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1,287 results for “species identity”
Figure 1 in The First Male Specimen of Blackburnia fulgida (Coleoptera: Carabidae) Reaffirms the Species' Identity and Phylogenetic Placement
Figure 1. Blackburnia fulgida male: A, dorsal view, standardized body length 8.0 mm; B, male aedeagus, dorsal or anatomically left view, in situ with abdominal segments VIII and IX, including the invaginated antecostal margin of laterotergite VIII; C, male aedeagus, right view. Abbreviations: acVIII, antecostal margin of laterotergite VIII; acIX, antecostal margin of laterotergite IX; ae, median lobe of aedeagus; lp, left paramere; rp, right paramere.; tVIII, tergite of abdominal segment VIII.
Data from: Predator-prey Interactions of Terrestrial Invertebrates are Determined by Predator Body Size and Species Identity
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Data from: Preserved collagen reveals species identity in archaeological marine turtle bones from Caribbean and Florida sites
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Data from: Soil organic carbon stability in forests: distinct effects of tree species identity and traits
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Fig. 1 in Untangling species identity in gastropods with polymorphic shells in the genus Bolma Risso, 1826 (Mollusca, Vetigastropoda)
Fig. 1. Map showing sampling localities. See Supplementary file for details.
Species identity and diversity effects on invasion resistance of tropical freshwater plant communities
<p>Biotic resistance mediated by native plant diversity has long been hypothesized to reduce the success of invading plant species in terrestrial systems in temperate regions. However, still little is known about the mechanisms driving invasion patterns in other biomes or latitudes. We help to fill this gap by investigating how native plant community presence and diversity, and the presence of native phylogenetically closely related species to an invader, would affect invader <i>Hydrilla verticillata</i> establishment success in tropical freshwater submerged plant communities. The presence of a native community suppressed the growth of <i>H. verticillata</i>, but did not prevent its colonisation. Invader growth was negatively affected by native plant productivity, but independent of native species richness and phylogenetic relatedness to the invader. Native plant production was not related to native species richness in our study. We show that resistance in these tropical aquatic submerged plant communities is mainly driven by the presence and biomass of a native community independent of native species diversity. Our study illustrates that resistance provided by these tropical freshwater submerged plant communities to invasive species contrasts to resistance described for other ecosystems. This emphasizes the need to include understudied systems when predicting patterns of species invasiveness and ecosystem invasibility across biomes. </p>
Random forests for predicting species identity of forensically important blow flies (Diptera: Calliphoridae) and flesh flies (Sarcophagidae) using geometric morphometric data: proof of concept
<p>Wing shape variation has been shown to be useful for delineating forensically important fly species in two Diptera families: Calliphoridae and Sarcophagidae. Compared to DNA-based identification, the cost of geometric morphometric data acquisition and analysis is relatively much lower because the tools required are basic, and stable softwares are available. However, to date, an explicit demonstration of using wing geometric morphometric data for species identity prediction in these two families remains lacking. Here, geometric morphometric data from 19 homologous landmarks on the left wing of males from seven species of Calliphoridae (<em>n</em>=55), and eight species of Sarcophagidae (<em>n</em>=40) were obtained and processed using Generalized Procrustes Analysis. Allometric effect was removed by regressing centroid size (in log10) against the Procrustes coordinates. Subsequently, principal component analysis of the allometry-adjusted Procrustes variables was done, with the first 15 principal components used to train a random forests model for species prediction. Using a real test sample consisting of 33 male fly specimens collected around a human corpse at a crime scene, the estimated percentage of concordance between species identities predicted using the random forests model and those inferred using DNA-based identification was about 80.6% (approximate 95% confidence interval = [68.9%, 92.2%]). In contrast, baseline concordance using naive majority class prediction was 36.4%. The results provide proof of concept that geometric morphometric data has good potential to complement morphological and DNA-based identification of blow flies and flesh flies in forensic work. </p>
Data from: Multiple facets of diversity effects on plant productivity: species richness, functional diversity, species identity and intraspecific competition
