Do cryptic species matter in macroecology? Sequencing European groundwater crustaceans yields smaller ranges but does not challenge biodiversity determinants

Ecography, Journal Year: 2017, Volume and Issue: 41(2), P. 424 - 436

Published: Feb. 14, 2017

Ecologists increasingly rely on molecular delimitation methods (MMs) to identify species boundaries, thereby potentially increasing the number of putative because presence morphologically cryptic species. It has been argued that could challenge our understanding what determine large‐scale biodiversity patterns which have traditionally documented from morphology alone. Here, we used and three MMs derive four different sets among European groundwater crustaceans. Then, regression models compare relative importance spatial heterogeneity, productivity historical climates, in shaping richness range size across We tested predictions. First, would yield many more than is a constraining environment allowing little morphological changes. Second, for richness, increase heterogeneity are likely along physical barriers separating ecologically similar regions resource gradients promoting ecologically‐based divergent selection. Third, size, climates reduced asymmetrical fragmentation large ranges at northern latitudes. yielded twice decreased by 10‐fold average size. Yet, strengthened mid‐latitude ridge high Rapoport effect higher Species predictors did not vary between but latter increased proportion variance explained climates. These findings demonstrate knowledge determinants robust overlooked homogeneously distributed environmental gradients. call incorporating multiple into analysis taxa ecosystems.

Language: Английский

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spads 1.0: a toolbox to perform spatial analyses on DNA sequence data sets

Molecular Ecology Resources, Journal Year: 2013, Volume and Issue: 14(3), P. 647 - 651

Published: Nov. 12, 2013

SPADS 1.0 (for 'Spatial and Population Analysis of DNA Sequences') is a population genetic toolbox for characterizing variability within among populations from sequences. In view the drastic increase in information available through sequencing methods, spads was specifically designed to deal with multilocus data sets It computes several summary statistics or groups populations, performs input file conversions other programs implements locus-by-locus versions two clustering algorithms study structure populations. The also includes MATLAB r functions, GDISPAL GDIVPAL, display differentiation diversity patterns across landscapes. These functions aim generate interpolating surfaces based on distance indices. case multiple loci, such can represent useful alternative pie charts maps traditionally used phylogeography spatial distribution diversity. coloured be compare different and/or measures estimated same set.

Language: Английский

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Features of air masses associated with the deposition of Pseudomonas syringae and Botrytis cinerea by rain and snowfall

The ISME Journal, Journal Year: 2014, Volume and Issue: 8(11), P. 2290 - 2304

Published: April 10, 2014

Language: Английский

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Novel statistical methods for integrating genetic and stable isotope data to infer individual‐level migratory connectivity

Molecular Ecology, Journal Year: 2013, Volume and Issue: 22(16), P. 4163 - 4176

Published: July 30, 2013

Abstract Methods for determining patterns of migratory connectivity in animal ecology have historically been limited due to logistical challenges. Recent progress studying bird has made using genetic and stable‐isotope markers assign individuals their breeding grounds. Here, we present a novel B ayesian approach jointly leverage isotopic test its utility on two passerine species. Our represents principled model‐based combination isotope data from samples collected the grounds is able achieve levels assignment accuracy that exceed those either method alone. When applied at large scale can reveal specific patterns. In W ilson's warblers ( ilsonia pusilla ), detect subgroup birds wintering aja uniquely migrate preferentially coastal P acific N orthwest. implemented way easily extended accommodate additional sources information (e.g. bi‐allelic markers, species distribution models, etc.) or adapted other problems.

Language: Английский

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Geometric morphometric analysis of Colombian Anopheles albimanus (Diptera: Culicidae) reveals significant effect of environmental factors on wing traits and presence of a metapopulation

Acta Tropica, Journal Year: 2014, Volume and Issue: 135, P. 75 - 85

Published: April 2, 2014

Language: Английский

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Cryptic species in plant-parasitic nematodes

Nematology, Journal Year: 2014, Volume and Issue: 16(10), P. 1105 - 1118

Published: Jan. 1, 2014

This paper summarises the current knowledge concerning cryptic species of plant-parasitic nematode and briefly reviews different methods available for their detection characterisation. Cryptic represent an important component biodiversity, such speciation being common among nematodes occurring in diverse groups with life history traits, including spiral, virus vector, root-lesion false root-knot nematodes. are a number reasons, food security, quarantine, non-chemical management technologies conservation, should not be ignored. The magnitude phenomenon is largely unknown, but data on demonstrate that reliance morphology alone delimitation seriously underestimates total taxa. Future research focus appropriately designed case studies using combined approaches, large-scale, whole sample analyses by next-generation sequencing or proteomics order to able answer many questions still remain.

