Results 71 to 80 of about 17,767 (219)

Gene tree reconciliation: new developments in Bayesian concordance analysis with BUCKy [PDF]

, 2010
When phylogenetic trees inferred from different genes are incongruent, several methods are available to reconcile gene trees and extract the shared phylogenetic information from the sequence data. Bayesian Concordance Analysis, implemented in BUCKy, aims
Bret R. Larget, Cé, Colin N. Dewey, Satish K. Kotha   +3 more
core   +1 more source

Fixation of genetic variation and optimization of gene expression: The speed of evolution in isolated lizard populations undergoing Reverse Island Syndrome [PDF]

, 2019
The ecological theory of island biogeography suggests that mainland populations should be more genetically divergent from those on large and distant islands rather than from those on small and close islets.
Aceto, S., Buglione, M., Di Cosmo, A., Fulgione, D., Maselli, V., Petrelli, S., Salvemini, M., Trapanese, M.   +7 more
core   +1 more source

Multi‐Tissue Omics Analysis Uncovers Translational Regulation Underlying Complex Traits in Pigs

Advanced Science, EarlyView.
Integrated multi‐omics across pig breeds and tissues reveals key principles of post‐transcriptional translational regulation and their contribution to trait formation. A gene network framework integrating transcriptomic and translatomic data is developed and applied to elucidate the genetic basis of meat production, offering new insights into mammalian
Chao Wang, Yuanyuan Zhang, Choulin Chen, Xiaoxian Xu, Shenghua Qin, Junyan Qi, Yongzhou Bao, Huiming Li, Ruipu Chen, Weigang Zheng, Zhilong Chen, Lingzhao Fang, Yunxiang Zhao, Yuwen Liu   +13 more
wiley   +1 more source

Phylogenomics, ecomorphological evolution, and historical biogeography in Deuterocohnia (Bromeliaceae: Pitcairnioideae)

American Journal of Botany, EarlyView.
Abstract Premise Species of Deuterocohnia (17 spp.) show extraordinary variation in elevation (0–3900 m a.s.l.) and growth forms, and many have narrow geographic distributions in the west‐central Andes and the Peru‐Chile coast. Previous research using few plastid and nuclear loci failed to produce well‐resolved or supported phylogenies.
Bing Li, Nicole Schütz, Kurt Weising, Georg Zizka, Jacob B. Landis, Thomas J. Givnish   +5 more
wiley   +1 more source

The Implications of Over-Estimating Gene Tree Discordance on a Rapid-Radiation Species Tree (Blattodea: Blaberidae) [PDF]

, 2019
AbstractPatterns of discordance between gene trees and the species trees they reside in are crucial to the debate over the superiority of coalescent or concatenation approaches to tree inference. However, errors in estimating gene tree topologies obfuscate the issue by making gene trees appear erroneously discordant with the species tree.
Evangelista, Dominic A., Gilchrist, Michael A., Legendre, Frédéric, O’Meara, Brian   +3 more
openaire   +1 more source

STBase: one million species trees for comparative biology. [PDF]

PLoS ONE, 2015
Comprehensively sampled phylogenetic trees provide the most compelling foundations for strong inferences in comparative evolutionary biology. Mismatches are common, however, between the taxa for which comparative data are available and the taxa sampled ...
Michelle M McMahon, Akshay Deepak, David Fernández-Baca, Darren Boss, Michael J Sanderson   +4 more
doaj   +1 more source

An analytical comparison of coalescent-based multilocus methods: The three-taxon case [PDF]

, 2012
Incomplete lineage sorting (ILS) is a common source of gene tree incongruence in multilocus analyses. A large number of methods have been developed to infer species trees in the presence of ILS.
Roch, Sebastien
core  

Selection and environmental adaptation along a path to speciation in the Tibetan frog Nanorana parkeri. [PDF]

, 2018
Tibetan frogs, Nanorana parkeri, are differentiated genetically but not morphologically along geographical and elevational gradients in a challenging environment, presenting a unique opportunity to investigate processes leading to speciation. Analyses of
Che, Jing, Chen, Hong-Man, Gao, Feng, Jin, Jie-Qiong, Jin, Li, Li, Haipeng, Li, Yong-Xin, Liu, Yan-Hu, Mao, Bingyu, Murphy, Robert W, Shao, Yong, Wake, David B, Wang, Guo-Dong, Yan, Fang, Yang, He-Chuan, Zhang, Bao-Lin, Zhang, Ya-Ping, Zhang, Yaoguang, Zhou, Wei-Wei   +18 more
core   +2 more sources

Phylogenomics reveals the evolution of floral traits associated with pollinators and pollinator–prey conflict within the carnivorous Pinguicula subgenus Temnoceras

American Journal of Botany, EarlyView.
Abstract Premise The carnivorous plant genus Pinguicula (Lentibulariaceae) exhibits remarkable floral diversity associated with pollination, particularly in the largest subgenus Temnoceras, which spans Mexico and Central America. Despite this diversity, the relationships between species and the evolution of key floral traits remain unresolved. Here, we
Yunjia Liu, Qianshi Lin, Steven J. Fleck, Martín Mata‐Rosas, Enrique Ibarra‐Laclette, Tanya Renner   +5 more
wiley   +1 more source

Terraces in species tree inference from gene trees

BMC Ecology and Evolution
A terrace in a phylogenetic tree space is a region where all trees contain the same set of subtrees, due to certain patterns of missing data among the taxa sampled, resulting in an identical optimality score for a given data set.
Mursalin Habib, Kowshic Roy, Saem Hasan, Atif Hasan Rahman, Md. Shamsuzzoha Bayzid   +4 more
doaj   +1 more source