publications Warehouse

Poulton, Barry C.; Wildhaber, Mark L.; Charbonneau, Collette S.; Fairchild, James F.; Mueller, Brad G.; Schmitt, Christopher J.

2003-01-01

We conducted an aquatic macroinvertebrate assessment in the channelized reach of the lower Missouri River, and used statistical analysis of individual metrics and multimetric scores to identify community response patterns and evaluate relative biological condition. We examined longitudinal site differences that are potentially associated with water qualityrelated factors originating from the Kansas City metropolitan area, using data from coarse rock substrate in flowing water habitats (outside river bends), and depositional mud substratein slack water habitats (dike fields). Three sites above rivermile (RM) 369 in Kansas City (Nebraska City, RM = 560; St. Joseph, RM = 530; Parkville, RM = 377) and three below (Lexington, RM = 319; Glasgow, RM = 228; Hermann, RM = 94) were sampled with rock basket artificial substrates, a qualitative kicknet method, and the Petite Ponar. We also compared the performance of the methods used. A total of 132 aquatic macroinvertebrate taxa were collected from the lower Missouri River; one third of these taxa belonged to the sensitiveEPOT insect orders (Ephemeroptera, Plecoptera, Odonata, and Trichoptera). Rock baskets had the highest mean efficiency (34.1%) of the methods, and the largest number of taxa was collected by Ponar (n = 69) and kicknet (n = 69) methods. Seven of the 15 metrics calculated from rock basket data, and five ofthe nine metrics calculated from Ponar data showed highly significant differences (ANOVA, P < 0.001) at one or more sitesbelow Kansas City. We observed a substantial reduction in net-spinning Trichoptera in rock habitats below Kansas City (Lexington), an increase in relative dominance of Oligochaeta in depositional habitats at the next site downstream (Glasgow), and lower relative condition scores in rock habitat at Lexingtonand depositional habitat at Glasgow. Collectively, these data indicate that some urban-related impacts on the aquatic macroinvertebrate community are occurring. Our results suggest that

Influence of total organic carbon and UV-B radiation on zinc toxicity and bioaccumulation in aquatic communities.

PubMed

Kashian, Donna R; Prusha, Blair A; Clements, William H

2004-12-01

The effects of total organic carbon (TOC) and UV-B radiation on Zn toxicity and bioaccumulation in a Rocky Mountain stream community were assessed in a 10-d microcosm experiment. We predicted that TOC would mitigate Zn toxicity and that the combined effects of Zn and UV-B would be greater than Zn alone. However, TOC did not mitigate Zn toxicity in this study. In fact, treatments with TOC plus Zn had significantly lower community respiration as compared with the controls and Zn concentrations associated with the periphyton increased in the presence of TOC. UV-B had no additive effect on periphyton Zn accumulation or community respiration. Heptageniid mayflies (Ephemeroptera) were particularly sensitive to Zn, and reduced abundances were observed in all Zn treatments. UV-B did not additionally impact Heptageniid abundances; however UV-B did have a greater effect on macroinvertebrate drift than Zn alone. Ephemeroptera, Plecoptera, and Trichoptera (groups typically classified as sensitive to disturbance) were found in highest numbers in the drift of UV-B + Zn treatments. Measures of Zn accumulation in the caddisfly Arctopsyche grandis, periphyton biomass, and total macroinvertebrate abundance were not sufficiently sensitive to differentiate effects of TOC, UV-B, and Zn. These results indicate that UV-B and TOC affect Zn bioavailability and toxicity by impacting species abundance, behavior, and ecosystem processes.

Invertebrate composition and abundance associated with Didymosphenia geminata in a montane stream

USGS Publications Warehouse

James, Daniel A.; Ranney, Steven H.; Chipps, Steven R.; Spindler, Bryan D.

2010-01-01

Didymosphenia geminata, a relatively new aquatic nuisance species that can form extensive, mucilaginous mats on stream substrates, was reported from Rapid Creek, South Dakota in 2002. To examine the association between D. geminata and the invertebrate community in Rapid Creek, macroinvertebrates were quantified using three gear types in the fall of 2006. D. geminata was present at two of four sites sampled (range = 5.53 to 809.68 g m−2 dry mass). At each site, invertebrates were collected using dip nets, Surber samplers, and drift nets. The combined percentage of Ephemeroptera, Plecoptera, and Trichoptera in areas with D. geminata was lower (41%) than in areas without D. geminata (76%). Diptera abundance was higher at sites with D. geminata than in sites where D. geminata was absent.

Effects of management legacies on stream fish and aquatic benthic macroinvertebrate assemblages

USGS Publications Warehouse

Quist, Michael C.; Schultz, Randall D.

2014-01-01

Fish and benthic macroinvertebrate assemblages often provide insight on ecological conditions for guiding management actions. Unfortunately, land use and management legacies can constrain the structure of biotic communities such that they fail to reflect habitat quality. The purpose of this study was to describe patterns in fish and benthic macroinvertebrate assemblage structure, and evaluate relationships between biota and habitat characteristics in the Chariton River system of south-central Iowa, a system likely influenced by various potential management legacies (e.g., dams, chemical removal of fishes). We sampled fishes, benthic macroinvertebrates, and physical habitat from a total of 38 stream reaches in the Chariton River watershed during 2002–2005. Fish and benthic macroinvertebrate assemblages were dominated by generalist species tolerant of poor habitat quality; assemblages failed to show any apparent patterns with regard to stream size or longitudinal location within the watershed. Metrics used to summarize fish assemblages and populations [e.g., presence–absence, relative abundance, Index of Biotic Integrity for fish (IBIF)] were not related to habitat characteristics, except that catch rates of piscivores were positively related to the depth and the amount of large wood. In contrast, family richness of benthic macroinvertebrates, richness of Ephemeroptera, Trichoptera, and Plecoptera taxa, and IBI values for benthic macroinvertebrates (IBIBM) were positively correlated with the amount of overhanging vegetation and inversely related to the percentage of fine substrate. A long history of habitat alteration by row-crop agriculture and management legacies associated with reservoir construction has likely resulted in a fish assemblage dominated by tolerant species. Intolerant and sensitive fish species have not recolonized streams due to downstream movement barriers (i.e., dams). In contrast, aquatic insect assemblages reflected aquatic habitat

Effects of Management Legacies on Stream Fish and Aquatic Benthic Macroinvertebrate Assemblages

NASA Astrophysics Data System (ADS)

Quist, Michael C.; Schultz, Randall D.

2014-09-01

Fish and benthic macroinvertebrate assemblages often provide insight on ecological conditions for guiding management actions. Unfortunately, land use and management legacies can constrain the structure of biotic communities such that they fail to reflect habitat quality. The purpose of this study was to describe patterns in fish and benthic macroinvertebrate assemblage structure, and evaluate relationships between biota and habitat characteristics in the Chariton River system of south-central Iowa, a system likely influenced by various potential management legacies (e.g., dams, chemical removal of fishes). We sampled fishes, benthic macroinvertebrates, and physical habitat from a total of 38 stream reaches in the Chariton River watershed during 2002-2005. Fish and benthic macroinvertebrate assemblages were dominated by generalist species tolerant of poor habitat quality; assemblages failed to show any apparent patterns with regard to stream size or longitudinal location within the watershed. Metrics used to summarize fish assemblages and populations [e.g., presence-absence, relative abundance, Index of Biotic Integrity for fish (IBIF)] were not related to habitat characteristics, except that catch rates of piscivores were positively related to the depth and the amount of large wood. In contrast, family richness of benthic macroinvertebrates, richness of Ephemeroptera, Trichoptera, and Plecoptera taxa, and IBI values for benthic macroinvertebrates (IBIBM) were positively correlated with the amount of overhanging vegetation and inversely related to the percentage of fine substrate. A long history of habitat alteration by row-crop agriculture and management legacies associated with reservoir construction has likely resulted in a fish assemblage dominated by tolerant species. Intolerant and sensitive fish species have not recolonized streams due to downstream movement barriers (i.e., dams). In contrast, aquatic insect assemblages reflected aquatic habitat, particularly

Effects of management legacies on stream fish and aquatic benthic macroinvertebrate assemblages.

PubMed

Quist, Michael C; Schultz, Randall D

2014-09-01

Fish and benthic macroinvertebrate assemblages often provide insight on ecological conditions for guiding management actions. Unfortunately, land use and management legacies can constrain the structure of biotic communities such that they fail to reflect habitat quality. The purpose of this study was to describe patterns in fish and benthic macroinvertebrate assemblage structure, and evaluate relationships between biota and habitat characteristics in the Chariton River system of south-central Iowa, a system likely influenced by various potential management legacies (e.g., dams, chemical removal of fishes). We sampled fishes, benthic macroinvertebrates, and physical habitat from a total of 38 stream reaches in the Chariton River watershed during 2002-2005. Fish and benthic macroinvertebrate assemblages were dominated by generalist species tolerant of poor habitat quality; assemblages failed to show any apparent patterns with regard to stream size or longitudinal location within the watershed. Metrics used to summarize fish assemblages and populations [e.g., presence-absence, relative abundance, Index of Biotic Integrity for fish (IBIF)] were not related to habitat characteristics, except that catch rates of piscivores were positively related to the depth and the amount of large wood. In contrast, family richness of benthic macroinvertebrates, richness of Ephemeroptera, Trichoptera, and Plecoptera taxa, and IBI values for benthic macroinvertebrates (IBIBM) were positively correlated with the amount of overhanging vegetation and inversely related to the percentage of fine substrate. A long history of habitat alteration by row-crop agriculture and management legacies associated with reservoir construction has likely resulted in a fish assemblage dominated by tolerant species. Intolerant and sensitive fish species have not recolonized streams due to downstream movement barriers (i.e., dams). In contrast, aquatic insect assemblages reflected aquatic habitat, particularly

A new species of Leuctra from Turkey, and notes on Anatolian Rhabdiopteryx (Plecoptera: Leuctridae & Taeniopterygidae).

PubMed

Murányi, Dávid; Vinçon, Gilles

2017-03-15

In the recent annotated catalogue of the Turkish Plecoptera, the fauna of Anatolia are considered remarkably rich with 32 micro-endemic species currently recorded (Darilmaz et al. 2016). The major hot spot is the Pontus, the eastern Black Sea region of Turkey. Nearly half of these micro-endemic stonefly species are only known from this region. The eastern subregion of the Pontus has a direct connection with the Caucasian stonefly fauna. This subregion even has an endemic species group of Leuctra Stephens, 1836, presently including four known species (Vinçon & Sivec 2001).

Rogue taxa phenomenon: a biological companion to simulation analysis

PubMed Central

Westover, Kristi M.; Rusinko, Joseph P.; Hoin, Jon; Neal, Matthew

2013-01-01

To provide a baseline biological comparison to simulation study predictions about the frequency of rogue taxa effects, we evaluated the frequency of a rogue taxa effect using viral data sets which differed in diversity. Using a quartet-tree framework, we measured the frequency of a rogue taxa effect in three data sets of increasing genetic variability (within viral serotype, between viral serotype, and between viral family) to test whether the rogue taxa was correlated with the mean sequence diversity of the respective data sets. We found a slight increase in the percentage of rogues as nucleotide diversity increased. Even though the number of rogues increased with diversity, the distribution of the types of rogues (friendly, crazy, or evil) did not depend on the diversity and in the case of the order-level data set the net rogue effect was slightly positive. This study, assessing frequency of the rogue taxa effect using biological data, indicated that simulation studies may over-predict the prevalence of the rogue taxa effect. Further investigations are necessary to understand which types of data sets are susceptible to a negative rogue effect and thus merit the removal of taxa from large phylogenetic reconstructions. PMID:23707704

Two new species of Amphinemura (Plecoptera: Nemouridae) from Tibet.

PubMed

Li, Weihai; Wang, Ying; Yang, Ding

2017-03-28

Two new species of the nemourid genus Amphinemura are described based on recent material collected from the Tibet Autonomous Region of China. The new taxa include A. chayuensis sp. nov. and A. hexalobata sp. nov., the latter species is respresented by both sexes. The new species are compared to related taxa.

Keystone taxa as drivers of microbiome structure and functioning.

PubMed

Banerjee, Samiran; Schlaeppi, Klaus; van der Heijden, Marcel G A

2018-05-22

Microorganisms have a pivotal role in the functioning of ecosystems. Recent studies have shown that microbial communities harbour keystone taxa, which drive community composition and function irrespective of their abundance. In this Opinion article, we propose a definition of keystone taxa in microbial ecology and summarize over 200 microbial keystone taxa that have been identified in soil, plant and marine ecosystems, as well as in the human microbiome. We explore the importance of keystone taxa and keystone guilds for microbiome structure and functioning and discuss the factors that determine their distribution and activities.

Rogue taxa phenomenon: a biological companion to simulation analysis.

PubMed

Westover, Kristi M; Rusinko, Joseph P; Hoin, Jon; Neal, Matthew

2013-10-01

To provide a baseline biological comparison to simulation study predictions about the frequency of rogue taxa effects, we evaluated the frequency of a rogue taxa effect using viral data sets which differed in diversity. Using a quartet-tree framework, we measured the frequency of a rogue taxa effect in three data sets of increasing genetic variability (within viral serotype, between viral serotype, and between viral family) to test whether the rogue taxa was correlated with the mean sequence diversity of the respective data sets. We found a slight increase in the percentage of rogues as nucleotide diversity increased. Even though the number of rogues increased with diversity, the distribution of the types of rogues (friendly, crazy, or evil) did not depend on the diversity and in the case of the order-level data set the net rogue effect was slightly positive. This study, assessing frequency of the rogue taxa effect using biological data, indicated that simulation studies may over-predict the prevalence of the rogue taxa effect. Further investigations are necessary to understand which types of data sets are susceptible to a negative rogue effect and thus merit the removal of taxa from large phylogenetic reconstructions. Copyright © 2013 Elsevier Inc. All rights reserved.

An annotated catalogue of the mayfly fauna of Turkey (Insecta, Ephemeroptera)

PubMed Central

Salur, Ali; Darilmaz, Mustafa Cemal; Bauernfeind, Ernst

2016-01-01

Abstract The mayfly fauna of Turkey was reviewed including all hitherto known distribution records together with references and a few new records. Additionally, comments on taxonomy, identification and nomenclature are provided. Two species are new for the Turkish fauna: Ephemera romantzovi Kluge, 1988 and Thraulus thraker Jacob, 1988. A list of taxa including their recorded distribution in Turkey (according to provinces) is provided in the annotated catalogue. The type locality is also given for each species originally described from Turkey. According to the literature and the new records, 157 mayfly taxa representing 33 genera and 14 families were described from Turkey. Among them, 24 species are considered endemic to Anatolia. PMID:27853408

Projection of invertebrate populations in the headwater streams of a temperate catchment under a changing climate.

PubMed

Nukazawa, Kei; Arai, Ryosuke; Kazama, So; Takemon, Yasuhiro

2018-06-14

Climate change places considerable stress on riverine ecosystems by altering flow regimes and increasing water temperature. This study evaluated how water temperature increases under climate change scenarios will affect stream invertebrates in pristine headwater streams. The studied headwater-stream sites were distributed within a temperate catchment of Japan and had similar hydraulic-geographical conditions, but were subject to varying temperature conditions due to altitudinal differences (100 to 850 m). We adopted eight general circulation models (GCMs) to project air temperature under conservative (RCP2.6), intermediate (RCP4.5), and extreme climate scenarios (RCP8.5) during the near (2031-2050) and far (2081-2100) future. Using the water temperature of headwater streams computed by a distributed hydrological-thermal model as a predictor variable, we projected the population density of stream invertebrates in the future scenarios based on generalized linear models. The mean decrease in the temporally averaged population density of Plecoptera was 61.3% among the GCMs, even under RCP2.6 in the near future, whereas density deteriorated even further (90.7%) under RCP8.5 in the far future. Trichoptera density was also projected to greatly deteriorate under RCP8.5 in the far future. We defined taxa that exhibited temperature-sensitive declines under climate change as cold stenotherms and found that most Plecoptera taxa were cold stenotherms in comparison to other orders. Specifically, the taxonomic families that only distribute in Palearctic realm (e.g., Megarcys ochracea and Scopura longa) were selectively assigned, suggesting that Plecoptera family with its restricted distribution in the Palearctic might be a sensitive indicator of climate change. Plecoptera and Trichoptera populations in the headwaters are expected/anticipated to decrease over the considerable geographical range of the catchment, even under the RCP2.6 in the near future. Given headwater

Development of a socio-ecological environmental justice model for watershed-based management

NASA Astrophysics Data System (ADS)

Sanchez, Georgina M.; Nejadhashemi, A. Pouyan; Zhang, Zhen; Woznicki, Sean A.; Habron, Geoffrey; Marquart-Pyatt, Sandra; Shortridge, Ashton

2014-10-01

The dynamics and relationships between society and nature are complex and difficult to predict. Anthropogenic activities affect the ecological integrity of our natural resources, specifically our streams. Further, it is well-established that the costs of these activities are born unequally by different human communities. This study considered the utility of integrating stream health metrics, based on stream health indicators, with socio-economic measures of communities, to better characterize these effects. This study used a spatial multi-factor model and bivariate mapping to produce a novel assessment for watershed management, identification of vulnerable areas, and allocation of resources. The study area is the Saginaw River watershed located in Michigan. In-stream hydrological and water quality data were used to predict fish and macroinvertebrate measures of stream health. These measures include the Index of Biological Integrity (IBI), Hilsenhoff Biotic Index (HBI), Family IBI, and total number of Ephemeroptera, Plecoptera, and Trichoptera (EPT) taxa. Stream health indicators were then compared to spatially coincident socio-economic data, obtained from the United States Census Bureau (2010), including race, income, education, housing, and population size. Statistical analysis including spatial regression and cluster analysis were used to examine the correlation between vulnerable human populations and environmental conditions. Overall, limited correlation was observed between the socio-economic data and ecological measures of stream health, with the highest being a negative correlation of 0.18 between HBI and the social parameter household size. Clustering was observed in the datasets with urban areas representing a second order clustering effect over the watershed. Regions with the worst stream health and most vulnerable social populations were most commonly located nearby or down-stream to highly populated areas and agricultural lands.

Response of benthic macroinvertebrate communities to highway construction in an Appalachian watershed

USGS Publications Warehouse

Hedrick, Lara B.; Welsh, S.A.; Anderson, James T.; Lin, L.-S.; Chen, Y.; Wei, X.

2010-01-01

Highway construction in mountainous areas can result in sedimentation of streams, negatively impacting stream habitat, water quality, and biotic communities. We assessed the impacts of construction of a segment of Corridor H, a four-lane highway, in the Lost River watershed, West Virginia, by monitoring benthic macroinvertebrate communities and water quality, before, during, and after highway construction and prior to highway use at upstream and downstream sites from 1997 through 2007. Data analysis of temporal impacts of highway construction followed a Before-After-Control-Impact (BACI) study design. Highway construction impacts included an increase in stream sedimentation during the construction phase. This was indicated by an increase in turbidity and total suspended solids. Benthic macroinvertebrate metrics indicated a community more tolerant during and after construction than in the period before construction. The percent of Chironomidae and the Hilsenhoff Biotic Index (HBI) increased, while percent of Ephemeroptera, Plecoptera, and Trichoptera (EPT) decreased. Our 10-year study addressed short-term impacts of highway construction and found that impacts were relatively minimal. A recovery of the number of EPT taxa collected after construction indicated that the benthic macroinvertebrate community may be recovering from impacts of highway construction. However, this study only addressed a period of 3 years before, 3 years during, and 4 years post construction. Inferences cannot be made concerning the long-term impacts of the highway, highway traffic, runoff, and other factors associated with highway use. Continual monitoring of the watershed is necessary to determine if the highway has a continual impact on stream habitat, water quality, and biotic integrity. ?? 2010 Springer Science+Business Media B.V.

Linkages between nutrients and assemblages of macroinvertebrates and fish in wadeable streams: Implication to nutrient criteria development

USGS Publications Warehouse

Wang, L.; Robertson, Dale M.; Garrison, P.J.

2007-01-01

We sampled 240 wadeable streams across Wisconsin for different forms of phosphorus and nitrogen, and assemblages of macroinvertebrates and fish to (1) examine how macroinvertebrate and fish measures correlated with the nutrients; (2) quantify relationships between key biological measures and nutrient forms to identify potential threshold levels of nutrients to support nutrient criteria development; and (3) evaluate the importance of nutrients in influencing biological assemblages relative to other physicochemical factors at different spatial scales. Twenty-three of the 35 fish and 18 of the 26 macroinvertebrate measures significantly correlated (P < 0.05) with at least one nutrient measure. Percentages of carnivorous, intolerant, and omnivorous fishes, index of biotic integrity, and salmonid abundance were fish measures correlated with the most nutrient measures and had the highest correlation coefficients. Percentages of Ephemeroptera-Plecoptera-Trichoptera individuals and taxa, Hilsenhoff biotic index, and mean tolerance value were macroinvertebrate measures that most strongly correlated with the most nutrient measures. Selected biological measures showed clear trends toward degradation as concentrations of phosphorus and nitrogen increased, and some measures showed clear thresholds where biological measures changed drastically with small changes in nutrient concentrations. Our selected environmental factors explained 54% of the variation in the fish assemblages. Of this explained variance, 46% was attributed to catchment and instream habitat, 15% to nutrients, 3% to other water quality measures, and 36% to the interactions among all the environmental variables. Selected environmental factors explained 53% of the variation in macroinvertebrate assemblages. Of this explained variance, 42% was attributed to catchment and instream habitat, 22% to nutrients, 5% to other water quality measures, and 32% to the interactions among all the environmental variables. ?? 2006

Linkages Between Nutrients and Assemblages of Macroinvertebrates and Fish in Wadeable Streams: Implication to Nutrient Criteria Development

NASA Astrophysics Data System (ADS)

Wang, Lizhu; Robertson, Dale M.; Garrison, Paul J.

2007-02-01

We sampled 240 wadeable streams across Wisconsin for different forms of phosphorus and nitrogen, and assemblages of macroinvertebrates and fish to (1) examine how macroinvertebrate and fish measures correlated with the nutrients; (2) quantify relationships between key biological measures and nutrient forms to identify potential threshold levels of nutrients to support nutrient criteria development; and (3) evaluate the importance of nutrients in influencing biological assemblages relative to other physicochemical factors at different spatial scales. Twenty-three of the 35 fish and 18 of the 26 macroinvertebrate measures significantly correlated ( P < 0.05) with at least one nutrient measure. Percentages of carnivorous, intolerant, and omnivorous fishes, index of biotic integrity, and salmonid abundance were fish measures correlated with the most nutrient measures and had the highest correlation coefficients. Percentages of Ephemeroptera-Plecoptera-Trichoptera individuals and taxa, Hilsenhoff biotic index, and mean tolerance value were macroinvertebrate measures that most strongly correlated with the most nutrient measures. Selected biological measures showed clear trends toward degradation as concentrations of phosphorus and nitrogen increased, and some measures showed clear thresholds where biological measures changed drastically with small changes in nutrient concentrations. Our selected environmental factors explained 54% of the variation in the fish assemblages. Of this explained variance, 46% was attributed to catchment and instream habitat, 15% to nutrients, 3% to other water quality measures, and 36% to the interactions among all the environmental variables. Selected environmental factors explained 53% of the variation in macroinvertebrate assemblages. Of this explained variance, 42% was attributed to catchment and instream habitat, 22% to nutrients, 5% to other water quality measures, and 32% to the interactions among all the environmental variables.

Effects of changing climate on European stream invertebrate communities: A long-term data analysis.

PubMed

Jourdan, Jonas; O'Hara, Robert B; Bottarin, Roberta; Huttunen, Kaisa-Leena; Kuemmerlen, Mathias; Monteith, Don; Muotka, Timo; Ozoliņš, Dāvis; Paavola, Riku; Pilotto, Francesca; Springe, Gunta; Skuja, Agnija; Sundermann, Andrea; Tonkin, Jonathan D; Haase, Peter

2018-04-15

Long-term observations on riverine benthic invertebrate communities enable assessments of the potential impacts of global change on stream ecosystems. Besides increasing average temperatures, many studies predict greater temperature extremes and intense precipitation events as a consequence of climate change. In this study we examined long-term observation data (10-32years) of 26 streams and rivers from four ecoregions in the European Long-Term Ecological Research (LTER) network, to investigate invertebrate community responses to changing climatic conditions. We used functional trait and multi-taxonomic analyses and combined examinations of general long-term changes in communities with detailed analyses of the impact of different climatic drivers (i.e., various temperature and precipitation variables) by focusing on the response of communities to climatic conditions of the previous year. Taxa and ecoregions differed substantially in their response to climate change conditions. We did not observe any trend of changes in total taxonomic richness or overall abundance over time or with increasing temperatures, which reflects a compensatory turnover in the composition of communities; sensitive Plecoptera decreased in response to warmer years and Ephemeroptera increased in northern regions. Invasive species increased with an increasing number of extreme days which also caused an apparent upstream community movement. The observed changes in functional feeding group diversity indicate that climate change may be associated with changes in trophic interactions within aquatic food webs. These findings highlight the vulnerability of riverine ecosystems to climate change and emphasize the need to further explore the interactive effects of climate change variables with other local stressors to develop appropriate conservation measures. Copyright © 2017 Elsevier B.V. All rights reserved.

Aquatic Insects from the Caatinga: checklists and diversity assessments of Ubajara (Ceará State) and Sete Cidades (Piauí State) National Parks, Northeastern Brazil.

PubMed

Takiya, Daniela Maeda; Santos, Allan Paulo Moreira; Pinto, Ângelo Parise; Henriques-Oliveira, Ana Lucia; Carvalho, Alcimar do Lago; Sampaio, Brunno Henrique Lanzellotti; Clarkson, Bruno; Moreira, Felipe Ferraz Figueiredo; Avelino-Capistrano, Fernanda; Gonçalves, Inês Corrêa; Cordeiro, Isabelle da Rocha Silva; Câmara, Josenir Teixeira; Barbosa, Julianna Freires; de Souza, W Rafael Maciel; Rafael, José Albertino

2016-01-01

Diversity and distribution of Neotropical aquatic insects is still poorly known, with many species to be recorded and many others to be described, due to the small number of taxonomists and sparse faunistic studies. This knowledge is especially poor in the Caatinga Domain in Northeastern Brazil, even though, this region may have played an important historical role in the spatial evolution of faunas of forested areas in northern South America. Aquatic insect checklists of 96 species from Parque Nacional de Ubajara (Ceará State, Brazil) and 112 species from Parque Nacional de Sete Cidades (Piauí State, Brazil) are presented, representing the following taxa: Elmidae, Epimetopidae, Hydrophilidae, and Torridincolidae (Coleoptera), Hemerodromiinae (Diptera: Empididae), Ephemeroptera, Gerromorpha and Nepomorpha (Hemiptera), Odonata, Plecoptera, and Trichoptera. Because of the scarce number of biological inventories in Northeastern Brazil, several new distributional records (of species, genera, and families) for Brazil, Northeastern Brazil, and Ceará and Piauí states are provided. In addition, several undescribed species were detected, being 26 from Ubajara and 20 from Sete Cidades. Results represent a significant increase to the known fauna of these states, ranging from 13%-70% increase for Ceará and 41% to 91% increase for Piauí. Although both parks are relatively close to each other and within the Caatinga domain, their aquatic fauna display a very high complementarity (89% species), possibly due to structural differences of water bodies sampled in each park. Rarefaction curves based on quantitative light trap samples suggest a much higher expected species richness of aquatic insects at Sete Cidades than at Ubajara National Park. Discussion on biogeographical affinities of this sample of the Caatinga fauna is provided.

Tricorythodes tragoedia sp. nov. (Ephemeroptera: Leptohyphidae), a new species from Rio Doce and surrounding areas, southeastern Brazil.

PubMed

Souto, Paula Malaquias; Angeli, Kamila Batista; Salles, Frederico Falcão

2017-11-01

A new species of Tricorythodes Ulmer (Ephemeroptera: Leptohyphidae) is described and illustrated based on nymphs and adults from the Doce River and surrounding areas in southeastern Brazil. Tricorythodes tragoedia sp. nov. is related to T. arequita Traver, T. mirca Molineri and T. sallesi Dias, Cabette & De Sousa, but its nymphs can be distinguished from these species by having a three-segmented maxillary palp with apical seta and one pair of submarginal denticles on the tarsal claws. Nymphs were collected from small to large rivers at altitudes of less than 100 m where they inhabit submersed substrates in areas with slow current. Nymphs and adults were found throughout the year.

Central Asian mountain Rhithrogenini (Ephemeroptera: Heptageniidae) with pointed and ephemeropteroid claws in the winged stages.

PubMed

Kluge, Nikita J

2015-08-03

Among mountain species of Heptageniidae from Central Asia, six species belonging to the taxa Cinygmula McDunnough 1933, Himalogena Kluge 2004 and Caucasiron Kluge 1997 have all claws of the winged stages (subimago and imago) pointed. In this area Cinygmula is represented by two species: C. hutchinsoni (Traver 1939) (with pointed claws) and C. joosti Braasch 1977 (with the more typical ephemeropteroid claws); for both species all stages of both sexes associated by rearing are redescribed. The Central Asian mountain taxon Himalogena includes seven species: Rhithrogena (Himalogena) tianshanica Brodsky 1930, Rh. (H.) pamirica sp. n., Rh. (H.) carnivora sp. n., Rh. (H.) semicarnivora sp. n., Rh. (H.) stackelbergi Sinitshenkova 1973, Rh. (H.) gunti sp. n. and Rh. (H.) nepalensis Braasch 1984; for five of them, all stages of both sexes associated by rearing are redescribed; Rh. (H.) semicarnivora is known as male imagoes reared from larvae; Rh. (H.) nepalensis formerly known only as larvae, is redescribed based on an anomalous female imago (with gynandromorphism caused by helminth in abdomen) reared from the larval stage. Among these species, Rh. (H.) tianshanica, Rh. (H.) pamirica, Rh. (H.) carnivora and Rh. (H.) semicarnivora have mandibles and the labrum modified for carnivorism, while the other three species have the usual Rhithrogena mouth apparatus. Imagoes and subimagoes of Rh. (H.) pamirica, Rh. (H.) carnivora, Rh. (H.) gunti and Rh. (H.) nepalensis, have both claws of each leg pointed, while the other species have ephemeropteroid claws. Corrections to the description of Rh. minima Sinitshenkova 1973 claw denticulation and to original figure references are given. The taxon Ironopsis/g1 is represented by two species in the Central Asian mountains: Epeorus (Caucasiron) guttatus (Braasch & Soldán 1979) (with pointed claws) and Epeorus (Ironopsis) rheophilus (Brodsky 1930) (with ephemeropteroid claws); for both species all stages of both sexes associated by rearing

Preliminary survey of the mayflies (Ephemeroptera) and caddisflies (Trichoptera) of Big Bend Ranch State Park and Big Bend National Park

PubMed Central

Baumgardner, David E.; Bowles, David E.

2005-01-01

The mayfly (Insecta: Ephemeroptera) and caddisfly (Insecta: Trichoptera) fauna of Big Bend National Park and Big Bend Ranch State Park are reported based upon numerous records. For mayflies, sixteen species representing four families and twelve genera are reported. By comparison, thirty-five species of caddisflies were collected during this study representing seventeen genera and nine families. Although the Rio Grande supports the greatest diversity of mayflies (n=9) and caddisflies (n=14), numerous spring-fed creeks throughout the park also support a wide variety of species. A general lack of data on the distribution and abundance of invertebrates in Big Bend National and State Park is discussed, along with the importance of continuing this type of research. PMID:17119610

Molecular phylogeny of Systellognatha (Plecoptera: Arctoperlaria) inferred from mitochondrial genome sequences.

PubMed

Chen, Zhi-Teng; Zhao, Meng-Yuan; Xu, Cheng; Du, Yu-Zhou

2018-05-01

The infraorder Systellognatha is the most species-rich clade in the insect order Plecoptera and includes six families in two superfamilies: Pteronarcyoidea (Pteronarcyidae, Peltoperlidae, and Styloperlidae) and Perloidea (Perlidae, Perlodidae, and Chloroperlidae). To resolve the debatable phylogeny of Systellognatha, we carried out the first mitochondrial phylogenetic analysis covering all the six families, including three newly sequenced mitogenomes from two families (Perlodidae and Peltoperlidae) and 15 published mitogenomes. The three newly reported mitogenomes share conserved mitogenomic features with other sequenced stoneflies. For phylogenetic analyses, we assembled five datasets with two inference methods to assess their influence on topology and nodal support within Systellognatha. The results indicated that inclusion of the third codon positions of PCGs, exclusion of rRNA genes, the use of nucleotide datasets and Bayesian inference could improve the phylogenetic reconstruction of Systellognatha. The monophyly of Perloidea was supported in the mitochondrial phylogeny, but Pteronarcyoidea was recovered as paraphyletic and remained controversial. In this mitochondrial phylogenetic study, the relationships within Systellognatha were recovered as (((Perlidae + (Perlodidae + Chloroperlidae)) + (Pteronarcyidae + Styloperlidae)) + Peltoperlidae). Copyright © 2018 Elsevier B.V. All rights reserved.

Assessing the Fauna of Aquatic Insects for Possible Use for Malaria Vector Control in Large River, Central Iran.

PubMed

Shayeghi, Mansoureh; Nejati, Jalil; Shirani-Bidabadi, Leila; Koosha, Mona; Badakhshan, Mehdi; Mohammadi Bavani, Mulood; Arzamani, Kourosh; Choubdar, Nayyereh; Bagheri, Fatemeh; Saghafipour, Abedin; Veysi, Arshad; Karimian, Fateh; Akhavan, Amir Ahamd; Vatandoost, Hassan

2015-01-01

Insects with over 30,000 aquatic species are known as very successful arthropods in freshwater habitats. Some of them are applied as biological indicators for water quality control, as well as the main food supply for fishes and amphibians. The faunistic studies are the basic step in entomological researches; the current study was carried out emphasizing on the fauna of aquatic insects in Karaj River, northern Iran. A field study was carried out in six various sampling site of Karaj River during spring 2013. The aquatic insects were collected using several methods such as D-frame nets, dipping and direct search on river floor stones. Specimens were collected and preserved in Ethanol and identified by standard identification keys. Totally, 211 samples were collected belonging to three orders; Plecoptera, Trichoptera and Ephemeroptera. Seven genuses (Perla, Isoperla, Hydropsyche, Cheumatopsyche, Baetis, Heptagenia and Maccafferium) from five families (Perlidae, Perlodidae, Hydropsychidae, Batidae, Heptagenidae) were identified. The most predominant order was Plecoptera followed by Trichoptera. Karaj River is a main and important river, which provides almost all of water of Karaj dam. So, identification of aquatic species which exist in this river is vital and further studies about systematic and ecological investigations should be performed. Also, monitoring of aquatic biota by trained health personnel can be a critical step to describe water quality in this river. Understanding the fauna of aquatic insects will provide a clue for possible biological control of medically important aquatic insects such as Anopheles as the malaria vectors.

The structure and ultrastructure of the egg capsules of stoneflies of the genus Isoperla (Insecta, Plecoptera, Perlodidae).

PubMed

Michalik, Anna; Miliša, Marko; Michalik, Katarzyna; Rościszewska, Elżbieta

2017-11-01

The egg capsules of five systellognathan stoneflies species representing the genus Isoperla (Plecoptera, Perlodidae) have been investigated using light and electron microscopes (SEM and TEM). We consider the structural modifications of egg coverings (egg capsules, eggshells) like: a shape of a capsule, presence of structures fixing an egg to the substratum under water, intrachorionic aeropylar system facilitating gas exchange as a factor adapting an egg/embryo to the environment. The structures protecting eggs against desiccation during a female flight before oviposition into water as well as against the dangers of external mechanical injury caused by turbulences in rapid water currents of mountain streams are described and discussed. The ground plan of the egg capsule in arctoperlarian stoneflies is also discussed. © 2017 Wiley Periodicals, Inc.

Hot spots, indicator taxa, complementarity and optimal networks of taiga.

PubMed Central

Virolainen, K M; Ahlroth, P; Hyvärinen, E; Korkeamäki, E; Mattila, J; Päiivinen, J; Rintala, T; Suomi, T; Suhonen, J

2000-01-01

If hot spots for different taxa coincide, priority-setting surveys in a region could be carried out more cheaply by focusing on indicator taxa. Several previous studies show that hot spots of different taxa rarely coincide. However, in tropical areas indicator taxa may be used in selecting complementary networks to represent biodiversity as a whole. We studied beetles (Coleoptera), Heteroptera, polypores or bracket fungi (Polyporaceae) and vascular plants of old growth boreal taiga forests. Optimal networks for Heteroptera maximized the high overall species richness of beetles and vascular plants, but these networks were least favourable options for polypores. Polypores are an important group indicating the conservation value of old growth taiga forests. Random selection provided a better option. Thus, certain groups may function as good indicators for maximizing the overall species richness of some taxonomic groups, but all taxa should be examined separately. PMID:10885520

Assessment of macroinvertebrate communities in adjacent urban stream basins, Kansas City, Missouri, metropolitan area, 2007 through 2011

USGS Publications Warehouse

Christensen, Eric D.; Krempa, Heather M.

2013-01-01

Wastewater-treatment plant discharges during base flow, which elevated specific conductance and nutrient concentrations, combined sewer overflows, and nonpoint sources likely contributed to water-quality impairment and lower aquatic-life status at the Blue River Basin sites. Releases from upstream reservoirs to the Little Blue River likely decreased specific conductance, suspended-sediment, and dissolved constituent concentrations and may have benefitted water quality and aquatic life of main-stem sites. Chloride concentrations in base-flow samples, attributable to winter road salt application, had the highest correlation with the SUII (Spearman’s ρ equals 0.87), were negatively correlated with the SCI (Spearman’s ρ equals -0.53) and several pollution sensitive Ephemeroptera plus Plecoptera plus Trichoptera abundance and percent richness metrics, and were positively correlated with pollution tolerant Oligochaeta abundance and percent richness metrics. Study results show that the easily calculated SUII and the selected modeled multimetric indices are effective for comparing urban basins and for evaluation of water quality in the Kansas City metropolitan area.

Evaluation of Deposited Sediment and Macroinvertebrate Metrics Used to Quantify Biological Response to Excessive Sedimentation in Agricultural Streams

NASA Astrophysics Data System (ADS)

Sutherland, Andrew B.; Culp, Joseph M.; Benoy, Glenn A.

2012-07-01

The objective of this study was to evaluate which macroinvertebrate and deposited sediment metrics are best for determining effects of excessive sedimentation on stream integrity. Fifteen instream sediment metrics, with the strongest relationship to land cover, were compared to riffle macroinvertebrate metrics in streams ranging across a gradient of land disturbance. Six deposited sediment metrics were strongly related to the relative abundance of Ephemeroptera, Plecoptera and Trichoptera and six were strongly related to the modified family biotic index (MFBI). Few functional feeding groups and habit groups were significantly related to deposited sediment, and this may be related to the focus on riffle, rather than reach-wide macroinvertebrates, as reach-wide sediment metrics were more closely related to human land use. Our results suggest that the coarse-level deposited sediment metric, visual estimate of fines, and the coarse-level biological index, MFBI, may be useful in biomonitoring efforts aimed at determining the impact of anthropogenic sedimentation on stream biotic integrity.

Evaluation of deposited sediment and macroinvertebrate metrics used to quantify biological response to excessive sedimentation in agricultural streams.

PubMed

Sutherland, Andrew B; Culp, Joseph M; Benoy, Glenn A

2012-07-01

The objective of this study was to evaluate which macroinvertebrate and deposited sediment metrics are best for determining effects of excessive sedimentation on stream integrity. Fifteen instream sediment metrics, with the strongest relationship to land cover, were compared to riffle macroinvertebrate metrics in streams ranging across a gradient of land disturbance. Six deposited sediment metrics were strongly related to the relative abundance of Ephemeroptera, Plecoptera and Trichoptera and six were strongly related to the modified family biotic index (MFBI). Few functional feeding groups and habit groups were significantly related to deposited sediment, and this may be related to the focus on riffle, rather than reach-wide macroinvertebrates, as reach-wide sediment metrics were more closely related to human land use. Our results suggest that the coarse-level deposited sediment metric, visual estimate of fines, and the coarse-level biological index, MFBI, may be useful in biomonitoring efforts aimed at determining the impact of anthropogenic sedimentation on stream biotic integrity.

Ecological characterization of streams, and fish-tissue analysis for mercury and lead at selected locations, Fort Gordon, Georgia, June 1999 to May 2000

USGS Publications Warehouse

Gregory, M. Brian; Stamey, Timothy C.; Wellborn, John B.

2001-01-01

The U.S. Geological Survey, in cooperation with the Environmental and Natural Resources Management Office of the U.S. Army Signal Center and Fort Gordon, Ga., documented the ecological condition of selected water-bodies on the Fort Gordon military installation from June 1999 to May 2000. This study includes stream-habitat assessments, aquatic invertebrate and fish-community surveys in selected stream reaches, and analyses of mercury and lead concentrations in largemouth bass (Micropterous salmoides) muscle tissue from three impoundments. Assessment surveys indicate lower habitat value scores in some streams draining the more developed areas on Fort Gordon. A small tributary to Butler Creek--which drains parking lots associated with military motor pools and other impervious surfaces--is characterized by moderate levels of bank erosion and excess sediment in the stream channel compared to reference sites. Four other stream reaches are more similar to reference streams in respect to habitat conditions. Invertebrate communities in streams draining these urbanized watersheds are inhabited by 13 to 16 taxa per reach; whereas, 23 and 33 taxa were collected from the two reference stream reaches. Measures of invertebrate abundance, taxa richness, Ephemeroptera, Plecoptera, and Tricoptera Index are lower in streams draining urbanized watersheds. Measures of community similarity also indicate differences between streams draining urbanized areas and reference streams. Streams draining developed areas on Fort Gordon are inhabited by 3 to 10 fish species and included more species regarded as tolerant of degraded water-quality conditions; whereas, the two reference stream reaches support 4 and 10 species, respectively, including one species considered intolerant of degraded water-quality conditions. Mercury was detected in all largemouth bass collected from three impoundments on Fort Gordon. Wet-weight mercury concentrations in fish tissue analyzed from all sites range from 0

Cadmium ecophysiology in seven stonefly (Plecoptera) species: Delineating sources and estimating susceptibility

USGS Publications Warehouse

Martin, C.A.; Luoma, S.N.; Cain, D.J.; Buchwalter, D.B.

2007-01-01

A major challenge in ecotoxicology lies in generating data under experimental conditions that are relevant to understanding contaminant effects in nature. Biodynamic modeling combines species-specific physiological traits to make predictions of metal bioaccumulation that fare well when tested in the field. We generated biodynamic models for seven predatory stonefly (Plecoptera) species representing the families Perlidae (5) and Perlodidae (2). Each taxon was exposed to cadmium independently via diet and via solution. Species varied approximately 2.6 fold in predicted steady-state cadmium concentrations. Diet was the predominant source of accumulated cadmium in five of the seven species and averaged 53.2 ?? 9.6% and 90.2 ?? 3.7% of net Cd accumulation in perlids and perlodids, respectively. Differences in Cd bioaccumulation between the two families were largely driven by differences in dissolved accumulation rates, which were considerably slower in perlodids than in perlids. We further examined the subcellular compartmentalization of Cd accumulated from independent aqueous and dietary exposures. Predicted steady-state concentrations were modified to only consider Cd accumulated in metal-sensitive subcellular compartments. These values ranged 5.3 fold. We discuss this variability within a phylogenetic context and its implications for bioassessment. ?? 2007 American Chemical Society.

Symbiont acquisition as neoseme: origin of species and higher taxa

NASA Technical Reports Server (NTRS)

Bermudes, D.; Margulis, L.

1987-01-01

We examine the hypothesis that, in the origin of species and higher taxa of eukaryotes, symbiont acquisition followed by partner integration has been equivalent to neoseme appearance leading to speciation. The formation of stable symbiotic associations involves partner-surface recognition, behavioral and metabolic interaction, and, in some cases, gene product (RNA, protein) and genic (RNA, DNA) integration. This analysis is applied here to examples of neosemes that define specific taxa and to neosemes in plants, fungi, and animals that involve the appearance of new types of tissue. If this hypothesis is correct--if the origin of major genetic variation leading to speciation and even higher taxa may occur through symbiont acquisition and integration--then the analysis of "origins of species and higher taxa" becomes analogous to the study of microbial community ecology.

The Environmental Evaluation Work Group Fiscal Year 1979 Studies of the Winter Navigation Demonstration Program. Effects of Ship-Induced Waves in an Ice Environment on the St. Marys River Ecosystem

DTIC Science & Technology

1979-07-27

April 17-21, immediately after the solid ice cover had been broken up by heavy vessel traffic. 4. 1acroinvertebrates of 56 taxa were identified in 75...clams), Amphipoda (scuds), Polychaeta, Ephemeroptera (mayflies), and Trichoptera (caddisflies) were common in all samples and collectively made up about...period of solid ice cover. Comparison of drift net catches in March when there was solid ice cover and moderate vessel traffic with catches in April

Comparison of macroinvertebrate-derived stream quality metrics between snag and riffle habitats

USGS Publications Warehouse

Stepenuck, K.F.; Crunkilton, R.L.; Bozek, Michael A.; Wang, L.

2008-01-01

We compared benthic macroinvertebrate assemblage structure at snag and riffle habitats in 43 Wisconsin streams across a range of watershed urbanization using a variety of stream quality metrics. Discriminant analysis indicated that dominant taxa at riffles and snags differed; Hydropsychid caddisflies (Hydropsyche betteni and Cheumatopsyche spp.) and elmid beetles (Optioservus spp. and Stenemlis spp.) typified riffles, whereas isopods (Asellus intermedius) and amphipods (Hyalella azteca and Gammarus pseudolimnaeus) predominated in snags. Analysis of covariance indicated that samples from snag and riffle habitats differed significantly in their response to the urbanization gradient for the Hilsenhoff biotic index (BI), Shannon's diversity index, and percent of filterers, shredders, and pollution intolerant Ephemeroptera, Plecoptera, and Trichoptera (EPT) at each stream site (p ??? 0.10). These differences suggest that although macroinvertebrate assemblages present in either habitat type are sensitive to detecting the effects of urbanization, metrics derived from different habitats should not be intermixed when assessing stream quality through biomonitoring. This can be a limitation to resource managers who wish to compare water quality among streams where the same habitat type is not available at all stream locations, or where a specific habitat type (i.e., a riffle) is required to determine a metric value (i.e., BI). To account for differences in stream quality at sites lacking riffle habitat, snag-derived metric values can be adjusted based on those obtained from riffles that have been exposed to the same level of urbanization. Comparison of nonlinear regression equations that related stream quality metric values from the two habitat types to percent watershed urbanization indicated that snag habitats had on average 30.2 fewer percent EPT individuals, a lower diversity index value than riffles, and a BI value of 0.29 greater than riffles. ?? 2008 American Water

Baseline assessment of fish communities, benthic macroinvertebrate communities, and stream habitat and land use, Big Thicket National Preserve, Texas, 1999-2001

USGS Publications Warehouse

Moring, J. Bruce

2003-01-01

The Big Thicket National Preserve comprises 39,300 hectares in the form of nine preserve units connected by four stream corridor units (with two more corridor units proposed) distributed over the lower Neches and Trinity River Basins of southeastern Texas. Fish and benthic macroinvertebrate data were collected at 15 stream sites (reaches) in the preserve during 1999–2001 for a baseline assessment and a comparison of communities among stream reaches. The fish communities in the preserve were dominated by minnows (family Cyprinidae) and sunfishes (family Centrarchidae). Reaches with smaller channel sizes generally had higher fish species richness than the larger reaches in the Neches River and Pine Island Bayou units of the preserve. Fish communities in geographically adjacent reaches were most similar in overall community structure. The blue sucker, listed by the State as a threatened species, was collected in only one reach—a Neches River reach a few miles downstream from the Steinhagen Lake Dam. Riffle beetles (family Elmidae) and midges (family Chironomidae) dominated the aquatic insect communities at the 14 reaches sampled for aquatic insects in the preserve. The Ephemeroptera, Plecoptera and Trichoptera (EPT) Index, an index sensitive to water-quality degradation, was smallest at the Little Pine Island Bayou near Beaumont reach that is in a State 303(d)-listed stream segment on Little Pine Island Bayou. Trophic structure of the aquatic insect communities is consistent with the river continuum concept with shredder and scraper insect taxa more abundant in reaches with smaller stream channels and filter feeders more abundant in reaches with larger channels. Aquatic insect community metrics were not significantly correlated to any of the stream-habitat or land-use explanatory variables. The percentage of 1990s urban land use in the drainage areas upstream from 12 bioassessment reaches were negatively correlated to the reach structure index, which indicates

Relations between benthic community structure and metals concentrations in aquatic macroinvertebrates: Clark Fork River, Montana

USGS Publications Warehouse

1995-01-01

We sampled macroinvertebrate communities at six sites on the upper Clark Fork River, Montana, to determine relations between macroinvertebrate community structure and metals in invertebrates and the best benthic community metrics to use for ranking sites based on the relative severity of the effects of metals. Concentrations (μg/g) of six metals in invertebrates were determined: Al (range = 591–4193), As (2.7–34.1), Cd (0.13–8.38), Cu (26–1382), Pb (0.54–67.1), and Zn (212–1665). Concentrations of As, Cd, Cu, Pb, and total metals were significantly correlated with at least one benthic metric. Copper (r = 0.88–0.94) and total metals (r = 0.90–0.97) provided the most highly significant correlations. Based on longitudinal site comparisons of metals in invertebrates, benthic community structure, and differences between proportionally scaled ranks, five benthic metrics provided the best indicators of relative impact: taxa richness, Ephemeroptera-Plecoptera-Trichoptera (EPT) richness, chironomid richness, percentage of the most dominant taxon, and density. The two sites with the highest accumulations of invertebrate metals also demonstrated the greatest relative degree of impact based on these parameters. The most meaningful combinations of metrics indicate that the benthic community at the most upstream site is being severely impacted by metals. Two sites demonstrated little or no negative impact, and three sites demonstrated low or moderate levels of negative impacts, which may be due to a combination of metals and other factors such as organic enrichment. We recommend that benthic community structure and metals in invertebrates collected from riffle habitats be used to determine relative impacts in metals-contaminated river systems, owing to their close relation to metal availability and transfer to higher trophic levels.

Understanding the effects of predictability, duration, and spatial pattern of drying on benthic invertebrate assemblages in two contrasting intermittent streams

PubMed Central

von Schiller, Daniel; Barberá, Gonzalo G.; Díaz, Angela M.; Arce, Maria Isabel; del Campo, Rubén; Tockner, Klement

2018-01-01

In the present study, we examined the effects of different drying conditions on the composition, structure and function of benthic invertebrate assemblages. We approached this objective by comparing invertebrate assemblages in perennial and intermittent sites along two intermittent Mediterranean streams with contrasting predictability, duration, and spatial patterns of drying: Fuirosos (high predictability, short duration, downstream drying pattern) and Rogativa (low predictability, long duration, patchy drying pattern). Specifically, we quantified the contribution of individual taxa to those differences, the degree of nestedness, and shifts in the composition, structure and function of benthic invertebrate assemblages along flow intermittence gradients. We observed greater effects of drying on the benthic invertebrate composition in Fuirosos than in Rogativa, resulting in a higher dissimilarity of assemblages between perennial and intermittent sites, as well as a lower degree of nestedness. Furthermore, a higher number of biotic metrics related to richness, abundance and biological traits were significantly different between perennial and intermittent sites in Fuirosos, despite a shorter dry period compared to Rogativa. At the same time, slightly different responses were detected during post-drying (autumn) than pre-drying (spring) conditions in this stream. In Rogativa, shifts in benthic invertebrate assemblages along increasing gradients of flow intermittence were found for three metrics (Ephemeroptera, Plecoptera and Trichoptera (EPT) and Odonata, Coleoptera and Heteroptera (OCH) abundances and aerial active dispersal. Furthermore, we demonstrated that combined gradients of dry period duration and distance to nearest perennial reach can generate complex, and different, responses of benthic invertebrate assemblages, depending on the flow intermittence metric. Our study advances the notion that special attention should be paid to the predictability, duration and

Aquatic Insects from the Caatinga: checklists and diversity assessments of Ubajara (Ceará State) and Sete Cidades (Piauí State) National Parks, Northeastern Brazil

PubMed Central

Santos, Allan Paulo Moreira; Pinto, Ângelo Parise; Henriques-Oliveira, Ana Lucia; Carvalho, Alcimar do Lago; Sampaio, Brunno Henrique Lanzellotti; Clarkson, Bruno; Moreira, Felipe Ferraz Figueiredo; Avelino-Capistrano, Fernanda; Gonçalves, Inês Corrêa; Cordeiro, Isabelle da Rocha Silva; Câmara, Josenir Teixeira; Barbosa, Julianna Freires; de Souza, W. Rafael Maciel; Rafael, José Albertino

2016-01-01

Abstract Background Diversity and distribution of Neotropical aquatic insects is still poorly known, with many species to be recorded and many others to be described, due to the small number of taxonomists and sparse faunistic studies. This knowledge is especially poor in the Caatinga Domain in Northeastern Brazil, even though, this region may have played an important historical role in the spatial evolution of faunas of forested areas in northern South America. New information Aquatic insect checklists of 96 species from Parque Nacional de Ubajara (Ceará State, Brazil) and 112 species from Parque Nacional de Sete Cidades (Piauí State, Brazil) are presented, representing the following taxa: Elmidae, Epimetopidae, Hydrophilidae, and Torridincolidae (Coleoptera), Hemerodromiinae (Diptera: Empididae), Ephemeroptera, Gerromorpha and Nepomorpha (Hemiptera), Odonata, Plecoptera, and Trichoptera. Because of the scarce number of biological inventories in Northeastern Brazil, several new distributional records (of species, genera, and families) for Brazil, Northeastern Brazil, and Ceará and Piauí states are provided. In addition, several undescribed species were detected, being 26 from Ubajara and 20 from Sete Cidades. Results represent a significant increase to the known fauna of these states, ranging from 13%-70% increase for Ceará and 41% to 91% increase for Piauí. Although both parks are relatively close to each other and within the Caatinga domain, their aquatic fauna display a very high complementarity (89% species), possibly due to structural differences of water bodies sampled in each park. Rarefaction curves based on quantitative light trap samples suggest a much higher expected species richness of aquatic insects at Sete Cidades than at Ubajara National Park. Discussion on biogeographical affinities of this sample of the Caatinga fauna is provided. PMID:27660528

A framework to assess the impacts of climate change on stream health indicators in Michigan watersheds

NASA Astrophysics Data System (ADS)

Woznicki, S. A.; Nejadhashemi, A. P.; Tang, Y.; Wang, L.

2016-12-01

Climate change is projected to alter watershed hydrology and potentially amplify nonpoint source pollution transport. These changes have implications for fish and macroinvertebrates, which are often used as measures of aquatic ecosystem health. By quantifying the risk of adverse impacts to aquatic ecosystem health at the reach-scale, watershed climate change adaptation strategies can be developed and prioritized. The objective of this research was to quantify the impacts of climate change on stream health in seven Michigan watersheds. A process-based watershed model, the Soil and Water Assessment Tool (SWAT), was linked to adaptive neuro-fuzzy inferenced (ANFIS) stream health models. SWAT models were used to simulate reach-scale flow regime (magnitude, frequency, timing, duration, and rate of change) and water quality variables. The ANFIS models were developed based on relationships between the in-stream variables and sampling points of four stream health indicators: the fish index of biotic integrity (IBI), macroinvertebrate family index of biotic integrity (FIBI), Hilsenhoff biotic index (HBI), and number of Ephemeroptera, Plecoptera, and Trichoptera (EPT) taxa. The combined SWAT-ANFIS models extended stream health predictions to all watershed reaches. A climate model ensemble from the Coupled Model Intercomparison Project Phase 5 (CMIP5) was used to develop projections of changes to flow regime (using SWAT) and stream health indicators (using ANFIS) from a baseline of 1980-2000 to 2020-2040. Flow regime variables representing variability, duration of extreme events, and timing of low and high flow events were sensitive to changes in climate. The stream health indicators were relatively insensitive to changing climate at the watershed scale. However, there were many instances of individual reaches that were projected to experience declines in stream health. Using the probability of stream health decline coupled with the magnitude of the decline, maps of

The role of macroinvertebrates for conservation of freshwater systems.

PubMed

Nieto, Carolina; Ovando, Ximena M C; Loyola, Rafael; Izquierdo, Andrea; Romero, Fátima; Molineri, Carlos; Rodríguez, José; Rueda Martín, Paola; Fernández, Hugo; Manzo, Verónica; Miranda, María José

2017-07-01

Freshwater ecosystems are the most threatened ecosystems worldwide. Argentinian-protected areas have been established mainly to protect vertebrates and plants in terrestrial ecosystems. In order to create a comprehensive biodiverse conservation plan, it is crucial to integrate both aquatic and terrestrial systems and to include macroinvertebrates. Here, we address this topic by proposing priority areas of conservation including invertebrates, aquatic ecosystems, and their connectivity and land uses. Northwest of Argentina. We modeled the ecological niches of different taxa of macroinvertebrates such as Coleoptera, Ephemeroptera, Hemiptera, Megaloptera, Lepidoptera, Odonata, Plecoptera, Trichoptera, Acari, and Mollusca. Based on these models, we analyzed the contribution of currently established protected areas in the conservation of the aquatic biodiversity and we propose a spatial prioritization taking into account possible conflict regarding different land uses. Our analysis units were the real watersheds, to which were added longitudinal connectivity up and down the rivers. A total of 132 species were modeled in the priority area analyses. The analysis 1 showed that only an insignificant percentage of the macroinvertebrates distribution is within the protected areas in the North West of Argentina. The analyses 2 and 3 recovered similar values of protection for the macroinvertebrate species. The upper part of Bermejo, Salí-Dulce, San Francisco, and the Upper part of Juramento basins were identified as priority areas of conservation. The aquatic ecosystems need special protection and 10% or even as much as 17% of land conservation is insufficient for species of macroinvertebrates. In turn the protected areas need to combine the aquatic and terrestrial systems and need to include macroinvertebrates as a key group to sustain the biodiversity. In many cases, the land uses are in conflict with the conservation of biodiversity; however, it is possible to apply the

Interplay of anthropogenic and natural disturbance impacts on the hyporheic ecology

NASA Astrophysics Data System (ADS)

Mori, N.; Brancelj, A.; Simčič, T.; Lukančič, S.

2009-04-01

The hyporheic invertebrate community from the pre-alpine river (W Slovenia) was studied in order to analyze the impacts of high discharge and in-stream gravel extraction. Two distinct river reaches were sampled from June 2004 to May 2005. At impacted site, where gravel extraction was carried out, the response of hyporheic community to the anthropogenic disturbance was studied. Physical and chemical parameters, together with the amounts organic matter and activity of the biofilm were measured. Invertebrates were sampled by Bou-Rouch pumping method. Discharge of the Bača River varied from 108 m3s-1 in October 2004 to 1.6 m3s-1 in March 2005. Streambed sediments at both sites were composed of heterogeneous mixture of boulders, cobbles, pebbles, gravel, sand and silt. Oxygen saturation was close to 100 %, indicating good sediment permeability. A total of 75 invertebrate taxa were identified, 40 of which belonged to the occasional hyporheos, 26 to the permanent hyporheos and 9 were stygobites. At both sites, fauna was dominated numerically by juveniles of Cyclopoida and early stages of Leuctra larvae (Plecoptera). Chironomidae (Diptera) contributed significantly to the total invertebrate density at reference site and Baetoidea (Ephemeroptera) to the total density at impacted site. At both sites a decrease in density occurred immediately after disturbance. The recovery was relatively fast (two and a half months). The CCA analysis revealed the importance of fine sediment amounts for hyporheic invertebrate distribution. The results indicated that discharge play an important role in shaping hyporheic invertebrate community in the Bača River and that the removal of sediments due to gravel extraction led to the impoverishment of the structural characteristics of the hyporheic community.

Assessing the ecological base flow in an experimental watershed of Central Taiwan

NASA Astrophysics Data System (ADS)

Wei, Chiang; Yang, Ping-Shih; Tian, Pei-Ling

2010-05-01

The ecological base flow is crucial for the assessment and design for habitat rehabilitation and recovery. The amount of discharge affects the aquatic creatures and may damage the existence and balance of the community under extreme low conditions. Aquatic insect is selected as the target species in this study to evaluate the influence of the discharge and to estimate the ecological base flow. The distribution of the number of species and abundance (density) versus discharge is assessed to define the critical discharge. A stream located at the alpine area in central Taiwan is selected as the study area to evaluate the base flow. From the preliminary data (Aug 2008 to May 2009) collected from Creek C of Sitou watershed (area: 1.3 km^2) shows that the abundance of several species varies with the discharge. The dominate family and genus of aquatic insects is Baetidae (Order Ephemeroptera) and Baetis spp. that accounts for 26.3 and 17.2 %, respectively. The Hilsenhoff family biotic index (FBI) shows that the water quality is classified to "Excellent" and "Good" level while the EPT Index (Index of three orders: Ephemeroptera, Plecoptera, and Trichoptera) indicates that the stream is non-polluted. The discharge of base flow interpreted from the 90%, 95% and 96% curve of duration for the daily discharge is 0.1582, 0.0476 and 0.0378 cms; the threshold value evaluated by curve of abundance vs. discharge is 0.0154 cms. Consistent observations are yet to be collected to yield more accurate results.

The effectiveness of surrogate taxa to conserve freshwater biodiversity.

PubMed

Stewart, David R; Underwood, Zachary E; Rahel, Frank J; Walters, Annika W

2018-02-01

Establishing protected areas has long been an effective conservation strategy and is often based on readily surveyed species. The potential of any freshwater taxa to be a surrogate for other aquatic groups has not been explored fully. We compiled occurrence data on 72 species of freshwater fishes, amphibians, mussels, and aquatic reptiles for the Great Plains, Wyoming (U.S.A.). We used hierarchical Bayesian multispecies mixture models and MaxEnt models to describe species' distributions and the program Zonation to identify areas of conservation priority for each aquatic group. The landscape-scale factors that best characterized aquatic species' distributions differed among groups. There was low agreement and congruence among taxa-specific conservation priorities (<20%), meaning no surrogate priority areas would include or protect the best habitats of other aquatic taxa. Common, wideranging aquatic species were included in taxa-specific priority areas, but rare freshwater species were not included. Thus, the development of conservation priorities based on a single freshwater aquatic group would not protect all species in the other aquatic groups. © 2017 Society for Conservation Biology.

The effectiveness of surrogate taxa to conserve freshwater biodiversity

USGS Publications Warehouse

Stewart, David R.; Underwood, Zachary E.; Rahel, Frank J.; Walters, Annika W.

2018-01-01

Establishing protected areas has long been an effective conservation strategy, and is often based on more readily surveyed species. The potential of any freshwater taxa to be a surrogate of other aquatic groups has not been fully explored. We compiled occurrence data on 72 species of freshwater fish, amphibians, mussels, and aquatic reptiles for the Great Plains, Wyoming. We used hierarchical Bayesian multi-species mixture models and MaxEnt models to describe species distributions, and program Zonation to identify conservation priority areas for each aquatic group. The landscape-scale factors that best characterized aquatic species distributions differed among groups. There was low agreement and congruence among taxa-specific conservation priorities (<20%), meaning that no surrogate priority areas would include or protect the best habitats of other aquatic taxa. We found that common, wide-ranging aquatic species were included in taxa-specific priority areas, but rare freshwater species were not included. Thus, the development of conservation priorities based on a single freshwater aquatic group would not protect all species in the other aquatic groups.