<p>1. Deciphering the mechanisms that drive variation in biomass production across plant communities of contrasting species composition and diversity is a main challenge of biodiversity-ecosystem functioning research. Niche complementarity and selection effect have been widely investigated to address biodiversity-productivity relationships. However, the overlooking of the specific role played by key species have limited so far our capacity to comprehensively assess the relative importance of other potential drivers of biodiversity effects.</p> <p>2. Here, we conducted a grassland diversity-productivity experiment to test how four potential facets of biodiversity effects, namely species richness, functional diversity, species identity and the relaxation of intraspecific competition, account for variations in above and root biomass production.</p> <p>3. We grew six plant species in monoculture, as well as in every combinations of two, three and six species. Plant density was kept constant across the richness gradient but we additionally grew each species in half-density monoculture to estimate the strength of intraspecific competition for each studied species. We characterized eight functional traits, including root traits, related to nutrient and light acquisition and computed both the functional dissimilarity and the community weighted mean (CWM) of each trait. We further partitioned aboveground biodiversity effect into complementarity and selection effects.</p> <p>4. We observed strong positive biodiversity effects on both aboveground and root biomass as well as strong positive complementarity effect. These arose largely from the presence of a particular species (<i>Plantago lanceolata</i>) and from CWM trait values more than from a higher functional dissimilarity in plant mixtures. <i>P. lanceolata</i> displayed the highest intraspecific competition, which was strongly relaxed in species mixtures. By contrast, the presence of <i>Sanguisorba minor</i> negatively affected the productivity of plant mixtures, this species suffering more from interspecific than intraspecific competition.</p> <p>5. This study provides strong evidences that the search for key species is critical to understand the role of species diversity on ecosystem functioning and demonstrates the major role that the balance between intraspecific and interspecific competition plays in biodiversity-ecosystem functioning relationships. Developing more integrative approaches in community and ecosystem ecology can offer opportunities to better understand the role that species diversity plays on ecosystem functioning.</p>
Data from: Do temperate tree species diversity and identity influence soil microbial community function and composition?
Studies of biodiversity-ecosystem function in treed ecosystems have generally focused on aboveground functions. The present study investigates inter-trophic links between tree diversity and soil microbial community function and composition.We examined how microbial communities in surface mineral soil responded to experimental gradients of tree species richness (SR), functional diversity (FD), community-weighted mean trait value (CWM) and tree identity. The site was a 4-yr-old common garden experiment near Montreal, Canada, consisting of deciduous and evergreen tree species mixtures. Microbial community composition, community-level physiological profiles (CLPP) and respiration were evaluated using phospholipid fatty acid (PLFA) analysis and the MicroRespTM system, respectively. The relationship between tree species richness and glucose induced respiration (GIR), basal respiration (BR), metabolic quotient (qCO2) followed a positive but saturating shape. Microbial communities associated with species mixtures were more active (basal respiration (BR)), with higher biomass (glucose induced respiration (GIR)), and used a greater number of carbon sources than monocultures. Communities associated with deciduous tree species used a greater number of carbon sources than those associated with evergreen species, suggesting a greater soil carbon storage capacity. There were no differences in microbial composition (PLFA) between monocultures and SR mixtures. The FD and the CWM of several functional traits affected both BR and GIR. In general, the CWM of traits had stronger effects than did FD, suggesting that certain traits of dominant species have more effect on ecosystem processes than does FD. Both the functions of GIR and BR were positively related to aboveground tree community productivity. Both tree diversity (SR) and identity (species and functional identity – leaf habit) affected soil microbial community respiration, biomass and composition. For the first time, we identified functional traits related to life history strategy, as well as root traits that influence another trophic level, soil microbial community function, via effects on BR and GIR.
FIG. 3 in Identities of Pagurus japonicus (Stimpson, 1858), P. similis (Ortmann, 1892) and P. barbatus (Ortmann, 1892), with description of a new species (Crustacea, Decapoda, Anomura, Paguridae)
FIG. 3. — Pagurus japonicus (Stimpson, 1858),
Figure 9 in Ten thousand kilometres away and still the same species? The mystery of identity of Scopelocheirus sp. (Amphipoda: Scopelocheiridae) from the South Atlantic
Figure 9. Scopelocheirus sossi sp. nov., holotype, male, 6.6 mm, Namibia, Stn. M157_41.
