Evolutionary dynamics of the Pgk1 gene in the polyploid genus Kengyilia (Triticeae: Poaceae) and its diploid relatives.

PloS One
X FanYong-Hong Zhou

Abstract

The level and pattern of nucleotide variation in duplicate gene provide important information on the evolutionary history of polyploids and divergent process between homoeologous loci within lineages. Kengyilia is a group of allohexaploid species with the StYP genomic constitutions in the wheat tribe. To investigate the evolutionary dynamics of the Pgk1 gene in Kengyilia and its diploid relatives, three copies of Pgk1 homoeologues were isolated from all sampled hexaploid Kengyilia species and analyzed with the Pgk1 sequences from 47 diploid taxa representing 18 basic genomes in Triticeae. Sequence diversity patterns and genealogical analysis suggested that (1) Kengyilia species from the Central Asia and the Qinghai-Tibetan plateau have independent origins with geographically differentiated P genome donors and diverged levels of nucleotide diversity at Pgk1 locus; (2) a relatively long-time sweep event has allowed the Pgk1 gene within Agropyron to adapt to cold climate triggered by the recent uplifts of the Qinghai-Tibetan Plateau; (3) sweep event and population expansion might result in the difference in the d(N)/d(S) value of the Pgk1 gene in allopatric Agropyron populations, and this difference may be genetically transmitted ...Continue Reading

References

Apr 1, 1975·Theoretical Population Biology·G A Watterson
Jan 1, 1990·Journal of Mathematical Biology·M Notohara
Feb 1, 1993·Journal of Molecular Evolution·N Goldman
Mar 1, 1993·Genetics·Y X Fu, W H Li
Mar 1, 1997·Genetics·J Wakeley, J Hey
Jan 27, 1999·Bioinformatics·D Posada, K A Crandall
Jun 22, 1999·Nucleic Acids Research·J D ThompsonO Poch
Nov 28, 2000·Annual Review of Genetics·S P Otto, J Whitton
Aug 29, 2001·Bioinformatics·J P Huelsenbeck, F Ronquist
Apr 19, 2002·Molecular Biology and Evolution·Randall L Small, Jonathan F Wendel
Jun 13, 2002·Proceedings of the National Academy of Sciences of the United States of America·Shaoxing HuangPiotr Gornicki
Dec 13, 2003·Proceedings of the National Academy of Sciences of the United States of America·Richard C Moore, Michael D Purugganan
Feb 17, 2005·Bioinformatics·Sergei L Kosakovsky Pond, Simon D W Frost
Feb 10, 2006·Proceedings of the National Academy of Sciences of the United States of America·Brad A ChapmanAndrew H Paterson
Oct 6, 2006·Journal of Molecular Evolution·Jan E AagaardPatrick C Phillips
Oct 13, 2006·Nature Reviews. Genetics·Mohamed A F Noor, Jeffrey L Feder
Oct 21, 2006·Molecular Biology and Evolution·B KilianF Salamini
Mar 24, 2007·Proteomics·Makoto Hashimoto, Setsuko Komatsu
Apr 3, 2007·Archives of Virology·P L DavisE C Holmes
Apr 20, 2007·Molecular Biology and Evolution·A HaudryJ David
May 10, 2007·Molecular Biology and Evolution·Koichiro TamuraSudhir Kumar
Sep 6, 2007·Genome Research·Robert BelshawAndrew Rambaut
Nov 13, 2007·BMC Evolutionary Biology·Alexei J Drummond, Andrew Rambaut
Feb 12, 2008·Journal of Applied Genetics·Jian ZengYong-Hong Zhou
Apr 18, 2008·Molecular Biology and Evolution·Tanja SlotteAlf Ceplitis
Apr 19, 2008·Proceedings of the National Academy of Sciences of the United States of America·Ran HovavJonathan F Wendel
Feb 1, 1993·Genome Génome / Conseil National De Recherches Canada·J Torabinejad, R J Mueller
Apr 1, 1994·Genome Génome / Conseil National De Recherches Canada·R R Wang, K B Jensen
Nov 6, 2008·Annual Review of Genetics·Ruth Hershberg, Dmitri A Petrov
Jun 10, 2009·Genetics·Noriko Takano-KaiSusan McCouch
Nov 21, 2009·The New Phytologist·Armel SalmonJonathan F Wendel
Feb 6, 2010·Proceedings of the National Academy of Sciences of the United States of America·Hunter B FraserEric E Schadt
Mar 5, 2010·Evolution; International Journal of Organic Evolution·V Vaughan SymondsDouglas E Soltis

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Citations

Sep 5, 2014·Genome Génome / Conseil National De Recherches Canada·Hong-Hai YanYuan-Ying Peng
Dec 5, 2013·Genome Génome / Conseil National De Recherches Canada·Quanwen DouZhiguo Chen
Jul 1, 2017·Genome Génome / Conseil National De Recherches Canada·Ruijuan LiuQuanwen Dou
Feb 18, 2021·Genome Génome / Conseil National De Recherches Canada·Yi DaiJianmin Chen

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Methods Mentioned

BETA
PCR

Software Mentioned

DnaSP
PAUP
BLAST
MEGA
Datamonkey
BEAST
ClustalX
TreeAnnotator
ModelTest
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