Genetic variation and molecular evolution of endangered Kozlov.s pika (Ochotona koslowi Buchner) based on mitochondrial cytochrome b gene

• Autorzy: Lin G. , Ci H. , Thirgood S. , Zhang T. , Su J.
• Języki publikacji: EN

Abstrakty

EN

Kozlov's pika is a rare and endangered lagomorph species with a limited distribution in the southern Kunlun Mountains in western China. Because of its endangered status, Kozlov's pika is considered a priority species for research and conservation action. Genetic variation and molecular evolution of the Kozlov's pika were studied based on a total of 14 individuals from four locations along the eastern boundary between Xinjiang and Tibet province (35.20-36.48[degrees]N, 86.08-83.04[degrees]E) on extremely high elevation (usually over 4800 m a.s.l.). The density of local populations was about 3-4 per ha, living in a typical alpine desert grassland habitat. The complete mitochondrial cytochrome b (cytb) gene was amplified and sequenced. Based on the cytb gene sequences the genetic variation and molecular evolution were analyzed. Unexpected high haplotype diversity (0.956 [plus or minus] 0.045) but low nucleotide diversity (0.00537 [plus or minus] 0.00126) was found, indicating past demographic expansion. Significant partitioning of variance (P <0.01) among populations (46.7%), and within populations (53.3%), indicating low level of genetic differentiations among local populations. Our results gave an optimistic survival status of Kozlov's pika at the genetic level. Bayes Empirical Bayes analysis with model M2a and M8 detected three positively selected amino acid sites at the significance level of 0.05. The mutant types with either or both of the mutations aspartic acid to asparagine and glutamic acid to lysine had higher isoelectric point values. We suggested these mutant types might have biological significance to help individuals to adapt to the extremely high elevation habitats.

Słowa kluczowe

EN

genetic diversity; genetic structure; Kozlov's pika; molecular evolution

PL

ewolucja molekularna; szczekuszka; zróżnicowanie genetyczne

• Wydawca: Museum and Institute of Zoology, Polish Academy of Sciences
• Czasopismo: Polish Journal of Ecology
• Rocznik: 2010
• Tom: Vol. 58, nr 3
• Strony: 563--568
• Opis fizyczny: Bibliogr. 21 poz.,Rys., tab.,

Twórcy

autor

Lin G.

autor

Ci H.

autor

Thirgood S.

autor

Zhang T.

autor

Su J.

• Key Laboratory of Evolution and Adaptation of Plateau Biota, Northwest Institute of Plateau Biology Chinese Academy of Sciences, Xining, Qinghai 810001, P.R. China ; Graduate University of the Chinese Academy of Sciences, Beijing 100039, P. R. China,

Bibliografia

• 1. Avise J.C. 2000 – Phylogeography: The history and formation of species – Harvard University Press, Cambridge (USA), 447 pp.
• 2. Excoffier L., Laval L.G., Schneider S. 2005 – Arlequin ver. 3.0: an integrated software package for population genetics data analysis – Evol. Bioinformat. Online, 1: 47–50.
• 3. Frankham R. 2005 – Genetics and extinction – Biol. Conserv. 126: 131–140.
• 4. Haig D., Hurst L.D. 1991 – A quantitative measure of error minimization in the genetic code – J. Mol. Evol. 33: 412–417.
• 5. Hedrick P.W. 2000 – Genetics of populations – Jones and Bartlett Publishers, Massachusetts, 553 pp.
• 6. Irwin D.M., Kocher T.D., Wilson A.C. 1991 – Evolution of the cytochrome b gene of mammals – J. Mol. Evol. 32: 128–144.
• 7. IUCN 2007 – IUCN red list of threatened species – www.iucnredlist.org.
• 8. Iwata S., Lee J.W., Okada K., Lee J.K., Iwata M., Rasmussen B., Link T.A., Ramaswamy S., Jap B.K. 1998 – Complete structure of the 11-subunit bovine mito chondrial cytochrome bc1 complex – Science, 281: 64–71.
• 9. Jacquemyn H., Vandepitte K., Brys R., Honnay O., Roldan-Ruiz I. 2007 – Fitness variation and genetic diversity in small, remnant populations of the food deceptive orchid Orchis purpurea – Biol. Conserv. 139: 203–210.
• 10. Kocher T.D., Thomas W.K., Meyer A., Edwards S.V., Paabo S., Villablanca F.X., Wilson A.C. 1989 – Dynamics of mitochondrial DNA evolution in animals: Amplification and sequencing with conserved primers – Proc. Nat. Acad. Sci. USA, 86: 6192–6200.
• 11. Kumar S., Nei M., Dudley J., Tamura K. 2008 – MEGA: A biologist-centric software for evolutionary analysis of DNA and protein sequences – Brief. Bioinform. 9: 299–306.
• 12. Li W.D., Zhang H.B., Liu Z.H. 2006 – Brief report on the status of Kozlov’s pika, Ochotona koslowi (Büchner), in the east Kunlun Mountains of China – Integr. Zool. 1: 22–24.
• 13. Llopis J., McCaffery M., Miyawaki A., Farquhar M.G., Tsien R.Y. 1998 – Measurement of cytosolic, mitochondrial, and Golgi pH in single living cells with green fluorescent proteins – Proc. Nat. Acad. Sci. USA, 95: 6803–6808.
• 14. Librado P., Rozas J. 2009 – DnaSP v5: a software for comprehensive analysis of DNA polymorphism data – Bioinformatics, 25: 1451–1452.
• 15. Ramos-Onsins S.E., Rozas J. 2002 – Statistical properties of new neutrality tests against population growth – Mol. Biol. Evol. 19: 2092–2100.
• 16. Sambrook J., Russell D. 2001 – Molecular cloning: a laboratory manual – Cold Spring Harbor Laboratory Press, Cold Spring Harbor, 2344 pp.
• 17. Smith A.T., Foggin J.M. 1999 – The plateau pika (Ochotona curzoniae) is a keystone species for biodiversity on the Tibetan Plateau – Anim. Conserv. 2: 235–240.
• 18. Thompson J.D., Gibson T.J., Plewniak F., Jeanmougin F., Higgins D.G. 1997 – The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools – Nucl. Acid. Res. 25: 4876–4882.
• 19. Yang Z.H. 2007 – PAML 4: Phylogenetic analysis by maximum likelihood – Mol. Biol. Evol. 24: 1586–1591.
• 20. Zhao X.Q., Qi D.L., Yang J. 2008 – Molecular evolution and adaptation of local species in Qinghai-Tibetan Plateau – Science Press, Beijing, pp. 118–150.
• 21. Zheng C.L. 1986 – Recovery of Kozlov’s pika (Ochotona koslowi Büchner) in the Kunlun Mountains of Xinjiang Uygur Autonomous region, China – Acta. Their. Sin. 5: 285.