气候变化领域集成服务门户(CCPortal): Accounting for spatial sampling patterns in Bayesian phylogeography

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DOI	10.1073/pnas.2105273118
	Accounting for spatial sampling patterns in Bayesian phylogeography
	Guindon S.; de Maio N.
发表日期	2021
ISSN	0027-8424
卷号	118 期号:52
英文摘要	Statistical phylogeography provides useful tools to characterize and quantify the spread of organisms during the course of evolution. Analyzing georeferenced genetic data often relies on the assumption that samples are preferentially collected in densely populated areas of the habitat. Deviation from this assumption negatively impacts the inference of the spatial and demographic dynamics. This issue is pervasive in phylogeography. It affects analyses that approximate the habitat as a set of discrete demes as well as those that treat it as a continuum. The present study introduces a Bayesian modeling approach that explicitly accommodates for spatial sampling strategies. An original inference technique, based on recent advances in statistical computing, is then described that is most suited to modeling data where sequences are preferentially collected at certain locations, independently of the outcome of the evolutionary process. The analysis of georeferenced genetic sequences from the West Nile virus in North America along with simulated data shows how assumptions about spatial sampling may impact our understanding of the forces shaping biodiversity across time and space. © 2021 National Academy of Sciences. All rights reserved.
英文关键词	Bayesian inference; Phylogeography; Sampling design; Statistical modeling; West Nile virus
语种	英语
scopus关键词	article; biodiversity; habitat; nonhuman; North America; phylogeography; simulation; West Nile virus; algorithm; Bayes theorem; ecosystem; genetics; human; molecular evolution; phylogeography; population dynamics; procedures; spatial analysis; statistical model; virology; West Nile fever; West Nile virus; Algorithms; Bayes Theorem; Ecosystem; Evolution, Molecular; Humans; Models, Statistical; North America; Phylogeography; Population Dynamics; Spatial Analysis; West Nile Fever; West Nile virus
来源期刊	Proceedings of the National Academy of Sciences of the United States of America
文献类型	期刊论文
条目标识符	http://gcip.llas.ac.cn/handle/2XKMVOVA/250897
作者单位	Department of Computer Science, Laboratoire d’Informatique, de Robotique et de Microélectronique de Montpellier, CNRS and Université de Montpellier, Montpellier, 34095, France; European Molecular Biology Laboratory, European Bioinformatics Institute, HinxtonCB10 1SD, United Kingdom
推荐引用方式 GB/T 7714	Guindon S.,de Maio N.. Accounting for spatial sampling patterns in Bayesian phylogeography[J],2021,118(52).
APA	Guindon S.,&de Maio N..(2021).Accounting for spatial sampling patterns in Bayesian phylogeography.Proceedings of the National Academy of Sciences of the United States of America,118(52).
MLA	Guindon S.,et al."Accounting for spatial sampling patterns in Bayesian phylogeography".Proceedings of the National Academy of Sciences of the United States of America 118.52(2021).