Figure 8 in Ten thousand kilometres away and still the same species? The mystery of identity of Scopelocheirus sp. (Amphipoda: Scopelocheiridae) from the South Atlantic
Figure 8. Scopelocheirus sossi sp. nov., holotype, male, 6.6 mm, Namibia, habitus, Stn. M157_41.
Figure 1 in Ten thousand kilometres away and still the same species? The mystery of identity of Scopelocheirus sp. (Amphipoda: Scopelocheiridae) from the South Atlantic
Figure 1. Sampling points are indicated by red dots.
Foliar endophyte diversity in eastern Asia-eastern North America disjunct tree species – Influences of host identity, environment, phylogeny, and geographic isolation
<p><span>The well-known eastern Asia (EA) and eastern North America (ENA) floristic disjunction provides a unique system for biogeographic and evolutionary studies. Despite considerable interest in the disjunction, few studies have investigated the patterns and their underlying drivers of allopatric divergence in sister species or clades isolated in the two areas. Endophyte diversity and assembly in disjunct sister taxa, as an ecological trait, may have played an important role in the processes of allopatric evolution, but no studies have examined endophytes in these disjunct lineages. In this study, we compared foliar endophytes (including both fungi and bacteria) in 17 EA-ENA disjunct species pairs from genera representing conifers and major clades of angiosperms, as well as 23 species of </span><em>Cornus</em> from the US and China. We sequenced the ITS of fungi and 16S rDNA of bacteria to understand the composition of the endophyte community and gain insights into the relative roles of geographic isolation, host identity, phylogeny, and environment in shaping endophytic diversity patterns. We detected a much richer fungal than bacterial community in leaves of all species. Beta diversity varied greatly among individuals within species, between species, among genera, and among three natural environmental conditions. Based on a principal coordinates analysis, we found no close clustering of endophyte communities in samples from the same host plant species, from the same genus, or from the same geographic origin (i.e. EA or ENA) (when plants were grown in the same common garden), but we did detect clustering of samples from plants grown in the same environment (i.e., same geographic location). We observed separation of microbes in plant samples of the same species grown in different locations/environments. However, pooled samples across all species from the common garden with the same geographic origin (EA vs. ENA) showed a moderate level of dissimilarity in fungal endophytes between EA and ENA. An overall significant correlation between endophyte community dissimilarity and phylogenetic distance was detected among the disjunct genera but not among species of <em>Cornus</em>. However, significant correlation between order, family, and genera of endophytes and phylogenetic distance of Cornus species was observed. We also found no significant differences in Foliar Endophytic Fungal (FEF) communities between counterparts of disjunct species pairs in EA and ENA in most genera except in <em>Liriodendron</em> and <em>Cornus</em>, although the beta diversity within genera is high. Our results suggest important roles of host identity and environment (geographic locations), and a likely minor role of phylogenetic divergence and biogeographic isolation in shaping the pattern of foliar endophyte diversity and assembly in the EA-ENA disjunct genera, as well as in <em>Cornus</em>. The results further suggest that the sister taxa in EA and ENA are likely different in their foliar endophyte composition when growing in their native habitats due to differences in geographic locations and local environments, which is potentially a factor driving allopatric divergence of species functional features. This hypothesis can be tested by analysis of samples from native habitats.</p>
Fig. 31 in On the identity of Otiorhynchus (Nihus) subcostatus STIERLIN, 1866, description of Otiorhynchus muffi sp. nov., and an illustrated key to the species of Nihus REITTER, 1912 with taxonomic comments on both the subgenera Nihus and Eunihus REITTER, 1912 (Coleoptera, Curculionidae)
Fig. 31. Habitat of Otiorhynchus muffi sp. nov. on Piz Clünas at 2500 m in the lower Engadine.
