A novel family of short interspersed repetitive elements (SINEs) from cichlids: the patterns of insertion of SINEs at orthologous loci support the proposed monophyly of four major groups of cichlid fishes in Lake Tanganyika

Molecular Biology and Evolution
K TakahashiNorihiro Okada

Abstract

Short interspersed repetitive elements (SINEs) have been shown to be excellent markers of molecular phylogeny, since the integration of a SINE at a particular position in a genome can be considered an unambiguous derived homologous character. In the present study, we isolated a new family of SINEs from cichlids in Lake Tanganyika, whose speciation and diversification have been regarded as prime examples of explosive adaptive radiation. Members of this new SINE family, which we named the AFC family, are about 320 bp in length, and each has a tRNA-related region in its 5' region, as do most of the members of SINE families reported to date. A dot blot hybridization experiment showed that this family is distributed extensively in the genomes of cichlids in Africa, with estimated copy numbers of 2 x 10(3)-2 x 10(4) per haploid genome. Our investigations of the patterns of insertion of members of this family at six orthologous loci demonstrated clearly that four previously identified tribes, namely, the Lamprologini, Ectodini, Tropheini, and Perissodini, each form a monophyletic group. These results provide a basis for the elucidation of the phylogenetic framework of the cichlid fishes in Lake Tanganyika.

References

Sep 1, 1992·Molecular Phylogenetics and Evolution·A M ShedlockG C Burmer
Jul 11, 1991·Nucleic Acids Research·M A BatzerP L Deininger
Dec 1, 1991·Current Opinion in Genetics & Development·N Okada
Mar 15, 1991·Proceedings of the National Academy of Sciences of the United States of America·Y KidoN Okada
Mar 1, 1991·Genomics·M A Batzer, P L Deininger
May 1, 1986·Proceedings of the National Academy of Sciences of the United States of America·K MatsumotoN Okada
Nov 8, 1984·Nature·E Ullu, C Tschudi
Oct 1, 1994·Journal of Molecular Evolution·J M DeragonG Picard
Dec 6, 1994·Proceedings of the National Academy of Sciences of the United States of America·M A BatzerR J Herrera
Aug 1, 1993·Proceedings of the National Academy of Sciences of the United States of America·S MurataN Okada
Dec 1, 1995·Journal of Molecular Evolution·Y KidoN Okada
Dec 1, 1996·Current Opinion in Genetics & Development·A F Smit

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Citations

Feb 2, 2000·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·A M Shedlock, N Okada
Apr 14, 2006·Journal of Molecular Evolution·Oliver PiskurekNorihiro Okada
Jun 7, 2005·Molecular Phylogenetics and Evolution·Jinchuan XingMark A Batzer
Mar 20, 2003·Molecular Phylogenetics and Evolution·Silke S SingerHans Zischler
Dec 4, 2012·Nucleic Acids Research·Nikita S Vassetzky, Dmitri A Kramerov
Oct 8, 2005·BMC Evolutionary Biology·David A Ray, Mark A Batzer
Nov 21, 2002·Genes & Genetic Systems·Chaoyang ChengEiichi Ohtsubo
Sep 16, 1998·Proceedings of the National Academy of Sciences of the United States of America·O VerneauA V Furano
Mar 17, 1999·Proceedings of the National Academy of Sciences of the United States of America·N Gilbert, D Labuda
Jun 21, 2001·Proceedings of the National Academy of Sciences of the United States of America·M NikaidoN Okada
Dec 18, 2013·The Journal of Heredity·Pauline L KamathMary Poss
Jul 25, 2014·Die Naturwissenschaften·Takashi HottaMasanori Kohda
Oct 10, 2014·Nature Communications·M Emília SantosWalter Salzburger
Sep 19, 2014·Oecologia·Wouter F D van DongenFranziska C Schaedelin
Jan 8, 2016·Genome Biology and Evolution·Irina MatetoviciAnnette Damert
Feb 14, 2016·Genome Biology and Evolution·Hidenori NishiharaNorihiro Okada
Apr 20, 2007·Gene·Wanjun GuDavid D Pollock
May 17, 2006·Trends in Ecology & Evolution·Andrew M ShedlockNorihiro Okada
Nov 9, 2000·Molecular Biology and Evolution·M W Simmen, A Bird
Jan 31, 2006·Journal of Biotechnology·C TafallaJ M Coll

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