Synonymy of two recently described taxa of Phaneropterinae (Orthoptera, Tettigoniidae).

PubMed

Massa, Bruno

2018-03-14

Specimens of the two taxa Terpnistriella bredoi Massa, 2017 and Pseudogoetia constanti Massa, 2017 from Democratic Republic of Congo were certainly erroneously labeled, because they resulted synonymous with neotropical taxa Vellea cruenta (Burmeister, 1838) and Philophyllia guttulata Stål, 1873.

After site selection and before data analysis: sampling, sorting, and laboratory procedures used in stream benthic macroinvertebrate monitoring programs by USA state agencies

USGS Publications Warehouse

Carter, James L.; Resh, Vincent H.

2001-01-01

A survey of methods used by US state agencies for collecting and processing benthic macroinvertebrate samples from streams was conducted by questionnaire; 90 responses were received and used to describe trends in methods. The responses represented an estimated 13,000-15,000 samples collected and processed per year. Kicknet devices were used in 64.5% of the methods; other sampling devices included fixed-area samplers (Surber and Hess), artificial substrates (Hester-Dendy and rock baskets), grabs, and dipnets. Regional differences existed, e.g., the 1-m kicknet was used more often in the eastern US than in the western US. Mesh sizes varied among programs but 80.2% of the methods used a mesh size between 500 and 600 (mu or u)m. Mesh size variations within US Environmental Protection Agency regions were large, with size differences ranging from 100 to 700 (mu or u)m. Most samples collected were composites; the mean area sampled was 1.7 m2. Samples rarely were collected using a random method (4.7%); most samples (70.6%) were collected using "expert opinion", which may make data obtained operator-specific. Only 26.3% of the methods sorted all the organisms from a sample; the remainder subsampled in the laboratory. The most common method of subsampling was to remove 100 organisms (range = 100-550). The magnification used for sorting ranged from 1 (sorting by eye) to 30x, which results in inconsistent separation of macroinvertebrates from detritus. In addition to subsampling, 53% of the methods sorted large/rare organisms from a sample. The taxonomic level used for identifying organisms varied among taxa; Ephemeroptera, Plecoptera, and Trichoptera were generally identified to a finer taxonomic resolution (genus and species) than other taxa. Because there currently exists a large range of field and laboratory methods used by state programs, calibration among all programs to increase data comparability would be exceptionally challenging. However, because many techniques are

Nanocladius (Plecopteracoluthus) shigaensis sp. nov. (Chironomidae: Orthocladiinae) whose larvae are phoretic on nymphs of stoneflies (Plecoptera) from Japan.

PubMed

Inoue, Yasue; Komori, Chiharu; Kobayashi, Tadashi; Kondo, Natsuko; Ueno, Ryuhei; Takamura, Kenzi

2015-03-16

We identified a new species, Nanocladius (Plecopteracoluthus) shigaensis, from Shiga and Gifu Prefectures, Japan, whose larvae are phoretic on nymphs of Plecoptera. Although this new species is morphologically similar to Nanocladius (Plecopteracoluthus) asiaticus Hayashi (1998), which is phoretic on Megaloptera larvae, it differs from N. (P.) asiaticus: the color of the larval head capsule is light brown in N. (P.) shigaensis and dark brown in N. (P.) asiaticus and the larval capsule index of the former is significantly larger than that of the latter. Moreover, analyses based on DNA sequence of cytochrome c oxidase subunit I (COI) supported the hypothesis that N. (P.) shigaensis and N. (P.) asiaticus are two distinct species. This is the first record of a phoretic chironomid on a plecopteran nymph in the Palaearctic region.

The hominin fossil record: taxa, grades and clades

PubMed Central

Wood, Bernard; Lonergan, Nicholas

2008-01-01

This paper begins by reviewing the fossil evidence for human evolution. It presents summaries of each of the taxa recognized in a relatively speciose hominin taxonomy. These taxa are grouped in grades, namely possible and probable hominins, archaic hominins, megadont archaic hominins, transitional hominins, pre-modern Homo and anatomically modern Homo. The second part of this contribution considers some of the controversies that surround hominin taxonomy and systematics. The first is the vexed question of how you tell an early hominin from an early panin, or from taxa belonging to an extinct clade closely related to the Pan-Homo clade. Secondly, we consider how many species should be recognized within the hominin fossil record, and review the philosophies and methods used to identify taxa within the hominin fossil record. Thirdly, we examine how relationships within the hominin clade are investigated, including descriptions of the methods used to break down an integrated structure into tractable analytical units, and then how cladograms are generated and compared. We then review the internal structure of the hominin clade, including the problem of how many subclades should be recognized within the hominin clade, and we examine the reliability of hominin cladistic hypotheses. The last part of the paper reviews the concepts of a genus, including the criteria that should be used for recognizing genera within the hominin clade. PMID:18380861

Corridor use by diverse taxa.

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

Haddad, Nick, M.; Browne, David, R.; Cunningham, Alan

2003-01-01

Haddad, N.M., D.R. Browne, A. Cunningham, B.J. Danielson, D.J. Levey, S. Sargent, and T. Spira. 2003. Corridor use by diverse taxa. Ecology, 84(3):609-615. One of the most popular approaches for maintaining populations and conserving biodiversity in fragmented landscapes is to retain or create corridors that connect otherwise isolated habitat patches. Working in large-scale, experimental landscapes in which open-habitat patches and corridors were created by harvesting pine forest, we showed that corridors direct movements of different types of species, including butterflies, small mammals, and bird dispersed plants, causing higher movement between connected than between unconnected patches. Corridors directed the movement ofmore » all 10 species studied, with all corridor effect sizes >68%. However, this corridor effect was significant for five species, not significant for one species, and inconclusive for four species because of small sample sizes. Although we found no evidence that corridors increase emigration from a patch, our results show that movements of disparate taxa with broadly different life histories and functional roles are directed by corridors.« less

A new genus and species of winter stoneflies (Plecoptera: Capniidae) from Southwest China, with a commented checklist of the family in the Oriental Realm.

PubMed

Murányi, Dávid; Li, Weihai; Yang, Ding

2015-12-22

A new genus and species of the family Capniidae (Plecoptera), Sinocapnia kuankuoshui gen. n., sp. n. is described from the adult male and a female collected in Guizhou Province of southwest China. The new taxon is distinguished from all extant Capniidae genera and the assemblage of species currently included in Capnia sensu lato by combination of unique genitalic, wing, and thoracic sclerites characters. No closely related taxon is indicated on the basis of morphological characters. An annotated checklist of the family Capniidae from the Oriental Realm is given.

Molecular phylogeny and timing of diversification in Alpine Rhithrogena (Ephemeroptera: Heptageniidae).

PubMed

Vuataz, Laurent; Rutschmann, Sereina; Monaghan, Michael T; Sartori, Michel

2016-09-21

Larvae of the Holarctic mayfly genus Rhithrogena Eaton, 1881 (Ephemeroptera, Heptageniidae) are a diverse and abundant member of stream and river communities and are routinely used as bio-indicators of water quality. Rhithrogena is well diversified in the European Alps, with a number of locally endemic species, and several cryptic species have been recently detected. While several informal species groups are morphologically well defined, a lack of reliable characters for species identification considerably hampers their study. Their relationships, origin, timing of speciation and mechanisms promoting their diversification in the Alps are unknown. Here we present a species-level phylogeny of Rhithrogena in Europe using two mitochondrial and three nuclear gene regions. To improve sampling in a genus with many cryptic species, individuals were selected for analysis according to a recent DNA-based taxonomy rather than traditional nomenclature. A coalescent-based species tree and a reconstruction based on a supermatrix approach supported five of the species groups as monophyletic. A molecular clock, mapped on the most resolved phylogeny and calibrated using published mitochondrial evolution rates for insects, suggested an origin of Alpine Rhithrogena in the Oligocene/Miocene boundary. A diversification analysis that included simulation of missing species indicated a constant speciation rate over time, rather than any pronounced periods of rapid speciation. Ancestral state reconstructions provided evidence for downstream diversification in at least two species groups. Our species-level analyses of five gene regions provide clearer definitions of species groups within European Rhithrogena. A constant speciation rate over time suggests that the paleoclimatic fluctuations, including the Pleistocene glaciations, did not significantly influence the tempo of diversification of Alpine species. A downstream diversification trend in the hybrida and alpestris species groups

Eliciting the Functional Taxonomy from protein annotations and taxa

PubMed Central

Falda, Marco; Lavezzo, Enrico; Fontana, Paolo; Bianco, Luca; Berselli, Michele; Formentin, Elide; Toppo, Stefano

2016-01-01

The advances of omics technologies have triggered the production of an enormous volume of data coming from thousands of species. Meanwhile, joint international efforts like the Gene Ontology (GO) consortium have worked to provide functional information for a vast amount of proteins. With these data available, we have developed FunTaxIS, a tool that is the first attempt to infer functional taxonomy (i.e. how functions are distributed over taxa) combining functional and taxonomic information. FunTaxIS is able to define a taxon specific functional space by exploiting annotation frequencies in order to establish if a function can or cannot be used to annotate a certain species. The tool generates constraints between GO terms and taxa and then propagates these relations over the taxonomic tree and the GO graph. Since these constraints nearly cover the whole taxonomy, it is possible to obtain the mapping of a function over the taxonomy. FunTaxIS can be used to make functional comparative analyses among taxa, to detect improper associations between taxa and functions, and to discover how functional knowledge is either distributed or missing. A benchmark test set based on six different model species has been devised to get useful insights on the generated taxonomic rules. PMID:27534507

Pankovaia semitubulata gen. et sp. n. (Microsporidia: Tuzetiidae) from nymphs of mayflies Cloeon dipterum L. (Insecta: Ephemeroptera) in Western Siberia.

PubMed

Simakova, Anastasia V; Tokarev, Yuri S; Issi, Irma V

2009-01-01

The ultrastructure of a new microsporidian, Pankovaia semitubulata gen. et sp. n. (Microsporidia: Tuzetiidae), from the fat body of Cloeon dipterum (L.) (Ephemeroptera: Baetidae) is described. The species is monokaryotic throughout the life cycle, developing in direct contact with the host cell cytoplasm. Sporogonial plasmodium divides into 2-8 sporoblasts. Each sporoblast, then spore, is enclosed in an individual sporophorous vesicle. Fixed and stained spores of the type species P. semitubulata are 3.4 x 1.9microm in size. The polaroplast is bipartite (lamellar and vesicular). The polar filament is isofilar, possessing 6 coils in one row. The following features distinguish the genus Pankovaia from other monokaryotic genera of Tuzetiidae: (a) exospore is composed of multiple irregularly laid tubules with a lengthwise opening, referred to as "semitubules"; (b) episporontal space of sporophorous vesicle (SPV) is devoid of secretory formations; (c) SPV envelope is represented by a thin fragile membrane.

Reconstructing the Genomic Content of Microbiome Taxa through Shotgun Metagenomic Deconvolution

PubMed Central

Carr, Rogan; Shen-Orr, Shai S.; Borenstein, Elhanan

2013-01-01

Metagenomics has transformed our understanding of the microbial world, allowing researchers to bypass the need to isolate and culture individual taxa and to directly characterize both the taxonomic and gene compositions of environmental samples. However, associating the genes found in a metagenomic sample with the specific taxa of origin remains a critical challenge. Existing binning methods, based on nucleotide composition or alignment to reference genomes allow only a coarse-grained classification and rely heavily on the availability of sequenced genomes from closely related taxa. Here, we introduce a novel computational framework, integrating variation in gene abundances across multiple samples with taxonomic abundance data to deconvolve metagenomic samples into taxa-specific gene profiles and to reconstruct the genomic content of community members. This assembly-free method is not bounded by various factors limiting previously described methods of metagenomic binning or metagenomic assembly and represents a fundamentally different approach to metagenomic-based genome reconstruction. An implementation of this framework is available at http://elbo.gs.washington.edu/software.html. We first describe the mathematical foundations of our framework and discuss considerations for implementing its various components. We demonstrate the ability of this framework to accurately deconvolve a set of metagenomic samples and to recover the gene content of individual taxa using synthetic metagenomic samples. We specifically characterize determinants of prediction accuracy and examine the impact of annotation errors on the reconstructed genomes. We finally apply metagenomic deconvolution to samples from the Human Microbiome Project, successfully reconstructing genus-level genomic content of various microbial genera, based solely on variation in gene count. These reconstructed genera are shown to correctly capture genus-specific properties. With the accumulation of metagenomic

The effect of phorate on wetland macroinvertebrates

USGS Publications Warehouse

Dieter, Charles D.; Flake, Lester D.; Duffy, Walter G.

1996-01-01

The effects of phorate, an organophosphorus insecticide, on aquatic macroinvertebrates was studied in littoral mesocosms in South Dakota wetlands. In 1991 and 1992, four mesocosms were constructed in each of three wetlands. In each wetland, one mesocosm was a reference and phorate concentrations of 1.2, 2.4, and 4.8 kg/ha were applied to treatment mesocosms. Phorate caused mortality to amphipods and chironomids throughout the study. Leeches and snails were resistant to phorate. Few living macroinvertebrates were present in mesocosms after phorate treatment and populations recovered only slightly after 1 month. Macroinvertebrate taxa that were sensitive to phorate included: Odonata, Hemiptera, Culicidae, Heliidae, Ephemeroptera, Acarina, Coleoptera, Stratio-myidae, and Hydracarina. Taxa that were tolerant to phorate included: Hirudinea, Gastropoda, Oligochaeta, and Ostracoda.

Infection of aquatic insects with trematode metacercariae carrying Ehrlichia risticii, the cause of Potomac horse fever.

PubMed

Chae, J S; Pusterla, N; Johnson, E; Derock, E; Lawler, S P; Madigan, J E

2000-07-01

We provide evidence of Ehrlichia risticii Holland, the agent of Potomac horse fever, in trematode stages found in aquatic insects collected from a pasture stream in northern California, using nested polymerase chain reaction (PCR) amplification and sequence analyses of the 16S rRNA, 51 kDa major antigen and groEL heat shock protein genes. E. risticii was detected in metacercariae found in the immatures and adults of the following insects: caddisflies (Trichoptera), mayflies (Ephemeroptera), damselflies (Odonata, Zygoptera), dragonflies (Odonata, Anisoptera), and stoneflies (Plecoptera). The prevalence of E. risticii was 31.9% (n = 454 individuals) in aquatic insects (13 of 17 species were positive). Prevalence within orders was as follows: 43.5% (n = 207) in caddisflies, 15.2% (n = 92) in mayflies, 13.9% (n = 115) in damselflies, 10.0% (n = 10) in dragonflies, and 80.0% (n = 30) in stoneflies. This study demonstrates a broad intermediate host range for trematodes that act as vector for E. risticii. Insects are likely to play an important role in the epidemiology of this disease.

Ephemeroptera, Plecoptera and Trichoptera (Insecta) Abundance, Diversity and Role in Leaf Litter Breakdown in Tropical Headwater River

PubMed Central

Ab Hamid, Suhaila; Md Rawi, Che Salmah

2017-01-01

Leaf litter decomposition in a tropical stream was examined in two types of leaf packs; single species leaf packs of Pometia pinnata and two species leaf packs of equal combination of Pometia pinnata and Dolichandrone spathacea leaves. Both leaf packs were immersed in a river and weekly examined for remains of decomposed leaves and presence of EPT. In the control leaf packs, leaves in the two species leaf packs treatments decomposed within 35 days, faster than in single species leaf packs which decomposed after 42 days. In the presence of EPT, the leaf breakdown took 28 days in two species and 35 days for single species leaf packs. Higher abundance of EPT was observed in single species leaf packs but its diversity was higher in two species leaf packs. Litter breakdown in the stream was faster in the presence of EPT and softer leaves of D. spathacea with higher nitrogen content underwent faster decomposition and sustained higher numbers of EPT. PMID:28890763

Ephemeroptera, Plecoptera and Trichoptera (Insecta) Abundance, Diversity and Role in Leaf Litter Breakdown in Tropical Headwater River.

PubMed

Ab Hamid, Suhaila; Md Rawi, Che Salmah

2017-07-01

Leaf litter decomposition in a tropical stream was examined in two types of leaf packs; single species leaf packs of Pometia pinnata and two species leaf packs of equal combination of Pometia pinnata and Dolichandrone spathacea leaves. Both leaf packs were immersed in a river and weekly examined for remains of decomposed leaves and presence of EPT. In the control leaf packs, leaves in the two species leaf packs treatments decomposed within 35 days, faster than in single species leaf packs which decomposed after 42 days. In the presence of EPT, the leaf breakdown took 28 days in two species and 35 days for single species leaf packs. Higher abundance of EPT was observed in single species leaf packs but its diversity was higher in two species leaf packs. Litter breakdown in the stream was faster in the presence of EPT and softer leaves of D. spathacea with higher nitrogen content underwent faster decomposition and sustained higher numbers of EPT.

Trait-based diversification shifts reflect differential extinction among fossil taxa

PubMed Central

Wagner, Peter J.; Estabrook, George F.

2014-01-01

Evolution provides many cases of apparent shifts in diversification associated with particular anatomical traits. Three general models connect these patterns to anatomical evolution: (i) elevated net extinction of taxa bearing particular traits, (ii) elevated net speciation of taxa bearing particular traits, and (iii) elevated evolvability expanding the range of anatomies available to some species. Trait-based diversification shifts predict elevated hierarchical stratigraphic compatibility (i.e., primitive→derived→highly derived sequences) among pairs of anatomical characters. The three specific models further predict (i) early loss of diversity for taxa retaining primitive conditions (elevated net extinction), (ii) increased diversification among later members of a clade (elevated net speciation), and (iii) increased disparity among later members in a clade (elevated evolvability). Analyses of 319 anatomical and stratigraphic datasets for fossil species and genera show that hierarchical stratigraphic compatibility exceeds the expectations of trait-independent diversification in the vast majority of cases, which was expected if trait-dependent diversification shifts are common. Excess hierarchical stratigraphic compatibility correlates with early loss of diversity for groups retaining primitive conditions rather than delayed bursts of diversity or disparity across entire clades. Cambrian clades (predominantly trilobites) alone fit null expectations well. However, it is not clear whether evolution was unusual among Cambrian taxa or only early trilobites. At least among post-Cambrian taxa, these results implicate models, such as competition and extinction selectivity/resistance, as major drivers of trait-based diversification shifts at the species and genus levels while contradicting the predictions of elevated net speciation and elevated evolvability models. PMID:25331898

Trait-based diversification shifts reflect differential extinction among fossil taxa.

PubMed

Wagner, Peter J; Estabrook, George F

2014-11-18

Evolution provides many cases of apparent shifts in diversification associated with particular anatomical traits. Three general models connect these patterns to anatomical evolution: (i) elevated net extinction of taxa bearing particular traits, (ii) elevated net speciation of taxa bearing particular traits, and (iii) elevated evolvability expanding the range of anatomies available to some species. Trait-based diversification shifts predict elevated hierarchical stratigraphic compatibility (i.e., primitive→derived→highly derived sequences) among pairs of anatomical characters. The three specific models further predict (i) early loss of diversity for taxa retaining primitive conditions (elevated net extinction), (ii) increased diversification among later members of a clade (elevated net speciation), and (iii) increased disparity among later members in a clade (elevated evolvability). Analyses of 319 anatomical and stratigraphic datasets for fossil species and genera show that hierarchical stratigraphic compatibility exceeds the expectations of trait-independent diversification in the vast majority of cases, which was expected if trait-dependent diversification shifts are common. Excess hierarchical stratigraphic compatibility correlates with early loss of diversity for groups retaining primitive conditions rather than delayed bursts of diversity or disparity across entire clades. Cambrian clades (predominantly trilobites) alone fit null expectations well. However, it is not clear whether evolution was unusual among Cambrian taxa or only early trilobites. At least among post-Cambrian taxa, these results implicate models, such as competition and extinction selectivity/resistance, as major drivers of trait-based diversification shifts at the species and genus levels while contradicting the predictions of elevated net speciation and elevated evolvability models.

Taxa-area relationship of aquatic fungi on deciduous leaves.

PubMed

Duarte, Sofia; Cássio, Fernanda; Pascoal, Cláudia; Bärlocher, Felix

2017-01-01

One of the fundamental patterns in macroecology is the increase in the number of observed taxa with size of sampled area. For microbes, the shape of this relationship remains less clear. The current study assessed the diversity of aquatic fungi, by the traditional approach based on conidial morphology (captures reproducing aquatic hyphomycetes) and next generation sequencing (NGS; captures other fungi as well), on graded sizes of alder leaves (0.6 to 13.6 cm2). Leaves were submerged in two streams in geographically distant locations: the Oliveira Stream in Portugal and the Boss Brook in Canada. Decay rates of alder leaves and fungal sporulation rates did not differ between streams. Fungal biomass was higher in Boss Brook than in Oliveira Stream, and in both streams almost 100% of the reads belonged to active fungal taxa. In general, larger leaf areas tended to harbour more fungi, but these findings were not consistent between techniques. Morphospecies-based diversity increased with leaf area in Boss Brook, but not in Oliveira Stream; metabarcoding data showed an opposite trend. The higher resolution of metabarcoding resulted in steeper taxa-accumulation curves than morphospecies-based assessments (fungal conidia morphology). Fungal communities assessed by metabarcoding were spatially structured by leaf area in both streams. Metabarcoding promises greater resolution to assess biodiversity patterns in aquatic fungi and may be more accurate for assessing taxa-area relationships and local to global diversity ratios.

New species and records of Leuctridae (Plecoptera) from Guangxi, China, on the basis of morphological and molecular data, with emphasis on Rhopalopsole.

PubMed

Li, Weihai; Murányi, Dávid; Gamboa, Maribet; Yang, Ding; Watanabe, Kozo

2017-03-13

The species of Leuctridae (Plecoptera) from Guangxi, China are reviewed. Two species of Rhopalopsole are described as new to science, R. cestroidea sp. nov. and R. triangulis sp. nov., belonging to the R. vietnamica group and the R. magnicerca group, respectively. Six species of Leuctridae are now known for Guangxi including two additional species of Rhopalopsole and one Paraleuctra recorded for the first time. The previously unknown female of R. duyuzhoui Sivec & Harper, 2008 is described from specimens from Guangxi. Characters are illustrated for the separation of R. furcospina (Wu, 1973) and R. sinensis Yang & Yang, 1993. Mitochondrial sequences of five Rhopalopsole species support their specific recognition.

The effects of urbanization on the biological, physical, and chemical characteristics of coastal New England streams

USGS Publications Warehouse

Coles, J.F.; Cuffney, T.F.; McMahon, G.; Beaulieu, K.M.

2004-01-01

During August 2000, responses of biological communities (invertebrates, fish, and algae), physical habitat, and water chemistry to urban intensity were compared among 30 streams within 80 miles of Boston, Massachusetts. Sites chosen for sampling represented a gradient of the intensity of urban development (urban intensity) among drainage basins that had minimal natural variability. In this study, spatial differences were used as surrogates for temporal changes to represent the effects of urbanization over time. The degree of urban intensity for each drainage basin was characterized with a standardized urban index (0?100, lowest to highest) derived from land cover, infrastructure, and socioeconomic variables. Multivariate and multimetric analyses were used to compare urban index values with biological, physical, and chemical data to determine how the data indicated responses to urbanization. Multivariate ordinations were derived for the invertebrate-, fish-, and algaecommunity data by use of correspondence analysis, and ordinations were derived for the chemical and physical data by use of principal-component analysis. Site scores from each of the ordinations were plotted in relation to the urban index to test for a response. In all cases, the primary axis scores showed the strongest response to the urban index, indicating that urbanization was a primary factor affecting the data ordination. For the multimetric analyses, each of the biological data sets was used to calculate a series of community metrics. For the sets of chemical and physical data, the individual variables and various combinations of individual variables were used as measured and derived metrics, respectively. Metrics that were generally most responsive to the urban index for each data set included: EPT (Ephemeroptera, Plecoptera, Trichoptera) taxa for invertebrates; cyprinid taxa for fish; diatom taxa for algae; bicarbonate, conductivity, and nitrogen for chemistry; and water depth and temperature

The effects of urbanization on the biological, physical, and chemical characteristics of coastal New England streams

USGS Publications Warehouse

Coles, James F.; Cuffney, Thomas F.; McMahon, Gerard; Beaulieu, Karen M.

2004-01-01

During August 2000, responses of biological communities (invertebrates, fish, and algae), physical habitat, and water chemistry to urban intensity were compared among 30 streams within 80 miles of Boston, Massachusetts. Sites chosen for sampling represented a gradient of the intensity of urban development (urban intensity) among drainage basins that had minimal natural variability. In this study, spatial differences were used as surrogates for temporal changes to represent the effects of urbanization over time. The degree of urban intensity for each drainage basin was characterized with a standardized urban index (0-100, lowest to highest) derived from land cover, infrastructure, and socioeconomic variables. Multivariate and multimetric analyses were used to compare urban index values with biological, physical, and chemical data to determine how the data indicated responses to urbanization. Multivariate ordinations were derived for the invertebrate-, fish-, and algae-community data by use of correspondence analysis, and ordinations were derived for the chemical and physical data by use of principal-component analysis. Site scores from each of the ordinations were plotted in relation to the urban index to test for a response. In all cases, the primary axis scores showed the strongest response to the urban index, indicating that urbanization was a primary factor affecting the data ordination. For the multimetric analyses, each of the biological data sets was used to calculate a series of community metrics. For the sets of chemical and physical data, the individual variables and various combinations of individual variables were used as measured and derived metrics, respectively. Metrics that were generally most responsive to the urban index for each data set included: EPT (Ephemeroptera, Plecoptera, Trichoptera) taxa for invertebrates; cyprinid taxa for fish; diatom taxa for algae; bicarbonate, conductivity, and nitrogen for chemistry; and water depth and temperature

Macroinvertebrate communities evaluated prior to and following a channel restoration project in Silver Creek, Blaine County, Idaho, 2001-16

USGS Publications Warehouse

MacCoy, Dorene E.; Short, Terry M.

2017-11-22

The U.S. Geological Survey, in cooperation with Blaine County and The Nature Conservancy, evaluated the status of macroinvertebrate communities prior to and following a channel restoration project in Silver Creek, Blaine County, Idaho. The objective of the evaluation was to determine whether 2014 remediation efforts to restore natural channel conditions in an impounded area of Silver Creek caused declines in local macroinvertebrate communities. Starting in 2001 and ending in 2016, macroinvertebrates were sampled every 3 years at two long-term trend sites and sampled seasonally (spring, summer, and autumn) in 2013, 2015, and 2016 at seven synoptic sites. Trend-site communities were collected from natural stream-bottom substrates to represent locally established macroinvertebrate assemblages. Synoptic site communities were sampled using artificial (multi-plate) substrates to represent recently colonized (4–6 weeks) assemblages. Statistical summaries of spatial and temporal patterns in macroinvertebrate taxonomic composition at both trend and synoptic sites were completed.The potential effect of the restoration project on resident macroinvertebrate populations was determined by comparing the following community assemblage metrics:Total taxonomic richness (taxa richness);Total macroinvertebrate abundance (total abundance);Ephemeroptera, Plecoptera, Trichoptera (EPT) richness;EPT abundance;Simpson’s diversity; andSimpson’s evenness for periods prior to and following restoration.A significant decrease in one or more metric values in the period following stream channel restoration was the basis for determining impairment to the macroinvertebrate communities in Silver Creek.Comparison of pre-restoration (2001–13) and post‑restoration (2016) macroinvertebrate community composition at trend sites determined that no significant decreases occurred in any metric parameter for communities sampled in 2016. Taxa and EPT richness of colonized assemblages at synoptic sites

Long-term historical analysis of benthic communities and physical habitat in an agricultural stream in California's San Joaquin River watershed.

PubMed

Hall, Lenwood W; Killen, William D; Alden, Raymond

2009-05-01

This study was designed to characterize long-term annual temporal and spatial trends (2001 to 2007) in physical habitat and benthic communities and to determine relationships of habitat and benthic communities during this 7-year period in an agricultural stream in the San Joaquin River watershed in California (Del Puerto Creek). The canonical discriminant analysis indicated that there were no overall significant temporal patterns for the habitat metrics although spatial patterns were prominent for nearly all the habitat metrics. Channel alteration, riparian vegetative zone, bank stability, vegetative protection and frequency of riffles/bends were the primary habitat metrics associated with these site effects. Approximately 3,700 to 4,500 individual macroinvertebrates were picked and identified from five Del Puerto Creek sites sampled annually from 2001 to 2007. The total number of taxa by year ranged from 81 in 2003 to 106 in 2007. These benthic assemblages were generally comprised of tolerant to moderately tolerant taxa such as blackflies, oligochaetes, snails and chironomids. The metrics % predators, % EPT index, % collectors/filterers and % shredders were the benthic metrics that were most associated with the temporal effects. Ephemeroptera taxa, trichoptera taxa, and % sensitive EPT index were the benthic metrics that were most associated with the site effects. The most upstream site in Del Puerto Creek had the most robust and healthy benthic communites. Strong statistical relationships were reported between certain benthic metrics and habitat metrics. Overall, samples taken from site-year combinations with sediments that were qualitatively less muddy (less fines) and that had higher habitat metric scores for embeddedness, riparian vegetative zone, and channel alteration tended to have benthic communities characterized by higher values of the benthic metrics such as EPT taxa, Ephemeroptera taxa, EPT index, abundance, and taxonomic richness, among others

A Stream Multimetric Macroinvertebrate Index (MMI) for the Sand Hills Ecoregion of the Southeastern Plains, USA

NASA Astrophysics Data System (ADS)

Kosnicki, Ely; Sefick, Stephen A.; Paller, Michael H.; Jerrell, Miller S.; Prusha, Blair A.; Sterrett, Sean C.; Tuberville, Tracey D.; Feminella, Jack W.

2016-10-01

A macroinvertebrate multimetric index is an effective tool for assessing the biological integrity of streams. However, data collected under a single protocol may not be available for an entire region. We sampled macroinvertebrates from the full extent of the Sand Hills ecoregion Level IV of the Southeastern Plains with a standard protocol during the summers of 2010-2012. We evaluated the performance of 94 metrics through a series of screening criteria and built 48 macroinvertebrate multimetric indexs with combinations of the best performing metrics, representing richness, habit, functional feeding guild, sensitivity, and community composition. A series of narrative-response tests for each macroinvertebrate multimetric index was used to find the best performing macroinvertebrate multimetric index which we called the Sand Hills macroinvertebrate multimetric index. The Sand Hills macroinvertebrate multimetric index consisted of the measures Biotic Index, % Shredder taxa, Clinger taxa2/total taxa, Plecoptera and Trichoptera richness, and Tanytarsini taxa2/Chironomidae taxa. Comparison of the Sand Hills macroinvertebrate multimetric index with existing assessment tools calculated with our data indicated that the Sand Hills macroinvertebrate multimetric index performs at a high level with regard to identifying degraded sites and in its response to stress gradients.

Two new species of Kamimuria (Plecoptera: Perlidae) from Shaanxi Province, China.

PubMed

Li, Weihai; Mo, Raorao

2018-02-15

Two new species of the perlid genus Kamimuria Klapálek, K. shaanxinensis sp. nov. and K. yangxiana sp. nov. from Shaanxi Province of northwestern China are described in this paper. The similar characteristics of the new species and related taxa are discussed.

Zulma Ageitos de Castellanos: Publications and status of described taxa.

PubMed

Signorelli, Javier H; Urteaga, Diego; Teso, Valeria

2015-10-28

Zulma Ageitos de Castellanos was an Argentinian malacologist working in the "Facultad de Ciencias Naturales y Museo" at La Plata University where she taught invertebrate zoology between 1947 and 1990. Her scientific publications are listed in chronological order. Described genus-group and species-group taxa are listed. Information about the type locality and type material, and taxonomic remarks are also provided. Finally, type material of all described taxa was requested and, when located, illustrated.

[Temperature and daily emergence of seven genera of Ephemeroptera (Insecta) in a cloud forest stream of tropical Andes].

PubMed

Chacón, María M; Segnini, Samuel; Briceño, Daniela

2016-03-01

Daily emergence of mayflies in Neotropical rivers and their causes have been poorly studied. In temperate zones, this process is better known and attributed to several factors. In this work, we studied the daily emergence of subimagines of several Ephemeroptera genera in La Picón River of a Venezuelan Andean cloud forest and its relation with changes of environmental temperature. Four emergence traps were placed along a reach of 50 m of the stream, each one was examined each two hours in a 24 hr cycle to capture the newly emerged subimagos. This procedure was repeated for eight dates between November-2007 and February-2008 for a total of 32 observations in each sampling hour. The subimagos were reared to adults and identified to genus. The relative density of emergence per trap was calculated for each genus and sampling hour. Water and air temperature were measured each hour during the daily cycle of observation, and the averages of temperature and hour-degrees of air and water were calculated for each hour from the eight dates studied. Seven genera were identified: Leptohyphes Eaton, 1882 and Haplohyphes Allen 1966 (Leptophlebiidae); Prebaetodes Lugo-Ortiz and McCafferty, 1996, Andesiops Lugo-Ortiz and McCafferty, 1999, Baetodes Needham and Murphy, 1924 and Americabaetis Kluge, 1992 (Baetidae); and Thraulodes Ulmer, 1920 (Leptophlebiidae); being the more abundant Leptohyphes (38.4 %) and Thraulodes (20.5 %). The emergence occurred between 11:00 am and 23:00 pm showing the following: a) an emergence initiated during daylight hours by organisms of Leptohyphes, Prebaetodes and Haplohyphes; b) a nocturnal emergence, in Thraulodes, Andesiops, Baetodes and Americabaetis; and c) two peaks: one diurnal produced by Leptohyphes and other nocturnal with predominance of Thraulodes. These results are the first records on the diurnal daily emergence in Andesiops, Prebaetodes, Americabaetis, Haplohyphes, and Leptohyphes, as well as the nocturnal emergence in Thraulodes. It was

Conditionally Rare Taxa Disproportionately Contribute to Temporal Changes in Microbial Diversity

DOE PAGES

Shade, Ashley; Jones, Stuart E.; Caporaso, J. Gregory; ...

2014-07-15

Microbial communities typically contain many rare taxa that make up the majority of the observed membership, yet the contribution of this microbial “rare biosphere” to community dynamics is unclear. Using 16S rRNA amplicon sequencing of 3,237 samples from 42 time series of microbial communities from nine different ecosystems (air; marine; lake; stream; adult human skin, tongue, and gut; infant gut; and brewery wastewater treatment), we introduce a new method to detect typically rare microbial taxa that occasionally become very abundant (conditionally rare taxa [CRT]) and then quantify their contributions to temporal shifts in community structure. We discovered that CRT mademore » up 1.5 to 28% of the community membership, represented a broad diversity of bacterial and archaeal lineages, and explained large amounts of temporal community dissimilarity (i.e., up to 97% of Bray-Curtis dissimilarity). Most of the CRT were detected at multiple time points, though we also identified “one-hit wonder” CRT that were observed at only one time point. Using a case study from a temperate lake, we gained additional insights into the ecology of CRT by comparing routine community time series to large disturbance events. Our results reveal that many rare taxa contribute a greater amount to microbial community dynamics than is apparent from their low proportional abundances. In conclusion, this observation was true across a wide range of ecosystems, indicating that these rare taxa are essential for understanding community changes over time.« less

Two new species of Rhopalopsole (Plecoptera: Leuctridae) from China.

PubMed

Qian, Yu-Han; DU, Yu-Zhou

2017-06-02

Two new species of the genus Rhopalopsole, R. brevidigitata Qian & Du, sp. nov. and R. faciursina Qian & Du, sp. nov. are described and illustrated from Yunnan Province of southwestern China. The new species are compared to similar taxa in the R. vietnamica and R. shaanxiensis groups, respectively.

Response of Marine Taxa to Climate Variability in the Southeast U.S.

NASA Astrophysics Data System (ADS)

Morley, J. W.; Pinsky, M. L.; Batt, R. D.

2016-02-01

Climate change has led to large-scale redistributions of marine taxa in many coastal regions around North America. Specifically, marine populations respond to spatial shifts in their preferred temperature conditions, or thermal envelope, as they shift across a seascape. The influence of climate change on the coastal fisheries of the southeast U.S. has been largely unexplored. We analyzed 25 years of trawl survey data (1990-2014) from the Southeast Area Monitoring and Assessment Program (SEAMAP), which samples the nearshore continental shelf of the South Atlantic Bight during spring, summer, and fall. Bottom temperatures exhibited no trend over this period and the assemblage showed no net shift north or south. However, taxa distributions were sensitive to interannual temperature variation. Annual projections of taxa thermal envelopes explained variation in centroid location for many species, particularly during spring. Accordingly, long-term latitudinal shifts in taxa-specific thermal envelopes, which trended to the north or south depending on the species, were highly correlated with centroid shifts during spring. One explanation for our results is that the phenology of taxa migration is adaptable to temperature variation. In particular, the inshore-offshore movement of species during spring and fall appears quite responsive to interannual temperature variability.

Polyhedral geometry of phylogenetic rogue taxa.

PubMed

Cueto, María Angélica; Matsen, Frederick A

2011-06-01

It is well known among phylogeneticists that adding an extra taxon (e.g. species) to a data set can alter the structure of the optimal phylogenetic tree in surprising ways. However, little is known about this "rogue taxon" effect. In this paper we characterize the behavior of balanced minimum evolution (BME) phylogenetics on data sets of this type using tools from polyhedral geometry. First we show that for any distance matrix there exist distances to a "rogue taxon" such that the BME-optimal tree for the data set with the new taxon does not contain any nontrivial splits (bipartitions) of the optimal tree for the original data. Second, we prove a theorem which restricts the topology of BME-optimal trees for data sets of this type, thus showing that a rogue taxon cannot have an arbitrary effect on the optimal tree. Third, we computationally construct polyhedral cones that give complete answers for BME rogue taxon behavior when our original data fits a tree on four, five, and six taxa. We use these cones to derive sufficient conditions for rogue taxon behavior for four taxa, and to understand the frequency of the rogue taxon effect via simulation.

Pruning Rogue Taxa Improves Phylogenetic Accuracy: An Efficient Algorithm and Webservice

PubMed Central

Aberer, Andre J.; Krompass, Denis; Stamatakis, Alexandros

2013-01-01

Abstract The presence of rogue taxa (rogues) in a set of trees can frequently have a negative impact on the results of a bootstrap analysis (e.g., the overall support in consensus trees). We introduce an efficient graph-based algorithm for rogue taxon identification as well as an interactive webservice implementing this algorithm. Compared with our previous method, the new algorithm is up to 4 orders of magnitude faster, while returning qualitatively identical results. Because of this significant improvement in scalability, the new algorithm can now identify substantially more complex and compute-intensive rogue taxon constellations. On a large and diverse collection of real-world data sets, we show that our method yields better supported reduced/pruned consensus trees than any competing rogue taxon identification method. Using the parallel version of our open-source code, we successfully identified rogue taxa in a set of 100 trees with 116 334 taxa each. For simulated data sets, we show that when removing/pruning rogue taxa with our method from a tree set, we consistently obtain bootstrap consensus trees as well as maximum-likelihood trees that are topologically closer to the respective true trees. PMID:22962004

Pruning rogue taxa improves phylogenetic accuracy: an efficient algorithm and webservice.

PubMed

Aberer, Andre J; Krompass, Denis; Stamatakis, Alexandros

2013-01-01

The presence of rogue taxa (rogues) in a set of trees can frequently have a negative impact on the results of a bootstrap analysis (e.g., the overall support in consensus trees). We introduce an efficient graph-based algorithm for rogue taxon identification as well as an interactive webservice implementing this algorithm. Compared with our previous method, the new algorithm is up to 4 orders of magnitude faster, while returning qualitatively identical results. Because of this significant improvement in scalability, the new algorithm can now identify substantially more complex and compute-intensive rogue taxon constellations. On a large and diverse collection of real-world data sets, we show that our method yields better supported reduced/pruned consensus trees than any competing rogue taxon identification method. Using the parallel version of our open-source code, we successfully identified rogue taxa in a set of 100 trees with 116 334 taxa each. For simulated data sets, we show that when removing/pruning rogue taxa with our method from a tree set, we consistently obtain bootstrap consensus trees as well as maximum-likelihood trees that are topologically closer to the respective true trees.

Differentiating Iconella from Surirella (Bacillariophyceae): typifying four Ehrenberg names and a preliminary checklist of the African taxa

PubMed Central

Jahn, Regine; Kusber, Wolf-Henning; Cocquyt, Christine

2017-01-01

Abstract To comply with the new phylogeny within the Surirellales as supported by molecular and morphological data, re-evaluations and re-combinations of taxa from and within the genera Surirella, Cymatopleura, and Stenopterobia and with the re-established genus Iconella are necessary. Since the African diatom flora is rich with taxa from these genera, especially Iconella, and the authors have studied these taxa recently, describing also new taxa, a preliminary checklist of African Iconella and Surirella is here presented. 94 names are contained on this list. 57 taxa have been transferred to Iconella; 55 taxa were formerly ranked within Surirella and two taxa within Stenopterobia. 10 taxa have stayed within Surirella and six taxa have been transferred from Cymatopleura to Surirella. 20 Surirella and 1 Stenopterobia names are listed which are either unrevised or unrevisable since morphological data is missing. Four names and taxa described by Ehrenberg are here typified. Two had been transferred to Iconella already: Iconella bifrons (Ehrenb.) Ruck & Nakov and Iconella splendida (Ehrenb.) Ruck & Nakov. Two are re-transferred from Cymatopleura to Surirella: Surirella librile (Ehrenb.) Ehrenb. and Surirella undulata (Ehrenb.) Ehrenb.; both taxa are currently known by their younger synonyms: Cymatopleura solea (Bréb.) W. Smith and Cymatopleura elliptica (Bréb. ex Kützing) W. Smith. Lectotypes for Iconella bifrons, I. splendida, Surirella librile, and S. undulata were designated. PMID:28794683

High congruence of isotope sewage signals in multiple marine taxa.

PubMed

Connolly, Rod M; Gorman, Daniel; Hindell, Jeremy S; Kildea, Timothy N; Schlacher, Thomas A

2013-06-15

Assessments of sewage pollution routinely employ stable nitrogen isotope analysis (δ(15)N) in biota, but multiple taxa are rarely used. This single species focus leads to underreporting of whether derived spatial N patterns are consistent. Here we test the question of 'reproducibility', incorporating 'taxonomic replication' in the measurement of δ(15)N gradients in algae, seagrasses, crabs and fish with distance from a sewage outfall on the Adelaide coast (southern Australia). Isotopic sewage signals were equally strong in all taxa and declined at the same rate. This congruence amongst taxa has not been reported previously. It implies that sewage-N propagates to fish via a tight spatial coupling between production and consumption processes, resulting from limited animal movement that closely preserves the spatial pollution imprint. In situations such as this where consumers mirror pollution signals of primary producers, analyses of higher trophic levels will capture a broader ambit of ecological effects. Copyright © 2013 Elsevier Ltd. All rights reserved.

Quaternary disappearance of tree taxa from Southern Europe: Timing and trends

NASA Astrophysics Data System (ADS)

Magri, Donatella; Di Rita, Federico; Aranbarri, Josu; Fletcher, William; González-Sampériz, Penélope

2017-05-01

A hundred pollen and plant macrofossil records from the Iberian Peninsula, Southern France, the Italian Peninsula, Greece and the Aegean, and the southwestern Black Sea area formed the basis for a review of the Quaternary distribution and extirpation of tree populations from Southern Europe. Following a discussion of the caveats/challenges about using pollen data, the Quaternary history of tree taxa has been reconstructed with attention to Taxodium/Glyptostrobus, Sciadopitys, Cathaya, Cedrus, Tsuga, Eucommia, Engelhardia, Carya, Pterocarya, Parrotia, Liquidambar, and Zelkova. The timing of extinction, distributed over the whole Quaternary, appears very diverse from one region to the other, in agreement with current biodiversity in Southern Europe. The geographical patterns of persistence/disappearance of taxa show unexpected trends and rule out a simple North to South and/or West to East trend in extirpations. In particular, it is possible to detect disjunct populations (Engelhardia), long-term persistence of taxa in restricted regions (Sciadopitys), distinct populations/species/genera in different geographical areas (Taxodium type). Some taxa that are still widespread in Europe have undergone extirpation in Mediterranean areas in the lateglacial period and Holocene (Buxus, Carpinus betulus, Picea); they provide an indication of the modes of disappearance of tree populations that may be useful to evaluate correctly the vulnerability of modern fragmented plant populations. The demographic histories of tree taxa obtained by combined palaeobotanical and genetic studies is a most challenging field of research needed not only to assess species/population differentiation, but also to reach a better understanding of extinction processes, an essential task in the current global change scenario.

Assessment of available anatomical characters for linking living mammals to fossil taxa in phylogenetic analyses.

PubMed

Guillerme, Thomas; Cooper, Natalie

2016-05-01

Analyses of living and fossil taxa are crucial for understanding biodiversity through time. The total evidence method allows living and fossil taxa to be combined in phylogenies, using molecular data for living taxa and morphological data for living and fossil taxa. With this method, substantial overlap of coded anatomical characters among living and fossil taxa is vital for accurately inferring topology. However, although molecular data for living species are widely available, scientists generating morphological data mainly focus on fossils. Therefore, there are fewer coded anatomical characters in living taxa, even in well-studied groups such as mammals. We investigated the number of coded anatomical characters available in phylogenetic matrices for living mammals and how these were phylogenetically distributed across orders. Eleven of 28 mammalian orders have less than 25% species with available characters; this has implications for the accurate placement of fossils, although the issue is less pronounced at higher taxonomic levels. In most orders, species with available characters are randomly distributed across the phylogeny, which may reduce the impact of the problem. We suggest that increased morphological data collection efforts for living taxa are needed to produce accurate total evidence phylogenies. © 2016 The Authors.

Ambiguous taxa: Effects on the characterization and interpretation of invertebrate assemblages

USGS Publications Warehouse

Cuffney, T.F.; Bilger, Michael D.; Haigler, A.M.

2007-01-01

Damaged and immature specimens often result in macroinvertebrate data that contain ambiguous parent-child pairs (i.e., abundances associated with multiple related levels of the taxonomic hierarchy such as Baetis pluto and the associated ambiguous parent Baetis sp.). The choice of method used to resolve ambiguous parent-child pairs may have a very large effect on the characterization of invertebrate assemblages and the interpretation of responses to environmental change because very large proportions of taxa richness (73-78%) and abundance (79-91%) can be associated with ambiguous parents. To address this issue, we examined 16 variations of 4 basic methods for resolving ambiguous taxa: RPKC (remove parent, keep child), MCWP (merge child with parent), RPMC (remove parent or merge child with parent depending on their abundances), and DPAC (distribute parents among children). The choice of method strongly affected assemblage structure, assemblage characteristics (e.g., metrics), and the ability to detect responses along environmental (urbanization) gradients. All methods except MCWP produced acceptable results when used consistently within a study. However, the assemblage characteristics (e.g., values of assemblage metrics) differed widely depending on the method used, and data should not be combined unless the methods used to resolve ambiguous taxa are well documented and are known to be comparable. The suitability of the methods was evaluated and compared on the basis of 13 criteria that considered conservation of taxa richness and abundance, consistency among samples, methods, and studies, and effects on the interpretation of the data. Methods RPMC and DPAC had the highest suitability scores regardless of whether ambiguous taxa were resolved for each sample separately or for a group of samples. Method MCWP gave consistently poor results. Methods MCWP and DPAC approximate the use of family-level identifications and operational taxonomic units (OTU), respectively. Our

Hydrologic disturbance and response of aquatic biota in Big Darby Creek basin, Ohio

USGS Publications Warehouse

Hambrook, J.A.; Koltun, G.F.; Palcsak, B.B.; Tertuliani, J.S.

1997-01-01

Washout and recolonization of macroinvertebrates and algae associated with a spring and summer storm were measured at three sites in Ohio's Big Darby Creek Basin. Related factors, such as streamflow magnitude, shear stress, and streamed disturbance were considered when interpreting observed changes in densities and community structure of macroinvertebrates and algae. During the study, 184 macroinvertebrate taxa and 202 algal taxa were identified. The major taxonomic groups for macroinvertebrates were midges and other true flies (Diptera), caddisflies (Trichoptera), beetles (Coleoptera), mayflies (Ephemeroptera), and stoneflies (Plecoptera). Diatoms were the dominant algae (in terms of percentage of total taxa found) followed by green algae, blue-green algae, euglenoids, golden flagellates, and freshwater red algae. Streamflows associated with the storm events that occurred during April 6-16 and June 23-July 5, 1994, probably had little effect on streambed elevations, but streambed disturbance was documented in the form of shifts in the median particle-size diameters of the subsurface bed materials. The streamflow magnitudes did not correlate well with the magnitude of observed changes in macroinvertebrate and algal-cell densities, but reductions in macroinvertebrate and algal-cell densities generally did occur. Local minima of macroinvertebrate density did not generally correspond to the first sample after the storms, but instead lagged by about 1 to 3 weeks. Other biotic factors, such as emergence of Diptera, probably affected the observed mid-July depression in macroinvertebrate densities. Evaluation of pre-event macroinvertebrate community structure in terms of functional feeding groups and flow-exposure groups showed that, on the basis of percentage of total taxa found, gatherers were the dominant feeding group and flow-facultative taxa were the dominant flow-exposure group. Densities of gatherers decreased from pre-event levels following all the storm events

Growth and diet of fish in Waldo Lake, Oregon

USGS Publications Warehouse

Swanson, Nicola L.; Liss, W.J.; Ziller, Jeffrey S.; Wade, M.; Gresswell, R.E.

2000-01-01

Waldo Lake, located in the Oregon Cascades, is considered to be one of the most dilute lakes in the world. Even with low nutrient concentrations and sparse populations of zooplankton, introduced fish in the lake are large in size and in good condition when compared to fish from other lakes. This apparent anomaly is due to the availability of benthic macroinvertebrates. Taxa found in the stomach contents offish captured in Waldo Lake consist primarily of Chironomidae larvae and pupae, Trichoptera larvae and pupae, amphipods, Ephemeroptera larvae, and Odonata larvae.

New taxa, notes and new synonymy in Neoibidionini (Cerambycidae, Coleoptera).

PubMed

Martins, Ubirajara R; Galileo, Maria Helena M

2014-04-11

New taxa, notes, and new synonymy in Neoibidionini (Cerambycidae, Coleoptera) are given. New taxa are described from Ecuador: Compsibidion inflatum sp. nov., Bezarkia gen. nov. and B. suturalis sp. nov., Corimbion antennatum sp. nov. and Neocompsa muira sp. nov.; from México: Neocompsa chiapensis sp. nov., and from French Guyana: Kunaibidion giesberti sp. nov. Pygmodeon maculatum Martins & Galileo, 2012 is considered a new synonym of Heterachthes xyleus Martins, 1974 which is transferred to the genus Pygmodeon as a new combination. Notes on variability and new records of Asynapteron equatorianum (Martins, 1960) are presented.

State-of-Science Approaches to Determine Sensitive Taxa for Water Quality Criteria Derivation

EPA Science Inventory

Current Ambient Water Quality Criteria (AWQC) guidelines specify pre-defined taxa diversity requirements, which has limited chemical-specific criteria development in the U.S. to less than 100 chemicals. A priori knowledge of sensitive taxa to toxicologically similar groups of che...

New records for Albania based on taxa from the Prespa National Park

PubMed Central

2013-01-01

Abstract Twelve taxa are enumerated as new and three taxa confirmed for the flora of Albania. They were collected between 2007 and 2012 in the Prespa National Park of Albania which is part of the Prespa International Park, a biological protected area at the borders with F.Y.R. Macedonia and Greece. Four taxa, viz., Centaurea galicicae, Festuca galicicae, Laserpitium ochridanum and Micromeria cristata subsp. kosaninii are restricted to Dry and Galičica Mountains. Centaurea decora, a recently described species, is treated as a synonym of Centaurea soskae thus extending the known localities of the latter to the southeast. Detailed information on distribution, occurrence and habitats in Albania are provided for each taxon. PMID:24723753

EXCLUSION OF RARE TAXA AFFECTS PERFORMANCE OF THE O/E INDEX IN BIOASSESSMENTS

EPA Science Inventory

The contribution of rare taxa to bioassessments based on multispecies assemblages is the subject of continued debate. As a result, users of predictive models such as River InVertebrate Prediction and Classification System (RIVPACS) disagree on whether to exclude locally rare taxa...

Hydrologic Links Among Urbanization, Channel Morphology, Aquatic Habitat, and Macroinvertebrates in North Carolina Piedmont Streams

NASA Astrophysics Data System (ADS)

Giddings, E. M.

2005-12-01

(R2=0.30, p= 0.004), which is considered an indicator of flow stability. A macroinvertebrate index of sensitive taxa (the orders Ephemeroptera, Plecoptera and Trichoptera) to tolerant taxa (the family Chironomid) richness at the sampled streams declined with increases in percentages of sand (R2=0.22, p=0.008) and bankfull channel depth (R2=0.25, p=0.005) and decreases in flow stability (R2=0.43, p<0.0001), illustrating the important hydrologic links among urbanization and channel morphology, habitat, and macroinvertebrates in piedmont streams.

Effects of urbanization on stream quality at selected sites in the seacoast region in New Hampshire, 2001-03

USGS Publications Warehouse

Deacon, Jeffrey R.; Soule, Sally A.; Smith, Thor E.

2005-01-01

A study of selected water-quality and macroinvertebrate community data was conducted at 10 stream sites in the Seacoast region of New Hampshire to determine if a relation is present between stream quality and the extent of urbanization in a watershed. Watersheds with similar characteristics, but varying in their degree of urban development, were studied. The percent of impervious surface, the percent of urban land use in a watershed, and the percent of urban land use in two types of stream buffers were compared and correlated with stream-quality variables. Specific conductance, turbidity, nitrite plus nitrate yields, and selected macroinvertebrate community data were significantly correlated with most measures of urbanization used in this study; however, concentrations and total phosphorus yields were not statistically correlated with most measures of urbanization in this study. The measures of urbanization that had the highest correlations with stream-quality variables were those measures that were associated with the percent of urban land in buffer zones near and upstream of a sampling site. A water-quality and habitat conditions score was negatively correlated with the percent of urban land in a 1-kilometer radial buffer of the sampling site (rho (r) = -0.86; p < 0.001), the percent of impervious surface (r = -0.70; p < 0.05), and the percent of urban land in the watershed (r = -0.67; p < 0.05). A biological condition score also was negatively correlated with the percent of urban land in a 1-kilometer radial buffer of the sampling site (r = -0.95; p < 0.0001), the percent of impervious surface (r = -0.75; p < 0.05), and the percent of urban land in the watershed (r = -0.79; p < 0.01). The percent of urban land in a 25-meter stream buffer along the stream corridor also had negative correlations with a water-quality and habitat conditions score (r = -0.80; p < 0.01) and a biological condition score (r = -0.86; p < 0.01). Mean Ephemeroptera, Plecoptera, and

Large Scale Relationship between Aquatic Insect Traits and Climate.

PubMed

Bhowmik, Avit Kumar; Schäfer, Ralf B

2015-01-01

Climate is the predominant environmental driver of freshwater assemblage pattern on large spatial scales, and traits of freshwater organisms have shown considerable potential to identify impacts of climate change. Although several studies suggest traits that may indicate vulnerability to climate change, the empirical relationship between freshwater assemblage trait composition and climate has been rarely examined on large scales. We compared the responses of the assumed climate-associated traits from six grouping features to 35 bioclimatic indices (~18 km resolution) for five insect orders (Diptera, Ephemeroptera, Odonata, Plecoptera and Trichoptera), evaluated their potential for changing distribution pattern under future climate change and identified the most influential bioclimatic indices. The data comprised 782 species and 395 genera sampled in 4,752 stream sites during 2006 and 2007 in Germany (~357,000 km² spatial extent). We quantified the variability and spatial autocorrelation in the traits and orders that are associated with the combined and individual bioclimatic indices. Traits of temperature preference grouping feature that are the products of several other underlying climate-associated traits, and the insect order Ephemeroptera exhibited the strongest response to the bioclimatic indices as well as the highest potential for changing distribution pattern. Regarding individual traits, insects in general and ephemeropterans preferring very cold temperature showed the highest response, and the insects preferring cold and trichopterans preferring moderate temperature showed the highest potential for changing distribution. We showed that the seasonal radiation and moisture are the most influential bioclimatic aspects, and thus changes in these aspects may affect the most responsive traits and orders and drive a change in their spatial distribution pattern. Our findings support the development of trait-based metrics to predict and detect climate

Taxa: An R package implementing data standards and methods for taxonomic data

PubMed Central

Foster, Zachary S.L.; Chamberlain, Scott; Grünwald, Niklaus J.

2018-01-01

The taxa R package provides a set of tools for defining and manipulating taxonomic data. The recent and widespread application of DNA sequencing to community composition studies is making large data sets with taxonomic information commonplace. However, compared to typical tabular data, this information is encoded in many different ways and the hierarchical nature of taxonomic classifications makes it difficult to work with. There are many R packages that use taxonomic data to varying degrees but there is currently no cross-package standard for how this information is encoded and manipulated. We developed the R package taxa to provide a robust and flexible solution to storing and manipulating taxonomic data in R and any application-specific information associated with it. Taxa provides parsers that can read common sources of taxonomic information (taxon IDs, sequence IDs, taxon names, and classifications) from nearly any format while preserving associated data. Once parsed, the taxonomic data and any associated data can be manipulated using a cohesive set of functions modeled after the popular R package dplyr. These functions take into account the hierarchical nature of taxa and can modify the taxonomy or associated data in such a way that both are kept in sync. Taxa is currently being used by the metacoder and taxize packages, which provide broadly useful functionality that we hope will speed adoption by users and developers. PMID:29707201

Discrete taxa of saprotrophic fungi respire different ages of carbon from Antarctic soils.

PubMed

Newsham, Kevin K; Garnett, Mark H; Robinson, Clare H; Cox, Filipa

2018-05-18

Different organic compounds have distinct residence times in soil and are degraded by specific taxa of saprotrophic fungi. It hence follows that specific fungal taxa should respire carbon of different ages from these compounds to the atmosphere. Here, we test whether this is the case by radiocarbon ( 14 C) dating CO 2 evolved from two gamma radiation-sterilised maritime Antarctic soils inoculated with pure single cultures of four fungi. We show that a member of the Helotiales, which accounted for 41-56% of all fungal sequences in the two soils, respired soil carbon that was aged up to 1,200 years BP and which was 350-400 years older than that respired by the other three taxa. Analyses of the enzyme profile of the Helotialean fungus and the fluxes and δ 13 C values of CO 2 that it evolved suggested that its release of old carbon from soil was associated with efficient cellulose decomposition. Our findings support suggestions that increases in the ages of carbon respired from warmed soils may be caused by changes to the abundances or activities of discrete taxa of microbes, and indicate that the loss of old carbon from soils is driven by specific fungal taxa.

Agaricus section Xanthodermatei: a phylogenetic reconstruction with commentary on taxa.

PubMed

Kerrigan, Richard W; Callac, Philippe; Guinberteau, Jacques; Challen, Michael P; Parra, Luis A

2005-01-01

Agaricus section Xanthodermatei comprises a group of species allied to A. xanthodermus and generally characterized by basidiomata having phenolic odors, transiently yellowing discolorations in some parts of the basidiome, Schaeffer's reaction negative, and mild to substantial toxicity. The section has a global distribution, while most included species have distributions restricted to regions of single continents. Using specimens and cultures from Europe, North America, and Hawaii, we analyzed DNA sequences from the ITS1+2 region of the nuclear rDNA to identify and characterize phylogenetically distinct entities and to construct a hypothesis of relationships, both among members of the section and with representative taxa from other sections of the genus. 61 sequences from affiliated taxa, plus 20 from six (or seven) other sections of Agaricus, and one Micropsalliota sequence, were evaluated under distance, maximum parsimony and maximum likelihood methods. We recognized 21 discrete entities in Xanthodermatei, including 14 established species and 7 new ones, three of which are described elsewhere. Four species from California, New Mexico, and France deserve further study before they are described. Type studies of American taxa are particularly emphasized, and a lectotype is designated for A. californicus. Section Xanthodermatei formed a single clade in most analyses, indicating that the traditional sectional characters noted above are good unifying characters that appear to have arisen only once within Agaricus. Deep divisions within the sequence-derived structure of the section could be interpreted as subsections in Xanthodermatei; however, various considerations led us to refrain from proposing new supraspecific taxa. The nearest neighbors of section Xanthodermatei are putatively in section Duploannulati.

Multilevel regularized regression for simultaneous taxa selection and network construction with metagenomic count data.

PubMed

Liu, Zhenqiu; Sun, Fengzhu; Braun, Jonathan; McGovern, Dermot P B; Piantadosi, Steven

2015-04-01

Identifying disease associated taxa and constructing networks for bacteria interactions are two important tasks usually studied separately. In reality, differentiation of disease associated taxa and correlation among taxa may affect each other. One genus can be differentiated because it is highly correlated with another highly differentiated one. In addition, network structures may vary under different clinical conditions. Permutation tests are commonly used to detect differences between networks in distinct phenotypes, and they are time-consuming. In this manuscript, we propose a multilevel regularized regression method to simultaneously identify taxa and construct networks. We also extend the framework to allow construction of a common network and differentiated network together. An efficient algorithm with dual formulation is developed to deal with the large-scale n ≪ m problem with a large number of taxa (m) and a small number of samples (n) efficiently. The proposed method is regularized with a general Lp (p ∈ [0, 2]) penalty and models the effects of taxa abundance differentiation and correlation jointly. We demonstrate that it can identify both true and biologically significant genera and network structures. Software MLRR in MATLAB is available at http://biostatistics.csmc.edu/mlrr/. Supplementary data are available at Bioinformatics online. © The Author 2014. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

Catalog of taxa introduced by Luitfried Salvini-Plawen (1939-2014).

PubMed

Affenzeller, Susanne; Steiner, Gerhard

2017-10-17

Luitfried Salvini-Plawen was one of the most distinguished researchers for molluscan phylogenetic systematics of the last decades. In his publications he described a total of 193 species: 134 Solenogastres, 34 Caudofoveata, 14 interstitial Gastropoda, one polyplacophoran and the remaining comprising Cnidaria, Priapulida, Kamptozoa, and Echinodermata. In addition, he introduced 47 genus-group names and 54 names for family-level and higher taxa. This catalog comprises lists of all taxon names published by Luitfried Salvini-Plawen. The catalog entries contain taxonomic information, original citations, type localities and type collections. It aims to facilitate further research on these and related taxa.

Two new species of the Rhopalopsole magnicerca group (Plecoptera: Leuctridae) from China.

PubMed

Mo, Raorao; Wang, Guoquan; Yang, Ding; Li, Weihai

2018-03-04

Two leuctrid species of the Rhopalopsole magnicerca group are described as new, R. brevicula sp. nov. and R. jizushana sp. nov. from the Guangxi Autonomous Region of southern China, bordering Vietnam and Yunnan Province of southwestern China, respectively. The new species are compared with related taxa.

