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A new approach to estimate parameters of speciation models with application to apes.

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A new approach to estimate parameters of speciation models with application to apes.

Content Provider	World Health Organization (WHO)-Global Index Medicus
Author	Becquet, Celine Przeworski, Molly
Description	Country affiliation: United States Author Affiliation: Becquet C ( Department of Human Genetics, University of Chicago, Chicago, Illinois 60637, USA. cbecquet@uchicago.edu)
Abstract	How populations diverge and give rise to distinct species remains a fundamental question in evolutionary biology, with important implications for a wide range of fields, from conservation genetics to human evolution. A promising approach is to estimate parameters of simple speciation models using polymorphism data from multiple loci. Existing methods, however, make a number of assumptions that severely limit their applicability, notably, no gene flow after the populations split and no intralocus recombination. To overcome these limitations, we developed a new Markov chain Monte Carlo method to estimate parameters of an isolation-migration model. The approach uses summaries of polymorphism data at multiple loci surveyed in a pair of diverging populations or closely related species and, importantly, allows for intralocus recombination. To illustrate its potential, we applied it to extensive polymorphism data from populations and species of apes, whose demographic histories are largely unknown. The isolation-migration model appears to provide a reasonable fit to the data. It suggests that the two chimpanzee species became reproductively isolated in allopatry approximately 850 Kya, while Western and Central chimpanzee populations split approximately 440 Kya but continued to exchange migrants. Similarly, Eastern and Western gorillas and Sumatran and Bornean orangutans appear to have experienced gene flow since their splits approximately 90 and over 250 Kya, respectively.
File Format	HTM / HTML
ISSN	10889051
e-ISSN	15495469
Journal	Genome Research
Issue Number	10
Volume Number	17
Language	English
Publisher	Cold Spring Harbor Laboratory Press
Publisher Date	2007-10-01
Publisher Place	United States
Access Restriction	Open
Subject Keyword	Discipline Genetics Discipline Genomics Evolution, Molecular Hominidae Classification Genetics Models, Genetic Animals Gene Flow Genetics, Population Gorilla Gorilla Markov Chains Monte Carlo Method Pan Troglodytes Polymorphism, Genetic Pongo Pygmaeus Recombination, Genetic Species Specificity Time Factors Research Support, Non-u.s. Gov't
Content Type	Text
Resource Type	Article
Subject	Genetics Genetics (clinical)

Sl.	Authority	Responsibilities	Communication Details
1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
5	Website/Portal (Helpdesk)	Queries regarding NDLI and its services	support@ndl.gov.in
6	Contents and Copyright Issues	Queries related to content curation and copyright issues	content@ndl.gov.in
7	National Digital Library of India Club (NDLI Club)	Queries related to NDLI Club formation, support, user awareness program, seminar/symposium, collaboration, social media, promotion, and outreach	clubsupport@ndl.gov.in
8	Digital Preservation Centre (DPC)	Assistance with digitizing and archiving copyright-free printed books	dpc@ndl.gov.in
9	IDR Setup or Support	Queries related to establishment and support of Institutional Digital Repository (IDR) and IDR workshops	idr@ndl.gov.in

Extensive polymorphism in the mitochondrial DNA of apes.

Data from: The evolution of hominoid cranial diversity: a quantitative genetic approach (Dataset)

Hominid mandibular corpus shape variation and its utility for recognizing species diversity within fossil Homo.

Comparing the Performances of Apes (Gorilla gorilla, Pan troglodytes, Pongo pygmaeus) and Human Children (Homo sapiens) in the Floating Peanut Task

Recombination has little effect on the rate of sequence divergence in pseudoautosomal boundary 1 among humans and great apes.

Comparative assessment of handedness for a coordinated bimanual task in chimpanzees (Pan troglodytes), gorillas (Gorilla gorilla) and orangutans (Pongo pygmaeus).

Copy number variation analysis in the great apes reveals species-specific patterns of structural variation.

The Time Scale of Recombination Rate Evolution in Great Apes.

Blood groups in the Species Survival Plan®, European endangered species program, and managed in situ populations of bonobo (Pan paniscus), common chimpanzee (Pan troglodytes), gorilla (Gorilla ssp.), and orangutan (Pongo pygmaeus ssp.).

A new approach to estimate parameters of speciation models with application to apes.

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Extensive polymorphism in the mitochondrial DNA of apes.

Data from: The evolution of hominoid cranial diversity: a quantitative genetic approach (Dataset)

Hominid mandibular corpus shape variation and its utility for recognizing species diversity within fossil Homo.

Comparing the Performances of Apes (Gorilla gorilla, Pan troglodytes, Pongo pygmaeus) and Human Children (Homo sapiens) in the Floating Peanut Task

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Copy number variation analysis in the great apes reveals species-specific patterns of structural variation.

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Blood groups in the Species Survival Plan®, European endangered species program, and managed in situ populations of bonobo (Pan paniscus), common chimpanzee (Pan troglodytes), gorilla (Gorilla ssp.), and orangutan (Pongo pygmaeus ssp.).

A new approach to estimate parameters of speciation models with application to apes.