TY - JOUR
T1 - Multispecies Coalescent
T2 - Theory and Applications in Phylogenetics
AU - Mirarab, Siavash
AU - Nakhleh, Luay
AU - Warnow, Tandy
N1 - Publisher Copyright:
© 2021 by Annual Reviews. All rights reserved.
PY - 2021
Y1 - 2021
N2 - Species tree estimation is a basic part of many biological research projects, ranging from answering basic evolutionary questions (e.g., how did a group of species adapt to their environments?) to addressing questions in functional biology. Yet, species tree estimation is very challenging, due to processes such as incomplete lineage sorting, gene duplication and loss, horizontal gene transfer, and hybridization, which can make gene trees differ from each other and from the overall evolutionary history of the species. Over the last 10-20 years, there has been tremendous growth in methods and mathematical theory for estimating species trees and phylogenetic networks, and some of these methods are now in wide use. In this survey, we provide an overview of the current state of the art, identify the limitations of existing methods and theory, and propose additional research problems and directions.
AB - Species tree estimation is a basic part of many biological research projects, ranging from answering basic evolutionary questions (e.g., how did a group of species adapt to their environments?) to addressing questions in functional biology. Yet, species tree estimation is very challenging, due to processes such as incomplete lineage sorting, gene duplication and loss, horizontal gene transfer, and hybridization, which can make gene trees differ from each other and from the overall evolutionary history of the species. Over the last 10-20 years, there has been tremendous growth in methods and mathematical theory for estimating species trees and phylogenetic networks, and some of these methods are now in wide use. In this survey, we provide an overview of the current state of the art, identify the limitations of existing methods and theory, and propose additional research problems and directions.
KW - Multi-species coalescent
KW - incomplete lineage sorting
KW - phylogenomics
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U2 - 10.1146/annurev-ecolsys-012121-095340
DO - 10.1146/annurev-ecolsys-012121-095340
M3 - Review article
AN - SCOPUS:85118949882
SN - 1543-592X
VL - 52
SP - 247
EP - 268
JO - Annual Review of Ecology, Evolution, and Systematics
JF - Annual Review of Ecology, Evolution, and Systematics
ER -