Language: Английский

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Plant Species Complexes as Models to Understand Speciation and Evolution: A Review of South American Studies

Critical Reviews in Plant Sciences, Journal Year: 2018, Volume and Issue: 37(1), P. 54 - 80

Published: Jan. 2, 2018

Identifying discontinuous entities within species complexes is a major topic in systematic and evolutionary biology. Comprehensive inventories describing identifying rapidly correctly before they or their habitats disappear especially important megadiverse regions, such as South America continent, where large part of the biodiversity still unknown remains to be discovered. Species may account for substantial number plant groups American flora, studies investigating boundaries challenging are needed. In this context, multidisciplinary approaches crucial understanding integrity complexes. Morphometrics, cytogenetics, anatomy, crossing experiments, molecular markers have been combined different ways investigate helped depict mechanisms underlying origin species. Here, we review current knowledge about on hyperdiverse continent based detailed examination relevant literature. We discuss main findings light potential involved speciation suggest future directions terms integrating multispecies coalescence methods with several complementary types morphological, ecological, geographical data research field.

Language: Английский

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Wide but not impermeable: Testing the riverine barrier hypothesis for an Amazonian plant species

Molecular Ecology, Journal Year: 2017, Volume and Issue: 26(14), P. 3636 - 3648

Published: April 10, 2017

Abstract Wallace's riverine barrier hypothesis postulates that large rivers, such as the Amazon and its tributaries, reduce or prevent gene flow between populations on opposite banks, leading to allopatry areas of species endemism occupying interfluvial regions. Several studies have shown two major Rio Branco Negro, are important barriers for birds, amphibians primates. No botanical considered potential role a barrier, while single study has evaluated Negro barrier. We studied an shrub, Amphirrhox longifolia (A. St.‐Hil.) Spreng (Violaceae), model test hypothesis. Twenty‐six A. were sampled both banks in core Basin. Double‐digest RAD seq was used identify 8,010 unlinked SNP markers from nuclear genome 156 individuals. Data relating population structure support acted significant genetic . On other hand, no differentiation detected among spanning narrower Branco, which is tributary Negro. This shows strength plants dependent width river separating species‐specific dispersal traits. Future with contrasting life history traits will further improve our understanding landscape genetics allopatric speciation plant diversity.

Language: Английский

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The Dynamic Discipline of Species Delimitation: Progress Toward Effectively Recognizing Species Boundaries in Natural Populations

Springer eBooks, Journal Year: 2015, Volume and Issue: unknown, P. 11 - 44

Published: Jan. 1, 2015

Language: Английский

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Identification of Species by Combining Molecular and Morphological Data Using Convolutional Neural Networks

Systematic Biology, Journal Year: 2021, Volume and Issue: 71(3), P. 690 - 705

Published: Sept. 11, 2021

Integrative taxonomy is central to modern and systematic biology, including behavior, niche preference, distribution, morphological analysis, DNA barcoding. However, decades of use demonstrate that these methods can face challenges when used in isolation, for instance, potential misidentifications due phenotypic plasticity methods, incorrect identifications because introgression, incomplete lineage sorting, horizontal gene transfer Although researchers have advocated the integrative taxonomy, few detailed algorithms been proposed. Here, we develop a convolutional neural network method (morphology-molecule [MMNet]) integrates molecular data species identification. The newly proposed (MMNet) worked better than four currently available alternative tested with 10 independent sets representing varying genetic diversity from different taxa. High accuracies were achieved all groups, beetles (98.1% 123 species), butterflies (98.8% 24 fishes (96.3% 214 moths (96.4% 150 total species). Further, MMNet demonstrated high degree accuracy ($>$98%) closely related same genus. average two modest subgenomic (single nucleotide polymorphism) sets, comprising eight putative subspecies respectively, 90%. Additional tests show success rate identification under this most strongly depends on amount training data, robust sequence length image size. Analyses contribution types (image vs. gene) indicate both are important model, contribute slightly more. approaches developed here serve as foundation future integration multimodal information such image, audio, video, 3D scanning, biosensor characterize organisms more comprehensively basis improved investigation, monitoring, conservation biodiversity. [Convolutional network; deep learning; taxonomy; single polymorphism; identification.].

Language: Английский

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