scholarly journals Bayesian species delimitation combining multiple genes and traits in a unified framework

Evolution ◽  
2015 ◽  
Vol 69 (2) ◽  
pp. 492-507 ◽  
Author(s):  
Claudia Solís-Lemus ◽  
L. Lacey Knowles ◽  
Cécile Ané
Keyword(s):  
Species Delimitation ◽  
Unified Framework ◽  
Multiple Genes ◽  
Bayesian Species Delimitation

Lactifluus volemus in Europe: Three species in one – Revealed by a multilocus genealogical approach, Bayesian species delimitation and morphology

2016 ◽  
Vol 120 (1) ◽  
pp. 1-25 ◽  
Author(s):  
Kobeke Van de Putte ◽  
Jorinde Nuytinck ◽  
Eske De Crop ◽  
Annemieke Verbeken
Keyword(s):  
Species Delimitation ◽  
Bayesian Species Delimitation

scholarly journals Improved Reversible Jump Algorithms for Bayesian Species Delimitation

Genetics ◽  
2013 ◽  
Vol 194 (1) ◽  
pp. 245-253 ◽  
Author(s):  
Bruce Rannala ◽  
Ziheng Yang
Keyword(s):  
Species Delimitation ◽  
Reversible Jump ◽  
Bayesian Species Delimitation

scholarly journals Bayesian species delimitation using multilocus sequence data

2010 ◽  
Vol 107 (20) ◽  
pp. 9264-9269 ◽  
Author(s):  
Z. Yang ◽  
B. Rannala
Keyword(s):  
Species Delimitation ◽  
Sequence Data ◽  
Bayesian Species Delimitation

scholarly journals Species delimitation in the cyanolichen genus Rostania

2020 ◽  
Vol 20 (1) ◽  
Author(s):  
Alica Košuthová ◽  
Johannes Bergsten ◽  
Martin Westberg ◽  
Mats Wedin
Keyword(s):  
Species Delimitation ◽  
A Priori ◽  
The Other ◽  
Supporting Evidence ◽  
Coalescence Model ◽  
Guide Tree ◽  
Candidate Species ◽  
Substantial Correlation ◽  
Bayesian Species Delimitation ◽  
Β Tubulin

Abstract Background In this study, we investigate species limits in the cyanobacterial lichen genus Rostania (Collemataceae, Peltigerales, Lecanoromycetes). Four molecular markers (mtSSU rDNA, β-tubulin, MCM7, RPB2) were sequenced and analysed with two coalescent-based species delimitation methods: the Generalized Mixed Yule Coalescent model (GMYC) and a Bayesian species delimitation method (BPP) using a multispecies coalescence model (MSC), the latter with or without an a priori defined guide tree. Results Species delimitation analyses indicate the presence of eight strongly supported candidate species. Conclusive correlation between morphological/ecological characters and genetic delimitation could be found for six of these. Of the two additional candidate species, one is represented by a single sterile specimen and the other currently lacks morphological or ecological supporting evidence. Conclusions We conclude that Rostania includes a minimum of six species: R. ceranisca, R. multipunctata, R. occultata 1, R. occultata 2, R. occultata 3, and R. occultata 4,5,6. Three distinct Nostoc morphotypes occur in Rostania, and there is substantial correlation between these morphotypes and Rostania thallus morphology.

scholarly journals Bayesian species delimitation in Pleophylla chafers (Coleoptera) – the importance of prior choice and morphology

2016 ◽  
Vol 16 (1) ◽  
Author(s):  
Jonas Eberle ◽  
Rachel C. M. Warnock ◽  
Dirk Ahrens
Keyword(s):  
Species Delimitation ◽  
Bayesian Species Delimitation

scholarly journals Landscape genetics and species delimitation in the Andean palm rocket frog, Rheobates spp

2020 ◽  
Author(s):  
Gabrielle Genty ◽  
Carlos E. Guarnizo ◽  
Juan P. Ramírez ◽  
Lucas Barrientos ◽  
Andrew J. Crawford
Keyword(s):  
Genetic Divergence ◽  
Species Delimitation ◽  
Isolation By Distance ◽  
Genetic Distances ◽  
Nuclear Genes ◽  
Genetic Lineages ◽  
Local Environments ◽  
Isolation By Environment ◽  
Bayesian Species Delimitation ◽  
Landscape Genetic

AbstractThe complex topography of the species-rich northern Andes creates heterogeneous environmental landscapes that are hypothesized to have promoted population fragmentation and diversification by vicariance, gradients and/or the adaptation of species. Previous phylogenetic work on the Palm Rocket Frog (Anura: Aromobatidae: Rheobates spp.), endemic to mid-elevation forests of Colombia, suggested valleys were important in promoting divergence between lineages. In this study, we use a spatially, multi-locus population genetic approach of two mitochondrial and four nuclear genes from 25 samples representing the complete geographic range of the genus to delimit species and test for landscape effects on genetic divergence within Rheobates. We tested three landscape genetic models: isolation by distance, isolation by resistance, and isolation by environment. Bayesian species delimitation (BPP) and a Poisson Tree Process (PTP) model both recovered five highly divergent genetic lineages within Rheobates, rather than the three inferred in a previous study. We found that an isolation by environment provided the only variable significantly correlated with genetic distances for both mitochondrial and nuclear genes, suggesting that local adaptation may have a role driving the genetic divergence within this genus of frogs. Thus, genetic divergence in Rheobates may be driven by the local environments where these frogs live, even more so that by the environmental characteristics of the intervening regions among populations (i.e., geographic barriers).

Evaluating multilocus Bayesian species delimitation for discovery of cryptic mycorrhizal diversity

2017 ◽  
Vol 26 ◽  
pp. 74-84 ◽  
Author(s):  
Michael R. Whitehead ◽  
Renee A. Catullo ◽  
Monica Ruibal ◽  
Kingsley W. Dixon ◽  
Rod Peakall ◽  
...  
Keyword(s):  
Species Delimitation ◽  
Bayesian Species Delimitation

scholarly journals Bayesian Species Delimitation Can Be Robust to Guide-Tree Inference Errors

2014 ◽  
Vol 63 (6) ◽  
pp. 993-1004 ◽  
Author(s):  
Chi Zhang ◽  
Bruce Rannala ◽  
Ziheng Yang
Keyword(s):  
Species Delimitation ◽  
Guide Tree ◽  
Tree Inference ◽  
Bayesian Species Delimitation

The taxonomy of the Tarentola mauritanica species complex (Gekkota: Phyllodactylidae): Bayesian species delimitation supports six candidate species

2016 ◽  
Vol 94 ◽  
pp. 271-278 ◽  
Author(s):  
Catarina Rato ◽  
David James Harris ◽  
Salvador Carranza ◽  
Luís Machado ◽  
Ana Perera
Keyword(s):  
Species Delimitation ◽  
Species Complex ◽  
Candidate Species ◽  
Bayesian Species Delimitation

Integrated Bayesian species delimitation and morphological diagnostics of chorioptic mange mites (Acariformes: Psoroptidae: Chorioptes)

2014 ◽  
Vol 113 (7) ◽  
pp. 2603-2627 ◽  
Author(s):  
Andre V. Bochkov ◽  
Pavel B. Klimov ◽  
Gete Hestvik ◽  
Alexander P. Saveljev
Keyword(s):  
Species Delimitation ◽  
Bayesian Species Delimitation ◽  
Morphological Diagnostics
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