Pyrosequencing detects human and animal pathogenic taxa in the grapevine endosphere

PubMed Central

Yousaf, Sohail; Bulgari, Daniela; Bergna, Alessandro; Pancher, Michael; Quaglino, Fabio; Casati, Paola; Campisano, Andrea

2014-01-01

Generally, plants are not considered as hosts for human and animal pathogens (HAP). The recent produce-associated outbreaks of food-borne diseases have drawn attention toward significant deficiencies in our understanding of the ecology of HAP, and their potential for interkingdom transfer. To examine the association of microorganisms classified as HAP with plants, we surveyed the presence and distribution of HAP bacterial taxa (henceforth HAPT, for brevity's sake) in the endosphere of grapevine (Vitis vinifera L.) both in the plant stems and leaves. An enrichment protocol was used on leaves to detect taxa with very low abundance in undisturbed tissues. We used pyrosequencing and phylogenetic analyses of the 16S rDNA gene. We identified several HAPT, and focused on four genera (Propionibacterium, Staphylococcus, Clostridium, and Burkholderia). The majority of the bacterial sequences in the genus Propionibacterium, from grapevine leaf and stem, were identified as P. acnes. Clostridia were detected in leaves and stems, but their number was much higher in leaves after enrichment. HAPT were indentified both in leaves and wood of grapevines. This depicts the ability of these taxa to be internalized within plant tissues and maintain their population levels in a variety of environments. Our analysis highlighted the presence of HAPT in the grapevine endosphere and unexpected occurrence of these bacterial taxa in this atypical environment. PMID:25071740

Pyrosequencing detects human and animal pathogenic taxa in the grapevine endosphere.

PubMed

Yousaf, Sohail; Bulgari, Daniela; Bergna, Alessandro; Pancher, Michael; Quaglino, Fabio; Casati, Paola; Campisano, Andrea

2014-01-01

Generally, plants are not considered as hosts for human and animal pathogens (HAP). The recent produce-associated outbreaks of food-borne diseases have drawn attention toward significant deficiencies in our understanding of the ecology of HAP, and their potential for interkingdom transfer. To examine the association of microorganisms classified as HAP with plants, we surveyed the presence and distribution of HAP bacterial taxa (henceforth HAPT, for brevity's sake) in the endosphere of grapevine (Vitis vinifera L.) both in the plant stems and leaves. An enrichment protocol was used on leaves to detect taxa with very low abundance in undisturbed tissues. We used pyrosequencing and phylogenetic analyses of the 16S rDNA gene. We identified several HAPT, and focused on four genera (Propionibacterium, Staphylococcus, Clostridium, and Burkholderia). The majority of the bacterial sequences in the genus Propionibacterium, from grapevine leaf and stem, were identified as P. acnes. Clostridia were detected in leaves and stems, but their number was much higher in leaves after enrichment. HAPT were indentified both in leaves and wood of grapevines. This depicts the ability of these taxa to be internalized within plant tissues and maintain their population levels in a variety of environments. Our analysis highlighted the presence of HAPT in the grapevine endosphere and unexpected occurrence of these bacterial taxa in this atypical environment.

Assessing water source and channel type as factors affecting benthic macroinvertebrate and periphyton assemblages in the highly urbanized Santa Ana River Basin, California

USGS Publications Warehouse

Burton, Carmen; Brown, Larry R.; Belitz, Kenneth

2005-01-01

The Santa Ana River basin is the largest stream system in Southern California and includes a densely populated coastal area. Extensive urbanization has altered the geomorphology and hydrology of the streams, adversely affecting aquatic communities. We studied macroinvertebrate and periphyton assemblages in relation to two categorical features of the highly engineered hydrologic system-water source and channel type. Four water sources were identified-natural, urban-impacted groundwater, urban runoff, and treated wastewater. Three channel types were identified-natural, channelized with natural bottom, and concrete-lined. Nineteen sites, covering the range of these two categorical features, were sampled in summer 2000. To minimize the effects of different substrate types among sites, artificial substrates were used for assessing macroinvertebrate and periphyton assemblages. Physical and chemical variables and metrics calculated from macroinvertebrate and periphyton assemblage data were compared among water sources and channel types using analysis of variance and multiple comparison tests. Macroinvertebrate metrics exhibiting significant (P < 0.05) differences between water sources included taxa and Ephemeroptera-Plecoptera-Trichoptera richness, relative richness and abundance of nonchironomid dipterans, orthoclads, oligochaetes, and some functional-feeding groups such as parasites and shredders. Periphyton metrics showing significant differences between water sources included blue-green algae biovolume and relative abundance of nitrogen heterotrophic, eutrophic, motile, and pollution-sensitive diatoms. The relative abundance of trichopterans, tanytarsini chironomids, noninsects, and filter feeders, as well as the relative richness and abundance of diatoms, were significantly different between channel types. Most physical variables were related to channel type, whereas chemical variables and some physical variables (e.g., discharge, velocity, and channel width) were

Water Quality, Physical Habitat, and Biology of the Kijik River Basin, Lake Clark National Park and Preserve, Alaska, 2004-2005

USGS Publications Warehouse

Brabets, Timothy P.; Ourso, Robert T.

2006-01-01

The U.S. Geological Survey and the National Park Service conducted a water-quality investigation of the Kijik River Basin in Lake Clark National Park and Preserve from June 2004 to March 2005. The Kijik River Basin was studied because it has a productive sockeye salmon run that is important to the larger Kvichak River watershed. Water-quality, physical habitat, and biological characteristics were assessed. Water type throughout the Kijik River Basin is calcium bicarbonate although Little Kijik River above Kijik Lake does have slightly higher concentrations of sulfate and chloride. Alkalinity concentrations are generally less than 28 milligrams per liter, indicating a low buffering capacity of these waters. Lachbuna Lake traps much of the suspended sediment from the glacier streams in the headwaters of the basin as evidenced by low secchi-disc transparency of 1 to 2 meters and low suspended sediment concentrations in the Kijik River downstream from the lake. Kijik Lake is a fed by clearwater streams and has secchi-disc readings ranging from 11 to 15 meters. Streambed sediments collected from four surface sites analyzed for trace elements indicated that arsenic concentrations at all sites were above proposed guidelines. However, arsenic concentrations are due to the local geology, not anthropogenic factors. Benthic macroinvertebrate qualitative multi-habitat samples collected from two sites on the Little Kijik River and two sites on the main stem of the Kijik River indicated a total of 69 taxa present among the four sites. The class Insecta, made up the largest percentage of macroinvertebrates, totaling 70 percent of the families found. The insects were comprised of four orders; Diptera (flies and midges), Ephemeroptera (mayflies), Plecoptera (stoneflies), and Trichoptera (caddisflies). One-hundred twenty-two species of periphytic algae were identified in qualitative multi-habitat samples collected at the four stream sites. Eight species of non-motile, diatoms were

Structural and functional responses of periphyton and macroinvertebrate communities to ferric Fe, Cu, and Zn in stream mesocosms.

PubMed

Cadmus, Pete; Guasch, Helena; Herdrich, Adam T; Bonet, Berta; Urrea, Gemma; Clements, William H

2018-05-01

Two mesocosm experiments were conducted to examine effects of ferric iron (Fe) and mixtures of ferric Fe with aqueous metals (Cu, Zn) on stream benthic communities. Naturally colonized benthic communities were exposed to a gradient of ferric Fe (0, 0.4, 1.0, 2.5, 6.2, and 15.6 mg/L) that bracketed the current US Environmental Protection Agency water quality criterion value (1.0 mg/L). After 10 d of exposure to ferric Fe, total macroinvertebrate abundance, number of taxa, and abundance of all major macroinvertebrate groups (Ephemeroptera, Plecoptera, Trichoptera, and Diptera) were significantly reduced. Heptageniid mayflies and chironomids were especially sensitive to Fe oxide deposition and were significantly reduced at 0.4 and 1.0 mg/L total Fe, respectively. In a second mesocosm experiment, periphyton and macroinvertebrate communities were exposed to ferric Fe (0.60 mg/L) with or without aqueous Cu and Zn at 2 treatment levels: low (0.01 mg/L Cu + 0.1 mg/L Zn) and high (0.05 mg/L Cu + 0.5 mg/L Zn). In contrast to previous research, we observed no evidence of a protective effect of Fe on toxicity of metals. Growth rates and protein content of periphyton were significantly reduced by both ferric Fe and aqueous metals, whereas abundance of heptageniid mayflies (Cinygmula) and whole community metabolism were significantly reduced by ferric Fe alone. We hypothesize that Fe oxides inhibited algal growth and enhanced metal accumulation, leading to a reduction in the quantity and quality of food resources for grazers. Mesocosm experiments conducted using natural benthic communities provide a unique opportunity to quantify the relative importance of indirect physical effects and to develop a better understanding of the relationship between basal food resources and consumers in natural stream ecosystems. Environ Toxicol Chem 2018;37:1320-1329. © 2017 SETAC. © 2017 SETAC.

Roles of epi-anecic taxa of earthworms in the organic matter recycling

NASA Astrophysics Data System (ADS)

Hoeffner, Kevin; Monard, Cécile; Santonja, Mathieu; Pérès, Guénola; Cluzeau, Daniel

2017-04-01

Given their impact on soil functioning and their interactions with soil organisms, earthworms contribute to the recycling of organic matter and participate significantly in the numerous ecosystem services provided by soils. Most studies on the role of earthworms in organic matter recycling were conducted at the level of the four functional groups (epigeic, epi-anecic, anecic strict and endogeic), but their effects at taxa level remain largely unknown. Still, within a functional group, anatomic and physiologic earthworm taxa traits are different, which should impact organic matter recycling. This study aims at determining, under controlled conditions, epi-anecic taxa differences in (i) leaf litter mass loss, (ii) assimilation and (iii) impact on microorganisms communities implied in organic matter degradation. In seperate microcosms, we chose 4 epi anecic taxa (Lumbricus rubellus, Lumbricus festivus, Lumbricus centralis and Lumbricus terrestris). Each taxon was exposed separately to leaves of three different plants (Holcus lanatus, Lolium perenne and Corylus avellana). In the same microcosm, leaves of each plant was both placed on the surface and buried 10cm deep. The experiment lasted 10 days for half of the samples and 20 days for the second half. Microorganisms communities were analysed using TRFLP in each earthworm taxon burrow walls at 20 days. We observed differences between epi-anecic taxa depending on species of plant and the duration of the experiment. Results are discussed taking into account physical and chemical properties of these 3 trophic resources (e.g. C/N ratio, phenolic compounds, percentage of lignin and cellulose...).

Influence of anglers' specializations on catch, harvest, and bycatch of targeted taxa

USGS Publications Warehouse

Pope, Kevin L.; Chizinski, Christopher J.; Wiley, Christopher L.; Martin, Dustin R.

2016-01-01

Fishery managers often use catch per unit effort (CPUE) of a given taxon derived from a group of anglers, those that sought said taxon, to evaluate fishery objectives because managers assume CPUE for this group of anglers is most sensitive to changes in fish taxon density. Further, likelihood of harvest may differ for sought and non-sought taxa if taxon sought is a defining characteristic of anglers’ attitude toward harvest. We predicted that taxon-specific catch across parties and reservoirs would be influenced by targeted taxon after controlling for number of anglers in a party and time spent fishing (combine to quantify fishing effort of party); we also predicted similar trends for taxon-specific harvest. We used creel-survey data collected from anglers that varied in taxon targeted, from generalists (targeting “anything” [no primary target taxa, but rather targeting all fishes]) to target specialists (e.g., anglers targeting largemouth bass Micropterus salmoides) in 19 Nebraska reservoirs during 2009–2011 to test our predictions. Taxon-specific catch and harvest were, in general, positively related to fishing effort. More importantly, we observed differences of catch and harvest among anglers grouped by taxon targeted for each of the eight taxa assessed. Anglers targeting a specific taxon had the greatest catch for that taxon and anglers targeting anything typically had the second highest catch for that taxon. In addition, anglers tended to catch more of closely related taxa and of taxa commonly targeted with similar fishing techniques. We encourage managers to consider taxon-specific objectives of target and non-target catch and harvest.

A nomenclator of extant and fossil taxa of the Valvatidae (Gastropoda, Ectobranchia)

PubMed Central

Haszprunar, Gerhard

2014-01-01

Abstract A compilation of all supra- and (infra-) specific taxa of extant and fossil Valvatidae, a group of freshwater operculate snails, is provided, including taxa initially described in this family and subsequently classified in other families, as well as names containing errors or misspellings. The extensive reference list is directly linked to the available electronic source (digital view or pdf-download) of the respective papers. PMID:24578604

Relative differences in susceptibility of Pieris taxa (Ericaceae) to Stephanitis spp. lace bugs (Hemiptera: Tingidae).

PubMed

Nair, Shakunthala; Braman, S Kristine; Knauft, D A

2012-10-01

Over 60 Pieris taxa (Ericaceae) were measured for their susceptibility to the Andromeda lace bug, Stephanitis takeyai Drake and Maa, and the azalea lace bug, Stephanitis pyrioides (Scott) (Hemiptera: Tingidae) based on leaf damage, adult survival on leaves, and emergence of nymphs in no-choice petri dish assays. Pieris phillyreifolia (Hook.) DC. and P. japonica (Thunb.) D.Don ex G.Don 'Variegata' were consistently resistant to both species of lace bugs, whereas P. japonica 'Cavatine' was consistently susceptible to both. Pieris japonica 'Temple Bells' was highly susceptible to S. takeyai, but resistant to S. pyrioides. Nymph emergence was noted only with S. takeyai, on 46 Pieris taxa, whereas S. pyrioides nymphs were not observed on any of the Pieris taxa. Choice assays (with 10 Pieris taxa) and whole plant assays (with five Pieris taxa) using S. takeyai alone also were conducted, confirming the resistance of P. phillyreifolia and susceptibility of P. japonica Temple Bells to lace bug feeding.

Differences among Major Taxa in the Extent of Ecological Knowledge across Four Major Ecosystems

PubMed Central

Fisher, Rebecca; Knowlton, Nancy; Brainard, Russell E.; Caley, M. Julian

2011-01-01

Existing knowledge shapes our understanding of ecosystems and is critical for ecosystem-based management of the world's natural resources. Typically this knowledge is biased among taxa, with some taxa far better studied than others, but the extent of this bias is poorly known. In conjunction with the publically available World Registry of Marine Species database (WoRMS) and one of the world's premier electronic scientific literature databases (Web of Science®), a text mining approach is used to examine the distribution of existing ecological knowledge among taxa in coral reef, mangrove, seagrass and kelp bed ecosystems. We found that for each of these ecosystems, most research has been limited to a few groups of organisms. While this bias clearly reflects the perceived importance of some taxa as commercially or ecologically valuable, the relative lack of research of other taxonomic groups highlights the problem that some key taxa and associated ecosystem processes they affect may be poorly understood or completely ignored. The approach outlined here could be applied to any type of ecosystem for analyzing previous research effort and identifying knowledge gaps in order to improve ecosystem-based conservation and management. PMID:22073172

The Widespread use of Methoprene for the Prevention and Control of West Nile Virus in Ontario, Canada: Is it Impairing our Streams?

NASA Astrophysics Data System (ADS)

Fletcher, R.; Baker, S. L.; Hayton, A.

2005-05-01

Catch basins have been identified as a major breeding location for the mosquito Culex pipiens, a primary vector for the spread of West Nile Virus in Ontario. Methoprene, an insect growth regulator, has been applied extensively in catch basins to combat the spread of mosquito populations. Since 2003, an estimated 1 million catch basins located around the Canadian shores of Lake Ontario were treated with 0.7g of 30-day, slow release methoprene pellets (4.25% active ingredient). Although studies have shown that methoprene breaks down quickly in the environment and is relatively non-toxic to mammals and fish, the large quantities being applied across Ontario raise concerns over the effects methoprene and its metabolites may have on non-target aquatic insects. The receiving streams of selected catch basins where methoprene was applied regularly were studied to assess the effects of methoprene application on stream macroinvertebrates. Although methoprene was not detected in the receiving waters, some changes in the community assemblages were observed. Many of the observed changes could be attributed to seasonality, however, percent Ephemeroptera, Plecoptera and Trichoptera (EPT) tended to be lower downstream of the storm sewer discharge compared to upstream and pre-application.

Fish and invertebrate flow-biology relationships to support the determination of ecological flows for North Carolina

USGS Publications Warehouse

Phelan, Jennifer; Cuffney, Thomas F.; Patterson, Lauren A.; Eddy, Michele; Dykes, Robert; Pearsall, Sam; Goudreau, Chris; Mead, Jim; Tarver, Fred

2017-01-01

A method was developed to characterize fish and invertebrate responses to flow alteration in the state of North Carolina. This method involved using 80th percentile linear quantile regressions to relate six flow metrics to the diversity of riffle-run fish and benthic Ephemeroptera, Plecoptera, and Trichoptera (EPT) richness. All twelve flow-biology relationships were found to be significant, with both benthos and fish showing negative responses to ecodeficits and reductions in flow. The responses of benthic richness to reduced flows were consistent and generally greater than that of fish diversity. However, the riffle-run fish guild showed the greatest reductions in diversity in response to summer ecodeficits. The directional consistency and differential seasonal sensitivities of fish and invertebrates to reductions in flow highlight the need to consider seasonality when managing flows. In addition, all relationships were linear, and therefore do not provide clear thresholds to support ecological flow determinations and flow prescriptions to prevent the degradation of fish and invertebrate communities in North Carolina rivers and streams. A method of setting ecological flows based on the magnitude of change in biological condition that is acceptable to society is explored.

Impacts of urban landuse on macroinvertebrate communities in southeastern Wisconsin streams

USGS Publications Warehouse

Stepenuck, K.F.; Crunkilton, R.L.; Wang, L.

2002-01-01

Macroinvertebrates were used to assess the impact of urbanization on stream quality across a gradient of watershed imperviousness in 43 southeastern Wisconsin streams. The percentage of watershed connected imperviousness was chosen as the urbanization indicator to examine impact of urban land uses on macroinvertebrate communities. Most urban land uses were negatively correlated with the Shannon diversity index, percent of pollution intolerant Ephemeroptera, Plecoptera, and Trichoptera individuals, and generic richness. Nonurban land uses were positively correlated with these same metrics. The Hilsenhoff biotic index indicated that stream quality declined with increased urbanization. Functional feeding group metrics varied across a gradient of urbanization, suggesting changes in stream quality. Proportions of collectors and gatherers increased, while proportions of filterers, scrapers, and shredders decreased with increased watershed imperviousness. This study demonstrated that urbanization severely degraded stream macroinvertebrate communities, hence stream quality. Good stream quality existed where imperviousness was less than 8 percent, but less favorable assessments were inevitable where imperviousness exceeded 12 to 20 percent. Levels of imperviousness between 8 and 12 percent represented a threshold where minor increases in urbanization were associated with sharp declines in stream quality.

Measuring Stratigraphic Congruence Across Trees, Higher Taxa, and Time

PubMed Central

O'Connor, Anne; Wills, Matthew A.

2016-01-01

The congruence between the order of cladistic branching and the first appearance dates of fossil lineages can be quantified using a variety of indices. Good matching is a prerequisite for the accurate time calibration of trees, while the distribution of congruence indices across large samples of cladograms has underpinned claims about temporal and taxonomic patterns of completeness in the fossil record. The most widely used stratigraphic congruence indices are the stratigraphic consistency index (SCI), the modified Manhattan stratigraphic measure (MSM*), and the gap excess ratio (GER) (plus its derivatives; the topological GER and the modified GER). Many factors are believed to variously bias these indices, with several empirical and simulation studies addressing some subset of the putative interactions. This study combines both approaches to quantify the effects (on all five indices) of eight variables reasoned to constrain the distribution of possible values (the number of taxa, tree balance, tree resolution, range of first occurrence (FO) dates, center of gravity of FO dates, the variability of FO dates, percentage of extant taxa, and percentage of taxa with no fossil record). Our empirical data set comprised 647 published animal and plant cladograms spanning the entire Phanerozoic, and for these data we also modeled the effects of mean age of FOs (as a proxy for clade age), the taxonomic rank of the clade, and the higher taxonomic group to which it belonged. The center of gravity of FO dates had not been investigated hitherto, and this was found to correlate most strongly with some measures of stratigraphic congruence in our empirical study (top-heavy clades had better congruence). The modified GER was the index least susceptible to bias. We found significant differences across higher taxa for all indices; arthropods had lower congruence and tetrapods higher congruence. Stratigraphic congruence—however measured—also varied throughout the Phanerozoic

Aerobic microbial taxa dominate deep subsurface cores from the Alberta oil sands.

PubMed

Ridley, Christina M; Voordouw, Gerrit

2018-06-01

Little is known about the microbial ecology of the subsurface oil sands in Northern Alberta, Canada. Biodegradation of low molecular weight hydrocarbons by indigenous microbes has enriched high molecular weight hydrocarbons, resulting in highly viscous bitumen. This extreme subsurface environment is further characterized by low nutrient availability and limited access to water, thus resulting in low microbial biomass. Improved DNA isolation protocols and increasingly sensitive sequencing methods have allowed an in-depth investigation of the microbial ecology of this unique subsurface environmental niche. Community analysis was performed on core samples (n = 62) that were retrieved from two adjacent sites located in the Athabasca Oil Sands at depths from 220 to 320 m below the surface. Microbial communities were dominated by aerobic taxa, including Pseudomonas and Acinetobacter. Only one core sample microbial community was dominated by anaerobic taxa, including the methanogen Methanoculleus, as well as Desulfomicrobium and Thauera. Although the temperature of the bitumen-containing subsurface is low (8°C), two core samples had high fractions of the potentially thermophilic taxon, Thermus. Predominance of aerobic taxa in the subsurface suggests the potential for in situ aerobic hydrocarbon degradation; however, more studies are required to determine the functional role of these taxa within this unique environment.

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

NASA Astrophysics Data System (ADS)

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

2003-04-01

The Bioengineering is a constructive discipline having its own technical, ecological and environmental friendly scopes, by using living materials. The aim of this study is to assess the river restoration efficiency of Bioengineering. The basic goals of many management-concepts are the integrity of the river habitat, self-regulation and self-regeneration, the preservation of intact resources, to recreate the uniqueness, diversity and beauty of natural river landscape. From an ecological point of view the richness, diversity and age composition of the populations developing after restoration as a result of habitat improvement reveal the degree to which comprehensive concepts were applied (Jungwirth et al., 1995). The following results summarised an investigation on streams Boesio and Rancina in Valcuvia, (Varese, Northern Italy). These streams are characterised by human impacts like water pollution, river engineering and river bioengineering (palificata doppia viva). The samples of macrobenthic fauna were collected between August 2000 and July 2001 in 4 stations for each stream, where the 3rd station of Boesio and Rancina streams is characterised by bioengeneering measure, using a Surber sampler (0.125 m2, mesh size 0.45 mm). The zoobenthic communities of these pre-alpine streams are characterised by low richness and diversity and few families and genera were predominant. In Rancina stream, Ephemeroptera (genus Baetis), Trichoptera (families Hydropsychidae, Limnephilidae and Rhyacophilidae) and Diptera (families Chironomidae and Simuliidae) are present throughout the year with significant densities. The faunal composition of Boesio stream is similar. It differs, only, from stream Rancina to costant presence of Plecoptera with genus Leuctra. To evaluate the restoration of environmental quality two indices were applied: Indice Biotico Esteso (I.B.E.- Ghetti, 1995); Indice di Funzionalità Fluviale (I.F.F.- Siligardi, 2000). The E.B.I. scores of Boesio stream indicate

Description of Sweltsa tibetensis sp. n. (Plecoptera: Chloroperlidae) from Tibet Autonomous Region of China.

PubMed

Li, Weihai; Pan, Zhaohui; Liu, Ruijun

2017-12-18

A new stonefly species of the chloroperlini genus Sweltsa, S. tibetensis, sp. n. is described from the southeastern Tibet Autonomous Region, China and its taxonomic relationship to related taxa is discussed.

Resistance mechanisms in Pieris taxa (Ericaceae) to Stephanitis takeyai (Hemiptera: Tingidae).

PubMed

Nair, Shakunthala; Braman, S Kristine; Knauft, D A

2012-10-01

This study examines some of the potential mechanisms of resistance in selected Pieris (Ericaceae) taxa to the Andromeda lace bug, Stephanitis takeyai Drake and Maa, based on differences in resistance to lace bug feeding, and the possible role of leaf parameters such as leaf wax, toughness, nutrient composition, and stomatal characters in plant resistance. Experiments with extracts of leaf-surface lipids revealed that Pieris leaf wax did not have a role in resistance to lace bug feeding. Leaf wax extracts from a resistant species P. phillyreifolia (Hook.) DC. applied to leaves of a susceptible cultivar P. japonica (Thunb.) D.Don ex G.Don 'Temple Bells' did not affect feeding, oviposition, or survival of S. takeyai; and neither the extracts from Temple Bells induce susceptibility in P. phillyreifolia. Leaf penetrometer measurements indicated that significantly higher force was required to puncture P. phillyreifolia leaves, which also had higher fiber, lignin, and cellulose, and lower leaf moisture contents. Ultrastructural examination of leaves of Pieris taxa revealed significant differences in the number and size of stomata. P. phillyreifolia leaves had the highest number of stomata per unit area but these were the smallest in size, whereas P. japonica (Thunb.) D.Don ex G.Don Temple Bells leaves had the fewest and largest stomata. Resistance in Pieris taxa to S. takeyai may be attributed to a combination of different factors including leaf toughness, moisture, and stomatal characters. The type of resistance may be described as antixenosis combined with antibiosis, because reduced adult survival and reproduction were observed on the taxa resistant to lace bug feeding.

Sensitivity of the mayfly Adenophlebia auriculata (Ephemeroptera: Leptophlebiidae) to MgSO4 and Na2SO4

NASA Astrophysics Data System (ADS)

Vellemu, E. C.; Mensah, P. K.; Griffin, N. J.; Odume, O. N.

2017-08-01

Acid mine drainage (AMD) continues to deteriorate water quality in freshwater ecosystems. Sulphates, a major salt component in AMD, can exacerbate AMD effects in freshwater because salts are toxic to aquatic life in high concentrations. Sulphates are predominant in South African AMD impacted freshwater ecosystems. In this study, the sensitivity of nymphs of the mayfly Adenophlebia auriculata (Ephemeroptera: Leptophlebiidae) was investigated by exposing the organisms to magnesium sulphate (MgSO4) and sodium sulphate (Na2SO4) as models of mining salinisation in short-term (96 h) and long-term (240 h) in static system tests. Short-term and long-term lethal concentrations of each salt were estimated using regression analyses. The results indicated that A. auriculata was more sensitive to MgSO4 (LC50 = 3.81 g/L) than Na2SO4 (LC50 = 8.78 g/L) after short-term exposures. However, this species became sensitive to Na2SO4 (LC10 = 0.19 g/L) but tolerant to MgSO4 (LC10 = 0.35 g/L) after long-term exposures. These results suggest that the 0.25 g/L sulphate compliance limit for South Africa is inadequate to protect A. auriculata from Na2SO4 toxicity in the long-term, yet it overprotects this species from MgSO4 exposures in the short-term. The findings of this study are an important major step in understanding the ecological effects of AMD to aquatic life.

Measuring Stratigraphic Congruence Across Trees, Higher Taxa, and Time.

PubMed

O'Connor, Anne; Wills, Matthew A

2016-09-01

The congruence between the order of cladistic branching and the first appearance dates of fossil lineages can be quantified using a variety of indices. Good matching is a prerequisite for the accurate time calibration of trees, while the distribution of congruence indices across large samples of cladograms has underpinned claims about temporal and taxonomic patterns of completeness in the fossil record. The most widely used stratigraphic congruence indices are the stratigraphic consistency index (SCI), the modified Manhattan stratigraphic measure (MSM*), and the gap excess ratio (GER) (plus its derivatives; the topological GER and the modified GER). Many factors are believed to variously bias these indices, with several empirical and simulation studies addressing some subset of the putative interactions. This study combines both approaches to quantify the effects (on all five indices) of eight variables reasoned to constrain the distribution of possible values (the number of taxa, tree balance, tree resolution, range of first occurrence (FO) dates, center of gravity of FO dates, the variability of FO dates, percentage of extant taxa, and percentage of taxa with no fossil record). Our empirical data set comprised 647 published animal and plant cladograms spanning the entire Phanerozoic, and for these data we also modeled the effects of mean age of FOs (as a proxy for clade age), the taxonomic rank of the clade, and the higher taxonomic group to which it belonged. The center of gravity of FO dates had not been investigated hitherto, and this was found to correlate most strongly with some measures of stratigraphic congruence in our empirical study (top-heavy clades had better congruence). The modified GER was the index least susceptible to bias. We found significant differences across higher taxa for all indices; arthropods had lower congruence and tetrapods higher congruence. Stratigraphic congruence-however measured-also varied throughout the Phanerozoic, reflecting

Combining phylogenomics and fossils in higher-level squamate reptile phylogeny: molecular data change the placement of fossil taxa.

PubMed

Wiens, John J; Kuczynski, Caitlin A; Townsend, Ted; Reeder, Tod W; Mulcahy, Daniel G; Sites, Jack W

2010-12-01

Molecular data offer great potential to resolve the phylogeny of living taxa but can molecular data improve our understanding of relationships of fossil taxa? Simulations suggest that this is possible, but few empirical examples have demonstrated the ability of molecular data to change the placement of fossil taxa. We offer such an example here. We analyze the placement of snakes among squamate reptiles, combining published morphological data (363 characters) and new DNA sequence data (15,794 characters, 22 nuclear loci) for 45 living and 19 fossil taxa. We find several intriguing results. First, some fossil taxa undergo major changes in their phylogenetic position when molecular data are added. Second, most fossil taxa are placed with strong support in the expected clades by the combined data Bayesian analyses, despite each having >98% missing cells and despite recent suggestions that extensive missing data are problematic for Bayesian phylogenetics. Third, morphological data can change the placement of living taxa in combined analyses, even when there is an overwhelming majority of molecular characters. Finally, we find strong but apparently misleading signal in the morphological data, seemingly associated with a burrowing lifestyle in snakes, amphisbaenians, and dibamids. Overall, our results suggest promise for an integrated and comprehensive Tree of Life by combining molecular and morphological data for living and fossil taxa.

First Mitochondrial Genome from Nemouridae (Plecoptera) Reveals Novel Features of the Elongated Control Region and Phylogenetic Implications.

PubMed

Chen, Zhi-Teng; Du, Yu-Zhou

2017-05-05

The complete mitochondrial genome (mitogenome) of Nemoura nankinensis (Plecoptera: Nemouridae) was sequenced as the first reported mitogenome from the family Nemouridae. The N. nankinensis mitogenome was the longest (16,602 bp) among reported plecopteran mitogenomes, and it contains 37 genes including 13 protein-coding genes (PCGs), 22 transfer RNA (tRNA) genes and two ribosomal RNA (rRNA) genes. Most PCGs used standard ATN as start codons, and TAN as termination codons. All tRNA genes of N. nankinensis could fold into the cloverleaf secondary structures except for trnSer ( AGN ), whose dihydrouridine (DHU) arm was reduced to a small loop. There was also a large non-coding region (control region, CR) in the N. nankinensis mitogenome. The 1751 bp CR was the longest and had the highest A+T content (81.8%) among stoneflies. A large tandem repeat region, five potential stem-loop (SL) structures, four tRNA-like structures and four conserved sequence blocks (CSBs) were detected in the elongated CR. The presence of these tRNA-like structures in the CR has never been reported in other plecopteran mitogenomes. These novel features of the elongated CR in N. nankinensis may have functions associated with the process of replication and transcription. Finally, phylogenetic reconstruction suggested that Nemouridae was the sister-group of Capniidae.

Digestive enzyme activity and trophic behavior in two predator aquatic insects (Plecoptera, Perlidae): a comparative study.

PubMed

López-Rodríguez, M J; Trenzado, C E; Tierno de Figueroa, J M; Sanz, A

2012-05-01

Plecoptera (Perlidae) are among the major macroinvertebrate predators in stream ecosystems and one of the insect families with lower tolerance to environmental alterations, being usually employed as bioindicators of high water ecological quality. The differences in the trophic roles of the coexisting species have been exclusively studied from their gut contents, while no data are available on the comparative digestive capacity. In the present paper, we make a comparative study of the activity of several digestive enzymes, namely proteases (at different pH), amylase, lipase, trypsin and chymotrypsin, in two species of stoneflies, Perla bipunctata and Dinocras cephalotes, which cohabit in the same stream. The study of digestive enzyme activity together with the analysis of gut contents can contribute to a better understanding of the ecology of these aquatic insects and their role in freshwater food webs. Thus, our results show that the two studied predator species inhabiting in the same stream present specializations on their feeding behaviors, facilitating their coexistence, and also differences in their capacity of use the resources. One of the main findings of this study is that D. cephalotes is able to assimilate a wider trophic resource spectrum and this could be one of the reasons why this species has a wider global distribution in all its geographical range. Copyright © 2012 Elsevier Inc. All rights reserved.

Towards stressor-specific macroinvertebrate indices: Which traits and taxonomic groups are associated with vulnerable and tolerant taxa?

PubMed

Berger, Elisabeth; Haase, Peter; Schäfer, Ralf B; Sundermann, Andrea

2018-04-01

Monitoring of macroinvertebrate communities is frequently used to define the ecological health status of rivers. Ideally, biomonitoring should also give an indication on the major stressors acting on the macroinvertebrate communities supporting the selection of appropriate management measures. However, most indices are affected by more than one stressor. Biological traits (e.g. size, generation time, reproduction) could potentially lead to more stressor-specific indices. However, such an approach has rarely been tested. In this study we classify 324 macroinvertebrate taxa as vulnerable (decreasing abundances) or tolerant (increasing abundances) along 21 environmental gradients (i.e. nutrients, major ions, oxygen and micropollutants) from 422 monitoring sites in Germany using Threshold Indicator Taxa Analysis (TITAN). Subsequently, we investigate which biological traits and taxonomic groups are associated with taxa classified as vulnerable or tolerant with regard to specific gradients. The response of most taxa towards different gradients was similar and especially high for correlated gradients. Traits associated with vulnerable taxa across most gradients included: larval aquatic life stages, isolated cemented eggs, reproductive cycle per year <1, scrapers, aerial and aquatic active dispersal and plastron respiration. Traits associated with tolerant taxa included: adult aquatic life stages, polyvoltinism, ovoviviparity or egg clutches in vegetation, food preference for dead animals or living microinvertebrates, substrate preference for macrophytes, microphytes, silt or mud and a body size >2-4cm. Our results question whether stressor-specific indices based on macroinvertebrate assemblages can be achieved using single traits, because we observed that similar taxa responded to different gradients and also similar traits were associated with vulnerable and tolerant taxa across a variety of water quality gradients. Future studies should examine whether combinations of

Co-authorship networks (and other contextual factors) behind the growth of taxonomy of South American Ephemeroptera: a scientometric approach.

PubMed

Domínguez, Eduardo; Dos Santos, Daniel Andrés

2014-01-13

Science carried out in South America has experienced a major rise in the levels of productivity and impact during the last decade. The continuity of this process depends upon strong policy decisions of personnel training and of increasing investments. We study the effects of a new regional paradigm, specifically, an increasing international visibility through knowledge support, using the particular case of taxonomy of an ancient group of insects (Ephemeroptera) in South America. We tracked the number of new species described in scholarly papers along a period of two centuries. We have also mined patterns of connections from the respective co-authorship network. A quantitative framework to analyze historical sequences of scientific output is also proposed. Our results point out three stages of taxonomic development: (i) a pioneering stage (1800's-1970's) where foreign authors coming from Europe and North America account for almost the totality of described species, (ii) a transitional stage (1980's-1990's) where new species are described by both foreign and regional authors, and (iii) an autonomous stage (1999-present) where the bulk of scientific output is performed by regional authors. Remarkably, the transitional stage coincides with the advent of democracy in the region. We hypothesize that conjunction of funding and interactions between researchers act synergistically to foster an autochthonous taxonomy in South America.

Positive polarotaxis in a mayfly that never leaves the water surface: polarotactic water detection in Palingenia longicauda (Ephemeroptera)

NASA Astrophysics Data System (ADS)

Kriska, György; Bernáth, Balázs; Horváth, Gábor

2007-02-01

Tisza mayflies, Palingenia longicauda (Olivier 1791), swarm exclusively over the river Tisza (from which the name of the mayfly was derived). This river is bordered by a high vertical wall of trees and bushes, which hinder P. longicauda to move away horizontally from the water. During swarming, Tisza mayflies fly immediately above the river in such a way that their cerci touch the water frequently or sweep its surface. This continuous close connection with water and the vertical wall of the shore and riparian vegetation result in that Tisza mayflies never leave the water surface; consequently, they need not search for water. Several Ephemeroptera species move away far from water and return to it guided by the horizontal polarization of water-reflected light. To reveal whether also P. longicauda is or is not polarotactic, we performed a field experiment during the very short swarming period of Tisza mayflies. We show here that also P. longicauda has positive polarotaxis, which, however, can be observed only under unnatural conditions, when the animals are displaced from the water and then released above artificial test surfaces. P. longicauda is the first species in which polarotactic water detection is demonstrated albeit it never leaves the water surface, and thus, a polarotactic water detection seems unnecessary for it. The polarotactic behaviour of Tisza mayflies explains the earlier observation that these insects swarm above wet asphalt roads running next to river Tisza.

Benefits to poorly studied taxa of conservation of bird and mammal diversity on islands.

PubMed

Aslan, Clare; Holmes, Nick; Tershy, Bernie; Spatz, Dena; Croll, Donald A

2015-02-01

Protected area delineation and conservation action are urgently needed on marine islands, but the potential biodiversity benefits of these activities can be difficult to assess due to lack of species diversity information for lesser known taxa. We used linear mixed effects modeling and simple spatial analyses to investigate whether conservation activities based on the diversity of well-known insular taxa (birds and mammals) are likely to also capture the diversity of lesser known taxa (reptiles, amphibians, vascular land plants, ants, land snails, butterflies, and tenebrionid beetles). We assembled total, threatened, and endemic diversity data for both well-known and lesser known taxa and combined these with physical island biogeography characteristics for 1190 islands from 109 archipelagos. Among physical island biogeography factors, island area was the best indicator of diversity of both well-known and little-known taxa. Among taxonomic factors, total mammal species richness was the best indicator of total diversity of lesser known taxa, and the combination of threatened mammal and threatened bird diversity was the best indicator of lesser known endemic richness. The results of other intertaxon diversity comparisons were highly variable, however. Based on our results, we suggest that protecting islands above a certain minimum threshold area may be the most efficient use of conservation resources. For example, using our island database, if the threshold were set at 10 km(2) and the smallest 10% of islands greater than this threshold were protected, 119 islands would be protected. The islands would range in size from 10 to 29 km(2) and would include 268 lesser known species endemic to a single island, along with 11 bird and mammal species endemic to a single island. Our results suggest that for islands of equivalent size, prioritization based on total or threatened bird and mammal diversity may also capture opportunities to protect lesser known species endemic to

Dendrothele griseocana (Corticiaceae) and related taxa with hyphal pegs

Treesearch

Karen K. Nakasone

2006-01-01

Four Dendrothele (Corticiaceae, Polyporales) species with hyphal pegs are described and illustrated. Type specimens of Corticium griseocanum and Dendrothele papillosa were examined and found to be conspecific. Two new taxa, D. americana and D. tanzaniana, are described and illustrated, and the new combination, Dendrothele andina, is proposed. A key to D. griseocana and...

Twelve invasive plant taxa in U.S. western riparian ecosystems

EPA Science Inventory

Assessments of stream ecosystems often include an evaluation of riparian condition; a key stressor in riparian ecosystems is the presence of invasive plants. We analyzed the distribution of 12 invasive taxa (common burdock [Arctium minus], giant reed [Arundo donax], cheatgrass [B...

Two new species of Haploperla (Plecoptera: Chloroperlidae) from China.

PubMed

Chen, Zhi-Teng; DU, Yu-Zhou

2016-11-23

Two new species of the chloroperline genus Haploperla, H. tuanjiena sp. nov. from Sichuan Province, China and H. datongensis sp. nov. from Qinghai Province, China are described and illustrated. Haploperla tuanjiena is characterized by terga 10 with a medially triangular sclerotized area and the epiproct subtriangular, anterolateral margin sclerotized with apex acute. Haploperla datongensis is characterized by the epiproct tongue-shaped, anterior margin and anteroventrally strongly sclerotized. The new species are compared with similar taxa of the genus. An identification key is provided for the seven known Chinese species of Haploperla.

A review of the Nearctic genus Zealeuctra Ricker (Plecoptera, Leuctridae), with the description of a new species from the Cumberland Plateau region of eastern North America.

PubMed

Grubbs, Scott A; Kondratieff, Boris C; Stark, Bill P; Dewalt, R Edward

2013-01-01

The stonefly genus Zealeuctra (Plecoptera: Leuctridae) is endemic to the central and eastern Nearctic regions and is presently comprised of 10 species. Scanning electron microscopy (SEM) was used to examine and redescribe two important diagnostic features typically used to identify and define the adult male stage: the large, anteriorly-recurved epiproct and the medial cleft of the ninth abdominal tergite. SEM was also employed to depict the posteromedial portion of female 7(th) sternum. A new species, Z. ukayodi sp. n., is described from the Cumberland Plateau region of northeastern Alabama and Tennessee. The new species appears superficially similar to Z. talladega Grubbs, but is easily differentiated by characteristics of the male medial cleft. An updated taxonomic key to the males of Zealeuctra is provided.

The complete mitochondrial genome and its remarkable secondary structure for a stonefly Acroneuria hainana Wu (Insecta: Plecoptera, Perlidae).

PubMed

Huang, Mingchao; Wang, Yuyu; Liu, Xingyue; Li, Weihai; Kang, Zehui; Wang, Kai; Li, Xuankun; Yang, Ding

2015-02-15

The Plecoptera (stoneflies) is a hemimetabolous order of insects, whose larvae are usually used as indicators for fresh water biomonitoring. Herein, we describe the complete mitochondrial (mt) genome of a stonefly species, namely Acroneuria hainana Wu belonging to the family Perlidae. This mt genome contains 13 PCGs, 22 tRNA-coding genes and 2 rRNA-coding genes that are conserved in most insect mt genomes, and it also has the identical gene order with the insect ancestral gene order. However, there are three special initiation codons of ND1, ND5 and COI in PCGs: TTG, GTG and CGA, coding for L, V and R, respectively. Additionally, the 899-bp control region, with 73.30% A+T content, has two long repeated sequences which are found at the 3'-end closing to the tRNA(Ile) gene. Both of them can be folded into a stem-loop structure, whose adjacent upstream and downstream sequences can be also folded into stem-loop structures. It is presumed that the four special structures in series could be associated with the D-loop replication. It might be able to adjust the replication speed of two replicate directions. Copyright © 2014 Elsevier B.V. All rights reserved.

Differential growth responses of soil bacterial taxa to carbon substrates of varying chemical recalcitrance

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

Goldfarb, K.C.; Karaoz, U.; Hanson, C.A.

2011-04-18

Soils are immensely diverse microbial habitats with thousands of co-existing bacterial, archaeal, and fungal species. Across broad spatial scales, factors such as pH and soil moisture appear to determine the diversity and structure of soil bacterial communities. Within any one site however, bacterial taxon diversity is high and factors maintaining this diversity are poorly resolved. Candidate factors include organic substrate availability and chemical recalcitrance, and given that they appear to structure bacterial communities at the phylum level, we examine whether these factors might structure bacterial communities at finer levels of taxonomic resolution. Analyzing 16S rRNA gene composition of nucleotide analog-labeledmore » DNA by PhyloChip microarrays, we compare relative growth rates on organic substrates of increasing chemical recalcitrance of >2,200 bacterial taxa across 43 divisions/phyla. Taxa that increase in relative abundance with labile organic substrates (i.e., glycine, sucrose) are numerous (>500), phylogenetically clustered, and occur predominantly in two phyla (Proteobacteria and Actinobacteria) including orders Actinomycetales, Enterobacteriales, Burkholderiales, Rhodocyclales, Alteromonadales, and Pseudomonadales. Taxa increasing in relative abundance with more chemically recalcitrant substrates (i.e., cellulose, lignin, or tannin-protein) are fewer (168) but more phylogenetically dispersed, occurring across eight phyla and including Clostridiales, Sphingomonadalaes, Desulfovibrionales. Just over 6% of detected taxa, including many Burkholderiales increase in relative abundance with both labile and chemically recalcitrant substrates. Estimates of median rRNA copy number per genome of responding taxa demonstrate that these patterns are broadly consistent with bacterial growth strategies. Taken together, these data suggest that changes in availability of intrinsically labile substrates may result in predictable shifts in soil bacterial

Phylogenetic conservatism of thermal traits explains dispersal limitation and genomic differentiation of Streptomyces sister-taxa.

PubMed

Choudoir, Mallory J; Buckley, Daniel H

2018-06-07

The latitudinal diversity gradient is a pattern of biogeography observed broadly in plants and animals but largely undocumented in terrestrial microbial systems. Although patterns of microbial biogeography across broad taxonomic scales have been described in a range of contexts, the mechanisms that generate biogeographic patterns between closely related taxa remain incompletely characterized. Adaptive processes are a major driver of microbial biogeography, but there is less understanding of how microbial biogeography and diversification are shaped by dispersal limitation and drift. We recently described a latitudinal diversity gradient of species richness and intraspecific genetic diversity in Streptomyces by using a geographically explicit culture collection. Within this geographically explicit culture collection, we have identified Streptomyces sister-taxa whose geographic distribution is delimited by latitude. These sister-taxa differ in geographic distribution, genomic diversity, and ecological traits despite having nearly identical SSU rRNA gene sequences. Comparative genomic analysis reveals genomic differentiation of these sister-taxa consistent with restricted gene flow across latitude. Furthermore, we show phylogenetic conservatism of thermal traits between the sister-taxa suggesting that thermal trait adaptation limits dispersal and gene flow across climate regimes as defined by latitude. Such phylogenetic conservatism of thermal traits is commonly associated with latitudinal diversity gradients for plants and animals. These data provide further support for the hypothesis that the Streptomyces latitudinal diversity gradient was formed as a result of historical demographic processes defined by dispersal limitation and driven by paleoclimate dynamics.

First Mitochondrial Genome from Nemouridae (Plecoptera) Reveals Novel Features of the Elongated Control Region and Phylogenetic Implications

PubMed Central

Chen, Zhi-Teng; Du, Yu-Zhou

2017-01-01

The complete mitochondrial genome (mitogenome) of Nemoura nankinensis (Plecoptera: Nemouridae) was sequenced as the first reported mitogenome from the family Nemouridae. The N. nankinensis mitogenome was the longest (16,602 bp) among reported plecopteran mitogenomes, and it contains 37 genes including 13 protein-coding genes (PCGs), 22 transfer RNA (tRNA) genes and two ribosomal RNA (rRNA) genes. Most PCGs used standard ATN as start codons, and TAN as termination codons. All tRNA genes of N. nankinensis could fold into the cloverleaf secondary structures except for trnSer (AGN), whose dihydrouridine (DHU) arm was reduced to a small loop. There was also a large non-coding region (control region, CR) in the N. nankinensis mitogenome. The 1751 bp CR was the longest and had the highest A+T content (81.8%) among stoneflies. A large tandem repeat region, five potential stem-loop (SL) structures, four tRNA-like structures and four conserved sequence blocks (CSBs) were detected in the elongated CR. The presence of these tRNA-like structures in the CR has never been reported in other plecopteran mitogenomes. These novel features of the elongated CR in N. nankinensis may have functions associated with the process of replication and transcription. Finally, phylogenetic reconstruction suggested that Nemouridae was the sister-group of Capniidae. PMID:28475163

Seasonal Variation, Export Dynamics and Consumption of Freshwater Invertebrates in an Estuarine Environment

NASA Astrophysics Data System (ADS)

Williams, D. D.; Williams, N. E.

1998-03-01

In the Aber Estuary, North Wales, significant numbers of freshwater benthic invertebrates occurred in the tidal freshwater area. Distinct seasonal patterns were observed in their longitudinal zonation which appeared to be unrelated to variations in tidal inundation. The December extension downstream of freshwater taxa is hypothesized to be in response to decreasing water temperatures. In April, larvae/nymphs of the Trichoptera (caddisflies), Ephemeroptera (mayflies) and Plecoptera (stoneflies) ranged as far as a site inundated by 80·9% of all high tides, and larval Elmidae and Chironomidae (midges) occurred at the most marine site (inundated twice daily by all high tides). In July, with the exception of the Chironomidae, the range of most aquatic insects had contracted to the upper estuary. Although, in general, densities of aquatic insects decreased towards the lower estuary, significant densities persisted there. For example, maxima of 3514 chironomid larvae and 48 caddisfly larvae m -2were recorded at the 80·9% inundation site. An estimated 31×10 6freshwater invertebrates (weighing 62·6 kg), per annum, passed from fresh water into salt water across any given transect along the estuary. In comparison, the annual influx of invertebrates carried upstream by incoming tides was estimated to be 1·9×10 6(6·2%; weighing 2·5 kg). Predominant in the downstream drift were the larvae/nymphs and/or pupae of chironomids, mayflies, stoneflies and caddisflies. The ' reverse ' drift comprised mainly copepods, ostracods, amphipods and oligochaetes. Mites and the brackishwater amphipod Gammarus zaddachicommonly moved in both directions. Highest drift densities occurred in July, whereas the lowest densities occurred in late autumn and winter. Multiple regression analysis showed no relationship between total drift or ' reverse ' drift densities and any of the measured environmental variables. Many of the freshwater invertebrates appeared not to die upon passing into tidal

New species and first records of trichomycetes from immature aquatic insects in Idaho.

PubMed

Bench, Molly E; White, Merlin M

2012-01-01

Trichomycetes, or gut fungi, are currently recognized as an ecological group of fungi and protists that inhabit the guts of immature insects or other stages and types of arthropods. The geographic distribution of these endosymbionts is worldwide. However trichomycete data from the Pacific Northwest are limited and this is the first account of gut fungi in Idaho. We report on the trichomycetes from a single site, Cottonwood Creek at Military Reserve Park, Boise, Idaho, where periodic surveys for more than a year resulted in the discovery of four newly named, three probably new but unnamed and 15 previously known species. Among the Harpellales three new species, Capniomyces sasquatchoides, Harpella torus and Lancisporomyces lampetriformis, are described, with two possibly new species of Smittium detailed but unnamed at this time pending further collections. A Genistelloides cf. hibernus also is included as a possible new species. One new species of Amoebidiales, Paramoebidium hamatum, is described as well. Hosts in which the gut fungi were recovered include larvae or nymphs of Diptera (Chironomidae and Simuliidae), Ephemeroptera (Baetidae) and Plecoptera (Capniidae and Taeniopterygidae). We hope to demonstrate that future surveys or bioprospecting investigations into the biodiversity of these early-diverging fungi in this region and worldwide remain promising.

Multi-Scalar Land Cover Influences on Benthic Invertebrate Assemblages in Agricultural Streams. F.B. Daniel, M.B. Griffith, M.E. Troyer, and J.E. Lazorchak Office of Research and Development, U.S. Environmental Protection Agency, Cincinnati, OH 45268

NASA Astrophysics Data System (ADS)

Daniel, F. B.; Griffith, M. B.; Troyer, M. E.; Lazorchak, J. E.

2005-05-01

The northern half of the Little Miami River watershed (LMRW) was graded by the Wisconsinan glacier; the southern half lies beyond the glacier terminus and is set in an older, Illinoisan landscape. Benthic invertebrates were collected in 35 headwater streams (sub-watersheds) in the LMRW for four consecutive years and the land cover was quantified at three spatial scales (the catchment, the riparian corridor, and sampled reach) for each sub-watershed. In the northern sub-watersheds (N=19) a significantly greater percentage of land surface is committed to row crop agriculture and significantly lesser percent is covered in permanent grasses or forest relative to those in the south (N=16). Analysis of the invertebrate samples showed that Ephemeroptera, Plecoptera, and Trichoptera (EPT) constituted a significantly greater proportion of those assemblages collected from the southern sub-watersheds compared to those from the northern section In contrast, Coleoptera (Cole) and Odonata (Odon) were significantly increased in the northern streams. Approximately 60 % of the variation in the invertebrate assemblages, e.g., the ratio of EPT/(EPT+Cole+Odon), at these sites can be accounted for by consideration of land cover at either the catchment or riparian scale but not at the reach scale.

Selecting Species Traits for Biomonitoring Applications in light of Phylogenetic Relationships among Lotic Insects

NASA Astrophysics Data System (ADS)

Poff, N.; Vieira, N. K.; Simmons, M. P.; Olden, J. D.; Kondratieff, B. C.; Finn, D. S.

2005-05-01

The use of species traits as indicators of environmental disturbance is being considered for biomonitoring programs globally. As such, methods to select relevant and informative traits for inclusion in biometrics need to be developed. In this research, we identified 20 traits of aquatic insects within six trait groups: morphology, mobility, life-history strategy, thermal tolerance, feeding guild and ecology (e.g., habitat preference). We constructed phylogenetic trees for 1) all lotic insect species of North America and 2) all Ephemeroptera, Plecoptera and Trichoptera species based on morphology- and molecular-based analyses and classifications. We then measured variability (i.e., plasticity) of the 20 traits and six trait groups across the two phylogenetic trees. Traits with higher degrees of plasticity indicated traits that were less phylogenetically constrained, and were considered informative for biomonitoring purposes. Thermal tolerance, rheophily, body size at maturity and feeding guild showed the highest plasticity across both phylogenetic trees. Two mobility traits, occurrence in drift and adult dispersal distance, showed moderate plasticity. By contrast, adult exiting ability, degree of attachment, adult lifespan and body shape showed low variability and were thus less informative. Plastic species traits that are less phylogenetically constrained may be most useful in detecting community change along environmental gradients.

Long-term studies (1871-2000) on acidification and recovery of lakes in the Bohemian Forest (central Europe).

PubMed

Vrba, Jaroslav; Kopácek, Jirí; Fott, Jan; Kohout, Leos; Nedbalová, Linda; Prazáková, Miroslava; Soldán, Tomás; Schaumburg, Jochen

2003-07-01

This paper evaluates long-term changes in the atmospheric depositions of S and N compounds, lake water quality, and biodiversity at eight glacial lakes in the Bohemian Forest over the past 130 years. This time interval covers (i) the 'background' pre-acidification status of the lakes, (ii) a period of changes in the communities that can be partly explained by introduction of fish, (iii) a period of strong lake acidification with its adverse impacts on the communities, (iv) the lake reversal from acidity, which includes the recent status of the lakes. The lake water chemistry has followed-with a characteristic hysteresis-both the sharp increase and decline in the deposition trends of strong anions. Remarkable changes in biota have mirrored the changing water quality. Fish became extinct and most species of zooplankton (Crustacea) and benthos (Ephemeroptera and Plecoptera) retreated due to the lake water acidification. Independent of ongoing chemical reversal, microorganisms remain dominant in the recent plankton biomass as well as in controlling the pelagic food webs. The first signs of the forthcoming biological recovery have already been evidenced in some lakes, such as the population of Ceriodaphnia quadrangula (Cladocera) returning into the pelagial of one lake or the increase in both phytoplankton biomass and rotifer numbers in another lake.

Effect of oil palm on the Plecoptera and Trichoptera (Insecta) assemblages in streams of eastern Amazon.

PubMed

de Paiva, Carina Kaory Sasahara; de Faria, Ana Paula Justino; Calvão, Lenize Batista; Juen, Leandro

2017-08-01

The production of oil palm is expected to increase in the Amazon region. However, expansion of oil palm plantation leads to significant changes in the physical structure of aquatic ecosystems, mainly through the reduction of riparian vegetation that is essential for aquatic biodiversity. Here, we evaluated the effects of oil palm on the physical habitat structure of Amazonian stream environments and assemblages of Plecoptera and Trichoptera (PT), ​both found in these streams. We compared streams sampled in oil palm plantations (n = 13) with natural forest areas ("reference" streams, n = 8), located in the eastern Amazon, Brazil. Our results showed that oil palm streams were more likely to be in close proximity to roads, had higher pH values, and higher amounts of fine substrate deposited in the channel than reference streams. Further, these environmental changes had important effects on the aquatic invertebrate assemblages, reducing the abundance and richness of PT. Nevertheless, the genera composition of the assemblages did not differ between reference and oil palm (PERMANOVA, pseudo-F (1,19)  = 1.891; p = 0.111). We conclude that oil palm production has clear negative impacts on aquatic environments and PT assemblages in Amazonian streams. We recommend that oil palm producers invest more in planning of road networks to avoid the construction of roads near to the riparian vegetation. This planning can minimize impacts of oil palm production on aquatic systems in the Amazon.

Changes in Benthic Biota between Mountain and Urban Streams

NASA Astrophysics Data System (ADS)

Sato, H.; Iijima, A.

2016-12-01

It is well known that the benthic biota in the river ecosystem changes drastically between the mountain and urban streams. However, there are few studies demonstrating the changes in biota by using quantitative techniques. In this study, field research on benthic species (mainly aquatic insects) was carried out at 6 different sites in the Kanna River in Japan. After that, we compared the biota quantitatively by using an EPT (Ephemeroptera, Plecoptera, and Trichoptera) index and a pollution index (Pantle-Buck Method). Moreover, we applied a cluster analysis to determine the statistical difference in the benthic biota among the sites. The monitoring stations (St.1-St.6 in order from the upper stream) were placed in the reaches of the Kanna River that is one of the headstreams flowing into the Tone River (fig.1-a). In those monitoring stations, St.1-3 are located in the mountain area, and St.4-6 are in the urban area. Field research was carried out every other month during February 2012 to January 2013 by a Beck-Tsuda β method. In total, we identified 7879 benthos of 153 species (fig.1-b). The EPT index tended to decrease toward the lower reaches (fig.1-c). Moreover, there were significant changes in the composition of EPT species between the mountain (St.1-3) and urban (St.4-6) area. In particular, Plecoptera species which has no pollution tolerance decreased drastically in the urban stream. The values of pollution index tended to increase toward the lower reaches (fig.1-d). In fact, the lower reaches of the Kanna River has a large population who has insufficient sewage treatment system. This is consistent with the changes in the EPT species. Cluster analysis demonstrated that the benthic biota in the Kanna River has been divided between St.3 and 4. Consequently, the water contamination in the urban stream is supposed to be the main cause of significant changes in benthic biota in the Kanna River's ecosystem.

Floral traits driving reproductive isolation of two co-flowering taxa that share vertebrate pollinators

PubMed Central

Queiroz, Joel A.; Quirino, Zelma G. M.; Machado, Isabel C.

2015-01-01

Floral attributes evolve in response to frequent and efficient pollinators, which are potentially important drivers of floral diversification and reproductive isolation. In this context, we asked, how do flowers evolve in a bat–hummingbird pollination system? Hence, we investigated the pollination ecology of two co-flowering Ipomoea taxa (I. marcellia and I. aff. marcellia) pollinated by bats and hummingbirds, and factors favouring reproductive isolation and pollinator sharing in these plants. To identify the most important drivers of reproductive isolation, we compared the flowers of the two Ipomoea taxa in terms of morphometry, anthesis and nectar production. Pollinator services were assessed using frequency of visits, fruit set and the number of seeds per fruit after visits. The studied Ipomoea taxa differed in corolla size and width, beginning and duration of anthesis, and nectar attributes. However, they shared the same diurnal and nocturnal visitors. The hummingbird Heliomaster squamosus was more frequent in I. marcellia (1.90 visits h−1) than in I. aff. marcellia (0.57 visits h−1), whereas glossophagine bats showed similar visit rates in both taxa (I. marcellia: 0.57 visits h−1 and I. aff. marcellia: 0.64 visits h−1). Bat pollination was more efficient in I. aff. marcellia, whereas pollination by hummingbirds was more efficient in I. marcellia. Differences in floral attributes between Ipomoea taxa, especially related to the anthesis period, length of floral parts and floral arrangement in the inflorescence, favour reproductive isolation from congeners through differential pollen placement on pollinators. This bat–hummingbird pollination system seems to be advantageous in the study area, where the availability of pollinators and floral resources changes considerably throughout the year, mainly as a result of rainfall seasonality. This interaction is beneficial for both sides, as it maximizes the number of potential pollen vectors for plants and

Cephalopod embryonic shells as a tool to reconstruct reproductive strategies in extinct taxa.

PubMed

Laptikhovsky, Vladimir; Nikolaeva, Svetlana; Rogov, Mikhail

2018-02-01

An exhaustive study of existing data on the relationship between egg size and maximum size of embryonic shells in 42 species of extant cephalopods demonstrated that these values are approximately equal regardless of taxonomy and shell morphology. Egg size is also approximately equal to mantle length of hatchlings in 45 cephalopod species with rudimentary shells. Paired data on the size of the initial chamber versus embryonic shell in 235 species of Ammonoidea, 46 Bactritida, 13 Nautilida, 22 Orthocerida, 8 Tarphycerida, 4 Oncocerida, 1 Belemnoidea, 4 Sepiida and 1 Spirulida demonstrated that, although there is a positive relationship between these parameters in some taxa, initial chamber size cannot be used to predict egg size in extinct cephalopods; the size of the embryonic shell may be more appropriate for this task. The evolution of reproductive strategies in cephalopods in the geological past was marked by an increasing significance of small-egged taxa, as is also seen in simultaneously evolving fish taxa. © 2017 The Authors. Biological Reviews published by John Wiley & Sons Ltd on behalf of Cambridge Philosophical Society.

Contrasting spatial patterns and ecological attributes of soil bacterial and archaeal taxa across a landscape

PubMed Central

Constancias, Florentin; Saby, Nicolas P A; Terrat, Sébastien; Dequiedt, Samuel; Horrigue, Wallid; Nowak, Virginie; Guillemin, Jean-Philippe; Biju-Duval, Luc; Chemidlin Prévost-Bouré, Nicolas; Ranjard, Lionel

2015-01-01

Even though recent studies have clarified the influence and hierarchy of environmental filters on bacterial community structure, those constraining bacterial populations variations remain unclear. In consequence, our ability to understand to ecological attributes of soil bacteria and to predict microbial community response to environmental stress is therefore limited. Here, we characterized the bacterial community composition and the various bacterial taxonomic groups constituting the community across an agricultural landscape of 12 km2, by using a 215 × 215 m systematic grid representing 278 sites to precisely decipher their spatial distribution and drivers at this scale. The bacterial and Archaeal community composition was characterized by applying 16S rRNA gene pyrosequencing directly to soil DNA from samples. Geostatistics tools were used to reveal the heterogeneous distribution of bacterial composition at this scale. Soil physical parameters and land management explained a significant amount of variation, suggesting that environmental selection is the major process shaping bacterial composition. All taxa systematically displayed also a heterogeneous and particular distribution patterns. Different relative influences of soil characteristics, land use and space were observed, depending on the taxa, implying that selection and spatial processes might be differentially but not exclusively involved for each bacterial phylum. Soil pH was a major factor determining the distribution of most of the bacterial taxa and especially the most important factor explaining the spatial patterns of α-Proteobacteria and Planctomycetes. Soil texture, organic carbon content and quality were more specific to a few number of taxa (e.g., β-Proteobacteria and Chlorobi). Land management also influenced the distribution of bacterial taxa across the landscape and revealed different type of response to cropping intensity (positive, negative, neutral or hump-backed relationships

Contrasting spatial patterns and ecological attributes of soil bacterial and archaeal taxa across a landscape.