Figs 14–15 in On the identity of Otiorhynchus (Nihus) subcostatus STIERLIN, 1866, description of Otiorhynchus muffi sp. nov., and an illustrated key to the species of Nihus REITTER, 1912 with taxonomic comments on both the subgenera Nihus and Eunihus REITTER, 1912 (Coleoptera, Curculionidae)
Figs 14–15. Habitus of Otiorhynchus spaethi 14. male (Campogrosso), 15. female (Carega).
Identifying potential cues of species identity in complex animal signals
<p>Communication signals are often key for encoding information on species identity, but determining the features important in conveying those cues is challenging. This is especially the case when attempting to compare across closely related sympatric taxa, where the need for accurate species recognition is critical. We developed an analytical framework to comprehensively quantify the complex movement displays used by male lizards to advertise territory ownership in 11 taxa of Puerto Rican <em>Anolis</em>, many of which were sympatric. Our analyses were able to assign the majority of individuals to the correct population of a given species based on only a handful of displays, showing ample information exists in these displays for species recognition. Instances where lizards were misassigned appeared to have occurred because of similarities in display design resulting from local adaptation to similar environments or recent shared evolutionary history. Our analyses also revealed there was no common ('magic') display characteristic for recognition across the 11 taxa. Instead, lizards likely assess the entire display or a combination of different display cues. Taken together, we illustrate a powerful approach that offers a rigorous statistical and holistic evaluation of complex animal signals for elucidating features likely to be important in species recognition. We provide a guide for implementing this analytical framework in R, with associated code and worked examples. Information obtained from these analyses can then be used to design experiments testing the utility of identifying cues or comparative studies investigating how those cues contribute to reproductive isolation among populations and ultimately speciation.</p>
Table of hsp65 OTUs (cutoff 99%), their inferred taxonomic allocations according to the hsp65 database and, for selected OTUs, closest species obtained from GenBank (BLAST) with percent identity.
<p>This table is part of the paper intitled "Comparison of Actinobacteria communities from human-impacted and pristine karst caves"</p>
Eco-evolutionary dynamics modulate plant responses to global change depending on plant diversity and species identity
Global change has dramatic impacts on grassland diversity. However, little is known about how fast species can adapt to diversity loss and how this affects their responses to global change. Here, we performed a common garden experiment testing whether plant responses to global change are influenced by their selection history and the conditioning history of soil at different plant diversity levels. Using seeds of four grass species and soil samples from a 14-year-old biodiversity experiment, we grew the offspring of the plants either in their own soil or in soil of a different community, and exposed them either to drought, increased nitrogen input, or a combination of both. Under nitrogen addition, offspring of plants selected at high diversity produced more biomass than those selected at low diversity, while drought neutralized differences in biomass production. Moreover, under the influence of global change drivers, soil history, and to a lesser extent plant history, had species-specific effects on trait expression. Our results show that plant diversity modulates plant-soil interactions and growth strategies of plants, which in turn affects plant eco-evolutionary pathways. How this change affects species' response to global change and whether this can cause a feedback loop should be investigated in more detail in future studies.
Data from: The potential of undersown species identity vs. diversity to manage disease in crops
<p>In the absence of chemical control with its negative side effects, fungal pathogens can cause large yield losses, requiring us to develop agroecosystems that are inherently disease resistant. Grassland biodiversity experiments often find plant species diversity to reduce pathogen pressure, but whether incorporating high biodiversity levels in agricultural fields have similar effects remains largely unknown.</p> <p>We tested if undersown plant species diversity could reduce barley disease, and whether the effect was mediated through above- or belowground mechanisms, by combining an agricultural field trial with a soil transplant experiment.</p> <p>As predicted, barley disease decreased in the presence of undersown plants. Undersown species richness had no effect, but their abundance led to early season disease reduction. Aboveground mechanisms underpinned this disease reduction. Barley yield slightly decreased with increasing undersown species richness, and undersown species varied in their impact on yield.</p> <p>We identified two undersown species, <em>Trifolium repens</em> and <em>T. hybridum</em>, that contributed most to disease reduction and had the potential to increase barley yield. Furthermore, our results indicate that aboveground mechanisms caused this. We show that agroecosystem functioning can be improved without trade-offs on yield by targeted selection of undersown species.</p>
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.