Alu insertion polymorphisms as evidence for population structure in baboons

The Baboon Genome Analysis Consortium

doi:10.1093/gbe/evx184

Alu insertion polymorphisms as evidence for population structure in baboons

The Baboon Genome Analysis Consortium

Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

3 Citations (Scopus)

Abstract

Male dispersal from the natal group at or near maturity is a feature of most baboon (Papio) species. It potentially has profound effects upon population structure and evolutionary processes, but dispersal, especially for unusually long distances, is not readily documented by direct field observation. In this pilot study, we investigate the possibility of retrieving baboon population structure in yellow (Papio cynocephalus) and kinda (Papio kindae) baboons from the distribution of variation in a genome-wide set of 494 Alu insertion polymorphisms, made available via the recently completed Baboon Genome Analysis Consortium. Alu insertion variation in a mixed population derived from yellow and olive (Papio anubis) baboons identified each individual's proportion of heritage from either parental species. In an unmixed yellow baboon population, our analysis showed greater similarity between neighboring than between more distantly situated groups, suggesting structuring of the population by male dispersal distance. Finally (and very provisionally), an unexpectedly sharp difference in Alu insertion frequencies between members of neighboring social groups of kinda baboons suggests that intergroup migration may be more rare than predicted in this little known species.

Original language	English
Journal	Genome Biology and Evolution
Volume	9
Issue	9
Pages (from-to)	2418-2427
Number of pages	10
ISSN	1759-6653
DOIs	https://doi.org/10.1093/gbe/evx184
Publication status	Published - 1 Sept 2017

Keywords

Alu
Population genetics
Population structure
Retrotransposon

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10.1093/gbe/evx184

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title = "Alu insertion polymorphisms as evidence for population structure in baboons",

abstract = "Male dispersal from the natal group at or near maturity is a feature of most baboon (Papio) species. It potentially has profound effects upon population structure and evolutionary processes, but dispersal, especially for unusually long distances, is not readily documented by direct field observation. In this pilot study, we investigate the possibility of retrieving baboon population structure in yellow (Papio cynocephalus) and kinda (Papio kindae) baboons from the distribution of variation in a genome-wide set of 494 Alu insertion polymorphisms, made available via the recently completed Baboon Genome Analysis Consortium. Alu insertion variation in a mixed population derived from yellow and olive (Papio anubis) baboons identified each individual's proportion of heritage from either parental species. In an unmixed yellow baboon population, our analysis showed greater similarity between neighboring than between more distantly situated groups, suggesting structuring of the population by male dispersal distance. Finally (and very provisionally), an unexpectedly sharp difference in Alu insertion frequencies between members of neighboring social groups of kinda baboons suggests that intergroup migration may be more rare than predicted in this little known species.",

keywords = "Alu, Population genetics, Population structure, Retrotransposon",

author = "Steely, {Cody J.} and Walker, {Jerilyn A.} and Jordan, {Vallmer E.} and Beckstrom, {Thomas O.} and McDaniel, {Cullen L.} and {St Romain}, {Corey P.} and Bennett, {Emily C.} and Arianna Robichaux and Clement, {Brooke N.} and Muthuswamy Raveendran and Worley, {Kim C.} and Jane Phillips-Conroy and Jolly, {Clifford J.} and Jeff Rogers and Konkel, {Miriam K.} and Batzer, {Mark A.} and Yue Liu and Shwetha Murali and Vilgalys, {Tauras P.} and Walker, {Jerilyn A.} and Konkel, {Miriam K.} and Jordan, {Vallmer E.} and Steely, {Cody J.} and Beckstrom, {Thomas O.} and Thomas, {Gregg W.C.} and Pagel, {Kymberleigh A.} and Vikas Pejaver and Catacchio, {Claudia R.} and Nicoletta Archidiacono and Mario Ventura and Alessia Marra-Campanale and Antonio Palazzo and Oronzo Capozzi and Archana Raja and John Huddleston and Quick, {Veronica Searles} and Anis Karimpour-Fard and Dominik Schrempf and {de Manuel Montero}, Marc and Konstantinos Billis and Martin, {Fergal J.} and Matthieu Muffato and Georgios Athanasiadis and Christina Bergey and Andrew Burrell and Jade Cheng and Kalle Lepp{\"a}l{\"a} and Kasper Munch and Thomas Mailund and Mikkel Schierup and {The Baboon Genome Analysis Consortium}",

year = "2017",

month = sep,

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doi = "10.1093/gbe/evx184",

language = "English",

volume = "9",

pages = "2418--2427",

journal = "Genome Biology and Evolution",

issn = "1759-6653",

publisher = "Oxford University Press",

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T1 - Alu insertion polymorphisms as evidence for population structure in baboons

AU - Steely, Cody J.