PubMed

Constancias, Florentin; Saby, Nicolas P A; Terrat, Sébastien; Dequiedt, Samuel; Horrigue, Wallid; Nowak, Virginie; Guillemin, Jean-Philippe; Biju-Duval, Luc; Chemidlin Prévost-Bouré, Nicolas; Ranjard, Lionel

2015-06-01

Even though recent studies have clarified the influence and hierarchy of environmental filters on bacterial community structure, those constraining bacterial populations variations remain unclear. In consequence, our ability to understand to ecological attributes of soil bacteria and to predict microbial community response to environmental stress is therefore limited. Here, we characterized the bacterial community composition and the various bacterial taxonomic groups constituting the community across an agricultural landscape of 12 km(2) , by using a 215 × 215 m systematic grid representing 278 sites to precisely decipher their spatial distribution and drivers at this scale. The bacterial and Archaeal community composition was characterized by applying 16S rRNA gene pyrosequencing directly to soil DNA from samples. Geostatistics tools were used to reveal the heterogeneous distribution of bacterial composition at this scale. Soil physical parameters and land management explained a significant amount of variation, suggesting that environmental selection is the major process shaping bacterial composition. All taxa systematically displayed also a heterogeneous and particular distribution patterns. Different relative influences of soil characteristics, land use and space were observed, depending on the taxa, implying that selection and spatial processes might be differentially but not exclusively involved for each bacterial phylum. Soil pH was a major factor determining the distribution of most of the bacterial taxa and especially the most important factor explaining the spatial patterns of α-Proteobacteria and Planctomycetes. Soil texture, organic carbon content and quality were more specific to a few number of taxa (e.g., β-Proteobacteria and Chlorobi). Land management also influenced the distribution of bacterial taxa across the landscape and revealed different type of response to cropping intensity (positive, negative, neutral or hump-backed relationships

A review of the Nearctic genus Zealeuctra Ricker (Plecoptera, Leuctridae), with the description of a new species from the Cumberland Plateau region of eastern North America

PubMed Central

Grubbs, Scott A.; Kondratieff, Boris C.; Stark, Bill P.; DeWalt, R. Edward

2013-01-01

Abstract The stonefly genus Zealeuctra (Plecoptera: Leuctridae) is endemic to the central and eastern Nearctic regions and is presently comprised of 10 species. Scanning electron microscopy (SEM) was used to examine and redescribe two important diagnostic features typically used to identify and define the adult male stage: the large, anteriorly-recurved epiproct and the medial cleft of the ninth abdominal tergite. SEM was also employed to depict the posteromedial portion of female 7th sternum. A new species, Z. ukayodi sp. n., is described from the Cumberland Plateau region of northeastern Alabama and Tennessee. The new species appears superficially similar to Z. talladega Grubbs, but is easily differentiated by characteristics of the male medial cleft. An updated taxonomic key to the males of Zealeuctra is provided. PMID:24194658

Unsegmented annelids? Possible origins of four lophotrochozoan worm taxa.

PubMed

Halanych, Kenneth M; Dahlgren, Thomas G; McHugh, Damhnait

2002-07-01

In traditional classification schemes, the Annelida consists of the Polychaeta and the Clitellata (the latter including the Oligochaeta and Hirudinida). However, recent analyses suggest that annelids are much more diverse than traditionally believed, and that polychaetes are paraphyletic. Specifically, some lesser-known taxa (previously regarded as separate phyla) appear to fall within the annelid radiation. Abundant molecular, developmental, and morphological data show that the Siboglinidae, which includes the formerly recognized Pogonophora and Vestimentifera, are derived annelids; recent data from the Elongation Factor-1α (EF-1α) gene also suggest that echiurids are of annelid ancestry. Further, the phylogenetic origins of two other lesser-known groups of marine worms, the Myzostomida and Sipuncula, have recently been called into question. Whereas some authors advocate annelid affinities, others argue that these taxa do not fall within the annelid radiation. With advances in our understanding of annelid phylogeny, our perceptions of body plan evolution within the Metazoa are changing. The evolution of segmentation probably is more plastic than traditionally believed. However, as our understanding of organismal evolution is being revised, we are also forced to reconsider the specific characters being examined. Should segmentation be considered a developmental process or an ontological endpoint?

Atlas of Ohio Aquatic Insects: Volume II, Plecoptera

PubMed Central

Grubbs, Scott A.; Armitage, Brian J.; Baumann, Richard W.; Clark, Shawn M.; Bolton, Michael J.

2016-01-01

Abstract Background We provide volume II of a distributional atlas of aquatic insects for the eastern USA state of Ohio. This treatment of stoneflies (Plecoptera) is companion to Armitage et al. (2011) on caddisflies (Trichoptera). We build on a recent analysis of Ohio stonefly diversity patterns based on large drainages (DeWalt et al. 2012), but add 3717 new records to the data set. We base most analyses on the United States Geological Survey Hierarchical Unit Code eight (HUC8) drainage scale. In addition to distributional maps for each species, we provide analyses of species richness versus HUC8 drainage area and the number of unique locations in a HUC8 drainage, species richness versus Ohio counties, analyze adult presence phenology throughout the year, and demonstrate stream size range affiliation for each species. New information This work is based on a total of 7797 specimen records gathered from 21 regional museums, agency data, personal collections, and from the literature Table 1. To our knowledge this is the largest stonefly data set available for a similarly sized geopolitical area anywhere in the world. These data are made available as a Darwin Core Archive supported by the Pensoft Integrated Publishing Toolkit (DeWalt et al. 2016b). All known published papers reporting stoneflies from Ohio are detailed in Suppl. material 1. We recovered 102 species from Ohio, including all nine Nearctic families Table 2​. Two species were removed from the DeWalt et al. (2012) list and two new state records added. Perlidae (32 spp.) was most speciose, compared to the low diversity Pteronarcyidae (2 spp.) and Peltoperlidae (1 sp.). The richest HUC8 drainages occurred in northeastern, south-central, and southern regions of the state where drainages were heavily forested, had the highest slopes, and were contained within or adjacent to the unglaciated Allegheny and Appalachian Plateaus. Species poor drainages occurred mainly in the northwestern region where Wisconsinan

Atlas of Ohio Aquatic Insects: Volume II, Plecoptera.

PubMed

DeWalt, R Edward; Grubbs, Scott A; Armitage, Brian J; Baumann, Richard W; Clark, Shawn M; Bolton, Michael J

2016-01-01

We provide volume II of a distributional atlas of aquatic insects for the eastern USA state of Ohio. This treatment of stoneflies (Plecoptera) is companion to Armitage et al. (2011) on caddisflies (Trichoptera). We build on a recent analysis of Ohio stonefly diversity patterns based on large drainages (DeWalt et al. 2012), but add 3717 new records to the data set. We base most analyses on the United States Geological Survey Hierarchical Unit Code eight (HUC8) drainage scale. In addition to distributional maps for each species, we provide analyses of species richness versus HUC8 drainage area and the number of unique locations in a HUC8 drainage, species richness versus Ohio counties, analyze adult presence phenology throughout the year, and demonstrate stream size range affiliation for each species. This work is based on a total of 7797 specimen records gathered from 21 regional museums, agency data, personal collections, and from the literature Table 1. To our knowledge this is the largest stonefly data set available for a similarly sized geopolitical area anywhere in the world. These data are made available as a Darwin Core Archive supported by the Pensoft Integrated Publishing Toolkit (DeWalt et al. 2016b). All known published papers reporting stoneflies from Ohio are detailed in Suppl. material 1. We recovered 102 species from Ohio, including all nine Nearctic families Table 2​. Two species were removed from the DeWalt et al. (2012) list and two new state records added. Perlidae (32 spp.) was most speciose, compared to the low diversity Pteronarcyidae (2 spp.) and Peltoperlidae (1 sp.). The richest HUC8 drainages occurred in northeastern, south-central, and southern regions of the state where drainages were heavily forested, had the highest slopes, and were contained within or adjacent to the unglaciated Allegheny and Appalachian Plateaus. Species poor drainages occurred mainly in the northwestern region where Wisconsinan aged lake plains climaxed to an

A review of the Nearctic genus Prostoia (Ricker) (Plecoptera, Nemouridae), with the description of a new species and a surprising range extension for P. hallasi Kondratieff & Kirchner.

PubMed

Grubbs, Scott A; Baumann, Richard W; DeWalt, R Edward; Tweddale, Tari

2014-01-01

The Nearctic genus Prostoia (Plecoptera: Nemouridae) is reviewed. Prostoia ozarkensis sp. n. is described from the male and female adult stages mainly from the Interior Highland region encompassing portions of Arkansas, Missouri, and Oklahoma. Prostoia ozarkensis sp. n. appears most closely related to two species, one distributed broadly across the western Nearctic region, P. besametsa (Ricker), and one found widely throughout the central and eastern Nearctic regions, P. completa (Walker). A surprising range extension is noted for P. hallasi Kondratieff & Kirchner, a species once known only from the Great Dismal Swamp, from small upland streams in southern Illinois. Additional new state records are documented for P. besametsa, P. completa, P. hallasi and P. similis (Hagen). Taxonomic keys to Prostoia males and females are provided, and scanning electron micrographs of adult genitalia of all species are given.

A review of the Nearctic genus Prostoia (Ricker) (Plecoptera, Nemouridae), with the description of a new species and a surprising range extension for P. hallasi Kondratieff & Kirchner

PubMed Central

Grubbs, Scott A.; Baumann, Richard W.; DeWalt, R. Edward; Tweddale, Tari

2014-01-01

Abstract The Nearctic genus Prostoia (Plecoptera: Nemouridae) is reviewed. Prostoia ozarkensis sp. n. is described from the male and female adult stages mainly from the Interior Highland region encompassing portions of Arkansas, Missouri, and Oklahoma. Prostoia ozarkensis sp. n. appears most closely related to two species, one distributed broadly across the western Nearctic region, P. besametsa (Ricker), and one found widely throughout the central and eastern Nearctic regions, P. completa (Walker). A surprising range extension is noted for P. hallasi Kondratieff & Kirchner, a species once known only from the Great Dismal Swamp, from small upland streams in southern Illinois. Additional new state records are documented for P. besametsa, P. completa, P. hallasi and P. similis (Hagen). Taxonomic keys to Prostoia males and females are provided, and scanning electron micrographs of adult genitalia of all species are given. PMID:24843258

Extending SEQenv: a taxa-centric approach to environmental annotations of 16S rDNA sequences

PubMed Central

Jeffries, Thomas C.; Ijaz, Umer Z.; Hamonts, Kelly

2017-01-01

Understanding how the environment selects a given taxon and the diversity patterns that emerge as a result of environmental filtering can dramatically improve our ability to analyse any environment in depth as well as advancing our knowledge on how the response of different taxa can impact each other and ecosystem functions. Most of the work investigating microbial biogeography has been site-specific, and logical environmental factors, rather than geographical location, may be more influential on microbial diversity. SEQenv, a novel pipeline aiming to provide environmental annotations of sequences emerged to provide a consistent description of the environmental niches using the ENVO ontology. While the pipeline provides a list of environmental terms on the basis of sample datasets and, therefore, the annotations obtained are at the dataset level, it lacks a taxa centric approach to environmental annotation. The work here describes an extension developed to enhance the SEQenv pipeline, which provided the means to directly generate environmental annotations for taxa under different contexts. 16S rDNA amplicon datasets belonging to distinct biomes were selected to illustrate the applicability of the extended SEQenv pipeline. A literature survey of the results demonstrates the immense importance of sequence level environmental annotations by illustrating the distribution of both taxa across environments as well as the various environmental sources of a specific taxon. Significantly enhancing the SEQenv pipeline in the process, this information would be valuable to any biologist seeking to understand the various taxa present in the habitat and the environment they originated from, enabling a more thorough analysis of which lineages are abundant in certain habitats and the recovery of patterns in taxon distribution across different habitats and environmental gradients. PMID:29038749

Comparative ITS and AFLP Analysis of Diploid Cardamine (Brassicaceae) Taxa from Closely Related Polyploid Complexes

PubMed Central

MARHOLD, KAROL; LIHOVÁ, JUDITA; PERNÝ, MARIÁN; BLEEKER, WALTER

2004-01-01

• Background and Aims Diploid representatives from the related polyploid complexes of Cardamine amara, C. pratensis and C. raphanifolia (Brassicaceae), were studied to elucidate phylogenetic relationships among the complexes and among the individual taxa included. • Methods Two independent molecular data sets were used: nucleotide sequences from the internal transcribed spacers (ITS) of nrDNA, and amplified fragment length polymorphism (AFLP) markers. Seventeen diploid taxa from the studied groups were sampled. • Key Results Both ITS and AFLP analyses provided congruent results in inferred relationships, and revealed two main lineages. While the C. amara group, consisting of C. wiedemanniana and four subspecies of C. amara, was resolved as a well‐supported monophyletic group, taxa from the C. pratensis and C. tenera groups (the latter representing diploid taxa of the complex of C. raphanifolia) all appeared together in a single clade/cluster with no support for the recognition of either of the groups. Intra‐individual polymorphisms and patterns of nucleotide variation in the ITS region in C. uliginosa and C. tenera, together with the distribution of AFLP bands, indicate ancient hybridization and introgression among these Caucasian diploids. • Conclusions The lack of supported hierarchical structure suggests that extensive reticulate evolution between these groups, even at the diploid level, has occurred (although an alternative explanation, namely ancestral polymorphism in ITS data, cannot be completely excluded). Several implications for the investigation of the polyploid complexes of concern are drawn. When tracing origins of polyploid taxa, a much more complex scenario should be expected, taking into account all relatives as potential parents, irrespective of the group in which they are classified. PMID:15037449

Rare but active taxa contribute to community dynamics of benthic biofilms in glacier-fed streams.

PubMed

Wilhelm, Linda; Besemer, Katharina; Fasching, Christina; Urich, Tim; Singer, Gabriel A; Quince, Christopher; Battin, Tom J

2014-08-01

Glaciers harbour diverse microorganisms, which upon ice melt can be released downstream. In glacier-fed streams microorganisms can attach to stones or sediments to form benthic biofilms. We used 454-pyrosequencing to explore the bulk (16S rDNA) and putatively active (16S rRNA) microbial communities of stone and sediment biofilms across 26 glacier-fed streams. We found differences in community composition between bulk and active communities among streams and a stronger congruence between biofilm types. Relative abundances of rRNA and rDNA were positively correlated across different taxa and taxonomic levels, but at lower taxonomic levels, the higher abundance in either the active or the bulk communities became more apparent. Here, environmental variables played a minor role in structuring active communities. However, we found a large number of rare taxa with higher relative abundances in rRNA compared with rDNA. This suggests that rare taxa contribute disproportionately to microbial community dynamics in glacier-fed streams. Our findings propose that high community turnover, where taxa repeatedly enter and leave the 'seed bank', contributes to the maintenance of microbial biodiversity in harsh ecosystems with continuous environmental perturbations, such as glacier-fed streams. © 2014 The Authors. Environmental Microbiology published by Society for Applied Microbiology and John Wiley & Sons Ltd.

Two new species of the nemourid genus Amphinemura (Plecoptera: Nemouridae) from China.

PubMed

Li, Weihai; DU, Kaishu; Yang, Ding

2017-04-19

Two new species of the nemourid genus Amphinemura, A. dabanshana sp. nov. and A. kuankuoshui sp. nov., are described from Qinghai and Guizhou provinces of China. These two new species are compared with related taxa. The types of the new species are deposited in the Entomological Museum of China Agricultural University, Beijing and Henan Institute of Science and Technology, Xinxiang, respectively.

Evidence of Taxa-, Clone-, and Kin-discrimination in Protists: Ecological and Evolutionary Implications.

PubMed

Espinosa, Avelina; Paz-Y-Miño-C, Guillermo

2014-11-01

Unicellular eukaryotes, or protists, are among the most ancient organisms on Earth. Protists belong to multiple taxonomic groups; they are widely distributed geographically and in all environments. Their ability to discriminate among con- and heterospecifics has been documented during the past decade. Here we discuss exemplar cases of taxa-, clone-, and possible kin-discrimination in five major lineages: Mycetozoa ( Dictyostelium , Polysphondylium ), Dikarya ( Saccharomyces ), Ciliophora ( Tetrahymena ), Apicomplexa ( Plasmodium ) and Archamoebae ( Entamoeba ). We summarize the proposed genetic mechanisms involved in discrimination-mediated aggregation (self versus different), including the csA , FLO and trg (formerly lag ) genes, and the Proliferation Activation Factors (PAFs), which facilitate clustering in some protistan taxa. We caution about the experimental challenges intrinsic to studying recognition in protists, and highlight the opportunities for exploring the ecology and evolution of complex forms of cell-cell communication, including social behavior, in a polyphyletic, still superficially understood group of organisms. Because unicellular eukaryotes are the evolutionary precursors of multicellular life, we infer that their mechanisms of taxa-, clone-, and possible kin-discrimination gave origin to the complex diversification and sophistication of traits associated with species and kin recognition in plants, fungi, invertebrates and vertebrates.

Evidence of Taxa-, Clone-, and Kin-discrimination in Protists: Ecological and Evolutionary Implications

PubMed Central

Espinosa, Avelina; Paz-y-Miño-C, Guillermo

2014-01-01

Unicellular eukaryotes, or protists, are among the most ancient organisms on Earth. Protists belong to multiple taxonomic groups; they are widely distributed geographically and in all environments. Their ability to discriminate among con- and heterospecifics has been documented during the past decade. Here we discuss exemplar cases of taxa-, clone-, and possible kin-discrimination in five major lineages: Mycetozoa (Dictyostelium, Polysphondylium), Dikarya (Saccharomyces), Ciliophora (Tetrahymena), Apicomplexa (Plasmodium) and Archamoebae (Entamoeba). We summarize the proposed genetic mechanisms involved in discrimination-mediated aggregation (self versus different), including the csA, FLO and trg (formerly lag) genes, and the Proliferation Activation Factors (PAFs), which facilitate clustering in some protistan taxa. We caution about the experimental challenges intrinsic to studying recognition in protists, and highlight the opportunities for exploring the ecology and evolution of complex forms of cell-cell communication, including social behavior, in a polyphyletic, still superficially understood group of organisms. Because unicellular eukaryotes are the evolutionary precursors of multicellular life, we infer that their mechanisms of taxa-, clone-, and possible kin-discrimination gave origin to the complex diversification and sophistication of traits associated with species and kin recognition in plants, fungi, invertebrates and vertebrates. PMID:25400313

An index of biological integrity for northern Mid-Atlantic Slope drainages

USGS Publications Warehouse

Daniels, R.A.; Riva-Murray, K.; Halliwell, D.B.; Vana-Miller, D. L.; Bilger, Michael D.

2002-01-01

An index of biological integrity (IBI) was developed for streams in the Hudson, Delaware, and Susquehanna River drainages in the northeastern United States based on fish assemblage data from the Mohawk River drainage of New York. The original IBI, developed for streams in the U.S. Midwest, was modified to reflect the assemblage composition and structure present in Mid-Atlantic Slope drainages. We replaced several of the Midwestern IBI metrics and criteria scores because fishes common to the Midwest are absent from or poorly represented in the Northeast and because stream fish assemblages in the Northeast are less rich than those in the Midwest. For all replacement metrics we followed the ecology-based rationale used in the development of each of the metrics of the Midwestern IBI so that the basic theoretical underpinnings of the IBI remained unchanged. The validity of this modified IBI is demonstrated by examining the quality of streams in the Hudson, Delaware, and lower Susquehanna River basins. The relationships between the IBI and other indicators of environmental quality are examined using data on assemblages of fish and benthic macroinvertebrates and on chemical and physical stream characteristics obtained during 1993-2000 by the U.S. Geological Survey's National Water Quality Assessment Program in these three river basins. A principal components analysis (PCA) of chemical and physical variables from 27 sites resulted in an environmental quality gradient as the primary PCA axis (eigenvalue, 0.41 ). Principal components analysis site scores were significantly correlated with such benthic macroinvertebrate metrics as the percentage of Ephemeroptera, Plecoptera, and Trichoptera taxa (Spearman R = -0.66, P < 0.001). Index of biological integrity scores for sites in these three river basins were significantly correlated with this environmental quality gradient (Spearman R = -0.78, P = 0.0001). The northern Mid-Atlantic Slope IBI appears to be sensitive to

The stoneflies (Insecta, Plecoptera) of the Talladega Mountain region, Alabama, USA: distribution, elevation, endemism, and rarity patterns

PubMed Central

Sheldon, Andrew L

2018-01-01

Abstract Background The Talladega Mountain region of eastern Alabama is the southernmost outlier of the ancient Appalachian Mountains, including the highest peaks and ranges in the state. Collections of stoneflies (Plecoptera) previously here have been sporadic yet has led to several new species descriptions in modern times (James 1974, James 1976, Stark and Szczytko 1976, Kondratieff and Kirchner 1996, Szczytko and Kondratieff 2015) and expanded our understanding of southeastern US stoneflies. During the period 2003–2012 we conducted an intensive inventory of the stonefly fauna of the Talladega Mountain region. We collected across all months from 192 unique localities, covering a broad range of stream sizes and elevation gradients present in the region. New information A total of 57 confirmed species across eight of the nine Nearctic families were collected as adults (Table 4), including four species described as new during the study period (Table 2). Leuctra crossi James, 1974 was easily the most common species collected. Median elevations per species ranged from 174 m (Clioperla clio (Newman, 1839)) to 410 m (Leuctra triloba Claassen, 1923 (Fig. 3). Dot distribution maps were included for all 57 species plus one for undetermined nymphs of Pteronarcys Newman, 1838 (Figs. 4–19). As many as seven species may be endemic to the region but sampling efforts northeastward into Georgia, plus additional focused sampling in Alabama and a comprehensive examination of all available material held in museums and personal collections, are needed for confirmation. PMID:29434489

The stoneflies (Insecta, Plecoptera) of the Talladega Mountain region, Alabama, USA: distribution, elevation, endemism, and rarity patterns.

PubMed

Grubbs, Scott A; Sheldon, Andrew L

2018-01-01

Background The Talladega Mountain region of eastern Alabama is the southernmost outlier of the ancient Appalachian Mountains, including the highest peaks and ranges in the state. Collections of stoneflies (Plecoptera) previously here have been sporadic yet has led to several new species descriptions in modern times (James 1974, James 1976, Stark and Szczytko 1976, Kondratieff and Kirchner 1996, Szczytko and Kondratieff 2015) and expanded our understanding of southeastern US stoneflies. During the period 2003-2012 we conducted an intensive inventory of the stonefly fauna of the Talladega Mountain region. We collected across all months from 192 unique localities, covering a broad range of stream sizes and elevation gradients present in the region. New information A total of 57 confirmed species across eight of the nine Nearctic families were collected as adults (Table 4), including four species described as new during the study period (Table 2). Leuctra crossi James, 1974 was easily the most common species collected. Median elevations per species ranged from 174 m ( Clioperla clio (Newman, 1839)) to 410 m ( Leuctra triloba Claassen, 1923 (Fig. 3). Dot distribution maps were included for all 57 species plus one for undetermined nymphs of Pteronarcys Newman, 1838 (Figs. 4-19). As many as seven species may be endemic to the region but sampling efforts northeastward into Georgia, plus additional focused sampling in Alabama and a comprehensive examination of all available material held in museums and personal collections, are needed for confirmation.

Diversity among Cynodon accessions and taxa based on DNA amplification fingerprinting.

PubMed

Assefa, S; Taliaferro, C M; Anderson, M P; de los Reyes, B G; Edwards, R M

1999-06-01

The genus Cynodon (Gramineae), comprised of 9 species, is geographically widely distributed and genetically diverse. Information on the amounts of molecular genetic variation among and within Cynodon taxa is needed to enhance understanding of phylogenetic relations and facilitate germplasm management and breeding improvement efforts. Genetic relatedness among 62 Cynodon accessions, representing eight species, was assessed using DNA amplification fingerprinting (DAF). Ten 8-mer oligonucleotides were used to amplify specific Cynodon genomic sequences. The DNA amplification products of individual accessions were scored for presence (1) or absence (0) of bands. Similarity matrices were developed and the accessions were grouped by cluster (UPGMA) and principal coordinate analysis. Analyses were conducted within ploidy level (2x = 18 and 4x = 36) and over ploidy levels. Each primer revealed polymorphic loci among accessions within species. Of 539 loci (bands) scored, 496 (92%) were polymorphic. Cynodon arcuatus was clearly separated from other species by numerous monomorphic bands. The strongest species similarities were between C. aethiopicus and C. arcuatus, C. transvaalensis and C. plectostachyus, and C. incompletus and C. nlemfuensis. Intraspecific variation was least for C. aethiopicus, C. arcuatus, and C. transvaalensis, and greatest for C. dactylon. Accessions of like taxonomic classification were generally clustered, except the cosmopolitan C. dactylon var. dactylon and C. dactylon var. afganicus. Within taxa, accessions differing in chromosome number clustered in all instances indicating the 2x and 4x forms to be closely related. Little, if any, relationship was found between relatedness as indicated by the DAF profiles and previous estimates of hybridization potential between the different taxa.

RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models.

PubMed

Stamatakis, Alexandros

2006-11-01

RAxML-VI-HPC (randomized axelerated maximum likelihood for high performance computing) is a sequential and parallel program for inference of large phylogenies with maximum likelihood (ML). Low-level technical optimizations, a modification of the search algorithm, and the use of the GTR+CAT approximation as replacement for GTR+Gamma yield a program that is between 2.7 and 52 times faster than the previous version of RAxML. A large-scale performance comparison with GARLI, PHYML, IQPNNI and MrBayes on real data containing 1000 up to 6722 taxa shows that RAxML requires at least 5.6 times less main memory and yields better trees in similar times than the best competing program (GARLI) on datasets up to 2500 taxa. On datasets > or =4000 taxa it also runs 2-3 times faster than GARLI. RAxML has been parallelized with MPI to conduct parallel multiple bootstraps and inferences on distinct starting trees. The program has been used to compute ML trees on two of the largest alignments to date containing 25,057 (1463 bp) and 2182 (51,089 bp) taxa, respectively. icwww.epfl.ch/~stamatak

A new species of Anacroneuria Klapálek 1909 (Plecoptera: Perlidae) and notes on the altitudinal distribution of the genus in Costa Rica.

PubMed

Gutiérrez-Fonseca, Pablo E; Springer, Monika

2015-12-18

Anacroneuria is the most widespread genus of Perlidae throughout the Neotropical region and 30 species have been reported from Costa Rica. In this paper, we describe and illustrate a new species from a high elevation cloud forest, A. quetzali sp.n., increasing to 31 the number of described species for Costa Rica. In addition, we examine the altitudinal distribution of Anacroneuria in Costa Rica to determine possible patterns, using the data available on its altitudinal range (10-2700 masl). We divided the elevational range in seven categories, using 500 m intervals. We found that most species (90.3%) are distributed in elevations that range from 500 to 1500 masl, followed by low-elevations (35.5%). Interestingly, despite the fact that Plecoptera are known to inhabit clean, fast flowing water at high elevations, only 16.1% of the species have been found at high elevations in Costa Rica (above 2000 masl). Thus, it seems that most Anacroneuria species are distributed in middle elevations, which are the areas that have a high diversity of freshwater habitats.

Leaf-FISH: Microscale Imaging of Bacterial Taxa on Phyllosphere

PubMed Central

Peredo, Elena L.; Simmons, Sheri L.

2018-01-01

Molecular methods for microbial community characterization have uncovered environmental and plant-associated factors shaping phyllosphere communities. Variables undetectable using bulk methods can play an important role in shaping plant-microbe interactions. Microscale analysis of bacterial dynamics in the phyllosphere requires imaging techniques specially adapted to the high autoflouresence and 3-D structure of the leaf surface. We present an easily-transferable method (Leaf-FISH) to generate high-resolution tridimensional images of leaf surfaces that allows simultaneous visualization of multiple bacterial taxa in a structurally informed context, using taxon-specific fluorescently labeled oligonucleotide probes. Using a combination of leaf pretreatments coupled with spectral imaging confocal microscopy, we demonstrate the successful imaging bacterial taxa at the genus level on cuticular and subcuticular leaf areas. Our results confirm that different bacterial species, including closely related isolates, colonize distinct microhabitats in the leaf. We demonstrate that highly related Methylobacterium species have distinct colonization patterns that could not be predicted by shared physiological traits, such as carbon source requirements or phytohormone production. High-resolution characterization of microbial colonization patterns is critical for an accurate understanding of microbe-microbe and microbe-plant interactions, and for the development of foliar bacteria as plant-protective agents. PMID:29375531

Laticiferous taxa as a source of energy and hydrocarbon

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

Marimuthu, S.; Subramanian, R.B.; Kothari, I.L.

Twenty-nine laticiferous taxa of Apocynaceae, Asclepiadaceae, and Sapotaceae were screened for suitability as alternative sources of renewable energy, rubber, and phytochemicals and to select the most promising ones for large-scale cultivation. Of these, Allamanda violacea (14.9% protein, 13.8% polyphenol, 8.6% oil, 3.2% hydrocarbon), Catharanthus roseus (15.4% protein, 10.4% polyphenol, 11.5% oil, 1.9% hydrocarbon), and Holarrhena antidysenterica (14.2% protein, 16.4% polyphenol, 5,4% oil, 4.8% hydrocarbon) of Apocynaceae; Asclepias curassavica (19.3% protein, 6.5% polyphenol, 3.9% oil, 2.0% hydrocarbon), Calotropis gigantea (18.5% protein, 6.8% polyphenol, 7.0% oil, 2.8% hydrocarbon) of Asclepiadaceae; Mimusops elengi (11.3% protein, 9.7% polyphenol, 7.2% oil, 4.0% hydrocarbon) of Sapotaceaemore » show promising potential for future petrochemical plantations; of all these taxa, Holarrhena antidysenterica yielded an unusually high percentage (4.8%) of hydrocarbon fraction followed by Mimusops elengi (4.0%). NMR spectra confirmed the presence of cis-polyisoprene in all species studied except Nerium indicum (white-flowered var.). These data indicate that the majority of the species under investigation may be considered for large-scale cultivation as an alternative source of rubber, intermediate energy, and other phytochemicals.« less

Crisis of Japanese Vascular Flora Shown By Quantifying Extinction Risks for 1618 Taxa

PubMed Central

Kadoya, Taku; Takenaka, Akio; Ishihama, Fumiko; Fujita, Taku; Ogawa, Makoto; Katsuyama, Teruo; Kadono, Yasuro; Kawakubo, Nobumitsu; Serizawa, Shunsuke; Takahashi, Hideki; Takamiya, Masayuki; Fujii, Shinji; Matsuda, Hiroyuki; Muneda, Kazuo; Yokota, Masatsugu; Yonekura, Koji; Yahara, Tetsukazu

2014-01-01

Although many people have expressed alarm that we are witnessing a mass extinction, few projections have been quantified, owing to limited availability of time-series data on threatened organisms, especially plants. To quantify the risk of extinction, we need to monitor changes in population size over time for as many species as possible. Here, we present the world's first quantitative projection of plant species loss at a national level, with stochastic simulations based on the results of population censuses of 1618 threatened plant taxa in 3574 map cells of ca. 100 km2. More than 500 lay botanists helped monitor those taxa in 1994–1995 and in 2003–2004. We projected that between 370 and 561 vascular plant taxa will go extinct in Japan during the next century if past trends of population decline continue. This extinction rate is approximately two to three times the global rate. Using time-series data, we show that existing national protected areas (PAs) covering ca. 7% of Japan will not adequately prevent population declines: even core PAs can protect at best <60% of local populations from decline. Thus, the Aichi Biodiversity Target to expand PAs to 17% of land (and inland water) areas, as committed to by many national governments, is not enough: only 29.2% of currently threatened species will become non-threatened under the assumption that probability of protection success by PAs is 0.5, which our assessment shows is realistic. In countries where volunteers can be organized to monitor threatened taxa, censuses using our method should be able to quantify how fast we are losing species and to assess how effective current conservation measures such as PAs are in preventing species extinction. PMID:24922311

Selection of nontarget arthropod taxa for field research on transgenic insecticidal crops: using empirical data and statistical power.

PubMed

Prasifka, J R; Hellmich, R L; Dively, G P; Higgins, L S; Dixon, P M; Duan, J J

2008-02-01

One of the possible adverse effects of transgenic insecticidal crops is the unintended decline in the abundance of nontarget arthropods. Field trials designed to evaluate potential nontarget effects can be more complex than expected because decisions to conduct field trials and the selection of taxa to include are not always guided by the results of laboratory tests. Also, recent studies emphasize the potential for indirect effects (adverse impacts to nontarget arthropods without feeding directly on plant tissues), which are difficult to predict because of interactions among nontarget arthropods, target pests, and transgenic crops. As a consequence, field studies may attempt to monitor expansive lists of arthropod taxa, making the design of such broad studies more difficult and reducing the likelihood of detecting any negative effects that might be present. To improve the taxonomic focus and statistical rigor of future studies, existing field data and corresponding power analysis may provide useful guidance. Analysis of control data from several nontarget field trials using repeated-measures designs suggests that while detection of small effects may require considerable increases in replication, there are taxa from different ecological roles that are sampled effectively using standard methods. The use of statistical power to guide selection of taxa for nontarget trials reflects scientists' inability to predict the complex interactions among arthropod taxa, particularly when laboratory trials fail to provide guidance on which groups are more likely to be affected. However, scientists still may exercise judgment, including taxa that are not included in or supported by power analyses.

Hydrogeologic, Water-Quality, Streamflow, Bottom-Sediment Analyses, and Biological, Data Near the Wayne County Landfill, Wayne County, Tennessee

DTIC Science & Technology

1992-01-01

Plecoptera (stoneflies) Acroneuria species 4 2 -- -- Paraleuctra species 20 20 92 32...8 __ _- _- __ 8 -_ __ 29 _- 6 20 8 3 24 4 1 _- 6 -- 1 6 12 -- Plecoptera (stoneflies) Acroneuria species 24 24 18 -- 4...species 50 Tricorythodes species __ 160 544 192 _- -- 96 576 32 -_ 4 _- 16 4 __ 24 -- -- 4 _- Plecoptera (stoneflies)

A powerful microbiome-based association test and a microbial taxa discovery framework for comprehensive association mapping.

PubMed

Koh, Hyunwook; Blaser, Martin J; Li, Huilin

2017-04-24

The role of the microbiota in human health and disease has been increasingly studied, gathering momentum through the use of high-throughput technologies. Further identification of the roles of specific microbes is necessary to better understand the mechanisms involved in diseases related to microbiome perturbations. Here, we introduce a new microbiome-based group association testing method, optimal microbiome-based association test (OMiAT). OMiAT is a data-driven testing method which takes an optimal test throughout different tests from the sum of powered score tests (SPU) and microbiome regression-based kernel association test (MiRKAT). We illustrate that OMiAT efficiently discovers significant association signals arising from varying microbial abundances and different relative contributions from microbial abundance and phylogenetic information. We also propose a way to apply it to fine-mapping of diverse upper-level taxa at different taxonomic ranks (e.g., phylum, class, order, family, and genus), as well as the entire microbial community, within a newly introduced microbial taxa discovery framework, microbiome comprehensive association mapping (MiCAM). Our extensive simulations demonstrate that OMiAT is highly robust and powerful compared with other existing methods, while correctly controlling type I error rates. Our real data analyses also confirm that MiCAM is especially efficient for the assessment of upper-level taxa by integrating OMiAT as a group analytic method. OMiAT is attractive in practice due to the high complexity of microbiome data and the unknown true nature of the state. MiCAM also provides a hierarchical association map for numerous microbial taxa and can also be used as a guideline for further investigation on the roles of discovered taxa in human health and disease.

Covariance in species diversity and facilitation among non-interactive parasite taxa: all against the host.

PubMed

Krasnov, B R; Mouillot, D; Khokhlova, I S; Shenbrot, G I; Poulin, R

2005-10-01

Different parasite taxa exploit different host resources and are often unlikely to interact directly. It is unclear, however, whether the diversity of any given parasite taxon is indirectly influenced by that of other parasite taxa on the same host. Some components of host immune defences may operate simultaneously against all kinds of parasites, whereas investment by the host in specific defences against one type of parasite may come at the expense of defence against other parasites. We investigated the relationships between the species diversity of 4 higher taxa of ectoparasites (fleas, sucking lice, mesostigmatid mites, and ixodid ticks), and between the species richness of ectoparasites and endoparasitic helminths, across different species of rodent hosts. Our analyses used 2 measures of species diversity, species richness and taxonomic distinctness, and controlled for the potentially confounding effects of sampling effort and phylogenetic relationships among host species. We found positive pairwise correlations between the species richness of fleas, mites and ticks; however, there was no association between species richness of any of these 3 groups and that of lice. We also found a strong positive relationship between the taxonomic distinctness of ecto- and endoparasite assemblages across host species. These results suggest the existence of a process of apparent facilitation among unrelated taxa in the organization of parasite communities. We propose explanations based on host immune responses, involving acquired cross-resistance to infection and interspecific variation in immunocompetence among hosts, to account for these patterns.

Early Cretaceous greenhouse pumped higher taxa diversification in spiders.

PubMed

Shao, Lili; Li, Shuqiang

2018-05-24

The Cretaceous experienced one of the most remarkable greenhouse periods in geological history. During this time, ecosystem reorganizations significantly impacted the diversification of many groups of organisms. The rise of angiosperms marked a major biome turnover. Notwithstanding, relatively little remains known about how the Cretaceous global ecosystem impacted the evolution of spiders, which constitute one of the most abundant groups of predators. Herein, we evaluate the transcriptomes of 91 taxa representing more than half of the spider families. We add 23 newly sequenced taxa to the existing database to obtain a robust phylogenomic assessment. Phylogenetic reconstructions using different datasets and methods obtain novel placements of some groups, especially in the Synspermiata and the group having a retrolateral tibial apophysis (RTA). Molecular analyses indicate an expansion of the RTA clade at the Early Cretaceous with a hunting predatory strategy shift. Fossil analyses show a 7-fold increase of diversification rate at the same period, but this likely owes to the first occurrences spider in amber deposits. Additional analyses of fossil abundance show an accumulation of spider lineages in the Early Cretaceous. We speculate that the establishment of a warm greenhouse climate pumped the diversification of spiders, in particular among webless forms tracking the abundance of insect prey. Our study offers a new pathway for future investigations of spider phylogeny and diversification. Copyright © 2018. Published by Elsevier Inc.

Crickets (Insecta, Orthoptera, Grylloidea) from Southern New Caledonia,
with descriptions of new taxa.

PubMed

Anso, Jérémy; Jourdan, Hervé; Desutter-Grandcolas, Laure

2016-06-15

Intensive sampling of cricket communities has been undertaken in southern New Caledonia in selected plots of vegetation, i.e. rain forest, preforest and maquis shrubland. This leads to the discovery of many new taxa, which are described in the present paper, together with closely related species from nearby areas. Descriptions are based on general morphology and characters of genitalia. Calling songs are described for all acoustic taxa but two, and observations about species habitats are given. In total, 35 species belonging to 13 genera are studied, including 21 new species and two new genera. The pattern of assemblages of cricket species in New Caledonia is discussed.

Fungal Taxa Target Different Carbon Substrates in Harvard Forest Soils

NASA Astrophysics Data System (ADS)

Hanson, C. A.; Allison, S. D.; Wallenstein, M. D.; Mellilo, J. M.; Treseder, K. K.

2006-12-01

The mineralization of soil organic carbon is a major component of the global carbon cycle and is largely controlled by soil microbial communities. However, little is known about the functional roles of soil microbes or whether different microbial taxa target different carbon substrates under natural conditions. To examine this possibility, we assessed the community composition of active fungi by using a novel nucleotide analog technique in soils from the Harvard Forest. We hypothesized that fungal community composition would shift in response to the addition of different substrates and that specific fungal taxa would respond differentially to particular carbon sources. To test this hypothesis, we added a nucleotide analog probe directly to soils in conjunction with one of five carbon compounds of increasing recalcitrance: glycine, sucrose, cellulose, tannin-protein complex, and lignin. During 48 hour incubations, the nucleotide analog was incorporated into newly replicated DNA of soil organisms that proliferated following the addition of the substrates. In this way, we labeled the DNA of microbes that respond to a particular carbon source. Labeled DNA was isolated and fungal Internal Transcribed Spacer (ITS) regions of ribosomal DNA (rDNA) were sequenced and analyzed to identify active fungi to near-species resolution. Diversity analyses at the ≥97% sequence similarity level indicated that taxonomic richness was greater under cellulose (Shannon Index: 3.23 ± 0.11 with ± 95% CI) and lignin (2.87 ± 0.15) additions than the other treatments (2.34 ± 0.16 to 2.64 ± 0.13). In addition, community composition of active fungi shifted under glycine, sucrose, and cellulose additions. Specifically, the community under glycine was significantly different from communities under control, cellulose, and tannin-protein (P<0.05). Additionally, the sucrose and cellulose communities were marginally different from the control community (P = 0.059 and 0.054, respectively) and

A nomenclator of extant and fossil taxa of the Melanopsidae (Gastropoda, Cerithioidea)

PubMed Central

Neubauer, Thomas A.

2016-01-01

Abstract This nomenclator provides details on all published names in the family-, genus-, and species-group, as well as for a few infrasubspecific names introduced for, or attributed to, the family Melanopsidae. It includes nomenclaturally valid names, as well as junior homonyms, junior objective synonyms, nomina nuda, common incorrect subsequent spellings, and as far as possible discussion on the current status in taxonomy. The catalogue encompasses three family-group names, 79 genus-group names, and 1381 species-group names. All of them are given in their original combination and spelling (except mandatory corrections requested by the Code), along with their original source. For each family- and genus-group name, the original classification and the type genus and type species, respectively, are given. Data provided for species-group taxa are type locality, type horizon (for fossil taxa), and type specimens, as far as available. PMID:27551193

Insect Phylogenomics: Exploring the Source of Incongruence Using New Transcriptomic Data

PubMed Central

Simon, Sabrina; Narechania, Apurva; DeSalle, Rob; Hadrys, Heike

2012-01-01

The evolution of the diverse insect lineages is one of the most fascinating issues in evolutionary biology. Despite extensive research in this area, the resolution of insect phylogeny especially of interordinal relationships has turned out to be still a great challenge. One of the challenges for insect systematics is the radiation of the polyneopteran lineages with several contradictory and/or unresolved relationships. Here, we provide the first transcriptomic data for three enigmatic polyneopteran orders (Dermaptera, Plecoptera, and Zoraptera) to clarify one of the most debated issues among higher insect systematics. We applied different approaches to generate 3 data sets comprising 78 species and 1,579 clusters of orthologous genes. Using these three matrices, we explored several key mechanistic problems of phylogenetic reconstruction including missing data, matrix selection, gene and taxa number/choice, and the biological function of the genes. Based on the first phylogenomic approach including these three ambiguous polyneopteran orders, we provide here conclusive support for monophyletic Polyneoptera, contesting the hypothesis of Zoraptera + Paraneoptera and Plecoptera + remaining Neoptera. In addition, we employ various approaches to evaluate data quality and highlight problematic nodes within the Insect Tree that still exist despite our phylogenomic approach. We further show how the support for these nodes or alternative hypotheses might depend on the taxon- and/or gene-sampling. PMID:23175716

Immunological Change in a Parasite-Impoverished Environment: Divergent Signals from Four Island Taxa

PubMed Central

Beadell, Jon S.; Atkins, Colm; Cashion, Erin; Jonker, Michelle; Fleischer, Robert C.

2007-01-01

Dramatic declines of native Hawaiian avifauna due to the human-mediated emergence of avian malaria and pox prompted an examination of whether island taxa share a common altered immunological signature, potentially driven by reduced genetic diversity and reduced exposure to parasites. We tested this hypothesis by characterizing parasite prevalence, genetic diversity and three measures of immune response in two recently-introduced species (Neochmia temporalis and Zosterops lateralis) and two island endemics (Acrocephalus aequinoctialis and A. rimitarae) and then comparing the results to those observed in closely-related mainland counterparts. The prevalence of blood parasites was significantly lower in 3 of 4 island taxa, due in part to the absence of certain parasite lineages represented in mainland populations. Indices of genetic diversity were unchanged in the island population of N. temporalis; however, allelic richness was significantly lower in the island population of Z. lateralis while both allelic richness and heterozygosity were significantly reduced in the two island-endemic species examined. Although parasite prevalence and genetic diversity generally conformed to expectations for an island system, we did not find evidence for a pattern of uniformly altered immune responses in island taxa, even amongst endemic taxa with the longest residence times. The island population of Z. lateralis exhibited a significantly reduced inflammatory cell-mediated response while levels of natural antibodies remained unchanged for this and the other recently introduced island taxon. In contrast, the island endemic A. rimitarae exhibited a significantly increased inflammatory response as well as higher levels of natural antibodies and complement. These measures were unchanged or lower in A. aequinoctialis. We suggest that small differences in the pathogenic landscape and the stochastic history of mutation and genetic drift are likely to be important in shaping the unique

New species and new records of Amphinemurinae (Plecoptera: Nemouridae) from Shaanxi Province of China.

PubMed

Li, Weihai; Dong, Wenbin; Yang, Ding

2018-03-27

Three new species of the Amphinemurinae genus Amphinemura, A. dicroidea sp. nov., A. longihamita sp. nov. and A. microhamita sp. nov., are described from China. These new species are compared with related taxa. Amphinemura multispina (Wu) and Sphaeronemoura grandicauda (Wu) (also belonging to the Amphinemurinae) are recorded from Shaanxi Province, northwestern China for the first time. The adult male of A. multispina is redescribed and the adult female of S. grandicauda is also described based on new material.

New records of truffle taxa in Tuber and Terfezia from Turkey

Treesearch

Michael Angelo Castellano; Aziz Turkoglu

2012-01-01

Turkey has one of the richest floras in the northern hemisphere as it is located at the convergence of 3 phytogeographical regions: Euro-Siberian, Mediterranean, and Irano-Turanian. This is reflected in the high number of plant taxa, particularly plant families that have truffles associated with them. The forests of these regions are dominated by ectomycorrhizal...

Investigating the influence of heavy metals on macro-invertebrate assemblages using Partial Cononical Correspondence Analysis (pCCA)

NASA Astrophysics Data System (ADS)

Beasley, Gary; Kneale, Pauline E.

This paper defines the spectrum of impairment to stream macroinvertebrates arising from urban runoff. Field sampling of stream sediments at 62 sites across Yorkshire, UK was used to investigate the influence of heavy metals and habitat on macroinvertebrate family distribution using partial Canonical Correspondence Analysis (pCCA). Increasing urbanization and trafficking was associated with increasing levels of metal pollution but, even when traffic is light, family numbers can be reduced by 50%. Industrial areas and motorway runoff depress macroinvertebrate numbers but drainage from streets with no off-road parking in residential areas can have similar impacts. The heavy metals in the sediment accounted for approximately 24% of the variation in macroinvertebrate community composition while the physical habitat variables used in RIVPACS (River InVertebrate Prediction And Classification System) (Wright, 2000) accounted for an additional 30%. Zinc and nickel were the main metal influences regardless of the time of sampling; at these sites copper is less than critical. Results agree with those reported in other studies in which families mainly from the orders Ephemeroptera (mayfly), Plecoptera (stonefly) and Tricoptera (caddisfly) displayed metal sensitivity in that they were absent from metal polluted streams. However, within each of these orders, a continuum of sensitivity is evident: this highlights the risks of generalising on orders rather than using family or indeed species data.

Partitioning taxonomic diversity of aquatic insect assemblages ...

EPA Pesticide Factsheets

Biological diversity can be divided into: alpha (α, local), beta (β, difference in assemblage composition among locals), and gamma (γ, total diversity). We assessed the partitioning of taxonomic diversity of Ephemeroptera, Plecoptera and Trichoptera (EPT) and of functional feeding groups (FFG) in Neotropical Savanna (southeastern Brazilian Cerrado) streams. To do so, we considered three diversity components: stream site (α), among stream sites (β1), and among hydrologic units (β2). We also evaluated the association of EPT genera composition with heterogeneity in land use, instream physical habitat structure, and instream water quality variables. The percent of EPT taxonomic α diversity (20.7%) was lower than the β1 and β2 diversities (53.1% and 26.2%, respectively). The EPT FFG α diversity (26.5%) was lower than the β1 diversity (55.8%) and higher than the β2 (17.7%) diversity. The collector-gatherer FFG was predominant and had the greatest β diversity among stream sites (β1, 55.8%). Our findings support the need for implementing regional scale conservation strategies in the Cerrado biome, which has been degraded by anthropogenic activities. Using adaptations of the US EPA’s National Aquatic Resource Survey (NARS) designs and methods, Ferreira and colleagues examined the distribution of taxonomic and functional diversity of aquatic insects among basins, stream sites within basins, and within stream sample reaches. They sampled 160 low-order stre

Assessment of the effects of nickel on benthic macroinvertebrates in the field.

PubMed

Peters, Adam; Simpson, Peter; Merrington, Graham; Schlekat, Chris; Rogevich-Garman, Emily

2014-01-01

A field-based evaluation of the biological effects of potential nickel (Ni) exposures was conducted using monitoring data for benthic macroinvertebrates and water chemistry parameters for streams in England and Wales. Observed benthic community metrics were compared to expected community metrics under reference conditions using RIVPACS III+ software. In order to evaluate relationships between Ni concentrations and benthic community metrics, bioavailable Ni concentrations were also calculated for each site. A limiting effect from Ni on the 90th percentile of the maximum achievable ecological quality was derived at "bioavailable Ni" exposures of 10.3 μg l(-1). As snails have been identified as particularly sensitive to nickel exposure, snail abundance in the field in response to nickel exposure, relative to reference conditions, was also analysed. A "low effects" threshold for snail abundance based on an average of spring and autumn data was derived as 3.9 μg l(-1) bioavailable Ni. There was no apparent effect of Ni exposure on the abundance of Ephemeroptera (mayflies), Plecoptera (stoneflies) or Tricoptera (caddisflies) when expressed relative to a reference condition within the range of "bioavailable Ni" exposures observed within the dataset. Nickel exposure concentrations co-vary with the concentrations of other stressors in the dataset, and high concentrations of Ni are also associated with elevated concentrations of other contaminants.

Fracked ecology: Response of aquatic trophic structure and mercury biomagnification dynamics in the Marcellus Shale Formation.

PubMed

Grant, Christopher James; Lutz, Allison K; Kulig, Aaron D; Stanton, Mitchell R

2016-12-01

Unconventional natural gas development and hydraulic fracturing practices (fracking) are increasing worldwide due to global energy demands. Research has only recently begun to assess fracking impacts to surrounding environments, and very little research is aimed at determining effects on aquatic biodiversity and contaminant biomagnification. Twenty-seven remotely-located streams in Pennsylvania's Marcellus Shale basin were sampled during June and July of 2012 and 2013. At each stream, stream physiochemical properties, trophic biodiversity, and structure and mercury levels were assessed. We used δ15N, δ13C, and methyl mercury to determine whether changes in methyl mercury biomagnification were related to the fracking occurring within the streams' watersheds. While we observed no difference in rates of biomagnificaion related to within-watershed fracking activities, we did observe elevated methyl mercury concentrations that were influenced by decreased stream pH, elevated dissolved stream water Hg values, decreased macroinvertebrate Index for Biotic Integrity scores, and lower Ephemeroptera, Plecoptera, and Trichoptera macroinvertebrate richness at stream sites where fracking had occurred within their watershed. We documented the loss of scrapers from streams with the highest well densities, and no fish or no fish diversity at streams with documented frackwater fluid spills. Our results suggest fracking has the potential to alter aquatic biodiversity and methyl mercury concentrations at the base of food webs.

A generalized watershed disturbance-invertebrate relation applicable in a range of environmental settings across the continental United States

USGS Publications Warehouse

Steuer, Jeffrey J.

2010-01-01

It is widely recognized that urbanization can affect ecological conditions in aquatic systems; numerous studies have identified impervious surface cover as an indicator of urban intensity and as an index of development at the watershed, regional, and national scale. Watershed percent imperviousness, a commonly understood urban metric was used as the basis for a generalized watershed disturbance metric that, when applied in conjunction with weighted percent agriculture and percent grassland, predicted stream biotic conditions based on Ephemeroptera, Plecoptera, and Trichoptera (EPT) richness across a wide range of environmental settings. Data were collected in streams that encompassed a wide range of watershed area (4.4-1,714 km), precipitation (38-204 cm/yr), and elevation (31-2,024 m) conditions. Nevertheless the simple 3-landcover disturbance metric accounted for 58% of the variability in EPT richness based on the 261 nationwide sites. On the metropolitan area scale, relationship r ranged from 0.04 to 0.74. At disturbance values 15. Future work may incorporate watershed management practices within the disturbance metric, further increasing the management applicability of the relation. Such relations developed on a regional or metropolitan area scale are likely to be stronger than geographically generalized models; as found in these EPT richness relations. However, broad spatial models are able to provide much needed understanding in unmonitored areas and provide initial guidance for stream potential.

Development and application of an agricultural intensity index to invertebrate and algal metrics from streams at two scales

USGS Publications Warehouse

Waite, Ian R.

2013-01-01

Research was conducted at 28-30 sites within eight study areas across the United States along a gradient of nutrient enrichment/agricultural land use between 2003 and 2007. Objectives were to test the application of an agricultural intensity index (AG-Index) and compare among various invertebrate and algal metrics to determine indicators of nutrient enrichment nationally and within three regions. The agricultural index was based on total nitrogen and phosphorus input to the watershed, percent watershed agriculture, and percent riparian agriculture. Among data sources, agriculture within riparian zone showed significant differences among values generated from remote sensing or from higher resolution orthophotography; median values dropped significantly when estimated by orthophotography. Percent agriculture in the watershed consistently had lower correlations to invertebrate and algal metrics than the developed AG-Index across all regions. Percent agriculture showed fewer pairwise comparisons that were significant than the same comparisons using the AG-Index. Highest correlations to the AG-Index regionally were −0.75 for Ephemeroptera, Plecoptera, and Trichoptera richness (EPTR) and −0.70 for algae Observed/Expected (O/E), nationally the highest was −0.43 for EPTR vs. total nitrogen and −0.62 for algae O/E vs. AG-Index. Results suggest that analysis of metrics at national scale can often detect large differences in disturbance, but more detail and specificity is obtained by analyzing data at regional scales.

Metazoan meiofauna in deep-sea canyons and adjacent open slopes: A large-scale comparison with focus on the rare taxa

NASA Astrophysics Data System (ADS)

Bianchelli, S.; Gambi, C.; Zeppilli, D.; Danovaro, R.

2010-03-01

Metazoan meiofaunal abundance, total biomass, nematode size and the richness of taxa were investigated along bathymetric gradients (from the shelf break down to ca. 5000-m depth) in six submarine canyons and on five adjacent open slopes of three deep-sea regions. The investigated areas were distributed along >2500 km, on the Portuguese to the Catalan and South Adriatic margins. The Portuguese and Catalan margins displayed the highest abundances, biomass and richness of taxa, while the lowest values were observed in the Central Mediterranean Sea. The comparison between canyons and the nearby open slopes showed the lack of significant differences in terms of meiofaunal abundance and biomass at any sampling depth. In most canyons and on most slopes, meiofaunal variables did not display consistent bathymetric patterns. Conversely, we found that the different topographic features were apparently responsible for significant differences in the abundance and distribution of the rare meiofaunal taxa (i.e. taxa accounting for <1% of total meiofaunal abundance). Several taxa belonging to the temporary meiofauna, such as larvae/juveniles of Priapulida, Holothuroidea, Ascidiacea and Cnidaria, were encountered exclusively on open slopes, while others (including the Tanaidacea and Echinodea larvae) were found exclusively in canyons sediments. Results reported here indicate that, at large spatial scales, differences in deep-sea meiofaunal abundance and biomass are not only controlled by the available food sources, but also by the region or habitat specific topographic features, which apparently play a key role in the distribution of rare benthic taxa.

Overcoming the effects of rogue taxa: Evolutionary relationships of the bee flies

PubMed Central

Trautwein, Michelle D.; Wiegmann, Brian M.; Yeates, David K

2011-01-01

Bombyliidae (5000 sp.), or bee flies, are a lower brachyceran family of flower-visiting flies that, as larvae, act as parasitoids of other insects. The evolutionary relationships are known from a morphological analysis that yielded minimal support for higher-level groupings. We use the protein-coding gene CAD and 28S rDNA to determine phylogeny and to test the monophyly of existing subfamilies, the divisions Tomophtalmae, and ‘the sand chamber subfamilies’. Additionally, we demonstrate that consensus networks can be used to identify rogue taxa in a Bayesian framework. Pruning rogue taxa post-analysis from the final tree distribution results in increased posterior probabilities. We find 8 subfamilies to be monophyletic and the subfamilies Heterotropinae and Mythicomyiinae to be the earliest diverging lineages. The large subfamily Bombyliinae is found to be polyphyletic and our data does not provide evidence for the monophyly of Tomophthalmae or the ‘sand chamber subfamilies’. PMID:21686308

Using computational fluid dynamics to test functional and ecological hypotheses in fossil taxa

NASA Astrophysics Data System (ADS)

Rahman, Imran

2016-04-01

Reconstructing how ancient organisms moved and fed is a major focus of study in palaeontology. Traditionally, this has been hampered by a lack of objective data on the functional morphology of extinct species, especially those without a clear modern analogue. However, cutting-edge techniques for characterizing specimens digitally and in three dimensions, coupled with state-of-the-art computer models, now provide a robust framework for testing functional and ecological hypotheses even in problematic fossil taxa. One such approach is computational fluid dynamics (CFD), a method for simulating fluid flows around objects that has primarily been applied to complex engineering-design problems. Here, I will present three case studies of CFD applied to fossil taxa, spanning a range of specimen sizes, taxonomic groups and geological ages. First, I will show how CFD enabled a rigorous test of hypothesized feeding modes in an enigmatic Ediacaran organism with three-fold symmetry, revealing previously unappreciated complexity of pre-Cambrian ecosystems. Second, I will show how CFD was used to evaluate hydrodynamic performance and feeding in Cambrian stem-group echinoderms, shedding light on the probable feeding strategy of the latest common ancestor of all deuterostomes. Third, I will show how CFD allowed us to explore the link between form and function in Mesozoic ichthyosaurs. These case studies serve to demonstrate the enormous potential of CFD for addressing long-standing hypotheses for a variety of fossil taxa, opening up an exciting new avenue in palaeontological studies of functional morphology.

Taxa-specific eco-sensitivity in relation to phytoplankton bloom stability and ecologically relevant lake state

NASA Astrophysics Data System (ADS)

Napiórkowska-Krzebietke, Agnieszka; Dunalska, Julita A.; Zębek, Elżbieta

2017-05-01

Phytoplankton (including plant-like, animal-like algae and Cyanobacteria) blooms have recently become a serious global threat to the sustenance of ecosystems, to human and animal health and to economy. This study focused on the composition and stability of blooms as well as their taxa-specific ecological sensitivity to the main causal factors (especially phosphorus and nitrogen) in degraded urban lakes. The analyzed lakes were assessed with respect to the trophic state as well as ecological status. Total phytoplankton biomass (ranging from 1.5 to 181.3 mg dm-3) was typical of blooms of different intensity, which can appear during a whole growing season but are the most severe in early or late summer. Our results suggested that steady-state and non-steady-state bloom assemblages including mono-, bi- and multi-species or heterogeneous blooms may occur in urban lakes. The most intense blooms were formed by the genera of Cyanobacteria: Microcystis, Limnothrix, Pseudanabaena, Planktothrix, Bacillariophyta: Cyclotella and Dinophyta mainly Ceratium and Peridinium. Considering the sensitivity of phytoplankton assemblages, a new eco-sensitivity factor was proposed (E-SF), based on the concept of Phytoplankton Trophic Index composed of trophic scores of phytoplankton taxa along the eutrophication gradient. The E-SF values of 0.5, 1.3, 6.7 and 15.1 were recognized in lakes having a high, good, moderate or poor ecological status, respectively. For lake restoration, each type of bloom should be considered separately because of different sensitivities of taxa and relationships with environmental variables. Proper recognition of the taxa-specific response to abiotic (especially to N and P enrichment) and biotic factors could have significant implications for further water protection and management.

Animal taxa contrast in their scale-dependent responses to land use change in rural Africa.

PubMed

Foord, Stefan Hendrik; Swanepoel, Lourens Hendrik; Evans, Steven William; Schoeman, Colin Stefan; Erasmus, Barend Frederik N; Schoeman, M Corrie; Keith, Mark; Smith, Alain; Mauda, Evans Vusani; Maree, Naudene; Nembudani, Nkhumeleni; Dippenaar-Schoeman, Anna Sophia; Munyai, Thinandavha Caswell; Taylor, Peter John

2018-01-01

Human-dominated landscapes comprise the bulk of the world's terrestrial surface and Africa is predicted to experience the largest relative increase over the next century. A multi-scale approach is required to identify processes that maintain diversity in these landscapes. Here we identify scales at which animal diversity responds by partitioning regional diversity in a rural African agro-ecosystem between one temporal and four spatial scales. Human land use practices are the main driver of diversity in all seven animal assemblages considered, with medium sized mammals and birds most affected. Even the least affected taxa, bats and non-volant small mammals (rodents), responded with increased abundance in settlements and agricultural sites respectively. Regional turnover was important to invertebrate taxa and their response to human land use was intermediate between that of the vertebrate extremes. Local scale (< 300 m) heterogeneity was the next most important level for all taxa, highlighting the importance of fine scale processes for the maintenance of biodiversity. Identifying the triggers of these changes within the context of functional landscapes would provide the context for the long-term sustainability of these rapidly changing landscapes.

Animal taxa contrast in their scale-dependent responses to land use change in rural Africa

PubMed Central

Swanepoel, Lourens Hendrik; Evans, Steven William; Schoeman, Colin Stefan; Erasmus, Barend Frederik N.; Schoeman, M. Corrie; Keith, Mark; Smith, Alain; Mauda, Evans Vusani; Maree, Naudene; Nembudani, Nkhumeleni; Dippenaar-Schoeman, Anna Sophia; Munyai, Thinandavha Caswell; Taylor, Peter John

2018-01-01

Human-dominated landscapes comprise the bulk of the world’s terrestrial surface and Africa is predicted to experience the largest relative increase over the next century. A multi-scale approach is required to identify processes that maintain diversity in these landscapes. Here we identify scales at which animal diversity responds by partitioning regional diversity in a rural African agro-ecosystem between one temporal and four spatial scales. Human land use practices are the main driver of diversity in all seven animal assemblages considered, with medium sized mammals and birds most affected. Even the least affected taxa, bats and non-volant small mammals (rodents), responded with increased abundance in settlements and agricultural sites respectively. Regional turnover was important to invertebrate taxa and their response to human land use was intermediate between that of the vertebrate extremes. Local scale (< 300 m) heterogeneity was the next most important level for all taxa, highlighting the importance of fine scale processes for the maintenance of biodiversity. Identifying the triggers of these changes within the context of functional landscapes would provide the context for the long-term sustainability of these rapidly changing landscapes. PMID:29738559

Fossil preservation and the stratigraphic ranges of taxa

NASA Technical Reports Server (NTRS)

Foote, M.; Raup, D. M.

