Phylogenetic relationships and ancient incomplete lineage sorting among cichlid fishes in Lake Tanganyika as revealed by analysis of the insertion of retroposons

Molecular Biology and Evolution
Kazuhiko TakahashiN Okada

Abstract

Lake Tanganyika harbors numerous endemic species of extremely diverse cichlid fish that have been classified into 12 major taxonomic groups known as tribes. Analysis of short interspersed element (SINE) insertion data has been acknowledged to be a powerful tool for the elucidation of phylogenetic relationships, and we applied this method in an attempt to clarify such relationships among these cichlids. We studied insertion patterns of 38 SINEs in total, 24 of which supported the monophyly of three clades. The other 14 loci revealed extensive incongruence in terms of the patterns of SINE insertions. These incongruencies most likely stem from a period of adaptive radiation. One possible explanation for this phenomenon is the extensive incomplete lineage sorting of alleles for the presence or absence of a SINE during successive speciation events which took place about 5-10 MYA. The present study is the first to report the successful application of the SINE method in demonstrating the existence of such possible "ancient" incomplete lineage sorting. We discuss the possibility that it might potentially be very difficult to resolve the species phylogeny of a group that radiated explosively, even by resolving the genealogies of more th...Continue Reading

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Citations

May 5, 2005·Journal of Molecular Evolution·Stephan KoblmüllerChristian Sturmbauer
Jun 7, 2005·Molecular Phylogenetics and Evolution·Jinchuan XingMark A Batzer
Jul 14, 2004·Proceedings of the National Academy of Sciences of the United States of America·Christian RoosHans Zischler
Apr 6, 2005·Proceedings of the National Academy of Sciences of the United States of America·Tohru SugawaraNorihiro Okada
Mar 17, 2009·Proceedings of the National Academy of Sciences of the United States of America·Hidenori NishiharaNorihiro Okada
Oct 22, 2003·Proceedings of the National Academy of Sciences of the United States of America·Yohey TeraiNorihiro Okada
Dec 26, 2009·Molecular Biology and Evolution·David A Morrison
Jan 1, 2013·Molecular Biology and Evolution·Yong-Hwee E LohJ Todd Streelman
Jul 19, 2006·Proceedings. Biological Sciences·Ole Seehausen
Jul 7, 2005·Genome Research·Ali BashirVineet Bafna
Jun 8, 2012·International Journal of Evolutionary Biology·Paul C KirchbergerStephan Koblmüller
Aug 10, 2012·BMC Evolutionary Biology·Oliver HawlitschekMichael Balke
Oct 8, 2005·BMC Evolutionary Biology·David A Ray, Mark A Batzer
Feb 3, 2007·BMC Biology·Jinchuan XingMark A Batzer
Jul 20, 2012·BMC Systems Biology·Guan Ning LinDong Xu
Mar 26, 2003·Genes & Genetic Systems·Masakatsu WatanabeNorihiro Okada
Dec 24, 2013·BMC Evolutionary Biology·Mehdi LayeghifardVladimir Makarenkov
May 8, 2014·Genome Biology and Evolution·Masato NikaidoNorihiro Okada
Apr 2, 2013·Molecular Phylogenetics and Evolution·Andreas R Dunz, Ulrich K Schliewen
Aug 21, 2015·Molecular Phylogenetics and Evolution·Tetsumi Takahashi, Edmundo Moreno
Jan 13, 2009·Molecular Phylogenetics and Evolution·Martin OsterholzChristian Roos
Sep 12, 2015·IEEE/ACM Transactions on Computational Biology and Bioinformatics·Pawel Gorecki, Oliver Eulenstein
May 15, 2007·Molecular Phylogenetics and Evolution·Nicolas HubertJean-François Renno
Apr 20, 2007·Gene·Wanjun GuDavid D Pollock
Apr 10, 2007·Molecular Phylogenetics and Evolution·Julia J DayJaime Garcia-Moreno
Feb 2, 2006·Molecular Ecology·Michael R KiddThomas D Kocher
Jan 17, 2013·Molecular Ecology·Luisa OrsiniChristophe Eizaguirre
Jul 19, 2011·The Journal of Eukaryotic Microbiology·Wilhelm FoissnerMicah Dunthorn
Mar 18, 2011·Evolution & Development·Kelly E O'QuinKaren L Carleton

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