AU - Walker, Jerilyn A.

AU - Jordan, Vallmer E.

AU - Beckstrom, Thomas O.

AU - McDaniel, Cullen L.

AU - St Romain, Corey P.

AU - Bennett, Emily C.

AU - Robichaux, Arianna

AU - Clement, Brooke N.

AU - Raveendran, Muthuswamy

AU - Worley, Kim C.

AU - Phillips-Conroy, Jane

AU - Jolly, Clifford J.

AU - Rogers, Jeff

AU - Konkel, Miriam K.

AU - Batzer, Mark A.

AU - Liu, Yue

AU - Murali, Shwetha

AU - Vilgalys, Tauras P.

AU - Walker, Jerilyn A.

AU - Konkel, Miriam K.

AU - Jordan, Vallmer E.

AU - Steely, Cody J.

AU - Beckstrom, Thomas O.

AU - Thomas, Gregg W.C.

AU - Pagel, Kymberleigh A.

AU - Pejaver, Vikas

AU - Catacchio, Claudia R.

AU - Archidiacono, Nicoletta

AU - Ventura, Mario

AU - Marra-Campanale, Alessia

AU - Palazzo, Antonio

AU - Capozzi, Oronzo

AU - Raja, Archana

AU - Huddleston, John

AU - Quick, Veronica Searles

AU - Karimpour-Fard, Anis

AU - Schrempf, Dominik

AU - de Manuel Montero, Marc

AU - Billis, Konstantinos

AU - Martin, Fergal J.

AU - Muffato, Matthieu

AU - Athanasiadis, Georgios

AU - Bergey, Christina

AU - Burrell, Andrew

AU - Cheng, Jade

AU - Leppälä, Kalle

AU - Munch, Kasper

AU - Mailund, Thomas

AU - Schierup, Mikkel

AU - The Baboon Genome Analysis Consortium

PY - 2017/9/1

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N2 - Male dispersal from the natal group at or near maturity is a feature of most baboon (Papio) species. It potentially has profound effects upon population structure and evolutionary processes, but dispersal, especially for unusually long distances, is not readily documented by direct field observation. In this pilot study, we investigate the possibility of retrieving baboon population structure in yellow (Papio cynocephalus) and kinda (Papio kindae) baboons from the distribution of variation in a genome-wide set of 494 Alu insertion polymorphisms, made available via the recently completed Baboon Genome Analysis Consortium. Alu insertion variation in a mixed population derived from yellow and olive (Papio anubis) baboons identified each individual's proportion of heritage from either parental species. In an unmixed yellow baboon population, our analysis showed greater similarity between neighboring than between more distantly situated groups, suggesting structuring of the population by male dispersal distance. Finally (and very provisionally), an unexpectedly sharp difference in Alu insertion frequencies between members of neighboring social groups of kinda baboons suggests that intergroup migration may be more rare than predicted in this little known species.

AB - Male dispersal from the natal group at or near maturity is a feature of most baboon (Papio) species. It potentially has profound effects upon population structure and evolutionary processes, but dispersal, especially for unusually long distances, is not readily documented by direct field observation. In this pilot study, we investigate the possibility of retrieving baboon population structure in yellow (Papio cynocephalus) and kinda (Papio kindae) baboons from the distribution of variation in a genome-wide set of 494 Alu insertion polymorphisms, made available via the recently completed Baboon Genome Analysis Consortium. Alu insertion variation in a mixed population derived from yellow and olive (Papio anubis) baboons identified each individual's proportion of heritage from either parental species. In an unmixed yellow baboon population, our analysis showed greater similarity between neighboring than between more distantly situated groups, suggesting structuring of the population by male dispersal distance. Finally (and very provisionally), an unexpectedly sharp difference in Alu insertion frequencies between members of neighboring social groups of kinda baboons suggests that intergroup migration may be more rare than predicted in this little known species.

KW - Alu

KW - Population genetics

KW - Population structure

KW - Retrotransposon

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DO - 10.1093/gbe/evx184

M3 - Journal article

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SN - 1759-6653

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SP - 2418

EP - 2427

JO - Genome Biology and Evolution

JF - Genome Biology and Evolution

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ER -

Alu insertion polymorphisms as evidence for population structure in baboons

Abstract

Keywords

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