1996-01-01

The incompleteness of the fossil record hinders the inference of evolutionary rates and patterns. Here, we derive relationships among true taxonomic durations, preservation probability, and observed taxonomic ranges. We use these relationships to estimate original distributions of taxonomic durations, preservation probability, and completeness (proportion of taxa preserved), given only the observed ranges. No data on occurrences within the ranges of taxa are required. When preservation is random and the original distribution of durations is exponential, the inference of durations, preservability, and completeness is exact. However, reasonable approximations are possible given non-exponential duration distributions and temporal and taxonomic variation in preservability. Thus, the approaches we describe have great potential in studies of taphonomy, evolutionary rates and patterns, and genealogy. Analyses of Upper Cambrian-Lower Ordovician trilobite species, Paleozoic crinoid genera, Jurassic bivalve species, and Cenozoic mammal species yield the following results: (1) The preservation probability inferred from stratigraphic ranges alone agrees with that inferred from the analysis of stratigraphic gaps when data on the latter are available. (2) Whereas median durations based on simple tabulations of observed ranges are biased by stratigraphic resolution, our estimates of median duration, extinction rate, and completeness are not biased.(3) The shorter geologic ranges of mammalian species relative to those of bivalves cannot be attributed to a difference in preservation potential. However, we cannot rule out the contribution of taxonomic practice to this difference. (4) In the groups studied, completeness (proportion of species [trilobites, bivalves, mammals] or genera [crinoids] preserved) ranges from 60% to 90%. The higher estimates of completeness at smaller geographic scales support previous suggestions that the incompleteness of the fossil record reflects loss of

Assessing the completeness of the fossil record using brachiopod Lazarus taxa

NASA Astrophysics Data System (ADS)

Gearty, W.; Payne, J.

2012-12-01

Lazarus taxa, organisms that disappear from the fossil record only to reappear later, provide a unique opportunity to assess the completeness of the fossil record. In this study, we apply logistic regression to quantify the associations of body size, geographic extent, and species diversity with the probability of being a Lazarus genus using the Phanerozoic fossil record of brachiopods. We find that both the geographic range and species diversity of a genus are inversely associated with the probability of being a Lazarus taxon in the preceding or succeeding stage. In contrast, body size exhibits little association with the probability of becoming a Lazarus taxon. A model including species diversity and geographic extent as predictors performs best among all combinations examined, whereas a model including only shell size as a predictor performs the worst - even worse than a model that assumes Lazarus taxa are randomly drawn from all available genera. These findings suggest that geographic range and species richness data can be used to improve estimates of extensions on the observed fossil ranges of genera and, thereby, better correct for sampling effects in estimates of taxonomic diversity change through the Phanerozoic.

Long-term macroinvertebrate response to flow abstraction at Alpine water intakes

NASA Astrophysics Data System (ADS)

Gabbud, Chrystelle; Savioz, Amélie; Lane, Stuart

2016-04-01

The natural flow hydrological characteristics of Alpine streams, dominated by snowmelt and glacier melt, have been established for many years. More recently, the ecosystems that they sustain have been described and explained, following the hydrological, biochemical, morphodynamic, and biotic elements specific to Alpine streams. However, natural Alpine flow regimes may be strongly modified by hydroelectric power production, which impacts upon both river discharge and sediment transfer, and hence on downstream flora and fauna. These kinds of impacts are well studied where river are regulated by dams, with sediments retained behind walls, but they are much less focus on water intakes, whose storage capacity is very smaller and thus have to flush flow and sediment regularly. Here we focus on the impacts of flow abstraction on macroinvertebrates, the most widely ecological group used in freshwater biomonitoring as they act typically as indicators of environmental health. Some key generalizations can be made. For instance, in European glacially fed river systems, Plecoptera, Chironomidae, Ephemeroptera, Simuliidae, and Diptera are the main taxa found in spring as they are better adapted to cold conditions. Petts and Bickerton (1994) published macroinvertebrate samples from the upper part of the glacial stream system the Borgne d'Arolla (Valais, Switzerland), highlighting that: (1) taxa variability and productivity decline in the river because of flow abstraction, (2) 60 % of the communities were provided by tributaries, (3) there is migration upstream of the species in response to the passage from a dominant ice-melt to a snow-melt regime, (4) the colonisation is difficult because of a significant modification of the habitat in the river by sediment transport, until it becomes warmer, clearer and more stable further downstream. In order to establish the long-term impacts of flow abstraction upon instream ecology where sediment delivery is maintained but transport

Chapter B. Physical, Chemical, and Biological Responses of Streams to Increasing Watershed Urbanization in the Piedmont Ecoregion of Georgia and Alabama, 2003

USGS Publications Warehouse

Gregory, M. Brian; Calhoun, Daniel L.

2007-01-01

bioassays and certain chemical constituents such as pyrene and benzophenanthrene, both PAHs found in coal tar, were strongly correlated with measures of watershed urbanization. Hydrologic variability metrics indicated that as urban development increased, streams became flashier, with characteristic high flows having shorter duration. The hydrologic effects associated with urbanization were greatest during the fall and least apparent during the winter. No correlations were observed between increasing urbanization and stream temperature or changes in stream habitat. Algal, invertebrate, and fish communities exhibited statistically significant changes as watersheds became increasingly urban, with the strongest responses observed in the invertebrate community followed by fishes, then algal diatom communities. Invertebrate communities were the most responsive to increasing urbanization with Ephemeroptera, Plecoptera, and Tricoptera taxa, especially Plecoptera (stoneflies) responding negatively and most strongly to increasing urbanization. Invertebrate communities were influenced more significantly by water quality, although significant responses to altered hydrology also were noted. In terms of the fish community, the percentage of cyprinids present in the stream was the only Index of Biotic Integrity metric that responded negatively to increases in watershed urbanization. Fish community response to urbanization was intermediate relative to algae and invertebrates with respect to significant metric responses as well as the overall community response to increasing urbanization. Measures of hydrologic variability were the most influential environmental variables affecting the algal community. Although sites were originally chosen to represent a gradient of increasing urbanization, a cluster analysis performed on the component metrics of the urban index categorized sites into four distinct groups. Multivariate analysis based on nonmetric MDS and related analyses of data ma

Toward a DNA Taxonomy of Alpine Rhithrogena (Ephemeroptera: Heptageniidae) Using a Mixed Yule-Coalescent Analysis of Mitochondrial and Nuclear DNA

PubMed Central

Vuataz, Laurent; Sartori, Michel; Wagner, André; Monaghan, Michael T.

2011-01-01

Aquatic larvae of many Rhithrogena mayflies (Ephemeroptera) inhabit sensitive Alpine environments. A number of species are on the IUCN Red List and many recognized species have restricted distributions and are of conservation interest. Despite their ecological and conservation importance, ambiguous morphological differences among closely related species suggest that the current taxonomy may not accurately reflect the evolutionary diversity of the group. Here we examined the species status of nearly 50% of European Rhithrogena diversity using a widespread sampling scheme of Alpine species that included 22 type localities, general mixed Yule-coalescent (GMYC) model analysis of one standard mtDNA marker and one newly developed nDNA marker, and morphological identification where possible. Using sequences from 533 individuals from 144 sampling localities, we observed significant clustering of the mitochondrial (cox1) marker into 31 GMYC species. Twenty-one of these could be identified based on the presence of topotypes (expertly identified specimens from the species' type locality) or unambiguous morphology. These results strongly suggest the presence of both cryptic diversity and taxonomic oversplitting in Rhithrogena. Significant clustering was not detected with protein-coding nuclear PEPCK, although nine GMYC species were congruent with well supported terminal clusters of nDNA. Lack of greater congruence in the two data sets may be the result of incomplete sorting of ancestral polymorphism. Bayesian phylogenetic analyses of both gene regions recovered four of the six recognized Rhithrogena species groups in our samples as monophyletic. Future development of more nuclear markers would facilitate multi-locus analysis of unresolved, closely related species pairs. The DNA taxonomy developed here lays the groundwork for a future revision of the important but cryptic Rhithrogena genus in Europe. PMID:21611178

Aquatic Habitat Studies on the Lower Mississippi River, River Mile 480 to 530. Report 3. Benthic Macro-Invertebrate Studies--Pilot Report.

DTIC Science & Technology

1981-04-01

Odonata, and 1 genus each of Plecoptera , Lepidoptera, and Collembola. Mollusca col- lected included 2 genera of Gastropoda and 1 genus of Pelycypoda... Plecoptera Neoperla sp. 1 0.05 >0.1 Collembola Isotomurus sp. 3 0.2 >0.1 Mollusca Gastropoda Physa hawnii 1 0.05 >0.1 Planorbula sp. 1 0.05 >0.1...sp. Glyptotendipes meridionalis Dicrotendipes sp. Robackia claviger Lepidoptera Lepidopteran sp. Plecoptera Neoperla sp. Odonata Didymops transversa

Brachyceran Diptera (Insecta) in Cretaceous ambers, Part IV, Significant New Orthorrhaphous Taxa

PubMed Central

Grimaldi, David A.; Arillo, Antonio; Cumming, Jeffrey M.; Hauser, Martin

2011-01-01

Abstract Thirteen species of basal Brachycera (11 described as new) are reported, belonging to nine families and three infraorders. They are preserved in amber from the Early Cretaceous (Neocomian) of Lebanon, Albian of northern Spain, upper Albian to lower Cenomanian of northern Myanmar, and Late Cretaceous of New Jersey USA (Turonian) and Alberta, Canada (Campanian). Taxa are as follows, with significance as noted: In Stratiomyomorpha: Stratiomyidae (Cretaceogaster pygmaeus Teskey [2 new specimens in Canadian amber], Lysistrata emerita Grimaldi & Arillo, gen. et sp. n. [stem-group species of the family in Spanish amber]), and Xylomyidae (Cretoxyla azari Grimaldi & Cumming, gen. et sp. n. [in Lebanese amber], and an undescribed species from Spain). In Tabanomorpha: Tabanidae (Cratotabanus newjerseyensis Grimaldi, sp. n., in New Jersey amber). In Muscomorpha: Acroceridae (Schlingeromyia minuta Grimaldi & Hauser, gen. et sp. n. and Burmacyrtus rusmithi Grimaldi & Hauser gen. et sp. n., in Burmese amber, the only definitive species of the family from the Cretaceous); Mythicomyiidae (Microburmyia analvena Grimaldi & Cumming gen. et sp. n. and Microburmyia veanalvena Grimaldi & Cumming, sp. n., stem-group species of the family, both in Burmese amber); Apsilocephalidae or near (therevoid family-group) (Kumaromyia burmitica Grimaldi & Hauser, gen. et sp. n. [in Burmese amber]); Apystomyiidae (Hilarimorphites burmanica Grimaldi & Cumming, sp. n. [in Burmese amber], whose closest relatives are from the Late Jurassic of Kazachstan, the Late Cretaceous of New Jersey, and Recent of California). Lastly, two species belonging to families incertae sedis, both in Burmese amber: Tethepomyiidae (Tethepomyia zigrasi Grimaldi & Arillo sp. n., the aculeate oviscapt of which indicates this family was probably parasitoidal and related to Eremochaetidae); and unplaced to family is Myanmyia asteiformia Grimaldi, gen. et sp. n., a minute fly with highly reduced venation. These new taxa

Brachyceran Diptera (Insecta) in Cretaceous ambers, Part IV, Significant New Orthorrhaphous Taxa.

PubMed

Grimaldi, David A; Arillo, Antonio; Cumming, Jeffrey M; Hauser, Martin

2011-01-01

Thirteen species of basal Brachycera (11 described as new) are reported, belonging to nine families and three infraorders. They are preserved in amber from the Early Cretaceous (Neocomian) of Lebanon, Albian of northern Spain, upper Albian to lower Cenomanian of northern Myanmar, and Late Cretaceous of New Jersey USA (Turonian) and Alberta, Canada (Campanian). Taxa are as follows, with significance as noted: In Stratiomyomorpha: Stratiomyidae (Cretaceogaster pygmaeus Teskey [2 new specimens in Canadian amber], Lysistrata emerita Grimaldi & Arillo, gen. et sp. n. [stem-group species of the family in Spanish amber]), and Xylomyidae (Cretoxyla azari Grimaldi & Cumming, gen. et sp. n. [in Lebanese amber], and an undescribed species from Spain). In Tabanomorpha: Tabanidae (Cratotabanus newjerseyensis Grimaldi, sp. n., in New Jersey amber). In Muscomorpha: Acroceridae (Schlingeromyia minuta Grimaldi & Hauser, gen. et sp. n. and Burmacyrtus rusmithi Grimaldi & Hauser gen. etsp. n., in Burmese amber, the only definitive species of the family from the Cretaceous); Mythicomyiidae (Microburmyia analvena Grimaldi & Cumming gen. et sp. n. and Microburmyia veanalvena Grimaldi & Cumming, sp. n., stem-group species of the family, both in Burmese amber); Apsilocephalidae or near (therevoid family-group) (Kumaromyia burmitica Grimaldi & Hauser, gen. et sp. n. [in Burmese amber]); Apystomyiidae (Hilarimorphites burmanica Grimaldi & Cumming, sp. n. [in Burmese amber], whose closest relatives are from the Late Jurassic of Kazachstan, the Late Cretaceous of New Jersey, and Recent of California). Lastly, two species belonging to families incertae sedis, both in Burmese amber: Tethepomyiidae (Tethepomyia zigrasi Grimaldi & Arillo sp. n., the aculeate oviscapt of which indicates this family was probably parasitoidal and related to Eremochaetidae); and unplaced to family is Myanmyia asteiformia Grimaldi, gen. et sp. n., a minute fly with highly reduced venation. These new taxa significantly

Temporal consistency in background mortality of four dominant coral taxa along Australia's Great Barrier Reef

NASA Astrophysics Data System (ADS)

Pisapia, C.; Anderson, K. D.; Pratchett, M. S.

2016-09-01

Studies on the population and community dynamics of scleractinian corals typically focus on catastrophic mortality associated with acute disturbances (e.g., coral bleaching and outbreaks of crown-of-thorns starfish), though corals are subject to high levels of background mortality and injuries caused by routine and chronic processes. This study quantified prevalence (proportion of colonies with injuries) and severity (areal extent of injuries on individual colonies) of background mortality and injuries for four common coral taxa (massive Porites, encrusting Montipora, Acropora hyacinthus and branching Pocillopora) on the Great Barrier Reef, Australia. Sampling was conducted over three consecutive years during which there were no major acute disturbances. A total of 2276 adult colonies were surveyed across 27 sites, within nine reefs and three distinct latitudinal sectors. The prevalence of injuries was very high (>83%) across all four taxa, but highest for Porites (91%) and Montipora (85%). For these taxa ( Montipora and Pocillopora), there was also significant temporal and spatial variation in prevalence of partial mortality. The severity of injuries ranged from 3% to more than 80% and varied among coral taxa, but was fairly constant spatially and temporally. This shows that some injuries have considerable longevity and that corals may invest relatively little in regenerating tissue over sites of previous injuries. Inter-colony variation in the severity of injury also had no apparent effect on the realized growth of individual colonies, suggesting that energy diverted to regeneration has a limited bearing on overall energetic allocation, or impacts on other life-history processes (e.g., reproduction) rather than growth. Establishing background levels of injury and regeneration is important for understanding energy investment and life-history consequences for reef-building corals as well as for predicting susceptibility to, and capacity to recover from, acute

Characteristics of water, sediment, and benthic communities of the Wolf River, Menominee Indian Reservation, Wisconsin, water years 1986-98

USGS Publications Warehouse

Garn, Herbert S.; Scudder, Barbara C.; Richards, Kevin D.; Sullivan, Daniel J.

2001-01-01

were low, with the exceptions of chromium, copper, mercury, and selenium; however, these concentrations are not at levels of concern. Concentrations of all trace elements analyzed in whole caddisfly larvae also were low compared to those reported in the literature. During 1998, a total of 48 species of macroinvertebrates were identified at each of two sampled sites, with similar numbers of genera represented at both: 41 at Keshena and 44 at Langlade. The percentage EPT (Ephemeroptera, Plecoptera, and Trichoptera) was 52 at Keshena and 77 at Langlade; these relatively large percentages suggest very good to excellent water quality at these sites. A total of 52 algal taxa were identified at the Wolf River near Langlade. Diatoms made up 96 percent of the algal biomass. A total of 58 algal taxa were identified at Keshena, including 48 diatom taxa (83 percent). Although diatoms accounted for just 22 percent of the algal relative abundance, in cells per square centimeter, diatoms contributed 91 percent of the total algal biomass. The overall biological integrity of the Keshena and Langlade sites, based on diversity, siltation, and pollution indexes for diatoms is excellent.

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

PubMed

Tyler, Carrie L; Kowalewski, Michał

2017-03-15

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

Darwin's diagram of divergence of taxa as a causal model for the origin of species.

PubMed

Bouzat, Juan L

2014-03-01

On the basis that Darwin's theory of evolution encompasses two logically independent processes (common descent and natural selection), the only figure in On the Origin of Species (the Diagram of Divergence of Taxa) is often interpreted as illustrative of only one of these processes: the branching patterns representing common ancestry. Here, I argue that Darwin's Diagram of Divergence of Taxa represents a broad conceptual model of Darwin's theory, illustrating the causal efficacy of natural selection in producing well-defined varieties and ultimately species. The Tree Diagram encompasses the idea that natural selection explains common descent and the origin of organic diversity, thus representing a comprehensive model of Darwin's theory on the origin of species. I describe Darwin's Tree Diagram in relation to his argumentative strategy under the vera causa principle, and suggest that the testing of his theory based on the evidence from the geological record, the geographical distribution of organisms, and the mutual affinities of organic beings can be framed under the hypothetico-deductive method. Darwin's Diagram of Divergence of Taxa therefore represents a broad conceptual model that helps understanding the causal construction of Darwin's theory of evolution, the structure of his argumentative strategy, and the nature of his scientific methodology.

Gene Flow Among Different Teosinte Taxa and Into the Domesticated Maize Gene Pool

USDA-ARS?s Scientific Manuscript database

Maize (Zea mays ssp. mays) was domesticated from one wild species ancestor, the Balsas teosinte (Zea mays ssp. parviglumis) about 9000 years ago. Higher levels of gene diversity are found in teosinte taxa compared to maize following domestication and selection bottlenecks. Diversity in maize can b...

Climate-driven C4 plant distributions in China: divergence in C4 taxa

PubMed Central

Wang, Renzhong; Ma, Linna

2016-01-01

There have been debates on the driving factors of C4 plant expansion, such as PCO2 decline in the late Micocene and warmer climate and precipitation at large-scale modern ecosystems. These disputes are mainly due to the lack of direct evidence and extensive data analysis. Here we use mass flora data to explore the driving factors of C4 distribution and divergent patterns for different C4 taxa at continental scale in China. The results display that it is mean annual climate variables driving C4 distribution at present-day vegetation. Mean annual temperature is the critical restriction of total C4 plants and the precipitation gradients seem to have much less impact. Grass and sedge C4 plants are largely restricted to mean annual temperature and precipitation respectively, while Chenopod C4 plants are strongly restricted by aridity in China. Separate regression analysis can succeed to detect divergences of climate distribution patterns of C4 taxa at global scale. PMID:27302686

Comparative Analysis of Native Crocus Taxa as a Great Source of Flavonoids with High Antioxidant Activity.

PubMed

Šola, Ivana; Stipaničev, Mirta; Vujčić, Valerija; Mitić, Božena; Huđek, Ana; Rusak, Gordana

2018-06-02

Native Crocus taxa are abundant in regions with moderate and dry climate; however, their potential in the food industry has thus far been neglected. The objective of this study was to compare the quantitative and qualitative flavonoid content and antioxidant and cytotoxic activity in organs of several populations of Croatian native taxa and assess their potential for application in the food industry. The dominant flavonoids in the native Crocus taxa were kaempferol and quercetin. Tepals contained similar or higher concentrations of flavonoid-glycosides than other organs. Tepals from Cvv1 and Cvv2 populations contained more flavonoid-glycosides than the commonly used spice saffron (C. sativus stigmas). The FRAP antioxidant activity of Cvv1 and Cvv5 tepals was similar to that of standard Trolox. DPPH inhibition of Cvv1 and Cvv3 tepals was within the range of that recorded for saffron. Cvv1 tepals significantly reduced reactive oxygen species in the broadest concentration range (50-1000 μg/ml), and showed considerable antioxidant activity in the ABTS assay, equal to 82% of standard Trolox antioxidant activity. A significantly higher concentration of kaempferol-rutinoside was recorded in this than in other taxa. The flavonoid showed a very strong or strong correlation with antioxidant assays results, and a negative correlation with cellular reactive oxygen species concentration. We therefore presumed that kaempferol-rutinoside is one of the main antioxidant phenolics in Crocus tepals. None of the tested extracts showed cytotoxicity toward Caco-2 cells. The results revealed that Cvv tepals have potential as a food supplement and are a promising material for further food safety tests.

A microarray for assessing transcription from pelagic marine microbial taxa

PubMed Central

Shilova, Irina N; Robidart, Julie C; James Tripp, H; Turk-Kubo, Kendra; Wawrik, Boris; Post, Anton F; Thompson, Anne W; Ward, Bess; Hollibaugh, James T; Millard, Andy; Ostrowski, Martin; J Scanlan, David; Paerl, Ryan W; Stuart, Rhona; Zehr, Jonathan P

2014-01-01

Metagenomic approaches have revealed unprecedented genetic diversity within microbial communities across vast expanses of the world's oceans. Linking this genetic diversity with key metabolic and cellular activities of microbial assemblages is a fundamental challenge. Here we report on a collaborative effort to design MicroTOOLs (Microbiological Targets for Ocean Observing Laboratories), a high-density oligonucleotide microarray that targets functional genes of diverse taxa in pelagic and coastal marine microbial communities. MicroTOOLs integrates nucleotide sequence information from disparate data types: genomes, PCR-amplicons, metagenomes, and metatranscriptomes. It targets 19 400 unique sequences over 145 different genes that are relevant to stress responses and microbial metabolism across the three domains of life and viruses. MicroTOOLs was used in a proof-of-concept experiment that compared the functional responses of microbial communities following Fe and P enrichments of surface water samples from the North Pacific Subtropical Gyre. We detected transcription of 68% of the gene targets across major taxonomic groups, and the pattern of transcription indicated relief from Fe limitation and transition to N limitation in some taxa. Prochlorococcus (eHLI), Synechococcus (sub-cluster 5.3) and Alphaproteobacteria SAR11 clade (HIMB59) showed the strongest responses to the Fe enrichment. In addition, members of uncharacterized lineages also responded. The MicroTOOLs microarray provides a robust tool for comprehensive characterization of major functional groups of microbes in the open ocean, and the design can be easily amended for specific environments and research questions. PMID:24477198

Bathymetric distribution patterns of Southern Ocean macrofaunal taxa: Bivalvia, Gastropoda, Isopoda and Polychaeta

NASA Astrophysics Data System (ADS)

Brandt, Angelika; Linse, Katrin; Schüller, Myriam

2009-11-01

The aim of this study is to compare the depth distributions of four major Southern Ocean macrobenthic epi- and infaunal taxa, the Bivalvia, Gastropoda, Isopoda, and Polychaeta, from subtidal to abyssal depth. All literature data up to summer 2008, as well as the unpublished data from the most recent ANDEEP I-III (Antarctic benthic deep-sea biodiversity: colonisation history and recent community patterns) expeditions to the Southern Ocean deep sea are included in the analysis. Benthic invertebrates in the Southern Ocean are known for their wide bathymetric ranges. We analysed the distributions of four of the most abundant and species-rich taxa from intertidal to abyssal (5200 m) depths in depth zones of 100 m. The depth distributions of three macrofaunal classes (Bivalvia, Gastropoda, Polychaeta) and one order (Isopoda) showed distinct differences. In the case of bivalves, gastropods and polychaetes, the number of species per depth zone decreased from the shelf to the slope at around 1000 m depth and then showed stable low numbers. The isopods showed the opposite trend; they were less species rich in the upper 1000 m but increased in species numbers from the slope to bathyal and abyssal depths. Depth ranges of families of the studied taxa (Bivalvia: 31 families, Gastropoda: 60, Isopoda: 32, and Polychaeta: 46 families) were compiled and illustrated. At present vast areas of the deep sea in the Southern Ocean remain unexplored and species accumulation curves showed that only a fraction of the species have been discovered to date. We anticipate that further investigations will greatly increase the number of species known in the Southern Ocean deep sea.

New species and records of the stonefly genus Neoperla (Plecoptera, Perlidae) from Jinhuacha Nature Reserve, Guangxi of China.

PubMed

Wang, Guo-Quan; Li, Wei-Hai; Yang, Juan

2013-01-01

Two new Neoperla species (Neoperla mesospina, Neoperla latispina) are described from the adult male stage from the Jinhuacha Nature Reserve, Guangxi of China. The new species are compared with similar taxa. Taxonomic remarks are also provided for N. transversprojecta Du & Sivec and N. yao Stark. The latter species is newly recorded for Guangxi.

Colonization and development of stream communities across a 200-year gradient in Glacier Bay National Park, Alaska

USGS Publications Warehouse

Milner, Alexander M.; Knudsen, E. Eric; Soiseth, Chad; Robertson, Anne L.; Schell, Don; Phillips, Ian T.; Magnusson, Katrina

2000-01-01

In May 1997, physical and biological variables were studied in 16 streams of different ages and contrasting stages of development following glacial recession in Glacier Bay National Park, southeast Alaska. The number of microcrustacean and macroinvertebrate taxa and juvenile fish abundance and diversity were significantly greater in older streams. Microcrustacean diversity was related to the amount of instream wood and percent pool habitat, while the number of macroinvertebrate taxa was related to bed stability, amount of instream wood, and percent pool habitat. The percent contribution of Ephemeroptera to stream benthic communities increased significantly with stream age and the amount of coarse benthic organic matter. Juvenile Dolly Varden (Salvelinus malma) were dominant in the younger streams, but juvenile coho salmon (Oncorhynchus kisutch) abundance was greater in older streams associated with increased pool habitat. Upstream lakes significantly influenced channel stability, percent Chironomidae, total macroinvertebrate and meiofaunal abundance, and percent fish cover. Stable isotope analyses indicated nitrogen enrichment from marine sources in macroinvertebrates and juvenile fish in older streams with established salmon runs. The findings are encapsulated in a conceptual summary of stream development that proposes stream assemblages to be determined by direct interactions with the terrestrial, marine, and lake ecosystems.

Nine endangered taxa, one recovering ecosystem: Identifying common ground for recovery on Santa Cruz Island, California

USGS Publications Warehouse

McEachern, A. Kathryn; Wilken, Dieter H.

2011-01-01

It is not uncommon to have several rare and listed taxa occupying habitats in one landscape or management area where conservation amounts to defense against the possibility of further loss. It is uncommon and extremely exciting, however, to have several listed taxa occupying one island that is managed cooperatively for conservation and recovery. On Santa Cruz Island, the largest of the northern California island group in the Santa Barbara Channel, we have a golden opportunity to marry ecological knowledge and institutional "good will" in a field test of holistic rare plant conservation. Here, the last feral livestock have been removed, active weed control is underway, and management is focused on understanding and demonstrating system response to conservation management. Yet funding limitations still exist and we need to plan the most fiscally conservative and marketable approach to rare plant restoration. We still experience the tension between desirable quick results and the ecological pace of system recovery. Therefore, our research has focused on identifying fundamental constraints on species recovery at individual, demographic, habitat, and ecosystem levels, and then developing suites of actions that might be taken across taxa and landscapes. At the same time, we seek a performance middle ground that balances an institutional need for quick demonstration of hands-on positive results with a contrasting approach that allows ecosystem recovery to facilitate species recovery in the long term. We find that constraints vary across breeding systems, life-histories, and island locations. We take a hybrid approach in which we identify several actions that we can take now to enhance population size or habitat occupancy for some taxa by active restoration, while allowing others to recover at the pace of ecosystem change. We make our recommendations on the basis of data we have collected over the last decade, so that management is firmly grounded in ecological observation.

Bias and sensitivity in the placement of fossil taxa resulting from interpretations of missing data.

PubMed

Sansom, Robert S

2015-03-01

The utility of fossils in evolutionary contexts is dependent on their accurate placement in phylogenetic frameworks, yet intrinsic and widespread missing data make this problematic. The complex taphonomic processes occurring during fossilization can make it difficult to distinguish absence from non-preservation, especially in the case of exceptionally preserved soft-tissue fossils: is a particular morphological character (e.g., appendage, tentacle, or nerve) missing from a fossil because it was never there (phylogenetic absence), or just happened to not be preserved (taphonomic loss)? Missing data have not been tested in the context of interpretation of non-present anatomy nor in the context of directional shifts and biases in affinity. Here, complete taxa, both simulated and empirical, are subjected to data loss through the replacement of present entries (1s) with either missing (?s) or absent (0s) entries. Both cause taxa to drift down trees, from their original position, toward the root. Absolute thresholds at which downshift is significant are extremely low for introduced absences (two entries replaced, 6% of present characters). The opposite threshold in empirical fossil taxa is also found to be low; two absent entries replaced with presences causes fossil taxa to drift up trees. As such, only a few instances of non-preserved characters interpreted as absences will cause fossil organisms to be erroneously interpreted as more primitive than they were in life. This observed sensitivity to coding non-present morphology presents a problem for all evolutionary studies that attempt to use fossils to reconstruct rates of evolution or unlock sequences of morphological change. Stem-ward slippage, whereby fossilization processes cause organisms to appear artificially primitive, appears to be a ubiquitous and problematic phenomenon inherent to missing data, even when no decay biases exist. Absent characters therefore require explicit justification and taphonomic

Larger ejaculate volumes are associated with a lower degree of polyandry across bushcricket taxa

PubMed Central

Vahed, Karim

2006-01-01

In numerous insects, including bushcrickets (Tettigoniidae), males are known to transfer substances in the ejaculate that inhibit the receptivity of females to further matings, but it has not yet been established whether these substances reduce the lifetime degree of polyandry of the female. The aim of this study was to test the hypothesis that larger ejaculate volumes should be associated with a lower degree of polyandry across tettigoniid taxa, controlling for male body mass and phylogeny. Data on ejaculate mass, sperm number, nuptial gift mass and male mass were taken primarily from the literature. The degree of polyandry for 14 species of European bushcrickets was estimated by counting the number of spermatodoses within the spermathecae of field-caught females towards the end of their adult lifespans. Data for four further species were obtained from the literature. Data were analysed by using both species regression and independent contrasts to control for phylogeny. Multiple regression analysis revealed that, as predicted, there was a significant negative association between the degree of polyandry and ejaculate mass, relative to male body mass, across bushcricket taxa. Nuptial gift size and sperm number, however, did not contribute further to interspecific variation in the degree of polyandry. A positive relationship was found, across bushcricket taxa, between relative nuptial gift size and relative ejaculate mass, indicating that larger nuptial gifts allow the male to overcome female resistance to accepting large ejaculates. This appears to be the first comparative evidence that males can manipulate the lifetime degree of polyandry of their mates through the transfer of large ejaculates. PMID:16928643

Identifying sighting clusters of endangered taxa with historical records.

PubMed

Duffy, Karl J

2011-04-01

The probability and time of extinction of taxa is often inferred from statistical analyses of historical records. Many of these analyses require the exclusion of multiple records within a unit of time (i.e., a month or a year). Nevertheless, spatially explicit, temporally aggregated data may be useful for identifying clusters of sightings (i.e., sighting clusters) in space and time. Identification of sighting clusters highlights changes in the historical recording of endangered taxa. I used two methods to identify sighting clusters in historical records: the Ederer-Myers-Mantel (EMM) test and the space-time permutation scan (STPS). I applied these methods to the spatially explicit sighting records of three species of orchids that are listed as endangered in the Republic of Ireland under the Wildlife Act (1976): Cephalanthera longifolia, Hammarbya paludosa, and Pseudorchis albida. Results with the EMM test were strongly affected by the choice of the time interval, and thus the number of temporal samples, used to examine the records. For example, sightings of P. albida clustered when the records were partitioned into 20-year temporal samples, but not when they were partitioned into 22-year temporal samples. Because the statistical power of EMM was low, it will not be useful when data are sparse. Nevertheless, the STPS identified regions that contained sighting clusters because it uses a flexible scanning window (defined by cylinders of varying size that move over the study area and evaluate the likelihood of clustering) to detect them, and it identified regions with high and regions with low rates of orchid sightings. The STPS analyses can be used to detect sighting clusters of endangered species that may be related to regions of extirpation and may assist in the categorization of threat status. ©2010 Society for Conservation Biology.

Diel, Seasonal, and Interannual Variability in Abundance of Major Mesozooplankton Taxa in the Sargasso Sea as Related to Changing Environmental Parameters

NASA Astrophysics Data System (ADS)

Ivory, J.; Steinberg, D. K.; Latour, R. J.

2016-02-01

Temporal changes in mesozooplankton community structure affect planktonic food web interactions and biogeochemical cycling. Epipelagic mesozooplankton biomass in the Sargasso Sea has increased over the last two decades, with a related increase in zooplankton-mediated carbon export. Unknown, however, is what are the patterns and variability at different temporal scales (diel, seasonal, and interannual) in abundance of each major zooplankton taxon, and how do these patterns relate to physical and other environmental changes? We enumerated major taxa of mesozooplankton collected from monthly day and night net tows in the epipelagic zone at the Bermuda Atlantic Time-series Study (BATS) site in the Sargasso Sea from 1999 to 2010. Abundances of each taxon were determined using a ZooScan optical imaging system and microscopy. Generalized Linear Models (GLMs) were used to determine what environmental parameters best explain abundance of major taxa. We used annual averages to consider broader patterns. Zooplankton taxa with the most pronounced diel vertical migration (i.e., night:day ratio, N:D, >>1) included Limacina spp. pteropods (N:D=2.02), euphausiids (1.93), calanoid copepods (1.34), and heteropods (1.34). Taxa with a pronounced spring abundance peak included chaetognaths, larvaceans, and Limacina spp. pteropods, while harpacticoid copepods peaked in late summer, and calanoid copepods in both spring and summer. Environmental variables affecting abundance differed amongst taxa. For example, calanoid copepod density was highly influenced by the abundance of a major predator- chaetognaths. Multi-year densities of calanoid copepods and ostracods both increased with increasing Water Column Stratification Index and the Atlantic Multidecadal Oscillation (AMO) index, indicating warmer sea surface temperatures are favorable for these taxa. We discuss how these temporal patterns at different scales help predict effects of global climate change on the zooplankton community.

How Should Genes and Taxa be Sampled for Phylogenomic Analyses with Missing Data? An Empirical Study in Iguanian Lizards.

PubMed

Streicher, Jeffrey W; Schulte, James A; Wiens, John J

2016-01-01

Targeted sequence capture is becoming a widespread tool for generating large phylogenomic data sets to address difficult phylogenetic problems. However, this methodology often generates data sets in which increasing the number of taxa and loci increases amounts of missing data. Thus, a fundamental (but still unresolved) question is whether sampling should be designed to maximize sampling of taxa or genes, or to minimize the inclusion of missing data cells. Here, we explore this question for an ancient, rapid radiation of lizards, the pleurodont iguanians. Pleurodonts include many well-known clades (e.g., anoles, basilisks, iguanas, and spiny lizards) but relationships among families have proven difficult to resolve strongly and consistently using traditional sequencing approaches. We generated up to 4921 ultraconserved elements with sampling strategies including 16, 29, and 44 taxa, from 1179 to approximately 2.4 million characters per matrix and approximately 30% to 60% total missing data. We then compared mean branch support for interfamilial relationships under these 15 different sampling strategies for both concatenated (maximum likelihood) and species tree (NJst) approaches (after showing that mean branch support appears to be related to accuracy). We found that both approaches had the highest support when including loci with up to 50% missing taxa (matrices with ~40-55% missing data overall). Thus, our results show that simply excluding all missing data may be highly problematic as the primary guiding principle for the inclusion or exclusion of taxa and genes. The optimal strategy was somewhat different for each approach, a pattern that has not been shown previously. For concatenated analyses, branch support was maximized when including many taxa (44) but fewer characters (1.1 million). For species-tree analyses, branch support was maximized with minimal taxon sampling (16) but many loci (4789 of 4921). We also show that the choice of these sampling

A multigene phylogenetic synthesis for the class Lecanoromycetes (Ascomycota): 1307 fungi representing 1139 infrageneric taxa, 317 genera and 66 families

PubMed Central

Miadlikowska, Jolanta; Kauff, Frank; Högnabba, Filip; Oliver, Jeffrey C.; Molnár, Katalin; Fraker, Emily; Gaya, Ester; Hafellner, Josef; Hofstetter, Valérie; Gueidan, Cécile; Otálora, Mónica A.G.; Hodkinson, Brendan; Kukwa, Martin; Lücking, Robert; Björk, Curtis; Sipman, Harrie J.M.; Burgaz, Ana Rosa; Thell, Arne; Passo, Alfredo; Myllys, Leena; Goward, Trevor; Fernández-Brime, Samantha; Hestmark, Geir; Lendemer, James; Lumbsch, H. Thorsten; Schmull, Michaela; Schoch, Conrad; Sérusiaux, Emmanuël; Maddison, David R.; Arnold, A. Elizabeth; Lutzoni, François; Stenroos, Soili

2014-01-01

The Lecanoromycetes is the largest class of lichenized Fungi, and one of the most species-rich classes in the kingdom. Here we provide a multigene phylogenetic synthesis (using three ribosomal RNA-coding and two protein-coding genes) of the Lecanoromycetes based on 642 newly generated and 3329 publicly available sequences representing 1139 taxa, 317 genera, 66 families, 17 orders and five subclasses (four currently recognized: Acarosporomycetidae, Lecanoromycetidae, Ostropomycetidae, Umbilicariomycetidae; and one provisionarily recognized, ‘Candelariomycetidae’). Maximum likelihood phylogenetic analyses on four multigene datasets assembled using a cumulative supermatrix approach with a progressively higher number of species and missing data (5-gene, 5+4-gene, 5+4+3-gene and 5+4+3+2-gene datasets) show that the current classification includes non-monophyletic taxa at various ranks, which need to be recircumscribed and require revisionary treatments based on denser taxon sampling and more loci. Two newly circumscribed orders (Arctomiales and Hymeneliales in the Ostropomycetidae) and three families (Ramboldiaceae and Psilolechiaceae in the Lecanorales, and Strangosporaceae in the Lecanoromycetes inc. sed.) are introduced. The potential resurrection of the families Eigleraceae and Lopadiaceae is considered here to alleviate phylogenetic and classification disparities. An overview of the photobionts associated with the main fungal lineages in the Lecanoromycetes based on available published records is provided. A revised schematic classification at the family level in the phylogenetic context of widely accepted and newly revealed relationships across Lecanoromycetes is included. The cumulative addition of taxa with an increasing amount of missing data (i.e., a cumulative supermatrix approach, starting with taxa for which sequences were available for all five targeted genes and ending with the addition of taxa for which only two genes have been sequenced) revealed

Phalangopsidae crickets from Tropical Africa (Orthoptera, Grylloidea), with descriptions of new taxa and an identification key for African genera.

PubMed

Desutter-Grandcolas, Laure

2015-04-22

New Phalangopsidae crickets are described from tropical Africa, including three new genera and ten new species: Afrophaloria Desutter-Grandcolas, n.gen., Afrophaloria amani Desutter-Grandcolas, n. sp., type species, Afrophaloria apiariensis Desutter-Grandcolas, n. sp., Afrophaloria hempae Desutter-Grandcolas, n. sp., Kameruloria gabonensis Desutter-Grandcolas, n. sp., Kameruloria nigricornis Desutter-Grandcolas, n. sp., Kameruloria trimaculata Desutter-Grandcolas, n. sp., Paragryllodes amani Desutter-Grandcolas, n. sp., Phasmagryllus Desutter-Grandcolas, n.gen., Phasmagryllus elegans Desutter-Grandcolas, n. sp., type species, Upupagryllus Desutter-Grandcolas, n.gen., Upupagryllus subalatus Desutter-Grandcolas, n. sp., type species, and Upupagryllus alatus Desutter-Grandcolas, n. sp. All these taxa, except Paragryllodes amani Desutter-Grandcolas, n. sp., belong to the subfamily Phaloriinae. The subfamily is redefined, to take into account their morphological (apterous taxa) and ecological (straminicolous taxa) diversity. A key for phalangopsid African genera is proposed, and the status of Larandeicus Chopard, 1937 briefly discussed.

New species and records of the stonefly genus Neoperla (Plecoptera, Perlidae) from Jinhuacha Nature Reserve, Guangxi of China

PubMed Central

Wang, Guo–Quan; Li, Wei–Hai; Yang, Juan

2013-01-01

Abstract Two new Neoperla species (Neoperla mesospina, Neoperla latispina) are described from the adult male stage from the Jinhuacha Nature Reserve, Guangxi of China. The new species are compared with similar taxa. Taxonomic remarks are also provided for N. transversprojecta Du & Sivec and N. yao Stark. The latter species is newly recorded for Guangxi. PMID:24294087

Characterization of the Kootenai River Aquatic Macroinvertebrate Community before and after Experimental Nutrient Addition, 2003-2006. [Chapter 3

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

Holderman, Charlie

2009-02-19

The Kootenai River ecosystem has experienced numerous ecological changes since the early 1900s. Some of the largest impacts to habitat, biological communities, and ecological function resulted from levee construction along the 120 km of river upstream from Kootenay Lake, completed by the 1950s, and the construction and operation of Libby Dam, completed in 1972 on the river near Libby Montana. Levee construction isolated tens of thousands of hectares of historic functioning floodplain habitat from the river channel, eliminating nutrient production and habitat diversity crucial to the functioning of a large river-floodplain ecosystem. Libby Dam continues to create large changes inmore » the timing, duration, and magnitude of river flows, and greatly reduces sediment and nutrient transport to downstream river reaches. These changes have contributed to the ecological collapse of the post-development Kootenai River ecosystem and its native biological communities. In response to this artificial loss of nutrients, experimental nutrient addition was initiated in the Kootenay Lake's North Arm in 1992, the South Arm in 2004, and in the Kootenai River at the Idaho-Montana border during 2005. This report characterizes the macroinvertebrate community in the Kootenai River and its response to experimental nutrient addition during 2005 and 2006. This report also provides an initial evaluation of cascading trophic interactions in response to nutrient addition. Macroinvertebrates were sampled at 12 sites along a 325 km section of the Kootenai River, representing an upriver unimpounded reference reach, treatment and control canyon reach sites, and braided and meandering reach sites, all downstream from Libby Dam. Principle component analysis revealed that richness explained the greatest amount of variability in response to nutrient addition as did taxa from Acari, Coleoptera, Ephemeroptera, Plecoptera, and Trichoptera. Analysis of variance revealed that nutrient addition had a

Speciation of selenium in stream insects using X-ray absorption spectroscopy

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

Ruwandi Andrahennadi; Mark Wayland; Ingrid J. Pickering

2007-11-15

Selenium contamination in the environment is a widespread problem affecting insects and other wildlife. Insects occupy a critical middle link and aid in trophic transfer of selenium in many terrestrial and freshwater food chains, but the mechanisms of selenium uptake through the food chain are poorly understood. In particular, biotransformation of selenium by insects into different chemical forms will greatly influence how toxic or benign the selenium is to that organism or to its predators. We have used X-ray absorption spectroscopy (XAS) to identify the chemical form of selenium in insects inhabiting selenium contaminated streams near Hinton, Alberta (Canada). Seleniummore » K near-edge spectra indicate a variability of selenium speciation among the insects that included mayflies (Ephemeroptera), stoneflies (Plecoptera), caddisflies (Trichoptera), and craneflies (Diptera). Higher percentages of inorganic selenium were observed in primary consumers, detritivores, and filter feeders than in predatory insects. Among the organic forms of selenium, organic selenides constituted a major fraction in most organisms. A species modeled as trimethylselenonium was observed during the pupal stage of caddisflies. These results provide insights into how the insects cope with their toxic cargo, including how the selenium is biotransformed into less toxic forms and how it can be eliminated from the insects. More broadly, this study demonstrates the strengths of XAS to probe the effects of heavy elements at trace levels in insects from the field.« less

Speciation of Selenium in Stream Insects Using X-Ray Absorption Spectroscopy

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

Andrahennadi, R.; Wayland, M.; Pickering, I.J.

2009-05-28

Selenium contamination in the environment is a widespread problem affecting insects and other wildlife. Insects occupy a critical middle link and aid in trophic transfer of selenium in many terrestrial and freshwater food chains, but the mechanisms of selenium uptake through the food chain are poorly understood. In particular, biotransformation of selenium by insects into different chemical forms will greatly influence how toxic or benign the selenium is to that organism or to its predators. We have used X-ray absorption spectroscopy (XAS) to identify the chemical form of selenium in insects inhabiting selenium contaminated streams near Hinton, Alberta (Canada). Seleniummore » K near-edge spectra indicate a variability of selenium speciation among the insects that included mayflies (Ephemeroptera), stoneflies (Plecoptera), caddisflies (Trichoptera), and craneflies (Diptera). Higher percentages of inorganic selenium were observed in primary consumers, detritivores, and filter feeders than in predatory insects. Among the organic forms of selenium, organic selenides constituted a major fraction in most organisms. A species modeled as trimethylselenonium was observed during the pupal stage of caddisflies. These results provide insights into how the insects cope with their toxic cargo, including how the selenium is biotransformed into less toxic forms and how it can be eliminated from the insects. More broadly, this study demonstrates the strengths of XAS to probe the effects of heavy elements at trace levels in insects from the field.« less

Functional Process Zones Characterizing Aquatic Insect Communities in Streams of the Brazilian Cerrado.

PubMed

Godoy, B S; Simião-Ferreira, J; Lodi, S; Oliveira, L G

2016-04-01

Stream ecology studies see to understand ecological dynamics in lotic systems. The characterization of streams into Functional Process Zones (FPZ) has been currently debated in stream ecology because aquatic communities respond to functional processes of river segments. Therefore, we tested if different functional process zones have different number of genera and trophic structure using the aquatic insect community of Neotropical streams. We also assessed whether using physical and chemical variables may complement the approach of using FPZ to model communities of aquatic insects in Cerrado streams. This study was conducted in 101 streams or rivers from the central region of the state of Goiás, Brazil. We grouped the streams into six FPZ associated to size of the river system, presence of riparian forest, and riverbed heterogeneity. We used Bayesian models to compare number of genera and relative frequency of the feeding groups between FPZs. Streams classified in different FPZs had a different number of genera, and the largest and best preserved rivers had an average of four additional genera. Trophic structure exhibited low variability among FPZs, with little difference both in the number of genera and in abundance. Using functional process zones in Cerrado streams yielded good results for Ephemeroptera, Plecoptera, and Trichoptera communities. Thus, species distribution and community structure in the river basin account for functional processes and not necessarily for the position of the community along a longitudinal dimension of the lotic system.

Faunistic Study of the Aquatic Arthropods in a Tourism Area in Northern Iran.

PubMed

Shaeghi, Mansoureh; Dehghan, Hossein; Pakdad, Kamran; Nikpour, Fatemeh; Absavaran, Azad; Sofizadeh, Aioub; Akhavan, Amir Ahmad; Vatandoost, Hassan; Aghai-Afshar, Abbass

2017-06-01

Aquatic insects are very abundant and divers groups of insects that are associated with an aquatic or semiaquatic environment in one or more of their life stages. These insects have been, in some cases, well studied because they are vectors of several diseases. This is the first comprehensive faunistic study of aquatic insects from Babol County. The results may provide basic data for further taxonomic and ecological studies of aquatic insects as biological control agent or classification of water quality for the country. The specimens were collected using different methods including: D-frame net collector, standard mosquito dipper (350ml), Sweep-Netting and plastic pipette. Sampling carried out in different part of breading places in several times. During this study a total of 196 aquatic specimens were collected from different habitats and were morphologically identified including 18 families classified in 6 orders: Diptera, Trichoptera, Ephemeroptera, Plecoptera, Hemiptera and Odonata. Babol and Amol district in Mazandaran Province are located in humid climate regions with suitable ecological factors of humidity, moderate temperature and the variety of plant species. There are different species of aquatic insects in different habitats. The results will provide information for biodeveristy, species richness, their role for biological control as well as calcification of rivers based on abundance of aquatic insects. Therefore the understanding of ecological specifications of aquatic insects could provide a clue for further Arthropod-borne disease control. Additionally aquatic insect could be used for classification of water bodies.

Macroinvertebrate Responses to Constructed Riffles in the Cache River, Illinois, USA

NASA Astrophysics Data System (ADS)

Walther, Denise A.; Whiles, Matt R.

2008-04-01

Stream restoration practices are becoming increasingly common, but biological assessments of these improvements are still limited. Rock weirs, a type of constructed riffle, were implemented in the upper Cache River in southern Illinois, USA, in 2001 and 2003-2004 to control channel incision and protect high quality riparian wetlands as part of an extensive watershed-level restoration. Construction of the rock weirs provided an opportunity to examine biological responses to a common in-stream restoration technique. We compared macroinvertebrate assemblages on previously constructed rock weirs and newly constructed weirs to those on snags and scoured clay streambed, the two dominant substrates in the unrestored reaches of the river. We quantitatively sampled macroinvertebrates on these substrates on seven occasions during 2003 and 2004. Ephemeroptera, Plecoptera, and Trichoptera (EPT) biomass and aquatic insect biomass were significantly higher on rock weirs than the streambed for most sample periods. Snags supported intermediate EPT and aquatic insect biomass compared to rock weirs and the streambed. Nonmetric multidimensional scaling (NMDS) ordinations for 2003 and 2004 revealed distinct assemblage groups for rock weirs, snags, and the streambed. Analysis of similarity supported visual interpretation of NMDS plots. All pair-wise substrate comparisons differed significantly, except recently constructed weirs versus older weirs. Results indicate positive responses by macroinvertebrate assemblages to in-stream restoration in the Cache River. Moreover, these responses were not evident with more common measures of total density, biomass, and diversity.

Bioassessment in nonperennial streams: Hydrologic stability influences assessment validity

NASA Astrophysics Data System (ADS)

Mazor, R. D.; Stein, E. D.; Schiff, K.; Ode, P.; Rehn, A.

2011-12-01

Nonperennial streams pose a challenge for bioassessment, as assessment tools developed in perennial streams may not work in these systems. For example, indices of biotic integrity (IBIs) developed in perennial streams may give improper indications of impairment in nonperennial streams, or may be unstable. We sampled benthic macroinvertebrates from 12 nonperennial streams in southern California. In addition, we deployed loggers to obtain continuous measures of flow. 3 sites were revisited over 2 years. For each site, we calculated several metrics, IBIs, and O/E scores to determine if assessments were consistent and valid throughout the summer. Hydrology varied widely among the streams, with several streams drying between sampling events. IBIs suggested good ecological health at the beginning of the study, but declined sharply at some sites. Multivariate ordination suggested that, despite differences among sites, changes in community structure were similar, with shifts from Ephemeroptera, Plecoptera, and Trichoptera to Coleoptera and more tolerant organisms. Site revisits revealed a surprising level of variability, as 2 of the 3 revisited sites had perennial or near-perennial flow in the second year of sampling. IBI scores were more consistent in streams with stable hydrographs than in those with strongly intermittent hydrographs. These results suggest that nonperennial streams can be monitored successfully, but they may require short index periods and distinct metrics from those used in perennial streams. In addition, better approaches to mapping nonperennial streams are required.

Setting limits: The development and use of factor-ceiling distributions for an urban assessment using macroinvertebrates

USGS Publications Warehouse

Carter, J.L.; Fend, S.V.

2005-01-01

Lotic habitats in urban settings are often more modified than in other anthropogenically influenced areas. The extent, degree, and permanency of these modifications compromise the use of traditional reference-based study designs to evaluate the level of lotic impairment and establish restoration goals. Directly relating biological responses to the combined effects of urbanization is further complicated by the nonlinear response often observed in common metrics (e.g., Ephemeroptera, Plecoptera, and Trichoptera [EPT] species richness) to measures of human influence (e.g., percentage urban land cover). A characteristic polygonal biological response often arises from the presence of a generalized limiting factor (i.e., urban land use) plus the influence of multiple additional stressors that are nonuniformly distributed throughout the urban environment. Benthic macroinvertebrates, on-site physical habitat and chemistry, and geographical information systems-derived land cover data for 85 sites were collected within the 1,600-km2 Santa Clara Valley (SCV), California urban area. A biological indicator value was derived from EPT richness and percentage EPT. Partitioned regression was used to define reference conditions and estimate the degree of site impairment. We propose that an upper-boundary condition (factor-ceiling) modeled by partitioned regression using ordinary least squares represents an attainable upper limit for biological condition in the SCV area. Indicator values greater than the factor-ceiling, which is monotonically related to existing land use, are considered representative of reference conditions under the current habitat conditions imposed by existing land cover and land use.

An annotated list of the mayflies, stoneflies, and caddisflies of the Sand Creek basin, Great Sand Dunes National Park and Preserve, Colorado, 2004 and 2005

USGS Publications Warehouse

Zuellig, Robert E.; Kondratieff, Boris C.; Ruiter, David E.; Thorp, Richard A.

2006-01-01

The U.S. Geological Survey, in conjunction with the Great Sand Dunes National Park and Preserve and its cooperators, did an extensive inventory of certain targeted aquatic-insect groups in the Sand Creek Basin, Great Sand Dunes National Park and Preserve, to establish a species list for future monitoring efforts. Study sites were established to monitor these groups following disturbance events. Such potential disturbances may include, but are not limited to, chemical treatment of perennial stream reaches to remove nonnative fishes and the subsequent reintroduction of native fish species, increased public use of backcountry habitat (such as hiking and fishing), and natural disturbances such as fire. This report is an annotated list of the mayflies, stoneflies, and caddisflies found in the Sand Creek Basin, Great Sand Dunes National Park and Preserve, 2004 and 2005. The primary objective of the study was to qualitatively inventory target aquatic-insect groups in perennial streams, and selected unique standing-water habitats, such as springs, and wetlands associated with the Sand Creek Basin. Efforts focused on documenting the presence of aquatic-insect species within the following taxonomic groups: Ephemeroptera (mayflies), Plecoptera (stoneflies), and Trichoptera (caddisflies). These insect orders were chosen because published species accounts, geographic distribution, and identification keys exist for many Colorado species. Given the extent of available information for these groups, there existed a potential for identifying new species and documenting range extensions of known species.

Predicted macroinvertebrate response to water diversion from a montane stream using two-dimensional hydrodynamic models and zero flow approximation

USGS Publications Warehouse

Holmquist, Jeffrey G.; Waddle, Terry J.

2013-01-01

We used two-dimensional hydrodynamic models for the assessment of water diversion effects on benthic macroinvertebrates and associated habitat in a montane stream in Yosemite National Park, Sierra Nevada Mountains, CA, USA. We sampled the macroinvertebrate assemblage via Surber sampling, recorded detailed measurements of bed topography and flow, and coupled a two-dimensional hydrodynamic model with macroinvertebrate indicators to assess habitat across a range of low flows in 2010 and representative past years. We also made zero flow approximations to assess response of fauna to extreme conditions. The fauna of this montane reach had a higher percentage of Ephemeroptera, Plecoptera, and Trichoptera (%EPT) than might be expected given the relatively low faunal diversity of the study reach. The modeled responses of wetted area and area-weighted macroinvertebrate metrics to decreasing discharge indicated precipitous declines in metrics as flows approached zero. Changes in area-weighted metrics closely approximated patterns observed for wetted area, i.e., area-weighted invertebrate metrics contributed relatively little additional information above that yielded by wetted area alone. Loss of habitat area in this montane stream appears to be a greater threat than reductions in velocity and depth or changes in substrate, and the modeled patterns observed across years support this conclusion. Our models suggest that step function losses of wetted area may begin when discharge in the Merced falls to 0.02 m3/s; proportionally reducing diversions when this threshold is reached will likely reduce impacts in low flow years.

Macroinvertebrate biomonitoring in intermittent coastal plain streams impacted by animal agriculture.

PubMed

Davis, Stephanie; Golladay, Stephen W; Vellidis, George; Pringle, Catherine M

2003-01-01

Little attention has been given to the ecology of intermittent coastal plain streams in the southeastern United States, and it is not known whether available macroinvertebrate biomonitoring methods reliably detect degradation in these streams. This study compared differences in biomonitoring metrics between reference and agricultural streams, and between the flow period (January-April) and the intermittent flow period (May-December). Percentages of crustaceans, isopods, and Ephemeroptera-Plecoptera-Trichoptera (EPT) were significantly higher at the reference site than the two most impacted sites during the flow period, probably resulting from the abundance of leaf litter and lower temperatures. During this same period, the agriculturally impacted sites had a significantly higher percentage of dipterans--a group that thrives in the silty, nutrient-rich waters. Four metrics (percent Crustacea, Isopoda, Diptera, and EPT) had no overlap between values for the most impacted and the least impacted sites during the flow period, but no metrics were able to detect more discrete differences among sites. Sites were physically and biologically similar during the intermittent period when natural stresses (i.e., stagnant water, high temperatures, low dissolved oxygen) were high, with many metrics, such as percentages of dominant family, burrowers, chironomids, and dipterans becoming similar at all sites. Our findings indicate that development of a better understanding of invertebrate fauna in reference conditions and of the natural variation in intermittent streams is necessary to develop effective biomonitoring programs for these systems.

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

PubMed

Zerlin, R A; Henry, R

2014-05-01

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

Do the rich get richer? Varying effects of tree species identity and diversity on the richness of understory taxa

USGS Publications Warehouse

Champagne, Juilette; Paine, C. E. Timothy; Schoolmaster, Donald; Stejskal, Robert; Volařík, Daniel; Šebesta, Jan; Trnka, Filip; Koutecký, Tomáš; Švarc, Petr; Svátek, Martin; Hector, Andy; Matula, Radim

2016-01-01

Understory herbs and soil invertebrates play key roles in soil formation and nutrient cycling in forests. Studies suggest that diversity in the canopy and in the understory are positively associated, but these studies often confound the effects of tree species diversity with those of tree species identity and abiotic conditions. We combined extensive field sampling with structural equation modeling to evaluate the simultaneous effects of tree diversity on the species diversity of understory herbs, beetles, and earthworms. The diversity of earthworms and saproxylic beetles was directly and positively associated with tree diversity, presumably because species of both these taxa specialize on certain species of trees. Tree identity also strongly affected diversity in the understory, especially for herbs, likely as a result of interspecific differences in canopy light transmittance or litter decomposition rates. Our results suggest that changes in forest management will disproportionately affect certain understory taxa. For instance, changes in canopy diversity will affect the diversity of earthworms and saproxylic beetles more than changes in tree species composition, whereas the converse would be expected for understory herbs and detritivorous beetles. We conclude that the effects of tree diversity on understory taxa can vary from positive to negative and may affect biogeochemical cycling in temperate forests. Thus, maintaining high diversity in temperate forests can promote the diversity of multiple taxa in the understory.

Do the rich get richer? Varying effects of tree species identity and diversity on the richness of understory taxa.

PubMed

Chamagne, Juliette; Paine, C E Timothy; Schoolmaster, Donald R; Stejskal, Robert; Volarřík, Daniel; Šebesta, Jan; Trnka, Filip; Koutecký, Tomáš; Švarc, Petr; Svátek, Martin; Hector, Andy; Matula, Radim

2016-09-01

Understory herbs and soil invertebrates play key roles in soil formation and nutrient cycling in forests. Studies suggest that diversity in the canopy and in the understory are positively associated, but these studies often confound the effects of tree species diversity with those of tree species identity and abiotic conditions. We combined extensive field sampling with structural equation modeling to evaluate the simultaneous effects of tree diversity on the species diversity of understory herbs, beetles, and earthworms. The diversity of earthworms and saproxylic beetles was directly and positively associated with tree diversity, presumably because species of both these taxa specialize on certain species of trees. Tree identity also strongly affected diversity in the understory, especially for herbs, likely as a result of interspecific differences in canopy light transmittance or litter decomposition rates. Our results suggest that changes in forest management will disproportionately affect certain understory taxa. For instance, changes in canopy diversity will affect the diversity of earthworms and saproxylic beetles more than changes in tree species composition, whereas the converse would be expected for understory herbs and detritivorous beetles. We conclude that the effects of tree diversity on understory taxa can vary from positive to negative and may affect biogeochemical cycling in temperate forests. Thus, maintaining high diversity in temperate forests can promote the diversity of multiple taxa in the understory. © 2016 by the Ecological Society of America.

New light on names and naming of dark taxa

PubMed Central

Ryberg, Martin; Nilsson, R. Henrik

2018-01-01

Abstract A growing proportion of fungal species and lineages are known only from sequence data and cannot be linked to any physical specimen or resolved taxonomic name. Such fungi are often referred to as “dark taxa” or “dark matter fungi”. As they lack a taxonomic identity in the form of a name, they are regularly ignored in many important contexts, for example in legalisation and species counts. It is therefore very urgent to find a system to also deal with these fungi. Here, issues relating to the taxonomy and nomenclature of dark taxa are discussed and a number of questions that the mycological community needs to consider before deciding on what system/s to implement are highlighted. PMID:29681731

Nuclear DNA content and base composition in 28 taxa of Musa.

PubMed

Kamaté, K; Brown, S; Durand, P; Bureau, J M; De Nay, D; Trinh, T H

2001-08-01

The nuclear DNA content of 28 taxa of Musa was assessed by flow cytometry, using line PxPC6 of Petunia hybrida as an internal standard. The 2C DNA value of Musa balbisiana (BB genome) was 1.16 pg, whereas Musa acuminata (AA genome) had an average 2C DNA value of 1.27 pg, with a difference of 11% between its subspecies. The two haploid (IC) genomes, A and B, comprising most of the edible bananas, are therefore of similar size, 0.63 pg (610 million bp) and 0.58 pg (560 million bp), respectively. The genome of diploid Musa is thus threefold that of Arabidopsis thaliana. The genome sizes in a set of triploid Musa cultivars or clones were quite different, with 2C DNA values ranging from 1.61 to 2.23 pg. Likewise, the genome sizes of tetraploid cultivars ranged from 1.94 to 2.37 pg (2C). Apparently, tetraploids (for instance, accession I.C.2) can have a genome size that falls within the range of triploid genome sizes, and vice versa (as in the case of accession Simili Radjah). The 2C values estimated for organs such as leaf, leaf sheath, rhizome, and flower were consistent, whereas root material gave atypical results, owing to browning. The genomic base composition of these Musa taxa had a median value of 40.8% GC (SD = 0.43%).

Dominant plant taxa predict plant productivity responses to CO 2 enrichment across precipitation and soil gradients

DOE PAGES

Fay, Philip A.; Newingham, Beth A.; Polley, H. Wayne; ...

