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A Bayesian method for divergence tim...

The University of Wisconsin - Madison.

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A Bayesian method for divergence time estimation from mitochondrial and homologous Numt sequences with application to African gorilla phylogeography.

Record Type:	Language materials, printed : Monograph/item
Title/Author:	A Bayesian method for divergence time estimation from mitochondrial and homologous Numt sequences with application to African gorilla phylogeography./
Author:	Kim, Joungyoun.
Description:	156 p.
Notes:	Adviser: Bret R. Larget.
Contained By:	Dissertation Abstracts International69-09B.
Subject:	Biology, Bioinformatics. -
Online resource:	http://pqdd.sinica.edu.tw/twdaoapp/servlet/advanced?query=3327938
ISBN:	9780549810254

A Bayesian method for divergence time estimation from mitochondrial and homologous Numt sequences with application to African gorilla phylogeography.
Kim, Joungyoun.

A Bayesian method for divergence time estimation from mitochondrial and homologous Numt sequences with application to African gorilla phylogeography. - 156 p.

Adviser: Bret R. Larget.

Thesis (Ph.D.)--The University of Wisconsin - Madison, 2008.

Phylogeography is the study of evolutionary history among populations in a species associated with geographic genetic variation. This dissertation examines the phylogeography of three African gorilla subspecies based on two types of DNA sequence data. One type is HV1, the first hyper-variable region in the control region of the mitochondrial genome. The other type is nuclear mitochondrial DNA (Numt DNA), which results from the introgression of a copy of HV1 from the mitochondrial genome into the nuclear genome. Numt and HV1 sequences evolve independently when in different organelles, but they share a common evolutionary history at the same locus in the mitochondrial genome prior to introgression. This study estimates the evolutionary history of gorilla populations in terms of population divergence times and effective population sizes. Also, this study estimates the number of introgression events and when they occurred in the past. The estimates are obtained in a Bayesian framework using novel Markov chain Monte Carlo methods.

ISBN: 9780549810254Subjects--Topical Terms:

1018415
Biology, Bioinformatics.

A Bayesian method for divergence time estimation from mitochondrial and homologous Numt sequences with application to African gorilla phylogeography.
LDR:03031nam 2200301 a 45 001 852716
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020 $a 9780549810254
035 $a (UMI)AAI3327938
035 $a AAI3327938
040 $a UMI $c UMI
100 1 $a Kim, Joungyoun. $3 1018720
245 1 2 $a A Bayesian method for divergence time estimation from mitochondrial and homologous Numt sequences with application to African gorilla phylogeography.
300 $a 156 p.
500 $a Adviser: Bret R. Larget.
500 $a Source: Dissertation Abstracts International, Volume: 69-09, Section: B, page: 5508.
502 $a Thesis (Ph.D.)--The University of Wisconsin - Madison, 2008.
520 $a Phylogeography is the study of evolutionary history among populations in a species associated with geographic genetic variation. This dissertation examines the phylogeography of three African gorilla subspecies based on two types of DNA sequence data. One type is HV1, the first hyper-variable region in the control region of the mitochondrial genome. The other type is nuclear mitochondrial DNA (Numt DNA), which results from the introgression of a copy of HV1 from the mitochondrial genome into the nuclear genome. Numt and HV1 sequences evolve independently when in different organelles, but they share a common evolutionary history at the same locus in the mitochondrial genome prior to introgression. This study estimates the evolutionary history of gorilla populations in terms of population divergence times and effective population sizes. Also, this study estimates the number of introgression events and when they occurred in the past. The estimates are obtained in a Bayesian framework using novel Markov chain Monte Carlo methods.
520 $a This dissertation describes two separate methods of analysis. The first method is based on a hybrid coalescent process that combines separate coalescent processes for HV1 and Numt sequences along with a transfer model for introgression events within a single population tree. The second method uses a genome-differentiated model which incorporates separate divergence times for HV1 and Numt sequences. These Bayesian methods for the analysis of Numt and HV1 sequences are the first approaches specifically to model the evolutionary history of homologous multi-locus sequences within a population tree framework.
520 $a The data analysis reveals highly discordant estimates of the divergence time between eastern and western gorilla populations for HV1 and Numt sequences. The discordant east-west split times are evidence of male-mediated gene flow between east and west long after female gorillas stopped this migration. In addition, the analysis estimates three independent introgression events.
590 $a School code: 0262.
650 4 $a Biology, Bioinformatics. $3 1018415
650 4 $a Statistics. $3 517247
690 $a 0463
690 $a 0715
710 2 $a The University of Wisconsin - Madison. $3 626640
773 0 $t Dissertation Abstracts International $g 69-09B.
790 $a 0262
790 1 0 $a Larget, Bret R., $e advisor
791 $a Ph.D.
792 $a 2008
856 4 0 $u http://pqdd.sinica.edu.tw/twdaoapp/servlet/advanced?query=3327938