e-journal

Coalescent methods for estimating species trees from phylogenomic data

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Genome-scale sequence data have become increasingly available in the phylogenetic studies for
understanding the evolutionary histories of species. However, it is challenging to develop probabilistic models to
account for heterogeneity of phylogenomic data. The multispecies coalescent model describes gene trees as
independent random variables generated from a coalescence process occurring along the lineages of the species
tree. Since the multispecies coalescent model allows gene trees to vary across genes, coalescent-based methods
have been popularly used to account for heterogeneous gene trees in phylogenomic data analysis. In this paper, we
summarize and evaluate the performance of coalescent-based methods for estimating species trees from genomescale
sequence data. We investigate the effects of deep coalescence and mutation on the performance of species
tree estimation methods. We found that the coalescent-based methods perform well in estimating species trees for
a large number of genes, regardless of the degree of deep coalescence and mutation. The performance of the
coalescent methods is negatively correlated with the lengths of internal branches of the species tree.

Key words: coalescent methods, incomplete lineage sorting, phylogenomic data, species tree.

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Informasi Detail

Judul Seri

J. Syst. Evol

No. Panggil

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Penerbit

: Institute of Botany., 2015

Deskripsi Fisik

J. Syst. Evol September 2015 | Volume 53 | Issue 5 | 380–390

Bahasa

English

ISBN/ISSN

doi: 10.1111/jse.121

Klasifikasi

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Tipe Isi

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Tipe Media

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Tipe Pembawa

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Edisi

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Subjek

BIOLOGI

Info Detail Spesifik

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Pernyataan Tanggungjawab

Wati/Agus

Versi lain/terkait

Lampiran Berkas

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