2015-03-30

The Earth’s atmosphere will continue to be enriched with carbon dioxide (CO 2) over the coming century. Carbon dioxide enrichment often reduces leaf transpiration, which in water-limited ecosystems may increase soil water content, change species abundances and increase the productivity of plant communities. The effect of increased soil water on community productivity and community change may be greater in ecosystems with lower precipitation, or on coarser-textured soils, but responses are likely absent in deserts. We tested correlations among yearly increases in soil water content, community change and community plant productivity responses to CO 2 enrichment in experiments in a mesicmore » grassland with fine- to coarse-textured soils, a semi-arid grassland and a xeric shrubland. We found no correlation between CO 2-caused changes in soil water content and changes in biomass of dominant plant taxa or total community aboveground biomass in either grassland type or on any soil in the mesic grassland (P > 0.60). Instead, increases in dominant taxa biomass explained up to 85% of the increases in total community biomass under CO 2 enrichment. The effect of community change on community productivity was stronger in the semi-arid grassland than in the mesic grassland,where community biomass change on one soil was not correlated with the change in either the soil water content or the dominant taxa. No sustained increases in soil water content or community productivity and no change in dominant plant taxa occurred in the xeric shrubland. Thus, community change was a crucial driver of community productivity responses to CO 2 enrichment in the grasslands, but effects of soil water change on productivity were not evident in yearly responses to CO 2 enrichment. In conclusion, future research is necessary to isolate and clarify the mechanisms controlling the temporal and spatial variations in the linkages among soil water, community change and plant productivity responses

Diversity and distribution of mayflies (Ephemeroptera), stoneflies (Plecoptera), and caddisflies (Trichoptera) of the South Platte River Basin, Colorado, Nebraska, and Wyoming, 1873-2010

USGS Publications Warehouse

Zuellig, Robert E.; Heinold, Brian D.; Kondratieff, Boris C.; Ruiter, David E.

2012-01-01

The U.S. Geological Survey, in cooperation with the C.P. Gillette Museum of Arthropod Diversity (Colorado State University, Fort Collins, Colorado), compiled collection record data to document the historical and present-day occurrence of mayfly, stonefly, and caddisfly species in the South Platte River Basin. Data were compiled from records collected between 1873 and 2010 to identify where regional knowledge about species occurrence in the basin is lacking and to encourage future researchers to locate additional populations of these poorly understood but very important organisms. This report provides a description of how data were compiled, a map of approximate collection locations, a listing of the most recent collection records from unique locations, general remarks for each species, a species list with selected summary information, and distribution maps of species collection records.

Chemical composition and antioxidant activity of essential oil of six pinus taxa native to China.

PubMed

Xie, Qing; Liu, Zhihong; Li, Zhouqi

2015-05-21

The essential oils obtained by steam distillation from needles of six China endemic Pinus taxa (P. tabulaeformis, P. tabulaeformis f. shekanensis, P. tabulaeformis var. mukdensis, P. tabulaeformis var. umbraculifera, P. henryi and P. massoniana) were analysed by GC/MS. A total of 72 components were separated and identified by GC/MS from the six taxa. The major constituents of the essential oils were: α-pinene (6.78%-20.55%), bornyl acetale (3.32%-12.71%), β-caryophellene (18.26%-26.31%), α-guaiene (1.23%-8.19%), and germacrene D (1.26%-9.93%). Moreover, the essential oils were evaluated for antioxidant potential by three assays (DPPH, FRAP and ABTS) and tested for their total phenolic content. The results showed that all essential oils exhibited acceptable antioxidant activities and these strongly suggest that these pine needles may serve as a potential source of natural antioxidants for food and medical purposes.

Cambro-ordovician sea-level fluctuations and sequence boundaries: The missing record and the evolution of new taxa

USGS Publications Warehouse

Lehnert, O.; Miller, J.F.; Leslie, Stephen A.; Repetski, J.E.; Ethington, Raymond L.

2005-01-01

The evolution of early Palaeozoic conodont faunas shows a clear connection to sea-level changes. One way that this connection manifests itself is that thick successions of carbonates are missing beneath major sequence boundaries due to karstification and erosion. From this observation arises the question of how many taxa have been lost from different conodont lineages in these incomplete successions. Although many taxa suffered extinction due to the environmental stresses associated with falling sea-levels, some must have survived in these extreme conditions. The number of taxa missing in the early Palaeozoic tropics always will be unclear, but it will be even more difficult to evaluate the missing record in detrital successions of higher latitudes. A common pattern in the evolution of Cambrian-Ordovician conodont lineages is appearances of new species at sea-level rises and disappearances at sea-level drops. This simple picture can be complicated by intervals that consistently have no representatives of a particular lineage, even after extensive sampling of the most complete sections. Presumably the lineages survived in undocumented refugia. In this paper, we give examples of evolution in Cambrian-Ordovician shallowmarine conodont faunas and highlight problems of undiscovered or truly missing segments of lineages. ?? The Palaeontological Association.

Stoneflies of the genus Neoperla (Plecoptera, Perlidae) from Wuyi Mountain National Nature Reserve, Fujian of China

PubMed Central

Qin, Xue-Feng; Murányi, Dávid; Wang, Guo-Quan; Li, Wei-Hai

2013-01-01

Abstract The species of the genus Neoperla are reviewed from Wuyi Mountain National Nature Reserve located in the Fujian Province of southeastern China, including the description of a new species, Neoperla brevistyla sp. n. The new species is compared to similar taxa. The first records of five Neoperla species, Neoperla henana Li, Wu & Zhang, 2011, Neoperla similiserecta Wang & Li, 2012, Neoperla qingyuanensis Yang & Yang, 1995, Neoperla xuansongae Li & Li, 2013 and Neoperla tuberculata Wu, 1938 are given for the Wuyi Mountain. A provisional key is provided for facilitating the identification of these species. PMID:24039532

Stoneflies of the genus Neoperla (Plecoptera, Perlidae) from Wuyi Mountain National Nature Reserve, Fujian of China.

PubMed

Qin, Xue-Feng; Murányi, Dávid; Wang, Guo-Quan; Li, Wei-Hai

2013-01-01

The species of the genus Neoperla are reviewed from Wuyi Mountain National Nature Reserve located in the Fujian Province of southeastern China, including the description of a new species, Neoperla brevistyla sp. n. The new species is compared to similar taxa. The first records of five Neoperla species, Neoperla henana Li, Wu & Zhang, 2011, Neoperla similiserecta Wang & Li, 2012, Neoperla qingyuanensis Yang & Yang, 1995, Neoperla xuansongae Li & Li, 2013 and Neoperla tuberculata Wu, 1938 are given for the Wuyi Mountain. A provisional key is provided for facilitating the identification of these species.

Ribosomal RNA gene detection and targeted culture of novel nitrogen-responsive fungal taxa from temperate pine forest soil.

PubMed

Hesse, Cedar N; Torres-Cruz, Terry J; Tobias, Terri Billingsley; Al-Matruk, Maryam; Porras-Alfaro, Andrea; Kuske, Cheryl R

Soil fungal communities are responsible for carbon and nitrogen (N) cycling. The high complexity of the soil fungal community and the high proportion of taxonomically unidentifiable sequences confound ecological interpretations in field studies because physiological information is lacking for many organisms known only by their rRNA sequences. This situation forces experimental comparisons to be made at broader taxonomic racks where functions become difficult to infer. The objective of this study was to determine OTU (operational taxonomic units) level responses of the soil fungal community to N enrichment in a temperate pine forest experiment and to use the sequencing data to guide culture efforts of novel N-responsive fungal taxa. Replicate samples from four soil horizons (up to 10 cm depth) were obtained from ambient, enriched CO 2 and N-fertilization plots. Through a fungal large subunit rRNA gene (LSU) sequencing survey, we identified two novel fungal clades that were abundant in our soil sampling (representing up to 27% of the sequences in some samples) and responsive to changes in soil N. The two N-responsive taxa with no predicted taxonomic association were targeted for isolation and culturing from specific soil samples where their sequences were abundant. Representatives of both OTUs were successfully cultured using a filtration approach. One taxon (OTU6) was most closely related to Saccharomycotina; the second taxon (OTU69) was most closely related to Mucoromycotina. Both taxa likely represent novel species. This study shows how observation of specific OTUs level responses to altered N status in a large rRNA gene field survey provided the impetus to design targeted culture approaches for isolation of novel N-responsive fungal taxa.

Transposable elements in sexual and ancient asexual taxa

PubMed Central

Arkhipova, Irina; Meselson, Matthew

2000-01-01

Sexual reproduction allows deleterious transposable elements to proliferate in populations, whereas the loss of sex, by preventing their spread, has been predicted eventually to result in a population free of such elements [Hickey, D. A. (1982) Genetics 101, 519–531]. We tested this expectation by screening representatives of a majority of animal phyla for LINE-like and gypsy-like reverse transcriptases and mariner/Tc1-like transposases. All species tested positive for reverse transcriptases except rotifers of the class Bdelloidea, the largest eukaryotic taxon in which males, hermaphrodites, and meiosis are unknown and for which ancient asexuality is supported by molecular genetic evidence. Mariner-like transposases are distributed sporadically among species and are present in bdelloid rotifers. The remarkable lack of LINE-like and gypsy-like retrotransposons in bdelloids and their ubiquitous presence in other taxa support the view that eukaryotic retrotransposons are sexually transmitted nuclear parasites and that bdelloid rotifers evolved asexually. PMID:11121049

Host-specificity among abundant and rare taxa in the sponge microbiome.

PubMed

Reveillaud, Julie; Maignien, Loïs; Murat Eren, A; Huber, Julie A; Apprill, Amy; Sogin, Mitchell L; Vanreusel, Ann

2014-06-01

Microbial communities have a key role in the physiology of the sponge host, and it is therefore essential to understand the stability and specificity of sponge-symbiont associations. Host-specific bacterial associations spanning large geographic distance are widely acknowledged in sponges. However, the full spectrum of specificity remains unclear. In particular, it is not known whether closely related sponges host similar or very different microbiota over wide bathymetric and geographic gradients, and whether specific associations extend to the rare members of the sponge microbiome. Using the ultra-deep Illumina sequencing technology, we conducted a comparison of sponge bacterial communities in seven closely related Hexadella species with a well-resolved host phylogeny, as well as of a distantly related sponge Mycale. These samples spanned unprecedentedly large bathymetric (15-960 m) gradients and varying European locations. In addition, this study included a bacterial community analysis of the local background seawater for both Mycale and the widespread deep-sea taxa Hexadella cf. dedritifera. We observed a striking diversity of microbes associated with the sponges, spanning 47 bacterial phyla. The data did not reveal any Hexadella microbiota co-speciation pattern, but confirmed sponge-specific and species-specific host-bacteria associations, even within extremely low abundant taxa. Oligotyping analysis also revealed differential enrichment preferences of closely related Nitrospira members in closely related sponges species. Overall, these results demonstrate highly diverse, remarkably specific and stable sponge-bacteria associations that extend to members of the rare biosphere at a very fine phylogenetic scale, over significant geographic and bathymetric gradients.

prepare_taxa_charts.py: A Python program to automate generation of publication ready taxonomic pie chart images from QIIME.

PubMed

Lakhujani, Vijay; Badapanda, Chandan

2017-06-01

QIIME (Quantitative Insights Into Microbial Ecology) is one of the most popular open-source bioinformatics suite for performing metagenome, 16S rRNA amplicon and Internal Transcribed Spacer (ITS) data analysis. Although, it is very comprehensive and powerful tool, it lacks a method to provide publication ready taxonomic pie charts. The script plot_taxa_summary . py bundled with QIIME generate a html file and a folder containing taxonomic pie chart and legend as separate images. The images have randomly generated alphanumeric names. Therefore, it is difficult to associate the pie chart with the legend and the corresponding sample identifier. Even if the option to have the legend within the html file is selected while executing plot_taxa_summary . py , it is very tedious to crop a complete image (having both the pie chart and the legend) due to unequal image sizes. It requires a lot of time to manually prepare the pie charts for multiple samples for publication purpose. Moreover, there are chances of error while identifying the pie chart and legend pair due to random alphanumeric names of the images. To bypass all these bottlenecks and make this process efficient, we have developed a python based program, prepare_taxa_charts . py , to automate the renaming, cropping and merging of taxonomic pie chart and corresponding legend image into a single, good quality publication ready image. This program not only augments the functionality of plot_taxa_summary . py but is also very fast in terms of CPU time and user friendly.

Diversity of kelp holdfast-associated fauna in an Arctic fjord - inconsistent responses to glacial mineral sedimentation across different taxa

NASA Astrophysics Data System (ADS)

Ronowicz, Marta; Kukliński, Piotr; Włodarska-Kowalczuk, Maria

2018-05-01

Kelp forests are complex underwater habitats that support diverse assemblages of animals ranging from sessile filter feeding invertebrates to fishes and marine mammals. In this study, the diversity of invertebrate fauna associated with kelp holdfasts was surveyed in a high Arctic glacial fjord (76 N, Hornsund, Svalbard). The effects of algal host identity (three kelp species: Laminaria digitata, Saccharina latissima and Alaria esculenta), depth (5 and 10 m) and glacier-derived disturbance (three sites with varying levels of mineral sedimentation) on faunal species richness and composition were studied based on 239 collected algal holdfasts. The species pool was mostly made up by three taxa: colonial Bryozoa and Hydrozoa, and Polychaeta. While the all-taxa species richness did not differ between depths, algal hosts and sites, the patterns varied when the two colonial sessile filter-feeding taxa were analysed alone (Hydrozoa and Bryozoa). The Hydrozoa sample species richness and average taxonomic distinctness were the highest at undisturbed sites, whereas Bryozoa species richness was higher in sediment-impacted localities, indicating relative insensitivity of this phylum to the increased level of mineral suspension in the water column. The average taxonomic distinctness of Bryozoa did not vary between sites. The species composition of kelp-associated fauna varied between sites and depths for the whole community and the most dominant taxa (Bryozoa, Hydrozoa). The high load of inorganic suspension and sedimentation did not cause pauperization of kelp holdfast-associated fauna but instead triggered the changes in species composition and shifts between dominant taxonomic groups.

Description of two new Capnia species (Plecoptera: Capniidae) from the Hengduan Mountains of southwestern China.

PubMed

Chen, Zhi-Teng; DU, Yu-Zhou

2017-06-07

Two new species of the genus Capnia from the Hengduan Mountains of southwestern China, C. oblata sp. nov. and C. xiei sp. nov. are described and illustrated as new members of the C. cordata Kimmins species group. Capnia oblata sp. nov. is characterized by posteromedial process of tergum 9 connecting antecosta with the medial sclerite bar. Capnia xiei sp. nov. is characterized by main epiproct sclerite bifurcate apically and basally with a bilamellar structure. The new species are compared with similar taxa.

A rare and cryptic endemic of the Central Rocky Mountains, U.S.A: The distribution of the Arapahoe snowfly, Arsapnia arapahoe (Nelson & Kondratieff, 1988) (Plecoptera: Capniidae)

USGS Publications Warehouse

Fairchild, Matthew P.; Belcher, Thomas P.; Zuellig, Robert E.; Vieira, Nicole K.M.; Kondratieff, Boris C.

2017-01-01

The Arapahoe snowfly, Arsapnia arapahoe (Nelson & Kondratieff, 1988) (Plecoptera: Capniidae) is a candidate species warranted for listing under the Endangered Species Act. Prior to this study, A. arapahoe was known from only two tributaries of the Cache la Poudre River in Larimer County, Colorado: Young Gulch and Elkhorn Creek. The objectives of this study were to determine the distribution of this endemic stonefly, and to identify sympatric species as possible surrogate indicators of its occurrence. Eighty-four streams were sampled within the expected geographical range and emergence time-period from 2013 to 2017. Adults of A. arapahoe were discovered in 19 first-, second-, and fourth-order streams beyond the original type localities tributary to the Cache la Poudre River. The new and recently recorded localities were discovered in the Big Thompson River, St. Vrain River, Boulder Creek, and Upper South Platte River Watersheds. Two species, A. decepta (Banks, 1897) and Capnia gracilaria Claassen, 1924, always co-occurred with A. arapahoe, suggesting this species pair may serve as a surrogate indicator of suitable stream habitat for A. arapahoe. Suggestions for future investigation into the distribution, life-history, and habitat of A. arapahoe are presented to aid the conservation of this rare and endemic Colorado stonefly.

Preliminary assessment of biogeographic affinities of selected insect taxa of the state of Sonora, Mexico

Treesearch

Robert W. Jones; Alejandro Obregon-Zuniga; Sandra Guzman-Rodriguez

2013-01-01

The biogeographic affinites of butterflies (Lepidoptera: Papilionoidea and Hesperidae), damsel and dragonflies (Odonata), and ants (Hymenoptera: Formicidae) reported from the State of Sonora, Mexico were analyzed using published species lists. The combined distribution of these taxa was proportionally greater (47.4%) for those species within the Mega-Mexico3...

Distribution of fish, benthic invertebrate, and algal communities in relation to physical and chemical conditions, Yakima River basin, Washington, 1990

USGS Publications Warehouse

Cuffney, T.F.; Meador, M.R.; Porter, S.D.; Gurtz, M.E.

1997-01-01

Biological investigations were conducted in the Yakima River Basin, Washington, in conjunction with a pilot study for the U.S. Geological Survey's National Water-Quality Assessment Program. Ecological surveys were conducted at 25 sites in 1990 to (1) assess water-quality conditions based on fish, benthic invertebrate, and algal communities; (2) determine the hydrologic, habitat, and chemical factors that affect the distributions of these organisms; and (3) relate physical and chemical conditions to water quality. Results of these investigations showed that land uses and other associated human activities influenced the biological characteristics of streams and rivers and overall water-quality conditions. Fish communities of headwater streams in the Cascades and Eastern Cascades ecoregions of the Yakima River Basin were primarily composed of salmonids and sculpins, with cyprinids dominating in the rest of the basin. The most common of the 33 fish taxa collected were speckled dace, rainbow trout, and Paiute sculpin. The highest number of taxa (193) was found among the inverte- brates. Insects, particularly sensitive forms such as mayflies, stoneflies, and caddisflies (EPT--Ephemeroptera, Plecoptera, and Trichoptera fauna), formed the majority of the invertebrate communities of the Cascades and Eastern Cascades ecoregions. Diatoms dominated algal communities throughout the basin; 134 algal taxa were found on submerged rocks, but other stream microhabitats were not sampled as part of the study. Sensitive red algae and diatoms were predominant in the Cascades and Eastern Cascades ecoregions, whereas the abundance of eutrophic diatoms and green algae was large in the Columbia Basin ecoregion of the Yakima River Basin. Ordination of physical, chemical, and biological site characteristics indicated that elevation was the dominant factor accounting for the distribution of biota in the Yakima River Basin; agricultural intensity and stream size were of secondary importance

HEXT, a software supporting tree-based screens for hybrid taxa in multilocus data sets, and an evaluation of the homoplasy excess test.

PubMed

Schneider, Kevin; Koblmüller, Stephan; Sefc, Kristina M

2015-11-11

The homoplasy excess test (HET) is a tree-based screen for hybrid taxa in multilocus nuclear phylogenies. Homoplasy between a hybrid taxon and the clades containing the parental taxa reduces bootstrap support in the tree. The HET is based on the expectation that excluding the hybrid taxon from the data set increases the bootstrap support for the parental clades, whereas excluding non-hybrid taxa has little effect on statistical node support. To carry out a HET, bootstrap trees are calculated with taxon-jackknife data sets, that is excluding one taxon (species, population) at a time. Excess increase in bootstrap support for certain nodes upon exclusion of a particular taxon indicates the hybrid (the excluded taxon) and its parents (the clades with increased support).We introduce a new software program, hext, which generates the taxon-jackknife data sets, runs the bootstrap tree calculations, and identifies excess bootstrap increases as outlier values in boxplot graphs. hext is written in r language and accepts binary data (0/1; e.g. AFLP) as well as co-dominant SNP and genotype data.We demonstrate the usefulness of hext in large SNP data sets containing putative hybrids and their parents. For instance, using published data of the genus Vitis (~6,000 SNP loci), hext output supports V. × champinii as a hybrid between V. rupestris and V. mustangensis .With simulated SNP and AFLP data sets, excess increases in bootstrap support were not always connected with the hybrid taxon (false positives), whereas the expected bootstrap signal failed to appear on several occasions (false negatives). Potential causes for both types of spurious results are discussed.With both empirical and simulated data sets, the taxon-jackknife output generated by hext provided additional signatures of hybrid taxa, including changes in tree topology across trees, consistent effects of exclusions of the hybrid and the parent taxa, and moderate (rather than excessive) increases in bootstrap support

Diversity, specificity, co-occurrence and hub taxa of the bacterial-fungal pollen microbiome.

PubMed

Manirajan, Binoy Ambika; Maisinger, Corinna; Ratering, Stefan; Rusch, Volker; Schwiertz, Andreas; Cardinale, Massimiliano; Schnell, Sylvia

2018-06-06

Flower pollen represents a unique microbial habitat, however the factors driving microbial assemblages and microbe-microbe interactions remain largely unexplored. Here we compared the structure and diversity of the bacterial-fungal microbiome between eight different pollen species (four wind-pollinated and four insect-pollinated) from close geographical locations, using high-throughput sequencing of a 16S the rRNA gene fragment (bacteria) and the internal transcribed spacer 2 (ITS2, fungi). Proteobacteria and Ascomycota were the most abundant bacterial and fungal phyla, respectively. Pseudomonas (bacterial) and Cladosporium (fungal) were the most abundant genera. Both bacterial and fungal microbiota were significantly influenced by plant species and pollination type, but showed a core microbiome consisting of 12 bacterial and 33 fungal genera. Co-occurrence analysis highlighted significant inter- and intra-kingdom interactions, and the interaction network was shaped by four bacterial hub taxa: Methylobacterium (two OTUs), Friedmanniella and Rosenbergiella. Rosenbergiella prevailed in insect-pollinated pollen and was negatively correlated with the other hubs, indicating habitat complementarity. Inter-kingdom co-occurrence showed a predominant effect of fungal on bacterial taxa. This study enhances our basic knowledge of pollen microbiota, and poses the basis for further inter- and intra-kingdom interaction studies in the plant reproductive organs.

Taxonomic significance of leaf micromorphology in some selected taxa of Acanthaceae (Peninsular Malaysia)

NASA Astrophysics Data System (ADS)

Nurul-Aini, C. A. C.; Noraini, T.; Latiff, A.; Amirul-Aiman, A. J.; Ruzi, A. R.; Idris, S.

2014-09-01

Comparative leaf micromorphology study was conducted in eight taxa of Acanthaceae from Peninsular Malaysia. Eight chosen taxa were Acanthus ebracteatus Vahl, A. ilicifolius L., A. volubilis Wall, A. montanus T. Anderson, Andrographis paniculata (Burm.f.) Wall. ex Nees, Asystasia gangetica subsp. micrantha (Nees) Ensermu, Chroesthes longifolia (Wight) B. Hansen and Peristrophe roxburghiana (Schult.) Bremek. The objective of this study was to identify the leaf micromorphological characteristics that can be used in species identification and also as supportive data in classification. The procedures involved such as dehydration, critical point drying, gold coated and examination under scanning electron microscope. Findings in this study have demonstrated the similarities and variations in leaf micromorphological characteristics such as in type of epicuticular waxes, cuticular ornamentations, stomata characteristics and in the presence of trichomes. Six types of epicuticular waxes and five types of trichomes were observed. Variations in cuticular ornamentations and stomata structure can be used to differentiate species. One diagnostic character was found and proven to be very useful to identify Acanthus via the presence of simple trichomes (short-conicle like). In conclusion, the results of this study have shown that leaf micromorphological characteristics have taxonomic significance that can be useful in classifications and identification especially at species level.

The wild taxa utilized as vegetables in Sicily (Italy): a traditional component of the Mediterranean diet.

PubMed

Geraci, Anna; Amato, Filippo; Di Noto, Giuseppe; Bazan, Giuseppe; Schicchi, Rosario

2018-02-14

Wild vegetables in the Mediterranean Basin are still often consumed as a part of the diet and, in particular, there is a great tradition regarding their use in Sicily. In this study, an ethnobotanical field investigation was carried out to (a) identify the wild native taxa traditionally gathered and consumed as vegetables in Sicily, comparing the collected ethnobotanical data with those of other countries that have nominated the Mediterranean diet for inclusion in the UNESCO Representative List of the Intangible Cultural Heritage of Humanity and (b) highlight new culinary uses of these plants. Interviews were carried out in 187 towns and villages in Sicily between 2005 and 2015. A total of 980 people over the age of 50 were interviewed (mainly farmers, shepherds, and experts on local traditions). Plants recorded were usually collected in collaboration with the informants to confirm the correct identification of the plants. The frequencies of citation were calculated. Two hundred fifty-three taxa (specific and intraspecific) belonging to 39 families, and 128 genera were recorded (26 were cited for the first time). The most represented families were Asteraceae, Brassicaceae, Apiaceae, Amaryllidaceae, Malvaceae, and Polygonaceae. Only 14 taxa were cited by 75% of the people interviewed. The aerial parts of wild plants, including leaves, tender shoots, and basal rosettes, are the main portions collected, while the subterranean parts are used to a lesser extent. For some vegetables, more parts are utilized. Most of the reported vegetables are consumed cooked. In addition to the widely known vegetables (Borago officinalis, Beta spp., Cichorium spp., Brassica spp., Carduus spp., etc.), the so-called ancient vegetables are included (Onopordum illyricum, Centaurea calcitrapa, Nasturtium officinale, Scolymus spp., Smyrnium rotundifolium), and some unique uses were described. Comparing the Sicilian findings to those from other countries, a very high number of vegetable taxa

Dominant plant taxa predict plant productivity responses to CO2 enrichment across precipitation and soil gradients.

PubMed

Fay, Philip A; Newingham, Beth A; Polley, H Wayne; Morgan, Jack A; LeCain, Daniel R; Nowak, Robert S; Smith, Stanley D

2015-03-30

The Earth's atmosphere will continue to be enriched with carbon dioxide (CO2) over the coming century. Carbon dioxide enrichment often reduces leaf transpiration, which in water-limited ecosystems may increase soil water content, change species abundances and increase the productivity of plant communities. The effect of increased soil water on community productivity and community change may be greater in ecosystems with lower precipitation, or on coarser-textured soils, but responses are likely absent in deserts. We tested correlations among yearly increases in soil water content, community change and community plant productivity responses to CO2 enrichment in experiments in a mesic grassland with fine- to coarse-textured soils, a semi-arid grassland and a xeric shrubland. We found no correlation between CO2-caused changes in soil water content and changes in biomass of dominant plant taxa or total community aboveground biomass in either grassland type or on any soil in the mesic grassland (P > 0.60). Instead, increases in dominant taxa biomass explained up to 85 % of the increases in total community biomass under CO2 enrichment. The effect of community change on community productivity was stronger in the semi-arid grassland than in the mesic grassland, where community biomass change on one soil was not correlated with the change in either the soil water content or the dominant taxa. No sustained increases in soil water content or community productivity and no change in dominant plant taxa occurred in the xeric shrubland. Thus, community change was a crucial driver of community productivity responses to CO2 enrichment in the grasslands, but effects of soil water change on productivity were not evident in yearly responses to CO2 enrichment. Future research is necessary to isolate and clarify the mechanisms controlling the temporal and spatial variations in the linkages among soil water, community change and plant productivity responses to CO2 enrichment. Published

Longitudinal Changes in Physical Habitat and Macroinvertebrate Assemblages Along a Neotropical Stream Continuum

NASA Astrophysics Data System (ADS)

Colon-Gaud, C.; Whiles, M. R.

2005-05-01

Information on the structure and function of upland Neotropical streams is lacking compared to many other regions. We examined habitat characteristics and macroinvertebrate assemblages along an 8-km stretch of a stream originating on the continental divide in central Panama in order to examine patterns along a stream continuum. Wetted width and discharge ranged from 1 m and 18 L/s, respectively in the uppermost headwaters to 12 m and 1,580 L/s, respectively at the lowest reach examined. Percent substrate composition showed a decrease in fine particle sizes from upper headwater reaches (38%) to the lowest reach (10%). A total of 61 macroinvertebrate taxa were identified along the continuum, with more taxa present in lower reaches (45) compared to headwaters (28), but responses of individual groups varied. Trichoptera, Ephemeroptera, and Diptera richness increased from headwaters to the lowest site, whereas Hemiptera and Coleoptera richness decreased along the gradient. Collector-gatherers and predators were the dominant functional groups (~70% of total abundance) and changed little across sites. Shredder abundance was highest in headwaters (15% of total), while scrapers (20%) and collector/filterers (11%) peaked in the lower reaches. These patterns suggest that upland streams in this region follow basic tenets of the River Continuum Concept.

Nomenclatural stability does not justify recognition of paraphyletic taxa: A response to Scherz et al. (2016).

PubMed

Peloso, Pedro L V; Raxworthy, Christopher J; Wheeler, Ward C; Frost, Darrel R

2017-06-01

Peloso et al. (2015: PELOSO) published a comprehensive phylogenetic study of the frog family Microhylidae, which resulted in the discovery that several taxa were not monophyletic. To remedy this, a series of nomenclatural changes were proposed (several generic synonymies and two new subfamilies named). A recent study published in this journal by Scherz et al. (2016: SCHERZ), provided a novel phylogeny for the Malagasy subfamily Cophylinae. SCHERZ dispute the analyses and taxonomic conclusions of PELOSO. Their study is, however, based on substantial reduction of data from the PELOSO study, limited addition of new data, and different analytical methods. In spite of the fact that their own results are consistent with the taxonomy of PELOSO, SCHERZ reject that conservative taxonomy and suggest the revalidation of Platypelis (from the synonymy of Cophyla), the revalidation of Stumpffia (from the synonymies of Rhombophryne), and the creation of at least two new genera (only one named therein). In doing so, SCHERZ accept the recognition of likely paraphyletic taxa, with Stumpffia paraphyletic in their parsimony analysis. Herein, we provide a response to several points raised in SCHERZ: (1) we discuss issues with their interpretation (and selective use) of available phylogenetic and phenotypic evidence; (2) and provide a new phylogenetic analysis of all the data in PELOSO and SCHERZ combined. In the new analysis Stumpffia is paraphyletic with respect to Rhombophryne, whereas Cophyla and Platypelis are both monophyletic and sister taxa. We provide a case for the use of the taxonomy suggested in PELOSO. Copyright © 2017 Elsevier Inc. All rights reserved.

Environmental Quality of Upper Honey Creek: A Preliminary Assessment.

DTIC Science & Technology

1981-01-01

chironomid pupae and " Plecoptera ", which consisted of stoneflies that were too damaged for further identification. Adult and larval beetles were...11 bbei amie1 13 15 32 153 22 leopoda (mow bugs) Aselluet (forbeal) 12 3 oapoda (crayfish) ftocabue acutus acutug Plecoptera (stoneflies) 3 1 1

Revision of the genus Dinotoperla Tillyard, 1921 (Plecoptera: Gripopterygidae) using morphological characters and molecular data: Establishes two new genera, three new species and updates the larval taxonomy.

PubMed

Mynott, Julia H; Suter, Phillip J; Theischinger, Gunther

2017-01-23

The larval taxonomy of Australian stoneflies (Plecoptera) shows a large disparity in knowledge when compared to the adult taxonomy with many species having undescribed larval forms. The importance of stoneflies as an indicator group for monitoring aquatic ecosystems means knowledge of the larval taxonomy and the ability to identify species is essential. This study combined morphology and mitochondrial gene sequences to associate the adult and larval life-stages for species of Dinotoperla Tillyard. Morphological identification of adult males was recognised for 17 of the 35 Dinotoperla species and combining molecular data with morphology confirmed eight new adult-larval life stage associations. Further, molecular data supported the larval taxonomy for five morphospecies which remain unassociated. The combination of molecular and morphological methods enabled the larval morphology to be reassessed for the genus Dinotoperla and this has led to the establishment of two new genera, Odontoperla, gen. nov. and Oedemaperla, gen. nov., and the new species Dinotoperla aryballoi, sp. nov, D. tasmaniensis, sp. nov. and Oedemaperla shackletoni, sp. nov. as well as the new or updated descriptions of the larvae of 31 species and a comprehensive dichotomous key to these larvae.

Identifying the microbial taxa that consistently respond to soil warming across time and space.

PubMed

Oliverio, Angela M; Bradford, Mark A; Fierer, Noah

2017-05-01

Soil microbial communities are the key drivers of many terrestrial biogeochemical processes. However, we currently lack a generalizable understanding of how these soil communities will change in response to predicted increases in global temperatures and which microbial lineages will be most impacted. Here, using high-throughput marker gene sequencing of soils collected from 18 sites throughout North America included in a 100-day laboratory incubation experiment, we identified a core group of abundant and nearly ubiquitous soil microbes that shift in relative abundance with elevated soil temperatures. We then validated and narrowed our list of temperature-sensitive microbes by comparing the results from this laboratory experiment with data compiled from 210 soils representing multiple, independent global field studies sampled across spatial gradients with a wide range in mean annual temperatures. Our results reveal predictable and consistent responses to temperature for a core group of 189 ubiquitous soil bacterial and archaeal taxa, with these taxa exhibiting similar temperature responses across a broad range of soil types. These microbial 'bioindicators' are useful for understanding how soil microbial communities respond to warming and to discriminate between the direct and indirect effects of soil warming on microbial communities. Those taxa that were found to be sensitive to temperature represented a wide range of lineages and the direction of the temperature responses were not predictable from phylogeny alone, indicating that temperature responses are difficult to predict from simply describing soil microbial communities at broad taxonomic or phylogenetic levels of resolution. Together, these results lay the foundation for a more predictive understanding of how soil microbial communities respond to soil warming and how warming may ultimately lead to changes in soil biogeochemical processes. © 2016 John Wiley & Sons Ltd.

The movement of pre-adapted cool taxa in north-central Amazonia during the last glacial

NASA Astrophysics Data System (ADS)

D'Apolito, Carlos; Absy, Maria Lúcia; Latrubesse, Edgardo M.

2017-08-01

The effects of climate change on the lowland vegetation of Amazonia during the last glacial cycle are partially known for the middle and late Pleniglacial intervals (late MIS 3, 59-24 ka and MIS 2, 24-11 ka), but are still unclear for older stages of the last glacial and during the last interglacial. It is known that a more seasonal dry-wet climate caused marginal forest retraction and together with cooling rearranged forest composition to some extent. This is observed in pollen records across Amazonia depicting presence of taxa at glacial times in localities where they do not live presently. The understanding of taxa migration is hindered by the lack of continuous interglacial-glacial lowland records. We present new data from a known locality in NW Amazonia (Six Lakes Hill), showing a vegetation record that probably started during MIS 5 (130-71 ka) and lasted until the onset of the Holocene. The vegetation record unravels a novel pattern in tree taxa migration: (1) from the beginning of this cycle Podocarpus and Myrsine are recorded and (2) only later do Hedyosmum and Alnus appear. The latter group is largely restricted to montane biomes or more distant locations outside Amazonia, whereas the first is found in lowlands close to the study site on sandy soils. These findings imply that Podocarpus and Myrsine responded to environmental changes equally and this reflects their concomitant niche use in NW Amazonia. Temperature drop is not discarded as a trigger of internal forest composition change, but its effects are clearer later in the Pleniglacial rather than the Early Glacial. Therefore early climatic/environmental changes had a first order effect on vegetation that invoke alternative explanations. We claim last glacial climate-induced modifications on forest composition favoured the expansion of geomorphologic-soil related processes that initiated forest rearrangement.

Hydrolyzable tannins, the active constituents of three Greek Cytinus taxa against several tumor cell lines.

PubMed

Magiatis, P; Pratsinis, H; Kalpoutzakis, E; Konstantinidou, A; Davaris, P; Skaltsounis, A L

2001-06-01

Hydrolyzable tannins were found to be the active cytotoxic constituents of three Greek Cytinus taxa: Cytinus ruber, Cytinus hypocistis subsp. hypocistis and Cytinus hypocistis subsp. orientalis. The cytotoxic activity was evaluated against a broad spectrum of cancer cell lines. The structure of the active compounds was investigated with NMR and electrospray-MS/MS techniques.

Seed protein variations of Salicornia L. and allied taxa in Turkey.

PubMed

Yaprak, A E; Yurdakulol, E

2007-06-01

Electrophoretic seed protein patterns of a number of accessions of Salicornia europaea L. sl., S. prostrata Palas, S. fragilis P.W. Ball and Tutin, Sarcocornia fruticosa (L.) A. J. Scott, Sarcocornia perennis (Miller.) A. J. Scott, Arthrocnemum glaucum (Del.) Ung.-Sternb., Microcnemum coralloides (Loscos and Pardo) subsp. anatolicum Wagenitz and Halocnemum strobilaceum (Pall.) Bieb. were electrophoretically analysed on SDS-PAGE. In total 48 different bands were identified. The obtained data have been treated numerically using the cluster analysis method of unweighted pair group (UPGMA). Finally it was determined that all species separated according to seed protein profiles. And the cladogram obtained studied taxa have been given.

Signals of speciation: Volatile organic compounds resolve closely related sagebrush taxa, suggesting their importance in evolution

Treesearch

Deidre M. Jaeger; Justin B. Runyon; Bryce A. Richardson

2016-01-01

Volatile organic compounds (VOCs) play important roles in the environmental adaptation and fitness of plants. Comparison of the qualitative and quantitative differences in VOCs among closely related taxa and assessing the effects of environment on their emissions are important steps to deducing VOC function and evolutionary importance.

Late Quaternary refugia of Mediterranean taxa in the Portuguese Estremadura: charcoal based palaeovegetation and climatic reconstruction

NASA Astrophysics Data System (ADS)

Figueiral, I.; Terral, J.-F.

2002-02-01

The study of archaeological charcoal preserved in the sediments of Buraca Grande (Estremadura, Portugal) are used to aid the reconstruction of vegetation available to prehistoric settlements from the Upper Palaeolithic to the Neolithic. Results indicate the possible existence of three different phases. The first is mostly characterized by the presence of Pinus type sylvestris and of Buxus sempervirens. During the second phase, these taxa are replaced by more thermophilous elements dominated by Olea europaea. The decrease of Olea europaea in the last archaeological layer appears to represent the beginning of a third phase. The eco-anatomical analyses of charcoal fragments identified as Olea europaea allowed us to evaluate the palaeoclimatic conditions during this period. Two main phases are recognized; the first (Upper Pleistocene) is drier and cooler than present, while the Holocene sequence is comparable to present-day conditions. Results from both analyses are complementary and appear to show that this region was a refuge area for thermophilous taxa during the colder periods of the Pleistocene.

Evolutionary affinities of the order Perissodactyla and the phylogenetic status of the superordinal taxa Ungulata and Altungulata.

PubMed

Graur, D; Gouy, M; Duret, L

1997-04-01

Contrary to morphological claims, molecular data indicate that the order Perissodactyla (e.g., horses, rhinoceroses, and tapirs) is neither part of the superordinal taxon Paenungulata (Sirenia, Proboscidea, and Hyracoidea) nor an immediate outgroup of the paenungulates. Rather, Perissodactyla is closer to Carnivora and Cetartiodactyla (Cetacea+Artiodactyla) than it is to the paenungulates. Therefore, two morphologically defined superordinal taxa, Altungulata (Proboscidea, Sirenia, Hyracoidea, and Perissodactyla) and Ungulata (Altungulata and Cetartiodactyla), are invalidated. Perissodactyla, Carnivora, and Cetartiodactyla are shown to constitute a rather tight trichotomy. However, a molecular analysis of 36 protein sequences with a total concatenated length of 7885 aligned amino acids indicates that Perissodactyla is closer to Cetartiodactyla than either taxa is to Carnivora. The relationships among Paenungulata, Primates, and the clade consisting of Perissodactyla, Carnivora, and Cetartiodactylaa could not be resolved on the basis of the available data.

Distinguishing Between Convergent Evolution and Violation of the Molecular Clock for Three Taxa.

PubMed

Mitchell, Jonathan D; Sumner, Jeremy G; Holland, Barbara R

2018-05-18

We give a non-technical introduction to convergence-divergence models, a new modeling approach for phylogenetic data that allows for the usual divergence of lineages after lineage-splitting but also allows for taxa to converge, i.e. become more similar over time. By examining the 3-taxon case in some detail we illustrate that phylogeneticists have been "spoiled" in the sense of not having to think about the structural parameters in their models by virtue of the strong assumption that evolution is tree-like. We show that there are not always good statistical reasons to prefer the usual class of tree-like models over more general convergence-divergence models. Specifically we show many 3-taxon data sets can be equally well explained by supposing violation of the molecular clock due to change in the rate of evolution along different edges, or by keeping the assumption of a constant rate of evolution but instead assuming that evolution is not a purely divergent process. Given the abundance of evidence that evolution is not strictly tree-like, our discussion is an illustration that as phylogeneticists we need to think clearly about the structural form of the models we use. For cases with four taxa we show that there will be far greater ability to distinguish models with convergence from non-clock-like tree models.

Quantifying invertebrate resistance to floods: a global-scale meta-analysis.

PubMed

McMullen, Laura E; Lytle, David A

2012-12-01

Floods are a key component of the ecology and management of riverine ecosystems around the globe, but it is not clear whether floods have predictable effects on organisms that can allow us to generalize across regions and continents. To address this, we conducted a global-scale meta-analysis to investigate effects of natural and managed floods on invertebrate resistance, the ability of invertebrates to survive flood events. We considered 994 studies for inclusion in the analysis, and after evaluation based on a priori criteria, narrowed our analysis to 41 studies spanning six of the seven continents. We used the natural-log-ratio of invertebrate abundance before and within 10 days after flood events because this measure of effect size can be directly converted to estimates of percent survival. We conducted categorical and continuous analyses that examined the contribution of environmental and study design variables to effect size heterogeneity, and examined differences in effect size among taxonomic groups. We found that invertebrate abundance was lowered by at least one-half after flood events. While natural vs. managed floods were similar in their effect, effect size differed among habitat and substrate types, with pools, sand, and boulders experiencing the strongest effect. Although sample sizes were not sufficient to examine all taxonomic groups, floods had a significant, negative effect on densities of Coleoptera, Eumalacostraca, Annelida, Ephemeroptera, Diptera, Plecoptera, and Trichoptera. Results from this study provide guidance for river flow regime prescriptions that will be applicable across continents and climate types, as well as baseline expectations for future empirical studies of freshwater disturbance.

Aquatic insect ecophysiological traits reveal phylogenetically based differences in dissolved cadmium susceptibility.

PubMed

Buchwalter, David B; Cain, Daniel J; Martin, Caitrin A; Xie, Lingtian; Luoma, Samuel N; Garland, Theodore

2008-06-17

We used a phylogenetically based comparative approach to evaluate the potential for physiological studies to reveal patterns of diversity in traits related to susceptibility to an environmental stressor, the trace metal cadmium (Cd). Physiological traits related to Cd bioaccumulation, compartmentalization, and ultimately susceptibility were measured in 21 aquatic insect species representing the orders Ephemeroptera, Plecoptera, and Trichoptera. We mapped these experimentally derived physiological traits onto a phylogeny and quantified the tendency for related species to be similar (phylogenetic signal). All traits related to Cd bioaccumulation and susceptibility exhibited statistically significant phylogenetic signal, although the signal strength varied among traits. Conventional and phylogenetically based regression models were compared, revealing great variability within orders but consistent, strong differences among insect families. Uptake and elimination rate constants were positively correlated among species, but only when effects of body size and phylogeny were incorporated in the analysis. Together, uptake and elimination rates predicted dramatic Cd bioaccumulation differences among species that agreed with field-based measurements. We discovered a potential tradeoff between the ability to eliminate Cd and the ability to detoxify it across species, particularly mayflies. The best-fit regression models were driven by phylogenetic parameters (especially differences among families) rather than functional traits, suggesting that it may eventually be possible to predict a taxon's physiological performance based on its phylogenetic position, provided adequate physiological information is available for close relatives. There appears to be great potential for evolutionary physiological approaches to augment our understanding of insect responses to environmental stressors in nature.

Aquatic insect ecophysiological traits reveal phylogenetically based differences in dissolved cadmium susceptibility

USGS Publications Warehouse

Buchwalter, D.B.; Cain, D.J.; Martin, C.A.; Xie, Lingtian; Luoma, S.N.; Garland, T.

2008-01-01

We used a phylogenetically based comparative approach to evaluate the potential for physiological studies to reveal patterns of diversity in traits related to susceptibility to an environmental stressor, the trace metal cadmium (Cd). Physiological traits related to Cd bioaccumulation, compartmentalization, and ultimately susceptibility were measured in 21 aquatic insect species representing the orders Ephemeroptera, Plecoptera, and Trichoptera. We mapped these experimentally derived physiological traits onto a phylogeny and quantified the tendency for related species to be similar (phylogenetic signal). All traits related to Cd bioaccumulation and susceptibility exhibited statistically significant phylogenetic signal, although the signal strength varied among traits. Conventional and phylogenetically based regression models were compared, revealing great variability within orders but consistent, strong differences among insect families. Uptake and elimination rate constants were positively correlated among species, but only when effects of body size and phylogeny were incorporated in the analysis. Together, uptake and elimination rates predicted dramatic Cd bioaccumulation differences among species that agreed with field-based measurements. We discovered a potential tradeoff between the ability to eliminate Cd and the ability to detoxify it across species, particularly mayflies. The best-fit regression models were driven by phylogenetic parameters (especially differences among families) rather than functional traits, suggesting that it may eventually be possible to predict a taxon's physiological performance based on its phylogenetic position, provided adequate physiological information is available for close relatives. There appears to be great potential for evolutionary physiological approaches to augment our understanding of insect responses to environmental stressors in nature. ?? 2008 by The National Academy of Sciences of the USA.

Limits on characteristics of invertebrate assemblages associated with streamflow patterns in the western United States

NASA Astrophysics Data System (ADS)

Konrad, C.; Brasher, A.; May, J.

2007-12-01

River restoration depends on re-establishment of the range of physical and biological processes that comprise the river ecosystem. Streamflow is the definitive physical processes for river ecosystems, so hydrologic alteration represents a potentially significant issue to be addressed by restoration efforts. Given adaptation of lotic species to naturally variable streamflow patterns over evolutionary time scales, however, lotic communities are resilient to at least some forms of hydrologic variability. As a result, river restoration may be successful despite limited but biologically insignificant hydrologic alteration. The responses of benthic invertebrate assemblages to variation in streamflow patterns across the western United States were investigated to identify biologically important forms and magnitudes of hydrologic variability. Biological responses to streamflow patterns were analyzed in terms of ceilings and floors on invertebrate assemblage diversity and structure using a non-parametric screening procedure and quantile regression. Variability at daily and monthly time scales was the most common streamflow pattern associated with broad metrics of invertebrate assemblages including abundance; richness and relative abundance of Ephemeroptera, Plecoptera, Trichoptera and non-insects; dominance; and diversity. Low flow magnitude and annual variability were associated with richness and trophic structure. The frequency, magnitude, and duration of high flows were associated with abundance and richness. Longer term streamflow metrics (calculated over at least 5 years) were more important than recent flows (30 and 100 days prior to invertebrate sampling). The results can be used as general guidance about when hydrologic alteration is likely to be an important factor and what streamflow patterns may need to be re-established for successful river restoration.

Faunistic Study of the Aquatic Arthropods in a Tourism Area in Northern Iran

PubMed Central

Shaeghi, Mansoureh; Dehghan, Hossein; Pakdad, Kamran; Nikpour, Fatemeh; Absavaran, Azad; Sofizadeh, Aioub; Akhavan, Amir Ahmad; Vatandoost, Hassan; Aghai-Afshar, Abbass

2017-01-01

Background: Aquatic insects are very abundant and divers groups of insects that are associated with an aquatic or semiaquatic environment in one or more of their life stages. These insects have been, in some cases, well studied because they are vectors of several diseases. This is the first comprehensive faunistic study of aquatic insects from Babol County. The results may provide basic data for further taxonomic and ecological studies of aquatic insects as biological control agent or classification of water quality for the country. Methods: The specimens were collected using different methods including: D-frame net collector, standard mosquito dipper (350ml), Sweep-Netting and plastic pipette. Sampling carried out in different part of breading places in several times. Results: During this study a total of 196 aquatic specimens were collected from different habitats and were morphologically identified including 18 families classified in 6 orders: Diptera, Trichoptera, Ephemeroptera, Plecoptera, Hemiptera and Odonata. Babol and Amol district in Mazandaran Province are located in humid climate regions with suitable ecological factors of humidity, moderate temperature and the variety of plant species. There are different species of aquatic insects in different habitats. Conclusion: The results will provide information for biodeveristy, species richness, their role for biological control as well as calcification of rivers based on abundance of aquatic insects. Therefore the understanding of ecological specifications of aquatic insects could provide a clue for further Arthropod-borne disease control. Additionally aquatic insect could be used for classification of water bodies PMID:29062853

Aquatic insect ecophysiological traits reveal phylogenetically based differences in dissolved cadmium susceptibility

PubMed Central

Buchwalter, David B.; Cain, Daniel J.; Martin, Caitrin A.; Xie, Lingtian; Luoma, Samuel N.; Garland, Theodore

2008-01-01

We used a phylogenetically based comparative approach to evaluate the potential for physiological studies to reveal patterns of diversity in traits related to susceptibility to an environmental stressor, the trace metal cadmium (Cd). Physiological traits related to Cd bioaccumulation, compartmentalization, and ultimately susceptibility were measured in 21 aquatic insect species representing the orders Ephemeroptera, Plecoptera, and Trichoptera. We mapped these experimentally derived physiological traits onto a phylogeny and quantified the tendency for related species to be similar (phylogenetic signal). All traits related to Cd bioaccumulation and susceptibility exhibited statistically significant phylogenetic signal, although the signal strength varied among traits. Conventional and phylogenetically based regression models were compared, revealing great variability within orders but consistent, strong differences among insect families. Uptake and elimination rate constants were positively correlated among species, but only when effects of body size and phylogeny were incorporated in the analysis. Together, uptake and elimination rates predicted dramatic Cd bioaccumulation differences among species that agreed with field-based measurements. We discovered a potential tradeoff between the ability to eliminate Cd and the ability to detoxify it across species, particularly mayflies. The best-fit regression models were driven by phylogenetic parameters (especially differences among families) rather than functional traits, suggesting that it may eventually be possible to predict a taxon's physiological performance based on its phylogenetic position, provided adequate physiological information is available for close relatives. There appears to be great potential for evolutionary physiological approaches to augment our understanding of insect responses to environmental stressors in nature. PMID:18559853

Defining the Reference Condition for Wadeable Streams in the Sand Hills Subdivision of the Southeastern Plains Ecoregion, USA

NASA Astrophysics Data System (ADS)

Kosnicki, Ely; Sefick, Stephen A.; Paller, Michael H.; Jarrell, Miller S.; Prusha, Blair A.; Sterrett, Sean C.; Tuberville, Tracey D.; Feminella, Jack W.

2014-09-01

The Sand Hills subdivision of the Southeastern Plains ecoregion has been impacted by historical land uses over the past two centuries and, with the additive effects of contemporary land use, determining reference condition for streams in this region is a challenge. We identified reference condition based on the combined use of 3 independent selection methods. Method 1 involved use of a multivariate disturbance gradient derived from several stressors, method 2 was based on variation in channel morphology, and method 3 was based on passing 6 of 7 environmental criteria. Sites selected as reference from all 3 methods were considered primary reference, whereas those selected by 2 or 1 methods were considered secondary or tertiary reference, respectively. Sites not selected by any of the methods were considered non-reference. In addition, best professional judgment (BPJ) was used to exclude some sites from any reference class, and comparisons were made to examine the utility of BPJ. Non-metric multidimensional scaling indicated that use of BPJ may help designate non-reference sites when unidentified stressors are present. The macroinvertebrate community measures Ephemeroptera, Plecoptera, Trichoptera richness and North Carolina Biotic Index showed no differences between primary and secondary reference sites when BPJ was ignored. However, there was no significant difference among primary, secondary, and tertiary reference sites when BPJ was used. We underscore the importance of classifying reference conditions, especially in regions that have endured significant anthropogenic activity. We suggest that the use of secondary reference sites may enable construction of models that target a broader set of management interests.

Controlling Harmful Cyanobacteria: Taxa-Specific Responses of Cyanobacteria to Grazing by Large-Bodied Daphnia in a Biomanipulation Scenario

PubMed Central

Urrutia-Cordero, Pablo; Ekvall, Mattias K.; Hansson, Lars-Anders

2016-01-01

Lake restoration practices based on reducing fish predation and promoting the dominance of large-bodied Daphnia grazers (i.e., biomanipulation) have been the focus of much debate due to inconsistent success in suppressing harmful cyanobacterial blooms. While most studies have explored effects of large-bodied Daphnia on cyanobacterial growth at the community level and/or on few dominant species, predictions of such restoration practices demand further understanding on taxa-specific responses in diverse cyanobacterial communities. In order to address these questions, we conducted three grazing experiments during summer in a eutrophic lake where the natural phytoplankton community was exposed to an increasing gradient in biomass of the large-bodied Daphnia magna. This allowed evaluating taxa-specific responses of cyanobacteria to Daphnia grazing throughout the growing season in a desired biomanipulation scenario with limited fish predation. Total cyanobacterial and phytoplankton biomasses responded negatively to Daphnia grazing both in early and late summer, regardless of different cyanobacterial densities. Large-bodied Daphnia were capable of suppressing the abundance of Aphanizomenon, Dolichospermum, Microcystis and Planktothrix bloom-forming cyanobacteria. However, the growth of the filamentous Dolichospermum crassum was positively affected by grazing during a period when this cyanobacterium dominated the community. The eutrophic lake was subjected to biomanipulation since 2005 and nineteen years of lake monitoring data (1996–2014) revealed that reducing fish predation increased the mean abundance (50%) and body-size (20%) of Daphnia, as well as suppressed the total amount of nutrients and the growth of the dominant cyanobacterial taxa, Microcystis and Planktothrix. Altogether our results suggest that lake restoration practices solely based on grazer control by large-bodied Daphnia can be effective, but may not be sufficient to control the overgrowth of all

SSR markers reveal the genetic diversity of Asian Cercis taxa at the U.S. National Arboretum

USDA-ARS?s Scientific Manuscript database

The redbud (Cercis L. species) is a popular landscape plant grown widely in the United States. There are more than twenty cultivars of eastern redbud (Cercis canadensis L.) and at least three cultivars of Asian taxa (primarily C. chinensis Bunge) in the trade. The U.S. National Arboretum (USNA) has ...

The complete mitochondrial genome of the styloperlid stonefly species Styloperla spinicercia Wu (Insecta: Plecoptera) with family-level phylogenetic analyses of the Pteronarcyoidea.

PubMed

Wang, Ying; Cao, Jinjun; Li, Weihai

2017-03-13

We present the complete mitochondrial (mt) genome sequence of the stonefly, Styloperla spinicercia Wu, 1935 (Plecoptera: Styloperlidae), the type species of the genus Styloperla and the first complete mt genome for the family Styloperlidae. The genome is circular, 16,129 base pairs long, has an A+T content of 70.7%, and contains 37 genes including the large and small ribosomal RNA (rRNA) subunits, 13 protein coding genes (PCGs), 22 tRNA genes and a large non-coding region (CR). All of the PCGs use the standard initiation codon ATN except ND1 and ND5, which start with TTG and GTG. Twelve of the PCGs stop with conventional terminal codons TAA and TAG, except ND5 which shows an incomplete terminator signal T. All tRNAs have the classic clover-leaf structures with the dihydrouridine (DHU) arm of tRNASer(AGN) forming a simple loop. Secondary structures of the two ribosomal RNAs are presented with reference to previous models. The structural elements and the variable numbers of tandem repeats are described within the control region. Phylogenetic analyses using both Bayesian (BI) and Maximum Likelihood (ML) methods support the previous hypotheses regarding family level relationships within the Pteronarcyoidea. The genetic distance calculated based on 13 PCGs and two rRNAs between Styloperla sp. and S. spinicercia is provided and interspecific divergence is discussed.

Three-dimensional geometric morphometric analysis of talar morphology in extant gorilla taxa from highland and lowland habitats.

PubMed

Knigge, Ryan P; Tocheri, Matthew W; Orr, Caley M; Mcnulty, Kieran P

2015-01-01

Western gorillas (Gorilla gorilla) are known to climb significantly more often than eastern gorillas (Gorilla beringei), a behavioral distinction attributable to major differences in their respective habitats (i.e., highland vs. lowland). Genetic evidence suggests that the lineages leading to these taxa began diverging from one another between approximately 1 and 3 million years ago. Thus, gorillas offer a special opportunity to examine the degree to which morphology of recently diverged taxa may be "fine-tuned" to differing ecological requirements. Using three-dimensional (3D) geometric morphometrics, we compared talar morphology in a sample of 87 specimens including western (lowland), mountain (highland), and grauer gorillas (lowland and highland populations). Talar shape was captured with a series of landmarks and semilandmarks superimposed by generalized Procrustes analysis. A between-group principal components analysis of overall talar shape separates gorillas by ecological habitat and by taxon. An analysis of only the trochlea and lateral malleolar facet identifies subtle variations in trochlear shape between western lowland and lowland grauer gorillas, potentially indicative of convergent evolution of arboreal adaptations in the talus. Lastly, talar shape scales differently with centroid size for highland and lowland gorillas, suggesting that ankle morphology may track body-size mediated variation in arboreal behaviors differently depending on ecological setting. Several of the observed shape differences are linked biomechanically to the facilitation of climbing in lowland gorillas and to stability and load-bearing on terrestrial substrates in the highland taxa, providing an important comparative model for studying morphological variation in groups known only from fossils (e.g., early hominins). © 2014 Wiley Periodicals, Inc.

Effect of aging on lignin content, composition and enzymatic saccharification in Corymbia hybrids and parental taxa between years 9 and 12

DOE PAGES

Healey, Adam L.; Lupoi, Jason S.; Lee, David J.; ...

2016-07-02

Corymbia (a eucalypt) is an important forestry genus and a potential lignocellulosic bioenergy feedstock. The composition of the lignocellulosic cell wall significantly impacts pretreatment efficiency and conversion to biofuel but is variable and changes with age. In this study, we estimated Klason lignin content, composition, and monosaccharide (glucose and xylose) release after enzymatic saccharification of untreated and hydrothermally pretreated biomass from Corymbia parental species Corymbia torelliana (CT), Corymbia citriodora subsp. variegata (spotted gum; CCV), and interspecific F1 hybrids (CT x CCV) at ages 9 and 12 years from planting. Analysis of lignin composition derived from syringyl/guaiacyl monolignols (S/G) found significantmore » differences among taxa, with CT S/G ratios (2.2 and 2.0) being significantly lower than CCV (2.6 and 2.3) or hybrids (2.5 and 2.3) at ages 9 and 12 respectively. In general, enzymatic saccharification yields from untreated biomass were significantly different among taxa, with CT (113 and 75 mg g -1) and hybrids (108 and 81 mg g -1) yielding significantly higher glucose from untreated biomass than CCV (82 and 56 mg g -1) at ages 9 and 12 respectively. Comparison of traits within taxa between ages 9 and 12 found S/G ratios and glucose yields from untreated biomass were significantly lower in CT, CCV and hybrid taxa. As a result, the formation of lignocellulosic cell walls is complex, influenced by genetics and age of material, requiring optimization of rotation age for biofuel production and other industrial processes.« less

Effect of aging on lignin content, composition and enzymatic saccharification in Corymbia hybrids and parental taxa between years 9 and 12

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

Healey, Adam L.; Lupoi, Jason S.; Lee, David J.

Corymbia (a eucalypt) is an important forestry genus and a potential lignocellulosic bioenergy feedstock. The composition of the lignocellulosic cell wall significantly impacts pretreatment efficiency and conversion to biofuel but is variable and changes with age. In this study, we estimated Klason lignin content, composition, and monosaccharide (glucose and xylose) release after enzymatic saccharification of untreated and hydrothermally pretreated biomass from Corymbia parental species Corymbia torelliana (CT), Corymbia citriodora subsp. variegata (spotted gum; CCV), and interspecific F1 hybrids (CT x CCV) at ages 9 and 12 years from planting. Analysis of lignin composition derived from syringyl/guaiacyl monolignols (S/G) found significantmore » differences among taxa, with CT S/G ratios (2.2 and 2.0) being significantly lower than CCV (2.6 and 2.3) or hybrids (2.5 and 2.3) at ages 9 and 12 respectively. In general, enzymatic saccharification yields from untreated biomass were significantly different among taxa, with CT (113 and 75 mg g -1) and hybrids (108 and 81 mg g -1) yielding significantly higher glucose from untreated biomass than CCV (82 and 56 mg g -1) at ages 9 and 12 respectively. Comparison of traits within taxa between ages 9 and 12 found S/G ratios and glucose yields from untreated biomass were significantly lower in CT, CCV and hybrid taxa. As a result, the formation of lignocellulosic cell walls is complex, influenced by genetics and age of material, requiring optimization of rotation age for biofuel production and other industrial processes.« less

Primary controls on species richness in higher taxa.

PubMed

Rabosky, Daniel L

2010-12-01

The disparity in species richness across the tree of life is one of the most striking and pervasive features of biological diversity. Some groups are exceptionally diverse, whereas many other groups are species poor. Differences in diversity among groups are frequently assumed to result from primary control by differential rates of net diversification. However, a major alternative explanation is that ecological and other factors exert primary control on clade diversity, such that apparent variation in net diversification rates is a secondary consequence of ecological limits on clade growth. Here, I consider a likelihood framework for distinguishing between these competing hypotheses. I incorporate hierarchical modeling to explicitly relax assumptions about the constancy of diversification rates across clades, and I propose several statistics for a posteriori evaluation of model adequacy. I apply the framework to a recent dated phylogeny of ants. My results reject the hypothesis that net diversification rates exert primary control on species richness in this group and demonstrate that clade diversity is better explained by total time-integrated speciation. These results further suggest that it may not possible to estimate meaningful speciation and extinction rates from higher-level phylogenies of extant taxa only.

Unraveling Trichoderma species in the attine ant environment: description of three new taxa.

PubMed

Montoya, Quimi Vidaurre; Meirelles, Lucas Andrade; Chaverri, Priscila; Rodrigues, Andre

2016-05-01

Fungus-growing "attine" ants forage diverse substrates to grow fungi for food. In addition to the mutualistic fungal partner, the colonies of these insects harbor a rich microbiome composed of bacteria, filamentous fungi and yeasts. Previous work reported some Trichoderma species in the fungus gardens of leafcutter ants. However, no studies systematically addressed the putative association of Trichoderma with attine ants, especially in non-leafcutter ants. Here, a total of 62 strains of Trichoderma were analyzed using three molecular markers (ITS, tef1 and rpb2). In addition, 30 out of 62 strains were also morphologically examined. The strains studied correspond to the largest sampling carried out so far for Trichoderma in the attine ant environment. Our results revealed the richness of Trichoderma in this environment, since we found 20 Trichoderma species, including three new taxa described in the present work (Trichoderma attinorum, Trichoderma texanum and Trichoderma longifialidicum spp. nov.) as well as a new phylogenetic taxon (LESF 545). Moreover, we show that all 62 strains grouped within different clades across the Trichoderma phylogeny, which are identical or closely related to strains derived from several other environments. This evidence supports the transient nature of the genus Trichoderma in the attine ant colonies. The discovery of three new species suggests that the dynamic foraging behavior of these insects might be responsible for accumulation of transient fungi into their colonies, which might hold additional fungal taxa still unknown to science.

Retention and characteristics of microplastics in natural zooplankton taxa from the East China Sea.

