Synteny search identifies carnivore Y chromosome for evolution of male specific genes

Integrative Zoology
Huizhong FanFuwen Wei

Abstract

The explosive accumulation of mammalian genomes has provided a valuable resource to characterize the evolution of the Y chromosome. Unexpectedly, the Y-chromosome sequence has been characterized in only a small handful of species, with the majority being model organisms. Thus, identification of Y-linked scaffolds from unordered genome sequences is becoming more important. Here, we used a syntenic-based approach to generate the scaffolds of the male-specific region of the Y chromosome (MSY) from the genome sequence of 6 male carnivore species. Our results identified 14, 15, 9, 28, 14 and 11 Y-linked scaffolds in polar bears, pacific walruses, red pandas, cheetahs, ferrets and tigers, covering 1.55 Mbp, 2.62 Mbp, 964 Kb, 1.75 Mb, 2.17 Mbp and 1.84 Mb MSY, respectively. All the candidate Y-linked scaffolds in 3 selected species (red pandas, polar bears and tigers) were successfully verified using polymerase chain reaction. We re-annotated 8 carnivore MSYs including these 6 Y-linked scaffolds and domestic dog and cat MSY; a total of 11 orthologous genes conserved in at least 7 of the 8 carnivores were identified. These 11 Y-linked genes have significantly higher evolutionary rates compared with their X-linked counterparts, indicati...Continue Reading

References

Jan 11, 1995·Nucleic Acids Research·A F Smit, A D Riggs
Jul 15, 1998·The Journal of Experimental Zoology·J A Graves
Dec 19, 2002·Journal of Biomedicine & Biotechnology·Lluís Quintana-Murci, Marc Fellous
Jun 20, 2003·Nature·Huntington F Willard
Sep 23, 2003·Proceedings of the National Academy of Sciences of the United States of America·W James KentDavid Haussler
Dec 4, 2003·Journal of the American Dietetic Association·Sheila Fleischhacker, Cheryl Achterberg
Mar 11, 2005·Molecular Biology and Evolution·Dave T Gerrard, Dmitry A Filatov
Dec 13, 2005·Nature·Kerstin Lindblad-TohEric S Lander
Mar 15, 2006·Cell·Jennifer A Marshall Graves
Apr 6, 2006·PLoS Genetics·William J MurphyBhanu P Chowdhary
Sep 26, 2007·BMC Evolutionary Biology·Peter J I EllisNabeel A Affara
Nov 3, 2007·Genome Research·Joan U PontiusStephen J O'Brien
Mar 11, 2009·Current Protocols in Bioinformatics·Maja Tarailo-Graovac, Nansheng Chen
Jul 18, 2009·PLoS Genetics·Melissa A Wilson, Kateryna D Makova
Dec 17, 2009·BMC Bioinformatics·Christiam CamachoThomas L Madden
Dec 17, 2009·Nature·Ruiqiang LiJun Wang
Feb 9, 2010·Molecular Phylogenetics and Evolution·Eduardo EizirikStephen J O'Brien
Nov 9, 2010·Current Biology : CB·Blaire Van Valkenburgh, Robert K Wayne
Jun 26, 2012·Nucleic Acids Research·Andreas UntergasserSteven G Rozen
Jul 12, 2013·Proceedings of the National Academy of Sciences of the United States of America·Ti-Cheng ChangWan-Sheng Liu
Sep 21, 2013·Nature Communications·Yun Sung ChoJong Bhak
Jan 25, 2014·Trends in Cell Biology·Gary Kleiger, Thibault Mayor
Apr 12, 2014·Molecular Biology and Evolution·Emmanuel J P DouzeryVincent Ranwez
Apr 25, 2014·Nature·Diego CortezHenrik Kaessmann
Jan 27, 2015·Nature Genetics·Andrew D FooteRichard A Gibbs
May 29, 2015·Genome Biology and Evolution·Tobias BidonAxel Janke
Nov 13, 2015·Genome Research·Benjamin M SkinnerChris Tyler-Smith
Dec 1, 2015·Nature Reviews. Genetics·Jennifer A Marshall Graves
Dec 15, 2015·Genome Biology·Pavel DobryninStephen J O'Brien
Mar 24, 2016·Molecular Biology and Evolution·Sudhir KumarKoichiro Tamura
Jan 18, 2017·Proceedings of the National Academy of Sciences of the United States of America·Yibo HuFuwen Wei
Jul 4, 2017·Current Biology : CB·Barbara WallnerGottfried Brem

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Citations

May 31, 2019·Genes·Halie M RandoAnna V Kukekova
Dec 11, 2019·Genes·Susana A TeixeiraSimone E F Guimarães

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