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Publication Details
AFRICAN RESEARCH NEXUS
SHINING A SPOTLIGHT ON AFRICAN RESEARCH
biochemistry, genetics and molecular biology
Alu insertion polymorphisms shared by Papio baboons and Theropithecus gelada reveal an intertwined common ancestry
Mobile DNA, Volume 10, No. 1, Article 46, Year 2019
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Description
Background: Baboons (genus Papio) and geladas (Theropithecus gelada) are now generally recognized as close phylogenetic relatives, though morphologically quite distinct and generally classified in separate genera. Primate specific Alu retrotransposons are well-established genomic markers for the study of phylogenetic and population genetic relationships. We previously reported a computational reconstruction of Papio phylogeny using large-scale whole genome sequence (WGS) analysis of Alu insertion polymorphisms. Recently, high coverage WGS was generated for Theropithecus gelada. The objective of this study was to apply the high-Throughput "poly-Detect" method to computationally determine the number of Alu insertion polymorphisms shared by T. gelada and Papio, and vice versa, by each individual Papio species and T. gelada. Secondly, we performed locus-specific polymerase chain reaction (PCR) assays on a diverse DNA panel to complement the computational data. Results: We identified 27,700 Alu insertions from T. gelada WGS that were also present among six Papio species, with nearly half (12,956) remaining unfixed among 12 Papio individuals. Similarly, each of the six Papio species had species-indicative Alu insertions that were also present in T. gelada. In general, P. kindae shared more insertion polymorphisms with T. gelada than did any of the other five Papio species. PCR-based genotype data provided additional support for the computational findings. Conclusions: Our discovery that several thousand Alu insertion polymorphisms are shared by T. gelada and Papio baboons suggests a much more permeable reproductive barrier between the two genera then previously suspected. Their intertwined evolution likely involves a long history of admixture, gene flow and incomplete lineage sorting. © 2019 The Author(s).
Available Materials
https://efashare.b-cdn.net/share/pmc/articles/PMC6880559/bin/13100_2019_187_MOESM1_ESM.xlsx
https://efashare.b-cdn.net/share/pmc/articles/PMC6880559/bin/13100_2019_187_MOESM2_ESM.xlsx
https://efashare.b-cdn.net/share/pmc/articles/PMC6880559/bin/13100_2019_187_MOESM3_ESM.xlsx
https://efashare.b-cdn.net/share/pmc/articles/PMC6880559/bin/13100_2019_187_MOESM4_ESM.xlsx
Authors & Co-Authors
Walker, Jerilyn A.
United States, Baton Rouge
Louisiana State University
United States, New Orleans
Louisiana State University
Jordan, Vallmer E.
United States, Baton Rouge
Louisiana State University
United States, New Orleans
Louisiana State University
Storer, Jessica M.
United States, Baton Rouge
Louisiana State University
Steely, Cody J.
United States, Baton Rouge
Louisiana State University
United States, New Orleans
Louisiana State University
Beckstrom, Thomas O.
United States, Baton Rouge
Louisiana State University
United States, New Orleans
Louisiana State University
Rogers, Jeffrey A.
United States, Houston
Baylor College of Medicine
Jolly, Clifford J.
United States, New York
New York University
Konkel, Miriam K.
United States, Baton Rouge
Louisiana State University
United States, Clemson
Clemson University
United States, New Orleans
Louisiana State University
Batzer, Mark A.
United States, Baton Rouge
Louisiana State University
United States, New Orleans
Louisiana State University
Harris, Ronald Alan
United States, Houston
Baylor College of Medicine
Raveendran, Muthuswamy
United States, Houston
Baylor College of Medicine
Liu, Yue
United States, Houston
Baylor College of Medicine
Murali, Shwetha Canchi
United States, Houston
Baylor College of Medicine
Vilgalys, Tauras P.
United States, Durham
Duke University
Thomas, Gregg W.C.
United States, Bloomington
Indiana University Bloomington
Pagel, Kymberleigh A.
United States, Bloomington
Indiana University Bloomington
Pejaver, Vikas Rao
United States, Bloomington
Indiana University Bloomington
Catacchio, Claudia Rita
Italy, Bari
Università Degli Studi Di Bari Aldo Moro
Archidiacono, Nicoletta
Italy, Bari
Università Degli Studi Di Bari Aldo Moro
Ventura, Mario
Italy, Bari
Università Degli Studi Di Bari Aldo Moro
Marra-Campanale, Alessia
Italy, Bari
Università Degli Studi Di Bari Aldo Moro
Palazzo, Antonio
Italy, Bari
Università Degli Studi Di Bari Aldo Moro
Capozzi, Oronzo
Italy, Bari
Università Degli Studi Di Bari Aldo Moro
Raja, Archana N.