PubMed

Sun, Xiaoxia; Liu, Tao; Zhu, Mingliang; Liang, Junhua; Zhao, Yongfang; Zhang, Bo

2018-05-30

The ubiquitous presence and persistence of microplastics (MPs) in aquatic environments have become of particular concern in recent years. Biological interactions are among the key processes that affect the impact and fate of MPs in the oceans. Zooplankton is one of the most sensitive taxa because their prey is approximately the same size as MPs. However, the status of MPs in zooplankton within natural marine environments remains largely unknown. By focusing on zooplankton in the East China Sea, the characteristics, bioaccumulated concentration, and retention of MPs for 10 zooplankton groups were systematically studied. Three types of MPs were found in zooplankton: fibres, pellets, and fragments. The fibres (54.6%) were more common than the other two types. The average lengths of the fibres, pellets, and fragments were 295.2 ± 348.6 μm, 20.3 ± 11.0 μm, and 82.4 ± 80.5 μm, respectively. Nineteen polymers were detected in the zooplankton via the Thermo Scientific Nicolet iN10 Infrared Microscope. Polymerized oxidized organic material and polyester were dominant, accounting for 35.9% and 25.6% of the polymers, respectively. The bioaccumulated concentration of MPs in the 10 zooplankton taxa varied from 0.13 pieces/zooplankton for Copepoda to 0.35 pieces/zooplankton for Pteropoda. The bioaccumulated concentration was negatively correlated with the abundance of zooplankton, showing a significant biological dilution effect. The bioaccumulated concentration was also influenced by the feeding mode of zooplankton, showing a trend of omnivorous > carnivorous > herbivorous. High retention of MPs was found in the zooplankton community of the East China Sea, achieving 19.7 ± 22.4 pieces/m 3 . This is much higher than the MP retention in zooplankton from other reported sea areas. By revealing the characteristics and retention of MPs in the natural zooplankton taxa from the East China Sea, this research identified the influence that MPs have

Biomarker responses to environmental contamination in estuaries: A comparative multi-taxa approach.

PubMed

Duarte, Irina A; Reis-Santos, Patrick; França, Susana; Cabral, Henrique; Fonseca, Vanessa F

2017-08-01

Estuaries are highly productive ecosystems subjected to numerous anthropogenic pressures with consequent environmental quality degradation. In this study, multiple biomarker responses [superoxide dismutase (SOD), catalase (CAT), ethoxyresorufin O-deethylase (EROD) and glutathione S-transferase (GST) activities, as well as lipid peroxidation (LPO) and DNA damage (DNAd)] were determined in two fish (Dicentrarchus labrax and Pomatoschistus microps) and four macroinvertebrate species (Carcinus maenas, Crangon crangon, Hediste diversicolor and Scrobicularia plana) from the Ria de Aveiro and Tejo estuaries over distinct months. Two sites per estuarine system were selected based on anthropogenic pressures and magnitude of environmental contamination. Antioxidant enzyme activities in fish species suggested a ubiquitous response to oxidative stress, while biotransformation and effect biomarkers exhibited higher spatial and temporal variation. In invertebrate species, biotransformation enzyme activity was clearly less variable than in fish evidencing lower xenobiotic transformation capability. Overall, largest biomarker responses were found in the most contaminated sites (Tejo), yet species-specific patterns were evident. These should be factored in multi-taxa approaches, considering that the differential functional traits of species, such as habitat use, life-stage, feeding or physiology can influence exposure routes and biomarker responses. The Integrated Biomarker Response index highlighted patterns in biomarker responses which were not immediately evident when analyzing biomarkers individually. Overall, results provided insights into the complexity of species responses to contamination in naturally varying estuarine environments. Ultimately, multi-taxa and multi-biomarker approaches provide a comprehensive and complementary view of ecosystem health, encompassing diverse forms of biological integration and exposure routes, and allow the validation of results among markers

The Interacting controls of pyrolysis temperature and plant taxa on pyrogenic organic matter stability and decomposition in a Northern Michigan forest soil

NASA Astrophysics Data System (ADS)

Gibson, C. D.; Filley, T. R.; Bird, J. A.; Hatton, P. J.; Stark, R. E.; Nadelhoffer, K. J.

2017-12-01

Pyrogenic organic matter (PyOM) produced during forest fires is considered a large sink of stable soil organic matter (SOM) in boreal-temperate forest ecotones, where fire frequency and intensity is growing with changing climate. Understanding how changes in fire regime and predicted shifts in plant taxa will interact to affect PyOM dynamics in soil is imperative to assessing the impact of climate change on SOM maintenance. The stability of PyOM in soil may be co-determined by the physiochemical structure imparted on PyOM during pyrolysis and by its initial taxa-dependent wood chemistry and anatomy. To determine PyOM-C turnover rates in soil, we followed the fate of 13C-enriched wood or PyOM (200, 300, 450, or 600°C) derived from red maple (RM) or jack pine (JP) wood in soil from a recently burned forest in northern Michigan, USA. We found that pyrolysis temperature-controlled physiochemical changes influenced, with threshold dynamics, PyOM stability resulting in mean residence times of 2 (PyOM 200°C) to 450 years for both taxa, confirming that most PyOM (<600°C) turns over on the century, not millennial time scale. Water leachable C, carbohydrate and non-lignin phenol content correlated positively with early PyOM-C mineralization for both JP and RM, but the pyrolysis temperature at which this interaction was strongest differed with taxa reflecting the difference in thermal transition in which carbonization begins (300°C for JP and 450°C for RM). In contrast to previous studies, the addition of sucrose suggests that a co-metabolism mechanism of PyOM decomposition is minor in this soil. Our results show that while the first order control on PyOM stability in this soil is pyrolysis temperature, wood taxa did affect PyOM C MRT, in part due to differences in the amount of water soluble C released by PyOM during the initial decomposition dynamics in soil.

Theoretical size distribution of fossil taxa: analysis of a null model.

PubMed

Reed, William J; Hughes, Barry D

2007-03-22

This article deals with the theoretical size distribution (of number of sub-taxa) of a fossil taxon arising from a simple null model of macroevolution. New species arise through speciations occurring independently and at random at a fixed probability rate, while extinctions either occur independently and at random (background extinctions) or cataclysmically. In addition new genera are assumed to arise through speciations of a very radical nature, again assumed to occur independently and at random at a fixed probability rate. The size distributions of the pioneering genus (following a cataclysm) and of derived genera are determined. Also the distribution of the number of genera is considered along with a comparison of the probability of a monospecific genus with that of a monogeneric family.

Poorly known microbial taxa dominate the microbiome of permafrost thaw ponds.

PubMed

Wurzbacher, Christian; Nilsson, R Henrik; Rautio, Milla; Peura, Sari

2017-08-01

In the transition zone of the shifting permafrost border, thaw ponds emerge as hotspots of microbial activity, processing the ancient carbon freed from the permafrost. We analyzed the microbial succession across a gradient of recently emerged to older ponds using three molecular markers: one universal, one bacterial and one fungal. Age was a major modulator of the microbial community of the thaw ponds. Surprisingly, typical freshwater taxa comprised only a small fraction of the community. Instead, thaw ponds of all age classes were dominated by enigmatic bacterial and fungal phyla. Our results on permafrost thaw ponds lead to a revised perception of the thaw pond ecosystem and their microbes, with potential implications for carbon and nutrient cycling in this increasingly important class of freshwaters.

Physical and Biological Impacts of Changing Land-Uses and the Environment

NASA Astrophysics Data System (ADS)

English, W. R.; Pike, J. W.; Jolley, L. W.; Goddard, M. A.; Biondi, M. J.; Hur, J. M.; Powell, B. A.; Morse, J. C.

2005-05-01

A goal of the Changing Land Use and the Environment (CLUE) project is to characterize surface water quality impacted by land-use change in the Saluda and Reedy River watersheds of South Carolina. The CLUE project focuses on impacts common to urban development including 1. sedimentation from construction sites, 2. alteration of discharge and channel morphology due to increased impervious surfaces, 3. macroinvertebrate community response to sedimentation and habitat alteration, and 4. microbial contamination. We found that mean streambed particle size was reduced in developing areas. Stream cross-sectional areas enlarged in catchments with high percentages of impervious surfaces. Sedimentation and altered discharge resulted in the benthic macroinvertebrate community showing a general reduction in biotic integrity values and reductions in Plecoptera taxa richness. Fecal coliform levels were higher for both surface water and bottom sediments in and below urbanized areas during base flows. Levels of fecal coliform in samples collected during storm flows were significantly higher than in base flows, and were correlated with high sediment loads.

Comparative sodium transport patterns provide clues for understanding salinity and metal responses in aquatic insects.

PubMed

Scheibener, S A; Richardi, V S; Buchwalter, D B

2016-02-01

The importance of insects in freshwater ecosystems has led to their extensive use in ecological monitoring programs. As freshwater systems are increasingly challenged by salinization and metal contamination, it is important to understand fundamental aspects of aquatic insect physiology (e.g., osmoregulatory processes) that contribute to insect responses to these stressors. Here we compared the uptake dynamics of Na as NaCl, NaHCO3 and Na2SO4 in the caddisfly Hydropsyche betteni across a range of Na concentrations (0.06-15.22 mM) encompassing the vast majority of North American freshwater ecosystems. Sulfate as the major anion resulted in decreased Na uptake rates relative to the chloride and bicarbonate salts. A comparison of Na (as NaHCO3) turnover rates in the caddisfly Hydropsyche sparna and the mayfly Maccaffertium sp. revealed different patterns in the 2 species. Both species appeared to tightly regulate their whole body sodium concentrations (at ∼47±1.8 μmol/g wet wt) across a range of Na concentrations (0.06-15.22 mM) over 7 days. However, at the highest Na concentration (15.22 mM), Na uptake rates in H. sparna (419.1 μM Na g(-1) hr(-1) wet wt) appeared close to saturation while Na uptake rates in Maccaffertium sp. were considerably faster (715 g μM Na g(-1) hr(-1) wet wt) and appeared to not be close to saturation. Na efflux studies in H. sparna revealed that loss rates are commensurate with uptake rates and are responsive to changes in water Na concentrations. A comparison of Na uptake rates (at 0.57 mM Na) across 9 species representing 4 major orders (Ephemeroptera, Plecoptera, Trichoptera and Diptera) demonstrated profound physiological differences across species after accounting for the influence of body weight. Faster Na uptake rates were associated with species described as being sensitive to salinization in field studies. The metals silver (Ag) and copper (Cu), known to be antagonistic to Na uptake in other aquatic taxa did not generally

Environmental hazards of aluminum to plants, invertebrates, fish, and wildlife

USGS Publications Warehouse

Sparling, D.W.; Lowe, T.P.

1996-01-01

Aluminum is extremely common throughout the world and is innocuous under circumneutral or alkaline conditions. However, in acidic environments, it can be a maJor limiting factor to many plants and aquatic organisms. The greatest concern for toxicity in North America occurs in areas that are affected by wet and dry acid deposition, such as eastern Canada and the northeastern U.S. Acid mine drainage, logging, and water treatment plant effluents containing alum can be other maJor sources of Al. In solution, the metal can combine with several different agents to affect toxicity. In general, Al hydroxides and monomeric Al are the most toxic forms. Dissolved organic carbons, F, PO(3)3- and SO(4)2- ameliorate toxicity by reducing bioavailability. Elevated metal levels in water and soil can cause serious problems for some plants. Algae tend to be both acid- and Al tolerant and, although some species may disappear with reduced pH, overall algae productivity and biomass are seldom affected if pH is above 3.0. Aluminum and acid toxicity tend to be additive to some algae when pH is less than 4.5. Because the metal binds with inorganic P, it may reduce P availability and reduce productivity. Forest die-backs in North America involving red spruce, Fraser fir, balsam fir, loblolly pine, slash pine, and sugar maples have been ascribed to Al toxicity, and extensive areas of European forests have died because of the combination of high soil Al and low pH. Extensive research on crops has produced Al-resistant cultivars and considerable knowledge about mechanisms of and defenses against toxicity. Very low Al levels may benefit some plants, although the metal is not recognized as an essential nutrient. Hyperaccumulator species of plants may concentrate Al to levels that are toxic to herbivores. Toxicity in aquatic invertebrates is also acid dependent. Taxa such as Ephemeroptera, Plecoptera, and Cladocera are sensitive and may perish when Al is less than 1 mg.L-1 whereas dipterans

Macroinvertebrate instream flow studies after 20 years: A role in stream management and restoration

USGS Publications Warehouse

Gore, James A.; Layzer, James B.; Mead, Jim

2001-01-01

Over the past two decades of refinement and application of instream flow evaluations, we have examined the hydraulic habitat of aquatic macroinvertebrates in a variety of conditions, along with the role of these macroinvertebrates in sustaining ecosystem integrity. Instream flow analyses assume that predictable changes in channel flow characteristics can, in turn, be used to predict the change in the density or distribution of lotic species or, more appropriately, the availability of useable habitat for those species. Five major hydraulic conditions most affect the distribution and ecological success of lotic biota: suspended load, bedload movement, and water column effects, such as turbulence, velocity profile, and substratum interactions (near-bed hydraulics). The interactions of these hydraulic conditions upon the morphology and behavior of the individual organisms govern the distribution of aquatic biota. Historically, management decisions employing the Physical Habitat Simulation (PHABSIM) have focused upon prediction of available habitat for life stages of target fish species. Regulatory agencies have rarely included evaluation of benthos for flow reservations. Although ‘taxonomic discomfort’ may be cited for the reluctant use or creation of benthic criteria, we suggest that a basic misunderstanding of the links between benthic macroinvertebrate and the fish communities is still a problem. This is derived from the lack of a perceived ‘value’ that can be assigned to macroinvertebrate species. With the exception of endangered mussel species (for which PHABSIM analysis is probably inappropriate), this is understandable. However, it appears that there is a greater ability to predict macroinvertebrate distribution (that is, a response to the change in habitat quality or location) and diversity without complex population models. Also, habitat suitability criteria for water quality indicator taxa (Ephemeroptera, Plecoptera, and Trichoptera; the so-called �

Restingomyces, a new sequestrate genus from the Brazilian Atlantic rainforest that is phylogenetically related to early-diverging taxa in Trappeaceae (Phallales).

PubMed

Sulzbacher, Marcelo A; Grebenc, Tine; Cabral, Tiara S; Giachini, Admir J; Goto, Bruno T; Smith, Matthew E; Baseia, Iuri G

2016-09-01

Restingomyces reticulatus gen. et sp. nov. is a recently discovered false truffle species from Atlantic "restinga" rainforest in northeastern Brazil. Molecular and morphological characters separate this new sequestrate species from other described taxa in the order Phallales (Phallomycetidae, Basidiomycota). In our phylogenetic analysis based on nuc 28S rDNA and atp6, R. reticulatus forms a sister clade to Trappea darkeri and Phallobata alba, with the three taxa forming the earliest diverging lineage within Phallales. Morphological and molecular data warrant the recognition of the new genus and species, described here, and we also amend the taxonomic description for the family Trappeaceae. © 2016 by The Mycological Society of America.

Repeatability of clades as a criterion of reliability: a case study for molecular phylogeny of Acanthomorpha (Teleostei) with larger number of taxa.

PubMed

Chen, Wei-Jen; Bonillo, Céline; Lecointre, Guillaume

2003-02-01

Although much progress has been made recently in teleostean phylogeny, relationships among the main lineages of the higher teleosts (Acanthomorpha), containing more than 60% of all fish species, remain poorly defined. This study represents the most extensive taxonomic sampling effort to date to collect new molecular characters for phylogenetic analysis of acanthomorph fishes. We compiled and analyzed three independent data sets, including: (i) mitochondrial ribosomal fragments from 12S and 16s (814bp for 97 taxa); (ii) nuclear ribosomal 28S sequences (847bp for 74 taxa); and (iii) a nuclear protein-coding gene, rhodopsin (759bp for 86 taxa). Detailed analyses were conducted on each data set separately and the principle of taxonomic congruence without consensus trees was used to assess confidence in the results as follows. Repeatability of clades from separate analyses was considered the primary criterion to establish reliability, rather than bootstrap proportions from a single combined (total evidence) data matrix. The new and reliable clades emerging from this study of the acanthomorph radiation were: Gadiformes (cods) with Zeioids (dories); Beloniformes (needlefishes) with Atheriniformes (silversides); blenioids (blennies) with Gobiesocoidei (clingfishes); Channoidei (snakeheads) with Anabantoidei (climbing gouramies); Mastacembeloidei (spiny eels) with Synbranchioidei (swamp-eels); the last two pairs of taxa grouping together, Syngnathoidei (aulostomids, macroramphosids) with Dactylopteridae (flying gurnards); Scombroidei (mackerels) plus Stromatoidei plus Chiasmodontidae; Ammodytidae (sand lances) with Cheimarrhichthyidae (torrentfish); Zoarcoidei (eelpouts) with Cottoidei; Percidae (perches) with Notothenioidei (Antarctic fishes); and a clade grouping Carangidae (jacks), Echeneidae (remoras), Sphyraenidae (barracudas), Menidae (moonfish), Polynemidae (threadfins), Centropomidae (snooks), and Pleuronectiformes (flatfishes).

Nested taxa-area curves for eastern United States floras

USGS Publications Warehouse

Bennett, J.P.

1997-01-01

The slopes of log-log species-area curves have been studied extensively and found to be influenced by the range of areas under study. Two such studies of eastern United States floras have yielded species-area curve slopes which differ by more than 100%: 0.251 and 0.113. The first slope may be too steep because the flora of the world was included, and both may be too steep because noncontiguous areas were used. These two hypotheses were tested using a set of nested floras centered in Ohio and continuing up to the flora of the world. The results suggest that this set of eastern United States floras produces a log-log species-area curve with a slope of approximately 0.20 with the flora of the world excluded, and regardless of whether or not the floras are from nested areas. Genera- and family-area curves are less steep than species-area curves and show similar patterns. Taxa ratio curves also increase with area, with the species/family ratio showing the steepest slope.

Copper, cadmium, and zinc concentrations in aquatic food chains from the Upper Sacramento River (California) and selected tributaries

USGS Publications Warehouse

Saiki, M.K.; Castleberry, D. T.; May, T. W.; Martin, B.A.; Bullard, F. N.

1995-01-01

Metals enter the Upper Sacramento River above Redding, California, primarily through Spring Creek, a tributary that receives acid-mine drainage from a US EPA Superfund site known locally as Iron Mountain Mine. Waterweed (Elodea canadensis) and aquatic insects (midge larvae, Chironomidae; and mayfly nymphs, Ephemeroptera) from the Sacramento River downstream from Spring Creek contained much higher concentrations of copper (Cu), cadmium (Cd), and zinc (Zn) than did similar taxa from nearby reference tributaries not exposed to acid-mine drainage. Aquatic insects from the Sacramento River contained especially high maximum concentrations of Cu (200 mg/kg dry weight in midge larvae), Cd (23 mg/kg dry weight in mayfly nymphs), and Zn (1,700 mg/kg dry weight in mayfly nymphs). Although not always statistically significant, whole-body concentrations of Cu, Cd, and Zn in fishes (threespine stickleback, Gasterosteus aculeatus; Sacramento sucker, Catostomus occidentalis; Sacramento squawfish, Ptychocheilus grandis; and chinook salmon, Oncorhynchus tshawytasch) from the Sacramento River were generally higher than in fishes from the reference tributaries.

Nine-year performance of a variety of Populus taxa on an upland site in western Kentucky

Treesearch

Randall J. Rousseau; Joshua P. Adams; David W. Wilkerson

2013-01-01

A variety of hybrid poplars have been planted on upland sites throughout the Midwest and Midsouth regions of the United States. Very few of these clones have proven to be worthwhile due to susceptibility to a variety of diseases. Five different Populus taxa were planted on an upland site in western Kentucky as a means of assessing resistance to local...

Comparative analysis of essential oils of six Anthemis taxa from Serbia and Montenegro.

PubMed

Pavlović, Milica; Lakusić, Dmitar; Kovacević, Nada; Tzakou, Olga; Couladis, Maria

2010-05-01

The essential-oil composition of six Anthemis taxa from several populations in Serbia and Montenegro, Anthemis triumfetti (L.) DC., A. tinctoria L., A. austriaca Jacq., A. ruthenica Bieb., A. cotula L., and A. cretica ssp. carpatica (Willd.) Grierson were analyzed by GC and GC/MS. The main constituents have been identified as follows: camphor (13.8-15.4%), alpha-pinene (5.2-9.3%), beta-pinene (4.9-7.8%), and (E)-caryophyllene (7.3-9.8%) in three populations, and cis-chrysanthenol (27.0%) and 1,8-cineole (8.4%) in one population of A. triumfetti; 1,8-cineole (9.0-25.8%) in the oils of five populations, and borneol (16.0%) and spatulenol (16.0%) in the oil of one population of A. tinctoria; cis-chrysanthenyl acetate (17.5-22.0%), beta-pinene (8.6-13.2%), and 1,8-cineole (7.2-10.4%) in the oils of A. austriaca; germacrene D (8.3-11.3%) and terpinen-4-ol (6.3-7.3%) in A. ruthenica oils; beta-cedrene (10.3-19.0%), (E)-beta-farnesene (7.8-13.5%), and germacrene D (5.2-9.1%) in the oils of A. cotula; cis-thujone (39.0%), trans-thujone (13.5%), and yomogi alcohol (7.1%) in the oil of A. cretica ssp. carpatica. The essential oil of A. austriaca was studied for the first time. A cluster analysis based on the relative percentages of all components of the essential oils was used to determine the distances between taxa and populations.

Elucidating the substrate specificities of acyl-lipid thioesterases from diverse plant taxa.

PubMed

Kalinger, Rebecca S; Pulsifer, Ian P; Rowland, Owen

2018-06-01

Acyl-ACP thioesterase enzymes, which cleave fatty acyl thioester bonds to release free fatty acids, contribute to much of the fatty acid diversity in plants. In Arabidopsis thaliana, a family of four single hot-dog fold domain, plastid-localized acyl-lipid thioesterases (AtALT1-4) generate medium-chain (C6-C14) fatty and β-keto fatty acids as secondary metabolites. These volatile products may serve to attract insect pollinators or deter predatory insects. Homologs of AtALT1-4 are present in all plant taxa, but are nearly all uncharacterized. Despite high sequence identity, AtALT1-4 generate different lipid products, suggesting that ALT homologs in other plants also have highly varied activities. We investigated the catalytic diversity of ALT-like thioesterases by screening the substrate specificities of 15 ALT homologs from monocots, eudicots, a lycophyte, a green microalga, and the ancient gymnosperm Gingko biloba, via expression in Escherichia coli. Overall, these enzymes had highly varied substrate preferences compared to one another and to AtALT1-4, and could be classified into four catalytic groups comprising members from diverse taxa. Group 1 ALTs primarily generated 14:1 β-keto fatty acids, Group 2 ALTs produced 6-10 carbon fatty/β-keto fatty acids, Group 3 ALTs predominantly produced 12-14 carbon fatty acids, and Group 4 ALTs mainly generated 16 carbon fatty acids. Enzymes in each group differed significantly in the quantities of lipids and types of minor products they generated in E. coli. Medium-chain fatty acids are used to manufacture insecticides, pharmaceuticals, and biofuels, and ALT-like proteins are ideal candidates for metabolic engineering to produce specific fatty acids in significant quantities. Copyright © 2018 Elsevier Masson SAS. All rights reserved.

Theoretical size distribution of fossil taxa: analysis of a null model

PubMed Central

Reed, William J; Hughes, Barry D

2007-01-01

Background This article deals with the theoretical size distribution (of number of sub-taxa) of a fossil taxon arising from a simple null model of macroevolution. Model New species arise through speciations occurring independently and at random at a fixed probability rate, while extinctions either occur independently and at random (background extinctions) or cataclysmically. In addition new genera are assumed to arise through speciations of a very radical nature, again assumed to occur independently and at random at a fixed probability rate. Conclusion The size distributions of the pioneering genus (following a cataclysm) and of derived genera are determined. Also the distribution of the number of genera is considered along with a comparison of the probability of a monospecific genus with that of a monogeneric family. PMID:17376249

Coralsnake Venomics: Analyses of Venom Gland Transcriptomes and Proteomes of Six Brazilian Taxa

PubMed Central

Aird, Steven D.; da Silva, Nelson Jorge; Qiu, Lijun; Villar-Briones, Alejandro; Saddi, Vera Aparecida; Pires de Campos Telles, Mariana; Grau, Miguel L.; Mikheyev, Alexander S.

2017-01-01

Venom gland transcriptomes and proteomes of six Micrurus taxa (M. corallinus, M. lemniscatus carvalhoi, M. lemniscatus lemniscatus, M. paraensis, M. spixii spixii, and M. surinamensis) were investigated, providing the most comprehensive, quantitative data on Micrurus venom composition to date, and more than tripling the number of Micrurus venom protein sequences previously available. The six venomes differ dramatically. All are dominated by 2–6 toxin classes that account for 91–99% of the toxin transcripts. The M. s. spixii venome is compositionally the simplest. In it, three-finger toxins (3FTxs) and phospholipases A2 (PLA2s) comprise >99% of the toxin transcripts, which include only four additional toxin families at levels ≥0.1%. Micrurus l. lemniscatus venom is the most complex, with at least 17 toxin families. However, in each venome, multiple structural subclasses of 3FTXs and PLA2s are present. These almost certainly differ in pharmacology as well. All venoms also contain phospholipase B and vascular endothelial growth factors. Minor components (0.1–2.0%) are found in all venoms except that of M. s. spixii. Other toxin families are present in all six venoms at trace levels (<0.005%). Minor and trace venom components differ in each venom. Numerous novel toxin chemistries include 3FTxs with previously unknown 8- and 10-cysteine arrangements, resulting in new 3D structures and target specificities. 9-cysteine toxins raise the possibility of covalent, homodimeric 3FTxs or heterodimeric toxins with unknown pharmacologies. Probable muscarinic sequences may be reptile-specific homologs that promote hypotension via vascular mAChRs. The first complete sequences are presented for 3FTxs putatively responsible for liberating glutamate from rat brain synaptosomes. Micrurus C-type lectin-like proteins may have 6–9 cysteine residues and may be monomers, or homo- or heterodimers of unknown pharmacology. Novel KSPIs, 3× longer than any seen previously, appear to

Climate oscillations, glacial refugia, and dispersal ability: factors influencing the genetic structure of the least salmonfly, Pteronarcella badia (Plecoptera), in Western North America.

PubMed

Sproul, John S; Houston, Derek D; Nelson, C Riley; Evans, R Paul; Crandall, Keith A; Shiozawa, Dennis K

2015-12-12

Phylogeographic studies of aquatic insects provide valuable insights into mechanisms that shape the genetic structure of communities, yet studies that include broad geographic areas are uncommon for this group. We conducted a broad scale phylogeographic analysis of the least salmonfly Pteronarcella badia (Plecoptera) across western North America. We tested hypotheses related to mode of dispersal and the influence of historic climate oscillations on population genetic structure. In order to generate a larger mitochondrial data set, we used 454 sequencing to reconstruct the complete mitochondrial genome in the early stages of the project. Our analysis revealed high levels of population structure with several deeply divergent clades present across the sample area. Evidence from five mitochondrial genes and one nuclear locus identified a potentially cryptic lineage in the Pacific Northwest. Gene flow estimates and geographic clade distributions suggest that overland flight during the winged adult stage is an important dispersal mechanism for this taxon. We found evidence of multiple glacial refugia across the species distribution and signs of secondary contact within and among major clades. This study provides a basis for future studies of aquatic insect phylogeography at the inter-basin scale in western North America. Our findings add to an understanding of the role of historical climate isolations in shaping assemblages of aquatic insects in this region. We identified several geographic areas that may have historical importance for other aquatic organisms with similar distributions and dispersal strategies as P. badia. This work adds to the ever-growing list of studies that highlight the potential of next-generation DNA sequencing in a phylogenetic context to improve molecular data sets from understudied groups.

Iteration expansion and regional evolution: phylogeography of Dendrobium officinale and four related taxa in southern China

PubMed Central

Hou, Beiwei; Luo, Jing; Zhang, Yusi; Niu, Zhitao; Xue, Qingyun; Ding, Xiaoyu

2017-01-01

The genus Dendrobium was used as a case study to elucidate the evolutionary history of Orchidaceae in the Sino-Japanese Floristic Region (SJFR) and Southeast Asia region. These evolutionary histories remain largely unknown, including the temporal and spatial distribution of the evolutionary events. The present study used nuclear and plastid DNA to determine the phylogeography of Dendrobium officinale and four closely related taxa. Plastid DNA haplotype and nuclear data were shown to be discordant, suggesting reticulate evolution drove the species’ diversification. Rapid radiation and genetic drift appeared to drive the evolution of D. tosaense and D. flexicaule, whereas introgression or hybridization might have been involved in the evolution of D. scoriarum and D. shixingense. The phylogeographical structure of D. officinale revealed that core natural distribution regions might have served as its glacial refuges. In recent years, human disturbances caused its artificial migration and population extinction. The five taxa may have originated from the Nanling Mountains and the Yungui Plateau and then migrated northward or eastward. After the initial iteration expansion, D. officinale populations appeared to experience the regional evolutionary patterns in different regions and follow the sequential or rapid decline in gene exchange. PMID:28262789

Microbial Community Diversities and Taxa Abundances in Soils along a Seven-Year Gradient of Potato Monoculture Using High Throughput Pyrosequencing Approach

PubMed Central

Liu, Xing; Zhang, Junlian; Gu, Tianyu; Zhang, Wenming; Shen, Qirong; Yin, Shixue; Qiu, Huizhen

2014-01-01

Background Previous studies have focused on linking soil community structure, diversity, or specific taxa to disturbances. Relatively little attention has been directed to crop monoculture soils, particularly potato monoculture. Information about microbial community changes over time between monoculture and non-monoculture treatments is lacking. Furthermore, few studies have examined microbial communities in potato monoculture soils using a high throughput pyrosequencing approach. Methodology/Principal Findings Soils along a seven-year gradient of potato monoculture were collected and microbial communities were characterized using high throughput pyrosequencing approach. Principal findings are as follows. First, diversity (H Shannon) and richness (S Chao1) indices of bacterial community, but not of fungal community, were linearly decreased over time and corresponded to a decline of soil sustainability represented by yield decline and disease incidence increase. Second, Fusarium, the only soilborne pathogen-associated fungal genus substantially detected, was linearly increased over time in abundance and was closely associated with yield decline. Third, Fusarium abundance was negatively correlated with soil organic matter (OM) and total nitrogen (TN) but positively with electrical conductivity (EC). Fourth, Fusarium was correlated in abundances with 6 bacterial taxa over time. Conclusions Soil bacterial and fungal communities exhibited differential responses to the potato monoculture. The overall soil bacterial communities were shaped by potato monoculture. Fusarium was the only soilborne pathogen-associated genus associated with disease incidence increase and yield decline. The changes of soil OM, TN and EC were responsible for Fusarium enrichment, in addition to selections by the monoculture crop. Acidobacteria and Nitrospirae were linearly decreased over time in abundance, corresponding to the decrease of OM, suggesting their similar ecophysiologial trait

Leonard A. Kelton, 1923-2011: Biographical sketch, list of publications, described taxa, and patronyms names in his honor

USDA-ARS?s Scientific Manuscript database

A biographical sketch of the late heteropterist, Leonard Alexander Kelton (1923-2011), a former systematist at the Canadian National Collection in Ottawa, Canada, is presented. Also provided are lists of his 71 scientific publications, the new taxa he described, and the patronyms named in his honor....

Firmicutes dominate the bacterial taxa within sugar-cane processing plants

PubMed Central

Sharmin, Farhana; Wakelin, Steve; Huygens, Flavia; Hargreaves, Megan

2013-01-01

Sugar cane processing sites are characterised by high sugar/hemicellulose levels, available moisture and warm conditions, and are relatively unexplored unique microbial environments. The PhyloChip microarray was used to investigate bacterial diversity and community composition in three Australian sugar cane processing plants. These ecosystems were highly complex and dominated by four main Phyla, Firmicutes (the most dominant), followed by Proteobacteria, Bacteroidetes, and Chloroflexi. Significant variation (p < 0.05) in community structure occurred between samples collected from ‘floor dump sediment’, ‘cooling tower water’, and ‘bagasse leachate’. Many bacterial Classes contributed to these differences, however most were of low numerical abundance. Separation in community composition was also linked to Classes of Firmicutes, particularly Bacillales, Lactobacillales and Clostridiales, whose dominance is likely to be linked to their physiology as ‘lactic acid bacteria’, capable of fermenting the sugars present. This process may help displace other bacterial taxa, providing a competitive advantage for Firmicutes bacteria. PMID:24177592

Reconnaissance of chemical and biological quality in the Owyhee River from the Oregon State line to the Owyhee Reservoir, Oregon, 2001–02

USGS Publications Warehouse

Hardy, Mark A.; Maret, Terry R.; George, David L.

2004-01-01

with no mines, were enriched with nine trace elements, which indicates that this basin may be a natural source of these elements. Near Rome, the part of the study area not included in the National Wild and Scenic Rivers System, land-use impacts resulted in elevated populations of Escherichia coli bacteria (E. coli) during base flow and elevated concentrations of nitrogen and phosphorus during spring runoff. Sites in this area had the highest numbers of benthic invertebrates; the fewest Ephemeroptera, Plecoptera, and Trichoptera taxa; and the highest Hilsenhoff Biotic Index scores. These results suggest degraded stream quality. Periphyton communities at sites in this area approached nuisance levels and could cause significant dissolved oxygen depletions and pH values that exceed Oregon's recommended criteria. Stream-bottom materials from Jordan Creek were enriched with mercury and manganese, which probably were ultimately caused by past mining in that basin. Below Crooked Creek, elevated suspended sediment concentrations (142 mg/L), phosphorus concentrations (0.23 mg/L), and E. coli populations (370 most probable number per 100 milliliters) during the largest spring runoff event could be the result of inputs at the lower end of Jordan Valley and (or) inputs from Crooked Creek. The New Zealand Mud Snail, a highly competitive gastropod introduced to the Snake River in the 1980s, was collected just downstream from the Crooked Creek confluence.

Phylogeny of palaeotropic Derris-like taxa (Fabaceae) based on chloroplast and nuclear DNA sequences shows reorganization of (infra)generic classifications is needed.

PubMed

Sirichamorn, Yotsawate; Adema, Frits A C B; Gravendeel, Barbara; van Welzen, Peter C

2012-11-01

Palaeotropic Derris-like taxa (family Fabaceae, tribe Millettieae) comprise 6-9 genera. They are well known as important sources of rotenone toxin, which are used as organic insecticide and fish poison. However, their phylogenetic relationships and classification are still problematic due to insufficient sampling and high morphological variability. Fifty species of palaeotropic Derris-like taxa were sampled, which is more than in former studies. Three chloroplast genes (trnK-matK, trnL-F IGS, and psbA-trnH IGS) and nuclear ribosomal ITS /5.8S were analyzed using parsimony and Bayesian methods. Parsimony and Bayesian analyses of individual and combined markers show more or less similar tree topologies (only varying in terminal branches). The old-world monophyletic genera Aganope, Brachypterum, and Leptoderris are distinct from Derris s.s., and their generic status is here confirmed. Aganope may be classified into two or three subgeneric taxa. Paraderris has to be included in Derris s.s. to form a monophyletic group. The genera Philenoptera, Deguelia, and Lonchocarpus are monophyletic and distinct from each other and clearly separate from Derris s.s. Morphologically highly similar species of Derris s.s. are shown to be unrelated. Our study shows that previous infrageneric classifications of Derris are incorrect. Paraderris elliptica may contain several cryptic lineages that need further investigation. The concept of the genus Derris s.s. should be reorganized with a new generic circumscription by including Paraderris but excluding Brachypterum. Synapomorphic morphological features will be examined in future studies, and the status of the newly defined Derris and its closely related taxa will be formalized.

Host-associated bacterial taxa from Chlorobi, Chloroflexi, GN02, Synergistetes, SR1, TM7, and WPS-2 Phyla/candidate divisions

PubMed Central

Camanocha, Anuj; Dewhirst, Floyd E.

2014-01-01

Background and objective In addition to the well-known phyla Firmicutes, Proteobacteria, Bacteroidetes, Actinobacteria, Spirochaetes, Fusobacteria, Tenericutes, and Chylamydiae, the oral microbiomes of mammals contain species from the lesser-known phyla or candidate divisions, including Synergistetes, TM7, Chlorobi, Chloroflexi, GN02, SR1, and WPS-2. The objectives of this study were to create phyla-selective 16S rDNA PCR primer pairs, create selective 16S rDNA clone libraries, identify novel oral taxa, and update canine and human oral microbiome databases. Design 16S rRNA gene sequences for members of the lesser-known phyla were downloaded from GenBank and Greengenes databases and aligned with sequences in our RNA databases. Primers with potential phylum level selectivity were designed heuristically with the goal of producing nearly full-length 16S rDNA amplicons. The specificity of primer pairs was examined by making clone libraries from PCR amplicons and determining phyla identity by BLASTN analysis. Results Phylum-selective primer pairs were identified that allowed construction of clone libraries with 96–100% specificity for each of the lesser-known phyla. From these clone libraries, seven human and two canine novel oral taxa were identified and added to their respective taxonomic databases. For each phylum, genome sequences closest to human oral taxa were identified and added to the Human Oral Microbiome Database to facilitate metagenomic, transcriptomic, and proteomic studies that involve tiling sequences to the most closely related taxon. While examining ribosomal operons in lesser-known phyla from single-cell genomes and metagenomes, we identified a novel rRNA operon order (23S-5S-16S) in three SR1 genomes and the splitting of the 23S rRNA gene by an I-CeuI-like homing endonuclease in a WPS-2 genome. Conclusions This study developed useful primer pairs for making phylum-selective 16S rRNA clone libraries. Phylum-specific libraries were shown to be useful

Incongruent genetic connectivity patterns for VME indicator taxa: implications for the management of New Zealand's vulnerable marine ecosystems

NASA Astrophysics Data System (ADS)

Clark, M. R.; Gardner, J.; Holland, L.; Zeng, C.; Hamilton, J. S.; Rowden, A. A.

2016-02-01

In the New Zealand region vulnerable marine ecosystems (VMEs) are at risk from commercial fishing activity and future seabed mining. Understanding connectivity among VMEs is important for the design of effective spatial management strategies, i.e. a network of protected areas. To date however, genetic connectivity in the New Zealand region has rarely been documented. As part of a project developing habitat suitability models and spatial management options for VMEs we used DNA sequence data and microsatellite genotyping to assess genetic connectivity for a range of VME indicator taxa, including the coral Desmophyllum dianthus, and the sponges Poecilastra laminaris and Penares palmatoclada. Overall, patterns of connectivity were inconsistent amonst taxa. Nonetheless, genetic data from each taxon were relevant to inform management at a variety of spatial scales. D. dianthus populations in the Kermadec volcanic arc and the Louisville Seamount Chain were indistinguishable, highlighting the importance of considering source-sink dynamics between populations beyond the EEZ in conservation planning. Poecilastra laminaris populations showed significant divergence across the Chatham Rise, in contrast to P. palmatoclada, which had a uniform haplotypic distribution. However, both sponge species exhibited the highest genetic diversity on the Chatham Rise, suggesting that this area is a genetic hotspot. The spatial heterogeneity of genetic patterns of structure suggest that inclusion of several taxa is necessary to facilitate understanding of regional connectivity patterns, variation in which may be attributed to alternate life history strategies, local hydrodynamic regimes, or in some cases, suboptimal sample sizes. Our findings provide important information for use by environmental managers, including summary maps of genetic diversity and barriers to gene flow, which will be used in spatial management decision-support tools.

Diverse, rare microbial taxa responded to the Deepwater Horizon deep-sea hydrocarbon plume.

PubMed

Kleindienst, Sara; Grim, Sharon; Sogin, Mitchell; Bracco, Annalisa; Crespo-Medina, Melitza; Joye, Samantha B

2016-02-01

The Deepwater Horizon (DWH) oil well blowout generated an enormous plume of dispersed hydrocarbons that substantially altered the Gulf of Mexico's deep-sea microbial community. A significant enrichment of distinct microbial populations was observed, yet, little is known about the abundance and richness of specific microbial ecotypes involved in gas, oil and dispersant biodegradation in the wake of oil spills. Here, we document a previously unrecognized diversity of closely related taxa affiliating with Cycloclasticus, Colwellia and Oceanospirillaceae and describe their spatio-temporal distribution in the Gulf's deepwater, in close proximity to the discharge site and at increasing distance from it, before, during and after the discharge. A highly sensitive, computational method (oligotyping) applied to a data set generated from 454-tag pyrosequencing of bacterial 16S ribosomal RNA gene V4-V6 regions, enabled the detection of population dynamics at the sub-operational taxonomic unit level (0.2% sequence similarity). The biogeochemical signature of the deep-sea samples was assessed via total cell counts, concentrations of short-chain alkanes (C1-C5), nutrients, (colored) dissolved organic and inorganic carbon, as well as methane oxidation rates. Statistical analysis elucidated environmental factors that shaped ecologically relevant dynamics of oligotypes, which likely represent distinct ecotypes. Major hydrocarbon degraders, adapted to the slow-diffusive natural hydrocarbon seepage in the Gulf of Mexico, appeared unable to cope with the conditions encountered during the DWH spill or were outcompeted. In contrast, diverse, rare taxa increased rapidly in abundance, underscoring the importance of specialized sub-populations and potential ecotypes during massive deep-sea oil discharges and perhaps other large-scale perturbations.

Diverse, rare microbial taxa responded to the Deepwater Horizon deep-sea hydrocarbon plume

PubMed Central

Kleindienst, Sara; Grim, Sharon; Sogin, Mitchell; Bracco, Annalisa; Crespo-Medina, Melitza; Joye, Samantha B

2016-01-01

The Deepwater Horizon (DWH) oil well blowout generated an enormous plume of dispersed hydrocarbons that substantially altered the Gulf of Mexico's deep-sea microbial community. A significant enrichment of distinct microbial populations was observed, yet, little is known about the abundance and richness of specific microbial ecotypes involved in gas, oil and dispersant biodegradation in the wake of oil spills. Here, we document a previously unrecognized diversity of closely related taxa affiliating with Cycloclasticus, Colwellia and Oceanospirillaceae and describe their spatio-temporal distribution in the Gulf's deepwater, in close proximity to the discharge site and at increasing distance from it, before, during and after the discharge. A highly sensitive, computational method (oligotyping) applied to a data set generated from 454-tag pyrosequencing of bacterial 16S ribosomal RNA gene V4–V6 regions, enabled the detection of population dynamics at the sub-operational taxonomic unit level (0.2% sequence similarity). The biogeochemical signature of the deep-sea samples was assessed via total cell counts, concentrations of short-chain alkanes (C1–C5), nutrients, (colored) dissolved organic and inorganic carbon, as well as methane oxidation rates. Statistical analysis elucidated environmental factors that shaped ecologically relevant dynamics of oligotypes, which likely represent distinct ecotypes. Major hydrocarbon degraders, adapted to the slow-diffusive natural hydrocarbon seepage in the Gulf of Mexico, appeared unable to cope with the conditions encountered during the DWH spill or were outcompeted. In contrast, diverse, rare taxa increased rapidly in abundance, underscoring the importance of specialized sub-populations and potential ecotypes during massive deep-sea oil discharges and perhaps other large-scale perturbations. PMID:26230048

Phytophthora taxa associated with cultivated Agothosmo, with emphasis on the P. citricola complex and P. capensis sp. nov.

Treesearch

C.M. Bezuidenhout; S. Deman; S.A. Kirk; W.J. Botha; L. Mostert; A. McLeod

2010-01-01

Agathosma species, which are indigenous to South Africa, are also cultivated for commercial use. Recently growers experienced severe plant loss, and symptoms shown by affected plants suggested that a soilborne disease could be the cause of death. A number of Phytophthora taxa were isolated from diseased plants, and this paper reports...

Phytophthora taxa associated with cultivated Agathosma, with emphasis on the P. citricola complex and P. capensis sp. nov.

Treesearch

C.M. Bezuidenhout; S. Denman; S.A. Kirk; W.J. Botha; L. Mostert; A. McLeod

2010-01-01

Agathosma species, which are indigenous to South Africa, are also cultivated for commercial use. Recently growers experienced severe plant loss, and symptoms shown by affected plants suggested that a soilborne disease could be the cause of death. A number of Phytophthora taxa were isolated from diseased plants, and this paper...

Integrated Analyses Resolve Conflicts over Squamate Reptile Phylogeny and Reveal Unexpected Placements for Fossil Taxa

PubMed Central

Reeder, Tod W.; Townsend, Ted M.; Mulcahy, Daniel G.; Noonan, Brice P.; Wood, Perry L.; Sites, Jack W.; Wiens, John J.

2015-01-01

Squamate reptiles (lizards and snakes) are a pivotal group whose relationships have become increasingly controversial. Squamates include >9000 species, making them the second largest group of terrestrial vertebrates. They are important medicinally and as model systems for ecological and evolutionary research. However, studies of squamate biology are hindered by uncertainty over their relationships, and some consider squamate phylogeny unresolved, given recent conflicts between molecular and morphological results. To resolve these conflicts, we expand existing morphological and molecular datasets for squamates (691 morphological characters and 46 genes, for 161 living and 49 fossil taxa, including a new set of 81 morphological characters and adding two genes from published studies) and perform integrated analyses. Our results resolve higher-level relationships as indicated by molecular analyses, and reveal hidden morphological support for the molecular hypothesis (but not vice-versa). Furthermore, we find that integrating molecular, morphological, and paleontological data leads to surprising placements for two major fossil clades (Mosasauria and Polyglyphanodontia). These results further demonstrate the importance of combining fossil and molecular information, and the potential problems of estimating the placement of fossil taxa from morphological data alone. Thus, our results caution against estimating fossil relationships without considering relevant molecular data, and against placing fossils into molecular trees (e.g. for dating analyses) without considering the possible impact of molecular data on their placement. PMID:25803280

Integrated analyses resolve conflicts over squamate reptile phylogeny and reveal unexpected placements for fossil taxa.

PubMed

Reeder, Tod W; Townsend, Ted M; Mulcahy, Daniel G; Noonan, Brice P; Wood, Perry L; Sites, Jack W; Wiens, John J

2015-01-01

Squamate reptiles (lizards and snakes) are a pivotal group whose relationships have become increasingly controversial. Squamates include >9000 species, making them the second largest group of terrestrial vertebrates. They are important medicinally and as model systems for ecological and evolutionary research. However, studies of squamate biology are hindered by uncertainty over their relationships, and some consider squamate phylogeny unresolved, given recent conflicts between molecular and morphological results. To resolve these conflicts, we expand existing morphological and molecular datasets for squamates (691 morphological characters and 46 genes, for 161 living and 49 fossil taxa, including a new set of 81 morphological characters and adding two genes from published studies) and perform integrated analyses. Our results resolve higher-level relationships as indicated by molecular analyses, and reveal hidden morphological support for the molecular hypothesis (but not vice-versa). Furthermore, we find that integrating molecular, morphological, and paleontological data leads to surprising placements for two major fossil clades (Mosasauria and Polyglyphanodontia). These results further demonstrate the importance of combining fossil and molecular information, and the potential problems of estimating the placement of fossil taxa from morphological data alone. Thus, our results caution against estimating fossil relationships without considering relevant molecular data, and against placing fossils into molecular trees (e.g. for dating analyses) without considering the possible impact of molecular data on their placement.

Possible effects of global environmental changes on Antarctic benthos: a synthesis across five major taxa

PubMed Central

Ingels, Jeroen; Vanreusel, Ann; Brandt, Angelika; Catarino, Ana I; David, Bruno; De Ridder, Chantal; Dubois, Philippe; Gooday, Andrew J; Martin, Patrick; Pasotti, Francesca; Robert, Henri

2012-01-01

Because of the unique conditions that exist around the Antarctic continent, Southern Ocean (SO) ecosystems are very susceptible to the growing impact of global climate change and other anthropogenic influences. Consequently, there is an urgent need to understand how SO marine life will cope with expected future changes in the environment. Studies of Antarctic organisms have shown that individual species and higher taxa display different degrees of sensitivity to environmental shifts, making it difficult to predict overall community or ecosystem responses. This emphasizes the need for an improved understanding of the Antarctic benthic ecosystem response to global climate change using a multitaxon approach with consideration of different levels of biological organization. Here, we provide a synthesis of the ability of five important Antarctic benthic taxa (Foraminifera, Nematoda, Amphipoda, Isopoda, and Echinoidea) to cope with changes in the environment (temperature, pH, ice cover, ice scouring, food quantity, and quality) that are linked to climatic changes. Responses from individual to the taxon-specific community level to these drivers will vary with taxon but will include local species extinctions, invasions of warmer-water species, shifts in diversity, dominance, and trophic group composition, all with likely consequences for ecosystem functioning. Limitations in our current knowledge and understanding of climate change effects on the different levels are discussed. PMID:22423336

Using ecological indicators and a decision support system for integrated ecological assessment at two national park units in the Mid-Atlantic region, U.S.A.

USGS Publications Warehouse

Mahan, Carolyn G.; Young, John A.; Miller, Bruce; Saunders, Michael C.

2014-01-01

We implemented an integrated ecological assessment using a GIS-based decision support system model for Upper Delaware Scenic and Recreational River (UPDE) and Delaware Water Gap National Recreation Area (DEWA)—national park units with the mid-Atlantic region of the United States. Our assessment examined a variety of aquatic and terrestrial indicators of ecosystem components that reflect the parks’ conservation purpose and reference condition. Our assessment compared these indicators to ecological thresholds to determine the condition of park watersheds. Selected indicators included chemical and physical measures of water quality, biologic indicators of water quality, and landscape condition measures. For the chemical and physical measures of water quality, we used a water quality index and each of its nine components to assess the condition of water quality in each watershed. For biologic measures of water quality, we used the Ephemeroptera, Plecoptera, Trichoptera aquatic macroinvertebrate index and, secondarily, the Hilsenhoff aquatic macroinvertebrate index. Finally, for the landscape condition measures of our model, we used percent forest and percent impervious surface. Based on our overall assessment, UPDE and DEWA watersheds had an ecological assessment score of 0.433 on a −1 to 1 fuzzy logic scale. This score indicates that, in general, the natural resource condition within watersheds at these parks is healthy or ecologically unimpaired; however, we had only partial data for many of our indicators. Our model is iterative and new data may be incorporated as they become available. These natural parks are located within a rapidly urbanizing landscape—we recommend that natural resource managers remain vigilant to surrounding land uses that may adversely affect natural resources within the parks.

Effects of repeated TFM applications on riffle macroinvertebrate communities in four Great Lakes tributaries

USGS Publications Warehouse

Weisser, John W.; Adams, Jean V.; Schuldt, Richard J.; Baldwin, Gregg A.; Lavis, Dennis S.; Slade, Jeffrey W.; Heinrich, John W.

2003-01-01

As part of the sea lamprey control program in the Great Lakes, a suite of about 150 sea lamprey producing streams have been regularly treated with the lampricide 3-trifluoromethyl-4-nitrophenol (TFM) every 3 to 5 years since 1958. State, provincial, and tribal agencies in the basin supported the use of TFM and urged that the risk to nontarget organisms be minimized. To determine the response of riffle macroinvertebrate communities to repeated TFM treatments over several years, paired samples were taken at control and treatment sites during 1986 to 1995 on four Great Lakes tributaries: the Bois Brule, West Branch Whitefish, Boardman, and Sturgeon (tributary to Cheboygan River system) rivers. Macroinvertebrates were collected in spring and fall by a standard traveling kick method. The communities were described with several metrics, and general linear models were used to test for different patterns of response in the paired control and treatment sites. Relative abundance of the class Oligochaeta, relative abundance of the genus Ephemerella, the Bray-Curtis similarity index (at the taxonomic level of order), EPT genus richness (the number of genera in the orders Ephemeroptera, Plecoptera, and Trichoptera), and total genus richness all increased more at the treatment sites than at the control sites after TFM application. The greater increase in abundance, similarity, and richness at the treatment sites was an indication of recovery in the treatment sites, where a short-term response to TFM was followed by a several-year rebound. TFM treatments in this study during the 1980s and 1990s had no long-lasting effects on riffle macroinvertebrate communities.

Using ecological indicators and a decision support system for integrated ecological assessment at two national park units in the mid-Atlantic region, USA.

PubMed

Mahan, Carolyn G; Young, John A; Miller, Bruce J; Saunders, Michael C

2015-02-01

We implemented an integrated ecological assessment using a GIS-based decision support system model for Upper Delaware Scenic and Recreational River (UPDE) and Delaware Water Gap National Recreation Area (DEWA)-national park units with the mid-Atlantic region of the United States. Our assessment examined a variety of aquatic and terrestrial indicators of ecosystem components that reflect the parks' conservation purpose and reference condition. Our assessment compared these indicators to ecological thresholds to determine the condition of park watersheds. Selected indicators included chemical and physical measures of water quality, biologic indicators of water quality, and landscape condition measures. For the chemical and physical measures of water quality, we used a water quality index and each of its nine components to assess the condition of water quality in each watershed. For biologic measures of water quality, we used the Ephemeroptera, Plecoptera, Trichoptera aquatic macroinvertebrate index and, secondarily, the Hilsenhoff aquatic macroinvertebrate index. Finally, for the landscape condition measures of our model, we used percent forest and percent impervious surface. Based on our overall assessment, UPDE and DEWA watersheds had an ecological assessment score of 0.433 on a -1 to 1 fuzzy logic scale. This score indicates that, in general, the natural resource condition within watersheds at these parks is healthy or ecologically unimpaired; however, we had only partial data for many of our indicators. Our model is iterative and new data may be incorporated as they become available. These natural parks are located within a rapidly urbanizing landscape-we recommend that natural resource managers remain vigilant to surrounding land uses that may adversely affect natural resources within the parks.

Effects of dietary esfenvalerate exposures on three aquatic insect species representing different functional feeding groups.

PubMed

Palmquist, Katherine R; Jenkins, Jeffrey J; Jepson, Paul C

2008-08-01

Given the chemical properties of synthetic pyrethroids, it is probable that compounds, including esfenvalerate, that enter surface waters may become incorporated into aquatic insect food sources. We examined the effect of dietary esfenvalerate uptake in aquatic insects representing different functional feeding groups. We used three field-collected aquatic insect species: A grazing scraper, Cinygmula reticulata McDunnough (Ephemeroptera: Heptageniidae); an omnivorous filter feeder, Brachycentrus americanus Banks (Trichoptera: Brachycentridae); and a predator, Hesperoperla pacifica Banks (Plecoptera: Perlidae). Laboratory-cultured algae were preexposed for 24 h to esfenvalerate concentrations of 0, 0.025, 0.05, and 0.1 microg/L and provided to two C. reticulata age classes (small and final-instar nymphs). Reduction in small nymph growth was observed following three weeks of feeding on algae exposed to 0.05 and 0.1 microg/L of esfenvalerate, and the highest dietary exposure reduced egg production in final-instar nymphs. The diet for B. americanus and H. pacifica consisted of dead third-instar Chironomus tentans larvae preexposed for 24 h to esfenvalerate concentrations ranging between 0.1 and 1.0 microg/L. Consumption of larvae exposed to 0.5 to 1.0 microg/L of esfenvalerate caused case abandonment and mortality in B. americanus caddisfly larvae. Although H. pacifica nymphs readily consumed esfenvalerate-exposed larvae, no adverse effects were observed during the present study. Furthermore, no evidence of esfenvalerate-induced feeding deterrence was found in any of the species tested, suggesting that aquatic insects may not be able to distinguish between pyrethroid-contaminated and uncontaminated food sources. These findings indicate that feeding deterrence is not a factor in regulating aquatic insect dietary exposures to synthetic pyrethroids.

Using Ecological Indicators and a Decision Support System for Integrated Ecological Assessment at Two National Park Units in the Mid-Atlantic Region, USA

NASA Astrophysics Data System (ADS)

Mahan, Carolyn G.; Young, John A.; Miller, Bruce J.; Saunders, Michael C.

2015-02-01

We implemented an integrated ecological assessment using a GIS-based decision support system model for Upper Delaware Scenic and Recreational River (UPDE) and Delaware Water Gap National Recreation Area (DEWA)—national park units with the mid-Atlantic region of the United States. Our assessment examined a variety of aquatic and terrestrial indicators of ecosystem components that reflect the parks' conservation purpose and reference condition. Our assessment compared these indicators to ecological thresholds to determine the condition of park watersheds. Selected indicators included chemical and physical measures of water quality, biologic indicators of water quality, and landscape condition measures. For the chemical and physical measures of water quality, we used a water quality index and each of its nine components to assess the condition of water quality in each watershed. For biologic measures of water quality, we used the Ephemeroptera, Plecoptera, Trichoptera aquatic macroinvertebrate index and, secondarily, the Hilsenhoff aquatic macroinvertebrate index. Finally, for the landscape condition measures of our model, we used percent forest and percent impervious surface. Based on our overall assessment, UPDE and DEWA watersheds had an ecological assessment score of 0.433 on a -1 to 1 fuzzy logic scale. This score indicates that, in general, the natural resource condition within watersheds at these parks is healthy or ecologically unimpaired; however, we had only partial data for many of our indicators. Our model is iterative and new data may be incorporated as they become available. These natural parks are located within a rapidly urbanizing landscape—we recommend that natural resource managers remain vigilant to surrounding land uses that may adversely affect natural resources within the parks.

Multilevel regression models describing regional patterns of invertebrate and algal responses to urbanization across the USA

USGS Publications Warehouse

Cuffney, T.F.; Kashuba, R.; Qian, S.S.; Alameddine, I.; Cha, Y.K.; Lee, B.; Coles, J.F.; McMahon, G.

2011-01-01

Multilevel hierarchical regression was used to examine regional patterns in the responses of benthic macroinvertebrates and algae to urbanization across 9 metropolitan areas of the conterminous USA. Linear regressions established that responses (intercepts and slopes) to urbanization of invertebrates and algae varied among metropolitan areas. Multilevel hierarchical regression models were able to explain these differences on the basis of region-scale predictors. Regional differences in the type of land cover (agriculture or forest) being converted to urban and climatic factors (precipitation and air temperature) accounted for the differences in the response of macroinvertebrates to urbanization based on ordination scores, total richness, Ephemeroptera, Plecoptera, Trichoptera richness, and average tolerance. Regional differences in climate and antecedent agriculture also accounted for differences in the responses of salt-tolerant diatoms, but differences in the responses of other diatom metrics (% eutraphenic, % sensitive, and % silt tolerant) were best explained by regional differences in soils (mean % clay soils). The effects of urbanization were most readily detected in regions where forest lands were being converted to urban land because agricultural development significantly degraded assemblages before urbanization and made detection of urban effects difficult. The effects of climatic factors (temperature, precipitation) on background conditions (biogeographic differences) and rates of response to urbanization were most apparent after accounting for the effects of agricultural development. The effects of climate and land cover on responses to urbanization provide strong evidence that monitoring, mitigation, and restoration efforts must be tailored for specific regions and that attainment goals (background conditions) may not be possible in regions with high levels of prior disturbance (e.g., agricultural development). ?? 2011 by The North American

The importance of retaining a phylogenetic perspective in traits-based community analyses

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

Poteat, Monica D.; Buchwalter, David B.; Jacobus, Luke M.

1) Many environmental stressors manifest their effects via physiological processes (traits) that can differ significantly among species and species groups. We compiled available data for three traits related to the bioconcentration of the toxic metal cadmium (Cd) from 42 aquatic insect species representing orders Ephemeroptera (mayfly), Plecoptera (stonefly), and Trichoptera (caddisfly). These traits included the propensity to take up Cd from water (uptake rate constant, ku), the ability to excrete Cd (efflux rate constant, ke), and the net result of these two processes (bioconcentration factor, BCF). 2) Ranges in these Cd bioaccumulation traits varied in magnitude across lineages (some lineagesmore » had a greater tendency to bioaccumulate Cd than others). Overlap in the ranges of trait values among different lineages was common and highlights situations where species from different lineages can share a similar trait state, but represent the high end of possible physiological values for one lineage and the low end for another. 3) Variance around the mean trait state differed widely across clades, suggesting that some groups (e.g., Ephemerellidae) are inherently more variable than others (e.g., Perlidae). Thus, trait variability/lability is at least partially a function of lineage. 4) Akaike information criterion (AIC) comparisons of statistical models were more often driven by clade than by other potential biological or ecological explanation tested. Clade-driven models generally improved with increasing taxonomic resolution. 5) Altogether, these findings suggest that lineage provides context for the analysis of species traits, and that failure to consider lineage in community-based analysis of traits may obscure important patterns of species responses to environmental change.« less

The importance of retaining a phylogenetic perspective in traits-based community analyses

DOE PAGES

Poteat, Monica D.; Buchwalter, David B.; Jacobus, Luke M.

2015-04-08

1) Many environmental stressors manifest their effects via physiological processes (traits) that can differ significantly among species and species groups. We compiled available data for three traits related to the bioconcentration of the toxic metal cadmium (Cd) from 42 aquatic insect species representing orders Ephemeroptera (mayfly), Plecoptera (stonefly), and Trichoptera (caddisfly). These traits included the propensity to take up Cd from water (uptake rate constant, ku), the ability to excrete Cd (efflux rate constant, ke), and the net result of these two processes (bioconcentration factor, BCF). 2) Ranges in these Cd bioaccumulation traits varied in magnitude across lineages (some lineagesmore » had a greater tendency to bioaccumulate Cd than others). Overlap in the ranges of trait values among different lineages was common and highlights situations where species from different lineages can share a similar trait state, but represent the high end of possible physiological values for one lineage and the low end for another. 3) Variance around the mean trait state differed widely across clades, suggesting that some groups (e.g., Ephemerellidae) are inherently more variable than others (e.g., Perlidae). Thus, trait variability/lability is at least partially a function of lineage. 4) Akaike information criterion (AIC) comparisons of statistical models were more often driven by clade than by other potential biological or ecological explanation tested. Clade-driven models generally improved with increasing taxonomic resolution. 5) Altogether, these findings suggest that lineage provides context for the analysis of species traits, and that failure to consider lineage in community-based analysis of traits may obscure important patterns of species responses to environmental change.« less

Molecular phylogenetic analysis supports a Gondwanan origin of the Hyriidae (Mollusca: Bivalvia: Unionida) and the paraphyly of Australasian taxa.

PubMed

Graf, Daniel L; Jones, Hugh; Geneva, Anthony J; Pfeiffer, John M; Klunzinger, Michael W

2015-04-01

The freshwater mussel family Hyriidae (Mollusca: Bivalvia: Unionida) has a disjunct trans-Pacific distribution in Australasia and South America. Previous phylogenetic analyses have estimated the evolutionary relationships of the family and the major infra-familial taxa (Velesunioninae and Hyriinae: Hyridellini in Australia; Hyriinae: Hyriini, Castaliini, and Rhipidodontini in South America), but taxon and character sampling have been too incomplete to support a predictive classification or allow testing of biogeographical hypotheses. We sampled 30 freshwater mussel individuals representing the aforementioned hyriid taxa, as well as outgroup species representing the five other freshwater mussel families and their marine sister group (order Trigoniida). Our ingroup included representatives of all Australian genera. Phylogenetic relationships were estimated from three gene fragments (nuclear 28S, COI and 16S mtDNA) using maximum parsimony, maximum likelihood, and Bayesian inference, and we applied a Bayesian relaxed clock model calibrated with fossil dates to estimate node ages. Our analyses found good support for monophyly of the Hyriidae and the subfamilies and tribes, as well as the paraphyly of the Australasian taxa (Velesunioninae, (Hyridellini, (Rhipidodontini, (Castaliini, Hyriini)))). The Hyriidae was recovered as sister to a clade comprised of all other Recent freshwater mussel families. Our molecular date estimation supported Cretaceous origins of the major hyriid clades, pre-dating the Tertiary isolation of South America from Antarctica/Australia. We hypothesize that early diversification of the Hyriidae was driven by terrestrial barriers on Gondwana rather than marine barriers following disintegration of the super-continent. Copyright © 2015 Elsevier Inc. All rights reserved.

The systematics of Echinorhynchus Zoega in Müller, 1776 (Acanthocephala, Echinorhynchidae) elucidated by nuclear and mitochondrial sequence data from eight European taxa.

PubMed

Wayland, Matthew T; Vainio, Jouni K; Gibson, David I; Herniou, Elisabeth A; Littlewood, D Timothy J; Väinölä, Risto

2015-01-01

The acanthocephalan genus Echinorhynchus Zoega in Müller, 1776 (sensuYamaguti 1963) is a large and widespread group of parasites of teleost fish and malacostracan crustaceans, distributed from the Arctic to the Antarctic in habitats ranging from freshwaters to the deep-sea. A total of 52 species are currently recognised based on the conventional morphological species concept; however, the true diversity in the genus is masked by cryptic speciation. The considerable diversity within Echinorhynchus is an argument for subdividing the genus if monophyletic groups with supporting morphological characters can be identified. With this objective in mind, partial sequences of two genes with different rates of evolution and patterns of inheritance (nuclear 28S rRNA and mitochondrial cytochrome c oxidase subunit I) were used to infer the phylogenetic relationships among eight taxa of Echinorhynchus. These included representatives of each of three genus group taxa proposed in a controversial revision of the genus based on cement gland pattern, namely Echinorhynchus (sensu stricto), Metechinorhynchus Petrochenko, 1956 and Pseudoechinorhynchus Petrochenko, 1956. These groupings have previously been rejected by some authorities, because the diagnostic character is poorly defined; this study shows that Echinorhynchus (sensu stricto) and Metechinorhynchus are not natural, monophyletic groups. A revision of Echinorhynchus will require tandem molecular phylogenetic and morphological analyses of a larger sample of taxa, but this study has identified two morhological characters that might potentially be used to define new genera. The estimated phylogeny also provides insight into the zoogeographical history of Echinorhynchus spp. We postulate that the ancestral Echinorhynchus had a freshwater origin and the genus subsequently invaded the sea, probably several times. The freshwater taxa of the Echinorhynchusbothniensis Zdzitowiecki & Valtonen, 1987 clade may represent a reinvasion of

Identification of Major Rhizobacterial Taxa Affected by a Glyphosate-Tolerant Soybean Line via Shotgun Metagenomic Approach

PubMed Central

Hua, Xiao-Mei; Liang, Li; Wen, Zhong-Ling; Du, Mei-Hang; Meng, Fan-Fan; Pang, Yan-Jun; Tang, Cheng-Yi

2018-01-01

The worldwide commercial cultivation of transgenic crops, including glyphosate-tolerant (GT) soybeans, has increased widely during the past 20 years. However, it is accompanied with a growing concern about potential effects of transgenic crops on the soil microbial communities, especially on rhizosphere bacterial communities. Our previous study found that the GT soybean line NZL06-698 (N698) significantly affected rhizosphere bacteria, including some unidentified taxa, through 16S rRNA gene (16S rDNA) V4 region amplicon deep sequencing via Illumina MiSeq. In this study, we performed 16S rDNA V5–V7 region amplicon deep sequencing via Illumina MiSeq and shotgun metagenomic approaches to identify those major taxa. Results of these processes revealed that the species richness and evenness increased in the rhizosphere bacterial communities of N698, the beta diversity of the rhizosphere bacterial communities of N698 was affected, and that certain dominant bacterial phyla and genera were related to N698 compared with its control cultivar Mengdou12. Consistent with our previous findings, this study showed that N698 affects the rhizosphere bacterial communities. In specific, N698 negatively affects Rahnella, Janthinobacterium, Stenotrophomonas, Sphingomonas and Luteibacter while positively affecting Arthrobacter, Bradyrhizobium, Ramlibacter and Nitrospira. PMID:29659545

Closely-related taxa influence woody species discrimination via DNA barcoding: evidence from global forest dynamics plots.

PubMed

Pei, Nancai; Erickson, David L; Chen, Bufeng; Ge, Xuejun; Mi, Xiangcheng; Swenson, Nathan G; Zhang, Jin-Long; Jones, Frank A; Huang, Chun-Lin; Ye, Wanhui; Hao, Zhanqing; Hsieh, Chang-Fu; Lum, Shawn; Bourg, Norman A; Parker, John D; Zimmerman, Jess K; McShea, William J; Lopez, Ida C; Sun, I-Fang; Davies, Stuart J; Ma, Keping; Kress, W John

2015-10-12

To determine how well DNA barcodes from the chloroplast region perform in forest dynamics plots (FDPs) from global CTFS-ForestGEO network, we analyzed DNA barcoding sequences of 1277 plant species from a wide phylogenetic range (3 FDPs in tropics, 5 in subtropics and 5 in temperate zone) and compared the rates of species discrimination (RSD). We quantified RSD by two DNA barcode combinations (rbcL + matK and rbcL + matK + trnH-psbA) using a monophyly-based method (GARLI). We defined two indexes of closely-related taxa (Gm/Gt and S/G ratios) and correlated these ratios with RSD. The combination of rbcL + matK averagely discriminated 88.65%, 83.84% and 72.51% at the local, regional and global scales, respectively. An additional locus trnH-psbA increased RSD by 2.87%, 1.49% and 3.58% correspondingly. RSD varied along a latitudinal gradient and were negatively correlated with ratios of closely-related taxa. Successes of species discrimination generally depend on scales in global FDPs. We suggested that the combination of rbcL + matK + trnH-psbA is currently applicable for DNA barcoding-based phylogenetic studies on forest communities.

Continental drift and climate change drive instability in insect assemblages

NASA Astrophysics Data System (ADS)

Li, Fengqing; Tierno de Figueroa, José Manuel; Lek, Sovan; Park, Young-Seuk

2015-06-01

Global change has already had observable effects on ecosystems worldwide, and the accelerated rate of global change is predicted in the future. However, the impacts of global change on the stability of biodiversity have not been systematically studied in terms of both large spatial (continental drift) and temporal (from the last inter-glacial period to the next century) scales. Therefore, we analyzed the current geographical distribution pattern of Plecoptera, a thermally sensitive insect group, and evaluated its stability when coping with global change across both space and time throughout the Mediterranean region—one of the first 25 global biodiversity hotspots. Regional biodiversity of Plecoptera reflected the geography in both the historical movements of continents and the current environmental conditions in the western Mediterranean region. The similarity of Plecoptera assemblages between areas in this region indicated that the uplift of new land and continental drift were the primary determinants of the stability of regional biodiversity. Our results revealed that climate change caused the biodiversity of Plecoptera to slowly diminish in the past and will cause remarkably accelerated biodiversity loss in the future. These findings support the theory that climate change has had its greatest impact on biodiversity over a long temporal scale.

Continental drift and climate change drive instability in insect assemblages

PubMed Central

Li, Fengqing; Tierno de Figueroa, José Manuel; Lek, Sovan; Park, Young-Seuk

2015-01-01

Global change has already had observable effects on ecosystems worldwide, and the accelerated rate of global change is predicted in the future. However, the impacts of global change on the stability of biodiversity have not been systematically studied in terms of both large spatial (continental drift) and temporal (from the last inter-glacial period to the next century) scales. Therefore, we analyzed the current geographical distribution pattern of Plecoptera, a thermally sensitive insect group, and evaluated its stability when coping with global change across both space and time throughout the Mediterranean region—one of the first 25 global biodiversity hotspots. Regional biodiversity of Plecoptera reflected the geography in both the historical movements of continents and the current environmental conditions in the western Mediterranean region. The similarity of Plecoptera assemblages between areas in this region indicated that the uplift of new land and continental drift were the primary determinants of the stability of regional biodiversity. Our results revealed that climate change caused the biodiversity of Plecoptera to slowly diminish in the past and will cause remarkably accelerated biodiversity loss in the future. These findings support the theory that climate change has had its greatest impact on biodiversity over a long temporal scale. PMID:26081036

Continental drift and climate change drive instability in insect assemblages.

PubMed

Li, Fengqing; Tierno de Figueroa, José Manuel; Lek, Sovan; Park, Young-Seuk

2015-06-17

Global change has already had observable effects on ecosystems worldwide, and the accelerated rate of global change is predicted in the future. However, the impacts of global change on the stability of biodiversity have not been systematically studied in terms of both large spatial (continental drift) and temporal (from the last inter-glacial period to the next century) scales. Therefore, we analyzed the current geographical distribution pattern of Plecoptera, a thermally sensitive insect group, and evaluated its stability when coping with global change across both space and time throughout the Mediterranean region--one of the first 25 global biodiversity hotspots. Regional biodiversity of Plecoptera reflected the geography in both the historical movements of continents and the current environmental conditions in the western Mediterranean region. The similarity of Plecoptera assemblages between areas in this region indicated that the uplift of new land and continental drift were the primary determinants of the stability of regional biodiversity. Our results revealed that climate change caused the biodiversity of Plecoptera to slowly diminish in the past and will cause remarkably accelerated biodiversity loss in the future. These findings support the theory that climate change has had its greatest impact on biodiversity over a long temporal scale.

Effects of Habitat Characteristics and Water Quality on Macroinvertebrate Communities along the Neversink Riverin Southeastern New York, 1991-2001

USGS Publications Warehouse

Ernst, Anne G.; Baldigo, Barry P.; Schuler, George E.; Apse, Colin D.; Carter, James L.; Lester, Gary T.

2008-01-01

The Neversink River, in the Catskill Mountains of southeastern New York State, feeds the Neversink Reservoir, which diverts 85 percent of the river?s flow to New York City. Acidification of several headwater reaches has affected macroinvertebrate assemblages throughout the river system above the reservoir, and the alteration of flow conditions below the reservoir dam has affected macroinvertebrate assemblages for at least 10 kilometers downstream from the reservoir. In 1999, the U.S. Geological Survey, in cooperation with The Nature Conservancy, compiled data from 30 stream reaches to quantify the effects of acidification and of the reservoir on the structure and function of macroinvertebrate assemblages throughout the Neversink River. Acidic headwater reaches supported greater numbers of acid-tolerant chironomid taxa and fewer numbers of acid-sensitive Ephemeroptera and Trichoptera than neutral reaches, and fewer scraper individuals and more shredder individuals. The 14 reaches below the reservoir, with sharply decreased flows and altered flow patterns compared to reaches above the reservoir, supported more Chironomidae and fewer Ephemeroptera and Trichoptera than the upper reaches; they also had greater numbers of shredder individuals and fewer scraper and filterer individuals than reaches above the reservoir. Water-quality variables such as pH and aluminum concentration appear to have affected macroinvertebrate assemblages more strongly in the headwaters than below the reservoir, whereas physical-habitat variables such as mean channel width and water temperature have affected these assemblages more strongly downstream from the reservoir than in the headwaters. The water-quality changes due to acidification, combined with the decreased flows and lowered water temperatures below the reservoir, have disrupted downstream continuum of macroinvertebrate communities that would normally be observed from the headwaters to the mouth. The information presented herein

Chemical and biomolecular analyses to discriminate three taxa of Pistacia genus from Sardinia Island (Italy) and their antifungal activity.

PubMed

Marengo, Arianna; Piras, Alessandra; Falconieri, Danilo; Porcedda, Silvia; Caboni, Pierluigi; Cortis, Pierluigi; Foddis, Caterina; Loi, Claudia; Gonçalves, Maria José; Salgueiro, Lígia; Maxia, Andrea

2017-09-20

This work reports the results and the comparison concerning the chemical and biomolecular analyses and the antifungal activity of three wild Pistacia species (Anacardiaceae) from Sardinia. Volatile oils from leaves and twigs of Pistacia x saportae, Pistacia lentiscus and Pistacia terebinthus were characterised using GC-FID and GC-MS techniques and tested against some fungal strains. Two DNA nuclear regions (ITS and 5S-rRNA-NTS) were amplified through PCR technique and sequenced. The three **Pistacia have similar chemical profile, although there are some important quantitative differences. The analysis of ITS and 5S-rRNA-NTS regions, reveals a species-specific nucleotide variation among the three **taxa. This method could emerge as a powerful tool for the species identification, especially because the discrimination of these three **taxa appears difficult for non-expert botanists. Concerning the antifungal activity, P. lentiscus and P. x saportae show the highest activity against Cryptococcus neoformans, with a MIC value of 0.32 μL/mL.

A Multi-Proxy Investigation into the Biomineralization Pathways of Benthic Invertebrate Taxa

NASA Astrophysics Data System (ADS)

DeCorte, I. A.; Liu, Y. W.; Doss, W. C.; Ries, J. B.; Eagle, R.

2016-12-01

Ocean acidification is the result of surface ocean absorption of anthropogenic carbon dioxide emissions and endangers many marine organisms. Decreases in pH and a coupled reduction in CaCO3 saturation state have been shown to disrupt the process of biomineralization within many species of marine calcifiers. Recent studies, however, demonstrate that calcifying organisms respond in diverse ways to changes in pH and CaCO3 saturation state. We examine element ratios (including Sr/Ca, Mg/Ca, Li/Ca, and B/Ca) and boron isotope ratios (δ11B) in 7 macro-invertebrate species (blue crab, shrimp, coralline red algae, pencil urchin, purple urchin, temperate coral, and serpulid worm) and compare results to net calcification rates and experimental seawater carbonate system parameters. Correlations between seawater carbonate chemistry and the elemental compositions of biogenic calcite and aragonite vary widely and are highly taxon-specific, ranging from strongly correlated to no significant response—a finding that is consistent with mounting evidence that many marine calcifying organisms regulate the chemistry of the fluid at their site of calcification. A Rayleigh framework is used to interpret the elemental data. We then analyze δ11B of the same samples as a proxy for pH at their site of calcification. Preliminary results suggest that coralline red algae, shrimp, urchin, serpulid worm and temperate coral taxa elevate pH at the site of calcification relative to the organism's ambient seawater. We plan to utilize a multi-proxy approach to examine the biomineralization pathways that influence elemental and boron isotope fractionation during calcification and precipitation of biogenic aragonite and calcite. A better understanding of these biomineralization pathways will help us to predict the responses of benthic invertebrate taxa to ocean acidification, as well as provide insights into drivers of so-called vital effects on elemental and stable boron isotope fractionation

Determining Clostridium difficile intra-taxa diversity by mining multilocus sequence typing databases.

PubMed

Muñoz, Marina; Ríos-Chaparro, Dora Inés; Patarroyo, Manuel Alfonso; Ramírez, Juan David

2017-03-14

Multilocus sequence typing (MLST) is a highly discriminatory typing strategy; it is reproducible and scalable. There is a MLST scheme for Clostridium difficile (CD), a gram positive bacillus causing different pathologies of the gastrointestinal tract. This work was aimed at describing the frequency of sequence types (STs) and Clades (C) reported and evalute the intra-taxa diversity in the CD MLST database (CD-MLST-db) using an MLSA approach. Analysis of 1778 available isolates showed that clade 1 (C1) was the most frequent worldwide (57.7%), followed by C2 (29.1%). Regarding sequence types (STs), it was found that ST-1, belonging to C2, was the most frequent. The isolates analysed came from 17 countries, mostly from the United Kingdom (UK) (1541 STs, 87.0%). The diversity of the seven housekeeping genes in the MLST scheme was evaluated, and alleles from the profiles (STs), for identifying CD population structure. It was found that adk and atpA are conserved genes allowing a limited amount of clusters to be discriminated; however, different genes such as drx, glyA and particularly sodA showed high diversity indexes and grouped CD populations in many clusters, suggesting that these genes' contribution to CD typing should be revised. It was identified that CD STs reported to date have a mostly clonal population structure with foreseen events of recombination; however, one group of STs was not assigned to a clade being highly different containing at least nine well-supported clusters, suggesting a greater amount of clades for CD. This study shows the usefulness of CD-MLST-db as a tool for studying CD distribution and population structure, identifying the need for reviewing the usefulness of sodA as housekeeping gene within the MLST scheme and suggesting the existence of a greater amount of CD clades. The study also shows the plausible exchange of genetic material between STs, contributing towards intra-taxa genetic diversity.

Bioprospecting: evolutionary implications from a post-olmec pharmacopoeia and the relevance of widespread taxa.

PubMed

Leonti, Marco; Cabras, Stefano; Castellanos, Maria Eugenia; Challenger, Antony; Gertsch, Jürg; Casu, Laura

2013-05-02

depend on phylogeny, biogeography, ecology and ultimately allelopathy, and on culture-specific perception of organoleptic properties. The comparison of the 67 drug-productive Viridiplantae families with the ethnopharmacopoeia of the Popoluca and the APG database, shows that "traditional" pharmacopoeias and plant-derived drugs are obtained from widespread and species-rich taxa. This is not a function of family size alone. We put forward the theory that as a function of evolution, widespread taxa contain a broader range of accumulated ecological information and response encoded in their genes relative to locally occurring taxa. This information is expressed through the synthesis of allelochemicals with a wide ecological radius, showing broad-spectrum biota-specific interactions, including the targeting of proteins of mammals and primates. Copyright © 2013 Elsevier Ireland Ltd. All rights reserved.

Ecological characterization and molecular differentiation of Culex pipiens complex taxa and Culex torrentium in eastern Austria.

PubMed

Zittra, Carina; Flechl, Eva; Kothmayer, Michael; Vitecek, Simon; Rossiter, Heidemarie; Zechmeister, Thomas; Fuehrer, Hans-Peter

2016-04-11

Culex pipiens complex taxa differ in behaviour, ecophysiology and epidemiologic importance. Despite their epidemiologic significance, information on genetic diversity, occurrence and seasonal and spatial distribution patterns of the Cx. pipiens complex is still insufficient. Assessment of seasonal and spatial distribution patterns of Culex pipiens forms and their congener Cx. torrentium is crucial for the understanding of their vector-pathogen dynamics. Female mosquitoes were trapped from April-October 2014 twice a month for a 24-h time period with BG-sentinel traps at 24 sampling sites in eastern Austria, using carbon dioxide as attractant. Ecological forms of Cx. pipiens s.l. and their hybrids were differentiated using the CQ11 locus, and Cx. pipiens forms and their congener Cx. torrentium using the ACE-2 gene. Differential exploitation of ecological niches by Cx. pipiens forms and Cx. torrentium was analysed using likelihood ratio tests. Possible effects of environmental parameters on these taxa were tested using PERMANOVA based on distance matrices and, if significant, were modelled in nMDS ordination space to estimate non-linear relationships. For this study, 1476 Culex spp. were sampled. Culex pipiens f. pipiens representing 87.33 % of the total catch was most abundant, followed by hybrids of both forms (5.62 %), Cx. torrentium (3.79 %) and Cx. pipiens f. molestus (3.25 %). Differences in proportional abundances were found between land cover classes. Ecological parameters affecting seasonal and spatial distribution of these taxa in eastern Austria are precipitation duration, air temperature, sunlight and the interaction term of precipitation amount and the Danube water level, which can be interpreted as a proxy for breeding habitat availability. The Cx. pipiens complex of eastern Austria comprises both ecologically different forms, the mainly ornithophilic form pipiens and the mainly mammalophilic and anthropophilic form molestus. Heterogeneous agricultural

New taxa of Meconematini (Orthoptera: Tettigoniidae: Meconematinae) from Guangxi, China.

PubMed

Wang, Hanqiang; Liu, Xianwei; Li, Kai

2015-04-02

The following new taxa of Meconematini from Guangxi province were described: Sinothaumaspis damingshanicus Wang, Liu, Li gen. & sp. nov., Aphlugiolopsis punctipennis Wang, Liu, Li gen. & sp. nov., Eoxizicus (Eoxizicus) curvicercus Wang, Liu, Li sp. nov., Meconemopsis paraquadrinotata Wang, Liu, Li sp. nov., Neocrytopsis? unicolor Wang, Liu, Li sp. nov., Xiphidiopsis (Dinoxiphidiopsis) expressa Wang, Liu, Li sp. nov. Xiphidiopsis (Xiphidiopsis) fischerwaldheimi Gorochov, 1993, a synonym of Xiphidiopsis (Xiphidiopsis) jinxiuensis Xia & Liu, 1990 was described. The opposite gender of Sinocyrtaspis truncate Liu, 2000 and Abaxinicephora excellens Gorochov & Kang, 2005 were firstly described.  Xiphidiopsis (Dinoxiphidiopsis) jacobsoni Gorochov, 1993 was also firstly recorded from China. Two new combinations,  Meconemopsis quadrinotata (Bey-Bienko, 1971) Wang, Liu, Li comb. nov. and Xiphidiopsis (Dinoxiphidiopsis) fanjingshanensis (Shi & Du, 2006) Wang, Liu, Li comb. nov., as well as a synonym of the former Xizicus (Axizicus) xizangensis Jiao & Shi 2013 syn. nov. which respectively relate to M. paraquadrinotata sp. nov. and X. (D.) expressa sp. nov., were also noted.

Morphometric traits capture the climatically driven species turnover of 10 spruce taxa across China.

PubMed

Li, He; Wang, GuoHong; Zhang, Yun; Zhang, WeiKang

2016-02-01

This study explored the relative roles of climate and phylogenetic background in driving morphometric trait variation in 10 spruce taxa in China. The study further addressed the hypothesis that these variations are consistent with species turnover on climatic gradients. Nine morphometric traits of leaves, seed cones, and seeds for the 10 studied spruce taxa were measured at 504 sites. These data were analyzed in combination with species DNA sequences from NCBI GenBank. We detected the effects of phylogeny and climate through trait-variation-based K statistics and phylogenetic eigenvector regression (PVR) analyses. Multivariate analyses were performed to detect trait variation along climatic gradients with species replacement. The estimated K-values for the nine studied morphometric traits ranged from 0.19 to 0.68, and the studied environmental variables explained 39-83% of the total trait variation. Trait variation tended to be determined largely by a temperature gradient varying from wet-cool climates to dry-warm summers and, additionally, by a moisture gradient. As the climate became wetter and cooler, spruce species tended to be replaced by other spruces with smaller needle leaves and seeds but larger cones and seed scales. A regression analysis showed that spruce species tended to be successively replaced by other species, along the gradient, although the trends observed within species were not necessarily consistent with the overall trend. The climatically driven replacement of the spruces in question could be well indicated by the between-species variation in morphometric traits that carry lower phylogenetic signal. Between-species variation in these traits is driven primarily by climatic factors. These species demonstrate a narrower ecological amplitude in temperature but wider ranges on the moisture gradient.

Opening the treasure chest: A DNA-barcoding primer set for most higher taxa of Central European birds and mammals from museum collections

PubMed Central

Schäffer, Sylvia; Zachos, Frank E.

2017-01-01

DNA-barcoding is a rapidly developing method for efficiently identifying samples to species level by means of short standard DNA sequences. However, reliable species assignment requires the availability of a comprehensive DNA barcode reference library, and hence numerous initiatives aim at generating such barcode databases for particular taxa or geographic regions. Historical museum collections represent a potentially invaluable source for the DNA-barcoding of many taxa. This is particularly true for birds and mammals, for which collecting fresh (voucher) material is often very difficult to (nearly) impossible due to the special animal welfare and conservation regulations that apply to vertebrates in general, and birds and mammals in particular. Moreover, even great efforts might not guarantee sufficiently complete sampling of fresh material in a short period of time. DNA extracted from historical samples is usually degraded, such that only short fragments can be amplified, rendering the recovery of the barcoding region as a single fragment impossible. Here, we present a new set of primers that allows the efficient amplification and sequencing of the entire barcoding region in most higher taxa of Central European birds and mammals in six overlapping fragments, thus greatly increasing the value of historical museum collections for generating DNA barcode reference libraries. Applying our new primer set in recently established NGS protocols promises to further increase the efficiency of barcoding old bird and mammal specimens. PMID:28358863

Opening the treasure chest: A DNA-barcoding primer set for most higher taxa of Central European birds and mammals from museum collections.

PubMed

Schäffer, Sylvia; Zachos, Frank E; Koblmüller, Stephan

2017-01-01

DNA-barcoding is a rapidly developing method for efficiently identifying samples to species level by means of short standard DNA sequences. However, reliable species assignment requires the availability of a comprehensive DNA barcode reference library, and hence numerous initiatives aim at generating such barcode databases for particular taxa or geographic regions. Historical museum collections represent a potentially invaluable source for the DNA-barcoding of many taxa. This is particularly true for birds and mammals, for which collecting fresh (voucher) material is often very difficult to (nearly) impossible due to the special animal welfare and conservation regulations that apply to vertebrates in general, and birds and mammals in particular. Moreover, even great efforts might not guarantee sufficiently complete sampling of fresh material in a short period of time. DNA extracted from historical samples is usually degraded, such that only short fragments can be amplified, rendering the recovery of the barcoding region as a single fragment impossible. Here, we present a new set of primers that allows the efficient amplification and sequencing of the entire barcoding region in most higher taxa of Central European birds and mammals in six overlapping fragments, thus greatly increasing the value of historical museum collections for generating DNA barcode reference libraries. Applying our new primer set in recently established NGS protocols promises to further increase the efficiency of barcoding old bird and mammal specimens.

A time-calibrated phylogeny of southern hemisphere stoneflies: Testing for Gondwanan origins.

PubMed

McCulloch, Graham A; Wallis, Graham P; Waters, Jonathan M

2016-03-01

For more than two centuries biogeographers have attempted to explain why terrestrial or freshwater lineages have geographic distributions broken by oceans, with these disjunct distributions either attributed to vicariance associated with Gondwanan fragmentation or trans-oceanic dispersal. Stoneflies (order: Plecoptera) are a widespread order of freshwater insects whose poor dispersal ability and intolerance for salt water make them ideal candidates for Gondwanan relicts - taxa whose distribution can be explained by vicariant isolation driven by the breakup of Gondwana. Here we reconstruct the phylogenetic relationships among southern hemisphere stoneflies (5 families; 86 genera) using 2864bp of mitochondrial (COI) and nuclear (18S, H3) DNA, with a calibrated relaxed molecular clock used to estimate the chronology of diversification. Our analysis suggests that largely antitropical stonefly sub-orders, Arctoperlaria (northern hemisphere) and Antarctoperlaria (southern hemisphere), were formed approximately 121Ma (95% prior probability distribution 107-143Ma), which may reflect the vicariant rifting of the supercontinent Pangaea. Subsequently, we infer that a single Arctoperlaria lineage has dispersed into southern hemisphere 76Ma (95% range 65-98Ma). The majority of divergences between South American and Australian stonefly lineages appear to coincide with the opening of Drake Passage around 40Ma, suggesting vicariant isolation of these landmasses may be responsible for these biogeographic disjunctions. In contrast, divergences between New Zealand lineages and their sister taxa appear to post-date vicariant timeframes, implying more recent dispersal events. Copyright © 2015 Elsevier Inc. All rights reserved.

Does better taxon sampling help? A new phylogenetic hypothesis for Sepsidae (Diptera: Cyclorrhapha) based on 50 new taxa and the same old mitochondrial and nuclear markers.

PubMed

Zhao, Lei; Annie, Ang Shi Hui; Amrita, Srivathsan; Yi, Su Kathy Feng; Rudolf, Meier

2013-10-01

We here present a phylogenetic hypothesis for Sepsidae (Diptera: Cyclorrhapha), a group of schizophoran flies with ca. 320 described species that is widely used in sexual selection research. The hypothesis is based on five nuclear and five mitochondrial markers totaling 8813 bp for ca. 30% of the diversity (105 sepsid taxa) and - depending on analysis - six or nine outgroup species. Maximum parsimony (MP), maximum likelihood (ML), and Bayesian inferences (BI) yield overall congruent, well-resolved, and supported trees that are largely unaffected by three different ways to partition the data in BI and ML analyses. However, there are also five areas of uncertainty that affect suprageneric relationships where different analyses yield alternate topologies and MP and ML trees have significant conflict according to Shimodaira-Hasegawa tests. Two of these were already affected by conflict in a previous analysis that was based on the same genes and a subset of 69 species. The remaining three involve newly added taxa or genera whose relationships were previously resolved with low support. We thus find that the denser taxon sample in the present analysis does not reduce the topological conflict that had been identified previously. The present study nevertheless presents a significant contribution to the understanding of sepsid relationships in that 50 additional taxa from 18 genera are added to the Tree-of-Life of Sepsidae and that the placement of most taxa is well supported and robust to different tree reconstruction techniques. Copyright © 2013 Elsevier Inc. All rights reserved.

Global patterns of marine mammal, seabird, and sea turtle bycatch reveal taxa-specific and cumulative megafauna hotspots.

PubMed

Lewison, Rebecca L; Crowder, Larry B; Wallace, Bryan P; Moore, Jeffrey E; Cox, Tara; Zydelis, Ramunas; McDonald, Sara; DiMatteo, Andrew; Dunn, Daniel C; Kot, Connie Y; Bjorkland, Rhema; Kelez, Shaleyla; Soykan, Candan; Stewart, Kelly R; Sims, Michelle; Boustany, Andre; Read, Andrew J; Halpin, Patrick; Nichols, W J; Safina, Carl

2014-04-08

Recent research on ocean health has found large predator abundance to be a key element of ocean condition. Fisheries can impact large predator abundance directly through targeted capture and indirectly through incidental capture of nontarget species or bycatch. However, measures of the global nature of bycatch are lacking for air-breathing megafauna. We fill this knowledge gap and present a synoptic global assessment of the distribution and intensity of bycatch of seabirds, marine mammals, and sea turtles based on empirical data from the three most commonly used types of fishing gears worldwide. We identify taxa-specific hotspots of bycatch intensity and find evidence of cumulative impacts across fishing fleets and gears. This global map of bycatch illustrates where data are particularly scarce--in coastal and small-scale fisheries and ocean regions that support developed industrial fisheries and millions of small-scale fishers--and identifies fishing areas where, given the evidence of cumulative hotspots across gear and taxa, traditional species or gear-specific bycatch management and mitigation efforts may be necessary but not sufficient. Given the global distribution of bycatch and the mitigation success achieved by some fleets, the reduction of air-breathing megafauna bycatch is both an urgent and achievable conservation priority.

Global patterns of marine mammal, seabird, and sea turtle bycatch reveal taxa-specific and cumulative megafauna hotspots

PubMed Central

Lewison, Rebecca L.; Crowder, Larry B.; Wallace, Bryan P.; Moore, Jeffrey E.; Cox, Tara; Zydelis, Ramunas; McDonald, Sara; DiMatteo, Andrew; Dunn, Daniel C.; Kot, Connie Y.; Bjorkland, Rhema; Kelez, Shaleyla; Soykan, Candan; Stewart, Kelly R.; Sims, Michelle; Boustany, Andre; Read, Andrew J.; Halpin, Patrick; Nichols, W. J.; Safina, Carl

2014-01-01

Recent research on ocean health has found large predator abundance to be a key element of ocean condition. Fisheries can impact large predator abundance directly through targeted capture and indirectly through incidental capture of nontarget species or bycatch. However, measures of the global nature of bycatch are lacking for air-breathing megafauna. We fill this knowledge gap and present a synoptic global assessment of the distribution and intensity of bycatch of seabirds, marine mammals, and sea turtles based on empirical data from the three most commonly used types of fishing gears worldwide. We identify taxa-specific hotspots of bycatch intensity and find evidence of cumulative impacts across fishing fleets and gears. This global map of bycatch illustrates where data are particularly scarce—in coastal and small-scale fisheries and ocean regions that support developed industrial fisheries and millions of small-scale fishers—and identifies fishing areas where, given the evidence of cumulative hotspots across gear and taxa, traditional species or gear-specific bycatch management and mitigation efforts may be necessary but not sufficient. Given the global distribution of bycatch and the mitigation success achieved by some fleets, the reduction of air-breathing megafauna bycatch is both an urgent and achievable conservation priority. PMID:24639512

Seed size and nutrient content variation for twenty-one invasive and native California and Oregon taxa of the tribe Cynareae (Asteraceae)

USDA-ARS?s Scientific Manuscript database

Seed characteristics are important for seed dispersal, seedling growth, and seedling survival, but there is little information on seed characteristics for several taxa of the tribe Cynareae (Family: Asteraceae). We determined seed characteristics and their variation from natural populations of twen...

Acute toxicity of 6 neonicotinoid insecticides to freshwater invertebrates.

PubMed

Raby, Melanie; Nowierski, Monica; Perlov, Dmitri; Zhao, Xiaoming; Hao, Chunyan; Poirier, David G; Sibley, Paul K

2018-05-01

Neonicotinoids are a group of insecticides commonly used in agriculture. Due to their high water solubility, neonicotinoids can be transported to surface waters and have the potential to be toxic to aquatic life. The present study assessed and compared the acute (48- or 96-h) toxicity of 6 neonicotinoids (acetamiprid, clothianidin, dinotefuran, imidacloprid, thiacloprid, and thiamethoxam) to 21 laboratory-cultured and field-collected aquatic invertebrates spanning 10 aquatic arthropod orders. Test conditions mimicked species' habitat, with lentic taxa exposed under static conditions, and lotic taxa exposed under recirculating systems. Median lethal concentrations (LC50s) and median effect concentrations (EC50s; immobility) were calculated and used to construct separate lethal- and immobilization-derived species sensitivity distributions for each neonicotinoid, from which 5th percentile hazard concentrations (HC5s) were calculated. The results showed that the most sensitive invertebrates were insects from the orders Ephemeroptera (Neocloeon triangulifer) and Diptera (Chironomus dilutus), whereas cladocerans (Daphnia magna, Ceriodaphnia dubia) were the least sensitive. The HC5s were compared with neonicotinoid environmental concentrations from Ontario (Canada) monitoring studies. For all neonicotinoids except imidacloprid, the resulting hazard quotients indicated little to no hazard in terms of acute toxicity to aquatic communities in Ontario freshwater streams. For the neonicotinoid imidacloprid, a moderate hazard was found when only invertebrate immobilization, and not lethality, data were considered. Environ Toxicol Chem 2018;37:1430-1445. © 2018 SETAC. © 2018 SETAC.

Carbon concentration of standing and downed woody detritus: effects of tree taxa, decay class, position, and tissue type

Treesearch

Mark E. Harmon; Becky Fasth; Christopher W. Woodall; Jay Sexton

2013-01-01

The degree to which carbon concentration (CC) of woody detritus varies by tree taxa, stage of decay, tissue type (i.e., bark versus wood), and vertical orientation was examined in samples of 60 tree species from the Northern Hemisphere. The mean CC of 257 study samples was 49.3% with a range of 43.4-56.8%. Angiosperms had a significantly lower CC than gymnosperms, with...

Molecular phylogeny, systematics, and revision of the type species of Lobomonas, L. francei (Volvocales, Chlorophyta) and closely related taxa.

PubMed

Sausen, Nicole; Malavasi, Veronica; Melkonian, Michael

2018-04-01

In the present study, three new strains of the rare volvocalean green alga Lobomonas were isolated from field-collected samples, one from Sardinia (Italy) and two from Argentina, and comparatively studied. The Sardinian and one of the Argentinian strains were identified as Lobomonas francei, the type species of the genus, whereas the second Argentinian strain corresponded to L. panduriformis. Two additional nominal species of Lobomonas from culture collections (L. rostrata and L. sphaerica) were included in the analysis and shown to be morphologically and molecularly identical to the L. francei strains. The presence, number, and shapes of cell wall lobes, the diagnostic criterion of Lobomonas, were shown to be highly variable depending on the chemical composition of the culture medium used. The analyses by SEM gave evidence that the cell wall lobes in Lobomonas originate at the junctions of adjacent cell wall plates by extrusion of gelatinous material. The four L. francei strains had identical nrRNA gene sequences and differed by only one or two substitutions in the ITS1 + ITS2 sequences. In the phylogenetic analyses, L. francei and L. panduriformis were sister taxa; however, another nominal Lobomonas species (L. monstruosa) did not belong to this genus. Lobomonas, together with taxa designated as Vitreochlamys, Tetraspora, and Paulschulzia, formed a monophyletic group that in the combined analyses was sister to the "Chlamydomonas/Volvox-clade." Based on these results, Lobomonas was revised, the diagnosis of the type species emended, a lectotype and an epitype designated, and several taxa synonymized with the type species. © 2017 Phycological Society of America.

New taxa and notes on crickets of the subfamily Landrevinae (Orthoptera: Gryllidae) from Brunei Darussalam, Borneo.

PubMed

Tan, Ming Kai; Wahab, Rodzay Bin Haji Abdul

2017-12-19

New taxa from the subfamily Landrevinae (Orthoptera: Gryllidae) are expected despite recent work on its taxonomy. Here, two more new species from Brunei Darussalam, Borneo are described: Duolandrevus (Eulandrevus) kawataredoki sp. nov. and Endodrelanva nympha sp. nov. The male calling song of D. (E.) kawataredoki sp. nov. is also described. We report the occurrence of a Duolandrevus (Bejorama) from Brunei close to (nr.) luzonensis Otte, 1988. We also document from Brunei a case of parasitic wasp from the genus Liris (Hymenoptera: Crabronidae: Larrini) hunting a Landrevinae.

Freshwater macroinvertebrate research in western Louisiana: limitations of our knowledge base

NASA Astrophysics Data System (ADS)

Kaller, M.; Hudson, J. D.; Kelso, W. E.; Williams, L. R.

2005-05-01

Western Louisiana streams and rivers represent relatively uncharted waters with regard to their biota, particularly aquatic macroinvertebrates. Whereas statewide taxonomic surveys have been conducted for several taxa (Dryopid Coleoptera, Odonata, and Plecoptera), peer-reviewed studies on macroinvertebrate communities and their structuring factors are few. We present the findings of three different macroinvertebrate community studies in western Louisiana encompassing 1990-2004. These studies investigated large-scale forest cover removal and localized biotic influences on macroinvertebrate communities. These studies generally were inconclusive with regard to abiotic anthropogenic disturbances; instead, strong seasonal and spatial patterns combined with wide tolerances to stream physio-chemistry appeared to be more important factors. However, strong localized biotic effects did appear to significantly alter macroinvertebrate communities. Further, a paucity of classic shredding organisms was noted in each study suggesting a unique community composition in these streams in comparison to neighboring regions. We believe geologic phenomenon may have acted as an evolutionary filter that produced a macroinvertebrate community generally tolerant of abiotic disturbance, but not as of yet, tolerant to biotic disturbances.

Prosopis: a global assessment of the biogeography, benefits, impacts and management of one of the world's worst woody invasive plant taxa

PubMed Central

Shackleton, Ross T.; Le Maitre, David C.; Pasiecznik, Nick M.; Richardson, David M.

2014-01-01

Invasive species cause ecological, economic and social impacts and are key drivers of global change. This is the case for the genus Prosopis (mesquite; Fabaceae) where several taxa are among the world's most damaging invasive species. Many contentious issues (‘conflicts of interest’) surround these taxa, and management interventions have not yet sustainably reduced the negative impacts. There is an urgent need to better understand the factors that drive invasions and shape management actions, and to compare the effectiveness of different management approaches. This paper presents a global review of Prosopis, focusing on its distribution, impacts, benefits and approaches to management. Prosopis was found to occur in a 129 countries globally and many more countries are climatically suitable. All areas with naturalized or invasive Prosopis species at present are suitable for more taxa and many Asian and Mediterranean countries with no records of Prosopis are bioclimatically suitable. Several Prosopis species have substantial impacts on biodiversity, ecosystem services, and local and regional economies in their native and even more so in their invasive ranges; others provide multiple benefits to local communities. Management efforts are underway in only a small part of the invaded range. Countries where more research has been done are more likely to implement formal management than those where little published research is available. Management strategies differ among countries; developed nations use mainly mechanical and chemical control whereas developing nations tend to apply control through utilization approaches. A range of countries are also using biological control. Key gaps in knowledge and promising options for management are highlighted. PMID:24899150

Implementation of artificial neural networks (ANNs) to analysis of inter-taxa communities of benthic microorganisms and macroinvertebrates in a polluted stream.

PubMed

Kim, Byunghyuk; Lee, Se-Eun; Song, Mi-Young; Choi, Jung-Hye; Ahn, Soon-Mo; Lee, Kun-Seop; Cho, Eungchun; Chon, Tae-Soo; Koh, Sung-Cheol

2008-02-01

This study was performed to gain an understanding of the structural and functional relationships between inter-taxa communities (macroinvertebrates as consumers, and microbes as decomposers or preys for the invertebrates) in a polluted stream using artificial neural networks techniques. Sediment samples, carrying microorganisms (eubacteria) and macroinvertebrates, were seasonally collected from similar habitats in streams with different levels of pollution. Microbial community taxa and densities were determined using polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE) and 16S rDNA sequence analysis techniques. The identity and density of macroinvertebrates were concurrently determined. In general, differences were observed on grouping by self-organizing map (SOM) in polluted, clean and recovering sites based on the microbial densities, while the community patterns were partly dependent on the sampling period. A Spearman rank order correlation analysis revealed correlations of several eubacterial species with those of macroinvertebrates: a negative correlation was observed between Acidovorax sp. (from polluted sites) and Gammaridae (mostly from the clean site), while Herbaspirillum sp. and Janthinobacterium sp. appeared to have positive correlations with some macroinvertebrate species. The population dynamics of the tolerant texa, Tubificidae and Chironomidae, appeared to be related with changes in the densities of Acidovorax sp. This study revealed community relationships between macroinvertebrates and microorganisms, reflecting the connectivity between the two communities via the food chain. A further physio-ecological and symbiological study on the invertebrate-microorganism relationships will be required to understand the degradation and utilization of detritus in aquatic ecosystems as well as to elucidate the roles of the inter-taxa in the recovery of polluted aquatic environments.

Influence of aeration implements, phosphorus fertilizers, and soil taxa on phosphorus losses from grasslands.

PubMed

Franklin, D H; Butler, D M; Cabrera, M L; Calvert, V H; West, L T; Rema, J A

2011-01-01

Attenuation of rainfall within the solum may help to move contaminants and nutrients into the soil to be better sequestered or utilized by crops. Surface application of phosphorus (P) amendments to grasslands may lead to elevated concentrations of P in surface runoff and eutrophication of surface waters. Aeration of grasslands has been proposed as a treatment to reduce losses of applied P. Here, results from two small-plot aeration studies and two field-scale, paired-watershed studies are supplemented with previously unpublished soil P data and synthesized. The overall objective of these studies was to determine the impact of aeration on soil P, runoff volume, and runoff P losses from mixed tall fescue [Lolium arundinaceum (Schreb.) Darbysh.]-bermudagrass (Cynodon dactylon L.) grasslands fertilized with P. Small-scale rainfall simulations were conducted on two soil taxa using three types of aeration implements: spikes, disks, and cores. The-field scale study was conducted on four soil taxa with slit and knife aeration. Small-plot studies showed that core aeration reduced loads of total P and dissolved reactive P (DRP) in runoff from plots fertilized with broiler litter and that aeration was effective in reducing P export when it increased soil P in the upper 5 cm. In the field-scale study, slit aeration reduced DRP losses by 35% in fields with well-drained soils but not in poorly drained soils. Flow-weighted concentrations of DRP in aerated fields were related to water-soluble P applied in amendments and soil test P in the upper 5 cm. These studies show that the overall effectiveness of mechanical soil aeration on runoff volume and P losses is controlled by the interaction of soil characteristics such as internal drainage and compaction, soil P, type of surface-applied manure, and type of aeration implement.

Radiation of the Australian flora: what can comparisons of molecular phylogenies across multiple taxa tell us about the evolution of diversity in present-day communities?

PubMed Central

Crisp, Mike; Cook, Lyn; Steane, Dorothy

2004-01-01

The Australian fossil record shows that from ca. 25 Myr ago, the aseasonal-wet biome (rainforest and wet heath) gave way to the unique Australian sclerophyll biomes dominated by eucalypts, acacias and casuarinas. This transition coincided with tectonic isolation of Australia, leading to cooler, drier, more seasonal climates. From 3 Myr ago, aridification caused rapid opening of the central Australian arid zone. Molecular phylogenies with dated nodes have provided new perspectives on how these events could have affected the evolution of the Australian flora. During the Mid-Cenozoic (25-10 Myr ago) period of climatic change, there were rapid radiations in sclerophyll taxa, such as Banksia, eucalypts, pea-flowered legumes and Allocasuarina. At the same time, taxa restricted to the aseasonal-wet biome (Nothofagus, Podocarpaceae and Araucariaceae) did not radiate or were depleted by extinction. During the Pliocene aridification, two Eremean biome taxa (Lepidium and Chenopodiaceae) radiated rapidly after dispersing into Australia from overseas. It is clear that the biomes have different histories. Lineages in the aseasonal-wet biome are species poor, with sister taxa that are species rich, either outside Australia or in the sclerophyll biomes. In conjunction with the fossil record, this indicates depletion of the Australian aseasonal-wet biome from the Mid-Cenozoic. In the sclerophyll biomes, there have been multiple exchanges between the southwest and southeast, rather than single large endemic radiations after a vicariance event. There is need for rigorous molecular phylogenetic studies so that additional questions can be addressed, such as how interactions between biomes may have driven the speciation process during radiations. New studies should include the hitherto neglected monsoonal tropics. PMID:15519972

Three former taxa of Cucurbitaria and considerations on Petrakia in the Melanommataceae

PubMed Central

Jaklitsch, Walter M.; Voglmayr, Hermann

2017-01-01

Based on phylogenetic analyses of an ITS-LSU-SSU-rpb2-tef1 sequence data matrix three taxa once classified in Cucurbitaria are referred to the Melanommataceae. Cucurbitaria rhododendri, also known as Melanomma rhododendri, is not congeneric with the generic type of Melanomma, M. pulvis-pyrius and thus classified in the new genus Alpinaria. Cucurbitaria piceae, known as Gemmamyces piceae, the cause of the Gemmamyces bud blight of Picea spp., belongs also to the Melanommataceae. The name Gemmamyces is conserved. For Cucurbitaria obducens, also known as Teichospora obducens, the new genus Praetumpfia is described, as it cannot be accommodated in any known genus. All species are redescribed and epitypified. Based on sequence data and morphology, Blastostroma, Mycodidymella and Xenostigmina are synonyms of Petrakia. The genus Petrakia is emended. We also provide sequences of additional markers for Beverwykella pulmonaria, Melanomma pulvis-pyrius, Petrakia echinata and Pseudotrichia mutabilis. PMID:29104325

An Assessment of the Effect of Rotenone on Selected Non-Target Aquatic Fauna

PubMed Central

Dalu, Tatenda; Wasserman, Ryan J.; Jordaan, Martine; Froneman, William P.; Weyl, Olaf L. F.

2015-01-01

Rotenone, a naturally occurring ketone, is widely employed for the management of invasive fish species. The use of rotenone poses serious challenges to conservation practitioners due to its impacts on non-target organisms including amphibians and macroinvertebrates. Using laboratory studies, we investigated the effects of different rotenone concentrations (0, 12.5, 25, 37.5, 50, 100 μg L-1) on selected invertebrate groups; Aeshnidae, Belostomatids, Decapods, Ephemeroptera, Pulmonata and zooplankton over a period of 18 hours. Based on field observations and body size, we hypothesized that Ephemeropterans and zooplankton would be more susceptible to rotenone than Decapods, Belostomatids and snails. Experimental results supported this hypothesis and mortality and behaviour effects varied considerably between taxa, ranging from no effect (crab Potamonuates sidneyi) to 100% mortality (Daphnia pulex and Paradiaptomus lamellatus). Planktonic invertebrates were particularly sensitive to rotenone even at very low concentrations. Future research should investigate the recovery time of invertebrate communities after the application of rotenone and conduct field assessments assessing the longer term effects of rotenone exposure on the population dynamics of those less sensitive organisms. PMID:26540301

Integrating Taxonomic, Functional and Phylogenetic Beta Diversities: Interactive Effects with the Biome and Land Use across Taxa.

PubMed

Corbelli, Julian Martin; Zurita, Gustavo Andres; Filloy, Julieta; Galvis, Juan Pablo; Vespa, Natalia Isabel; Bellocq, Isabel

2015-01-01

The spatial distribution of species, functional traits and phylogenetic relationships at both the regional and local scales provide complementary approaches to study patterns of biodiversity and help to untangle the mechanisms driving community assembly. Few studies have simultaneously considered the taxonomic (TBD), functional (FBD) and phylogenetic (PBD) facets of beta diversity. Here we analyze the associations between TBD, FBD, and PBD with the biome (representing different regional species pools) and land use, and investigate whether TBD, FBD and PBD were correlated. In the study design we considered two widely used indicator taxa (birds and ants) from two contrasting biomes (subtropical forest and grassland) and land uses (tree plantations and cropfields) in the southern Neotropics. Non-metric multidimensional scaling showed that taxonomic, functional and phylogenetic distances were associated to biome and land use; study sites grouped into four groups on the bi-dimensional space (cropfields in forest and grassland, and tree plantations in forest and grassland), and that was consistent across beta diversity facets and taxa. Mantel and PERMANOVA tests showed that TBD, FBD and PBD were positively correlated for both bird and ant assemblages; in general, partial correlations were also significant. Some of the functional traits considered here were conserved along phylogeny. Our results will contribute to the development of sound land use planning and beta diversity conservation.

Toward a Self-Updating Platform for Estimating Rates of Speciation and Migration, Ages, and Relationships of Taxa

PubMed Central

Hettling, Hannes; Condamine, Fabien L.; Vos, Karin; Nilsson, R. Henrik; Sanderson, Michael J.; Sauquet, Hervé; Scharn, Ruud; Silvestro, Daniele; Töpel, Mats; Bacon, Christine D.; Oxelman, Bengt; Vos, Rutger A.

2017-01-01

Abstract Rapidly growing biological data—including molecular sequences and fossils—hold an unprecedented potential to reveal how evolutionary processes generate and maintain biodiversity. However, researchers often have to develop their own idiosyncratic workflows to integrate and analyze these data for reconstructing time-calibrated phylogenies. In addition, divergence times estimated under different methods and assumptions, and based on data of various quality and reliability, should not be combined without proper correction. Here we introduce a modular framework termed SUPERSMART (Self-Updating Platform for Estimating Rates of Speciation and Migration, Ages, and Relationships of Taxa), and provide a proof of concept for dealing with the moving targets of evolutionary and biogeographical research. This framework assembles comprehensive data sets of molecular and fossil data for any taxa and infers dated phylogenies using robust species tree methods, also allowing for the inclusion of genomic data produced through next-generation sequencing techniques. We exemplify the application of our method by presenting phylogenetic and dating analyses for the mammal order Primates and for the plant family Arecaceae (palms). We believe that this framework will provide a valuable tool for a wide range of hypothesis-driven research questions in systematics, biogeography, and evolution. SUPERSMART will also accelerate the inference of a “Dated Tree of Life” where all node ages are directly comparable. PMID:27616324

Integrating Taxonomic, Functional and Phylogenetic Beta Diversities: Interactive Effects with the Biome and Land Use across Taxa

PubMed Central

Corbelli, Julian Martin; Zurita, Gustavo Andres; Filloy, Julieta; Galvis, Juan Pablo; Vespa, Natalia Isabel; Bellocq, Isabel

2015-01-01

The spatial distribution of species, functional traits and phylogenetic relationships at both the regional and local scales provide complementary approaches to study patterns of biodiversity and help to untangle the mechanisms driving community assembly. Few studies have simultaneously considered the taxonomic (TBD), functional (FBD) and phylogenetic (PBD) facets of beta diversity. Here we analyze the associations between TBD, FBD, and PBD with the biome (representing different regional species pools) and land use, and investigate whether TBD, FBD and PBD were correlated. In the study design we considered two widely used indicator taxa (birds and ants) from two contrasting biomes (subtropical forest and grassland) and land uses (tree plantations and cropfields) in the southern Neotropics. Non-metric multidimensional scaling showed that taxonomic, functional and phylogenetic distances were associated to biome and land use; study sites grouped into four groups on the bi-dimensional space (cropfields in forest and grassland, and tree plantations in forest and grassland), and that was consistent across beta diversity facets and taxa. Mantel and PERMANOVA tests showed that TBD, FBD and PBD were positively correlated for both bird and ant assemblages; in general, partial correlations were also significant. Some of the functional traits considered here were conserved along phylogeny. Our results will contribute to the development of sound land use planning and beta diversity conservation. PMID:25978319

Measurement of the Ecological Integrity of Cerrado Streams Using Biological Metrics and the Index of Habitat Integrity

PubMed Central

dos Reis, Deusiano Florêncio; Salazar, Ayala Eduardo; Machado, Mayana Mendes Dias; Couceiro, Sheyla Regina Marques; de Morais, Paula Benevides

2017-01-01

Generally, aquatic communities reflect the effects of anthropogenic changes such as deforestation or organic pollution. The Cerrado stands among the most threatened ecosystems by human activities in Brazil. In order to evaluate the ecological integrity of the streams in a preserved watershed in the Northern Cerrado biome corresponding to a mosaic of ecosystems in transition to the Amazonia biome in Brazil, biological metrics related to diversity, structure, and sensitivity of aquatic macroinvertebrates were calculated. Sampling included collections along stretches of 200 m of nine streams and measurements of abiotic variables (temperature, electrical conductivity, pH, total dissolved solids, dissolved oxygen, and discharge) and the Index of Habitat Integrity (HII). The values of the abiotic variables and the HII indicated that most of the streams have good ecological integrity, due to high oxygen levels and low concentrations of dissolved solids and electric conductivity. Two streams showed altered HII scores mainly related to small dams for recreational and domestic use, use of Cerrado natural pasture for cattle raising, and spot deforestation in bathing areas. However, this finding is not reflected in the biological metrics that were used. Considering all nine streams, only two showed satisfactory ecological quality (measured by Biological Monitoring Working Party (BMWP), total richness, and EPT (Ephemeroptera, Plecoptera, and Trichoptera) richness), only one of which had a low HII score. These results indicate that punctual measures of abiotic parameters do not reveal the long-term impacts of anthropic activities in these streams, including related fire management of pasture that annually alters the vegetation matrix and may act as a disturbance for the macroinvertebrate communities. Due to this, biomonitoring of low order streams in Cerrado ecosystems of the Northern Central Brazil by different biotic metrics and also physical attributes of the riparian zone

Breakpoint analysis and relations of nutrient and turbidity stressor variables to macroinvertebrate integrity in streams in the Crawford-Mammoth Cave Uplands Ecoregion, Kentucky, for the development of nutrient criteria

USGS Publications Warehouse

Crain, Angela S.; Caskey, Brian J.

2010-01-01

To assist Kentucky in refining numeric nutrient criteria in the Pennyroyal Bioregion, the U.S. Geological Survey and the Kentucky Division of Water collected and analyzed water chemistry, turbidity, and biological-community data from 22 streams throughout the Crawford-Mammoth Cave Upland ecoregion (U.S. Environmental Protection Agency Level IV Ecoregion, 71a) within the Pennyroyal Bioregion from September 2007 to May 2008. Statistically significant and ecologically relevant relations among the stressor (total phosphorus, total nitrogen, and turbidity) variables and response (macroinvertebrate-community attributes) variables and the breakpoint values of biological-community attributes and metrics in response to changes in stressor variables were determined. Thirteen of 18 macroinvertebrate attributes were significantly and ecologically correlated (p-value < 0.10) with at least one nutrient measure. Total number of individuals, Ephemeroptera-Plecoptera-Trichoptera richness, and average tolerance value were macroinvertebrate measures that most strongly correlated with the concentrations of nutrients. Comparison of the average macroinvertebrate-breakpoint value for the median concentration of total phosphorus (TP, 0.033 mg/L) and for median concentration of total nitrogen (TN, 1.1 mg/L) to Dodds' trophic classification for TP and TN indicates streams in the Crawford-Mammoth Cave Uplands ecoregion within the Pennyroyal Bioregion would be classified as mesotrophic-eutrophic. The biological breakpoint relations with median concentrations of TP in this study were similar to the U.S. Environmental Protection Agency proposed numeric TP criteria (0.037 mg/L), but were 1.5 times higher than the proposed numeric criteria for concentrations of TN (0.69 mg/L). No sites were impacted adversely using median turbidity values based on a 25 Formazin nephelometric turbidity unit biological threshold. The breakpoints determined in this study, in addition to Dodds' trophic

Benthic invertebrates of fixed sites in the western Lake Michigan drainages, Wisconsin and Michigan, 1993-95

USGS Publications Warehouse

Lenz, Bernard N.; Rheaume, S.J.

2000-01-01

This report describes the variability in family-level benthic-invertebrate population data and the reliability of the data as a water-quality indicator for 11 fixed surface-water sites in the Western Lake Michigan Drainages study area of the National Water-Quality Assessment Program. Benthic-invertebrate-community measures were computed for the following: number of individuals, Hilsenhoff’s Family-Level Biotic Index, number and percent EPT (Ephemeroptera, Plecoptera, and Tricoptera), Margalef’s Diversity Index, and mean tolerance value. Relations between these measures and environmental setting, habitat, and of chemical water quality are examined. Benthic-invertebrate communities varied greatly among fixed sites and within individual streams among multiple-reach and multiple-year sampling. The variations between multiple reaches and years were sometimes larger than those found between different fixed sites. Factors affecting benthic invertebrates included both habitat and chemical quality. Generally, fixed-site streams with the highest diversity, greatest number of benthic invertebrates, and those at which community measures indicated the best water quality also had the best habitat and chemical quality. Variations among reaches are most likely related to differences in habitat. Variations among years are most likely related to climatic changes, which create variations in flow and/or chemical quality. The variability in the data analyzed in this study shows how benthic invertebrates are affected by differences in both habitat and water quality, making them useful indicators of stream health; however, a single benthic-invertebrate sample alone cannot be relied upon to accurately describe water quality of the streams in this study. Benthic-invertebrate data contributed valuable information on the biological health of the 11 fixed sites when used as one of several data sources for assessing water quality.

Measurement of the Ecological Integrity of Cerrado Streams Using Biological Metrics and the Index of Habitat Integrity.

PubMed

Reis, Deusiano Florêncio Dos; Salazar, Ayala Eduardo; Machado, Mayana Mendes Dias; Couceiro, Sheyla Regina Marques; Morais, Paula Benevides de

2017-01-12

Generally, aquatic communities reflect the effects of anthropogenic changes such as deforestation or organic pollution. The Cerrado stands among the most threatened ecosystems by human activities in Brazil. In order to evaluate the ecological integrity of the streams in a preserved watershed in the Northern Cerrado biome corresponding to a mosaic of ecosystems in transition to the Amazonia biome in Brazil, biological metrics related to diversity, structure, and sensitivity of aquatic macroinvertebrates were calculated. Sampling included collections along stretches of 200 m of nine streams and measurements of abiotic variables (temperature, electrical conductivity, pH, total dissolved solids, dissolved oxygen, and discharge) and the Index of Habitat Integrity (HII). The values of the abiotic variables and the HII indicated that most of the streams have good ecological integrity, due to high oxygen levels and low concentrations of dissolved solids and electric conductivity. Two streams showed altered HII scores mainly related to small dams for recreational and domestic use, use of Cerrado natural pasture for cattle raising, and spot deforestation in bathing areas. However, this finding is not reflected in the biological metrics that were used. Considering all nine streams, only two showed satisfactory ecological quality (measured by Biological Monitoring Working Party (BMWP), total richness, and EPT (Ephemeroptera, Plecoptera, and Trichoptera) richness), only one of which had a low HII score. These results indicate that punctual measures of abiotic parameters do not reveal the long-term impacts of anthropic activities in these streams, including related fire management of pasture that annually alters the vegetation matrix and may act as a disturbance for the macroinvertebrate communities. Due to this, biomonitoring of low order streams in Cerrado ecosystems of the Northern Central Brazil by different biotic metrics and also physical attributes of the riparian zone

Influence of certain forces on evolution of synonymous codon usage bias in certain species of three basal orders of aquatic insects.

PubMed

Selva Kumar, C; Nair, Rahul R; Sivaramakrishnan, K G; Ganesh, D; Janarthanan, S; Arunachalam, M; Sivaruban, T

2012-12-01

Forces that influence the evolution of synonymous codon usage bias are analyzed in six species of three basal orders of aquatic insects. The rationale behind choosing six species of aquatic insects (three from Ephemeroptera, one from Plecoptera, and two from Odonata) for the present analysis is based on phylogenetic position at the basal clades of the Order Insecta facilitating the understanding of the evolution of codon bias and of factors shaping codon usage patterns in primitive clades of insect lineages and their subtle differences in some of their ecological and environmental requirements in terms of habitat-microhabitat requirements, altitudinal preferences, temperature tolerance ranges, and consequent responses to climate change impacts. The present analysis focuses on open reading frames of the 13 protein-coding genes in the mitochondrial genome of six carefully chosen insect species to get a comprehensive picture of the evolutionary intricacies of codon bias. In all the six species, A and T contents are observed to be significantly higher than G and C, and are used roughly equally. Since transcription hypothesis on codon usage demands A richness and T poorness, it is quite likely that mutation pressure may be the key factor associated with synonymous codon usage (SCU) variations in these species because the mutation hypothesis predicts AT richness and GC poorness in the mitochondrial DNA. Thus, AT-biased mutation pressure seems to be an important factor in framing the SCU variation in all the selected species of aquatic insects, which in turn explains the predominance of A and T ending codons in these species. This study does not find any association between microhabitats and codon usage variations in the mitochondria of selected aquatic insects. However, this study has identified major forces, such as compositional constraints and mutation pressure, which shape patterns of codon usage in mitochondrial genes in the primitive clades of insect lineages.

Responses of aquatic insects to Cu and Zn in stream microcosms: understanding differences between single species tests and field responses.

PubMed

Clements, William H; Cadmus, Pete; Brinkman, Stephen F

2013-07-02

Field surveys of metal-contaminated streams suggest that some aquatic insects, particularly mayflies (Ephemeroptera) and stoneflies (Plecoptera), are highly sensitive to metals. However, results of single species toxicity tests indicate these organisms are quite tolerant, with LC50 values often several orders of magnitude greater than those obtained using standard test organisms (e.g., cladocerans and fathead minnows). Reconciling these differences is a critical research need, particularly since water quality criteria for metals are based primarily on results of single species toxicity tests. In this research we provide evidence based on community-level microcosm experiments to support the hypothesis that some aquatic insects are highly sensitive to metals. We present results of three experiments that quantified effects of Cu and Zn, alone and in combination, on stream insect communities. EC50 values, defined as the metal concentration that reduced abundance of aquatic insects by 50%, were several orders of magnitude lower than previously published values obtained from single species tests. We hypothesize that the short duration of laboratory toxicity tests and the failure to evaluate effects of metals on sensitive early life stages are the primary factors responsible for unrealistically high LC50 values in the literature. We also observed that Cu alone was significantly more toxic to aquatic insects than the combination of Cu and Zn, despite the fact that exposure concentrations represented theoretically similar toxicity levels. Our results suggest that water quality criteria for Zn were protective of most aquatic insects, whereas Cu was highly toxic to some species at concentrations near water quality criteria. Because of the functional significance of aquatic insects in stream ecosystems and their well-established importance as indicators of water quality, reconciling differences between field and laboratory responses and understanding the mechanisms responsible