United States, Seattle
University of Washington
Huddleston, John
United States, Seattle
University of Washington
Quick, Veronica Searles
United States, Aurora
University of Colorado Anschutz Medical Campus
Karimpour-Fard, Anis
United States, Aurora
University of Colorado Anschutz Medical Campus
Schrempf, Dominik
Austria, Vienna
Veterinarmedizinische Universitat Wien
Billis, Konstantinos
United Kingdom, Hinxton
European Molecular Biology Laboratory
Martin, Fergal J.
United Kingdom, Hinxton
European Molecular Biology Laboratory
Muffato, Matthieu
United Kingdom, Hinxton
European Molecular Biology Laboratory
Athanasiadis, Georgios
Denmark, Aarhus
Aarhus Universitet
Bergey, Christina M.
United States, Notre Dame
University of Notre Dame
Burrell, Andrew S.
United States, New York
New York University
Cheng, Jadeyu
Denmark, Aarhus
Aarhus Universitet
Cox, Laura A.
United States, San Antonio
Texas Biomedical Research Institute
Else, James G.
United States, Atlanta
Emory University
Han, Yi
United States, Houston
Baylor College of Medicine
Kopp, Gisela H.
Germany, Gottingen
Deutsches Primatenzentrum
Germany, Konstanz
Universität Konstanz
Kothe, Maximilian
Germany, Gottingen
Deutsches Primatenzentrum
Leppälä, Kalle
Denmark, Aarhus
Aarhus Universitet
Noll, Angela
Germany, Konstanz
Universität Konstanz
Pecotte, Jera
United States, San Antonio
Texas Biomedical Research Institute
Pipes, Lenore
United States, New York
Weill Cornell Medicine
Rice, Karen S.
United States, San Antonio
Texas Biomedical Research Institute
Mason, Christopher E.
United States, New York
Weill Cornell Medicine
Disotell, Todd R.
United States, New York
New York University
Phillips-Conroy, Jane Elizabeth
United States, Seattle
University of Washington
Walter, Lutz
Germany, Gottingen
Deutsches Primatenzentrum
Munch, Kasper
Denmark, Aarhus
Aarhus Universitet
Mailund, Thomas
Denmark, Aarhus
Aarhus Universitet
Schierup, Mikkel Heide
Denmark, Aarhus
Aarhus Universitet
Kosiol, Carolin
Austria, Vienna
Veterinarmedizinische Universitat Wien
Vinař, Tomáš
Slovakia, Bratislava
Univerzita Komenského V Bratislave
Sikela, James M.
United States, Aurora
University of Colorado Anschutz Medical Campus
Zinner, Dietmar P.
Germany, Gottingen
Deutsches Primatenzentrum
Roos, Christian
Germany, Konstanz
Universität Konstanz
Radivojac, Predrag
United States, Bloomington
Indiana University Bloomington
Stanyon, R. R.
Italy, Florence
Università Degli Studi Di Firenze
Rocchi, Mariano
Italy, Bari
Università Degli Studi Di Bari Aldo Moro
Eichler, Evan E.
United States, Seattle
University of Washington
United States, Chevy Chase
Howard Hughes Medical Institute
Aken, Bronwen L.
United Kingdom, Hinxton
European Molecular Biology Laboratory
Hahn, Matthew W.
United States, Bloomington
Indiana University Bloomington
Marques-Bonet, Tomas
Spain, Barcelona
Csic-upf - Instituto de Biologia Evolutiva Ibe
Tung, Jenny
United States, Durham
Duke University
Muzny, Donna Marie
United States, Houston
Baylor College of Medicine
Gibbs, Richard A.L.
United States, Houston
Baylor College of Medicine
Worley, Kim Carlyle
United States, Houston
Baylor College of Medicine
Statistics
Citations: 9
Authors: 68
Affiliations: 23
Identifiers
Doi:
10.1186/s13100-019-0187-y
ISSN:
17598753
Research Areas
Genetics And Genomics
Health System And Policy
Sexual And Reproductive Health
Study Design
Cross Sectional Study