Comparative phylogeography of Meriones meridianus, Dipus sagitta, and Allactaga sibirica: Potential indicators of the impact of the Qinghai-Tibetan Plateau uplift

Mammalian Biology - Tập 81 - Trang 31-39 - 2015
Jicheng Liao1, Dongdong Jing1, Guangjie Luo1, Ying Wang1, Liming Zhao1, Naifa Liu1
1Gansu Key Laboratory of Biomonitoring and Bioremediation for Environmental Pollution, School of Life Sciences, Lanzhou University, Lanzhou, China

Tóm tắt

We conducted a comparative phylogeographic analysis of three rodent species (Meriones meridianus, Dipus sagitta, and Allactaga sibirica) on the northeast margin of the Qinghai-Tibetan Plateau, Qaidam Basin, the Hexi Corridor and Tengger-Badain Jaran Desert based on sequences of the mitochondrial cytochrome b gene of 264 individuals from 22 sampling sites. Our analyses indicated that the intraspecific genetic structures of the three rodents did not arise through the same historical events and that they did not show parallel geological and climatic histories. M. meridianus and D. sagitta, which showed low-altitude distributions, experienced less isolation because they stayed in stable favorable habitats. On the other hand, A. sibirica was strongly isolated due to fragmented habitats caused by the complex topography of the high-altitude regions in the Qaidam Basin. The two desert-dwelling rodent species, M. meridianus (0.023-0.014 Mya) and D. sagitta (0.013-0.009 Mya), showed sudden demographic expansion during the Last Glacial Maximum, with the disappearance of the ancient lakes and the maximum extent of desert expansion. A. sibirica is mostly distributed in the grassland mountain regions. Thus, steppe expansion and a sharp decrease in the ancient lake size significantly affected the species’ distribution during the Middle Pleistocene (0.525 Mya). No clear signal of population expansion was observed for this species, which might be attributable to successive phases of population bottlenecks obscuring the indicators of expansion. Our data reflect the continual interaction of extrinsic and intrinsic factors in generating intraspecific phylogeographic patterns and faunal diversity.

Tài liệu tham khảo

Arbogast, B.S., Kenagy, G., 2001. Comparative phylogeography as an integrative approachto historical biogeography.J. Biogeogr. 28, 819–825. Arbogast, B.S., Browne, R.A., Weigl, P.D., 2001. Evolutionary genetics and Pleistocene biogeography of North American tree squirrels (Tamiasciurus). J. Mammal. 82, 302–319. Avise, J.C., Arnold, J., Ball, R.M., Bermingham, E., Lamb, T., Neigel, J.E., Reeb, C.A., Saunders, N.C., 1987. Intraspecific phylogeography: the mitochondrial DNA bridge between population genetics and systematics. Annu. Rev. Ecol. Syst. 18, 489–522. Bandelt, H.J., Forster, P., Rohl, A., 1999. Median-joining networks for inferring intraspecific phylogenies. Mol. Biol. Evol. 16, 37–48. Bermingham, E., Moritz, C, 1998. Comparative phylogeography: concepts and applications. Mol. Ecol. 7, 367–369. Brouat, C, Tatard, C, Bâ, K., Cosson, J.F., Dobigny, G., Fichet-Calvet, E., Granjon, L, Lecompte, E., Loiseau,A., Mouline, K., Piry, S., Duplantier,J.-M., 2009. Phylogeography of the Guinea multimammate mouse (Mastomys erythroleucus): a case study for Sahelian species in West Africa. J. Biogeogr. 36, 2237–2250. Brylski, P., Hall, B., 1988. Epithelial behaviors and threshold effects in the development and evolution of internal and external cheek pouches in rodents. J. Zool. Syst. Evol. Res. 26, 144–154. Cai, B., Li, Q., Zheng, S., 2008. Fossil mammals from Majuangou section of Nihewan Basin. China and their age. Acta Anthropol. Sin. 27, 129–142. Chen, T., Ren, J., Wang, H.S., Ma, S.Z., Li, X.F., 1992. he effect of the environmental change on the fauna evolution in Qinghai lake region. J. Lake Sci. 4, 41–47. Cui, Z., Chen, Y., Zhang, W., 2011. Research history, clacial chronology and origins of Quaternary glaciations in China. Quat. Sci. 31, 749–764. Deng, T., 2008. Response of mammalian evolution to the Neogene climatic and environmental changes in China. Chin. J. Nat. 6, 334–339, 372–373. Dong, G., Gao, Q., Zou, X., Li, B., Yan, M., 1995. Climatic changes since the late pleistocene in deserts of Badain Jaran Desert. Chin. Sci. Bull. 13, 1214–1218. Drummond, A.J., Rambaut, A., 2007. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol. Biol. 7, 214. Drummond, A.J., Ho, S.Y.W., Phillips, M.J., Rambaut, A., 2006. Relaxed phylogenetics and dating with confidence. PLoS Biol. 4, e88. Drummond, A.J., Ho, S.Y.W., Rawlence, N., Rambaut, A., 2007. A Rough Guide to BEAST 1.4. University of Auckland, Auckland, New Zealand. Excoffier, L., Laval, G., Schneider, S., 2005. Arlequin (version 3.0): an integrated software package for population genetics data analysis. Evol. Bioinform. Online 1, 47–50. Fang, X., Shi, Z., Yang, S., Li, J., Jiang, P., 2002. The development of Tianshan loess and Gurbantunggut Desert and aridification in North Xinjiang. Chin. Sci. Bull. 7, 540–545. Fedorov, V.B., Goropashnaya, A.V., Boeskorov, G.G., Cook, J.A., 2008. Comparative phylogeography and demographic history of the wood lemming (Myopus schis-ticolor): implications for late Quaternary history of the taiga species in Eurasia. Mol. Ecol. 17, 598–610. Fu, Y., 1997. Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Genetics 147, 915–925. Gaubert, P., Machordom, A., Morales, A., López-Bao, J.V., Veron, G., Amin, M., Bar-ros, T., Basuony, M., Djagoun, C.A.M.S., Do Linh San, E., Fonseca, C, Geffen, E., OnderOzkurt, S., Cruaud, C, Couloux, A., Palomares, F., 2011. Comparative phylogeography of two African carnivorans presumably introduced into Europe: disentangling natural versus human-mediated dispersal across the Strait of Gibraltar. J. Biogeogr. 38, 341–358. Girman, D.J., Vilà, C, Geffen, E., Creel, S., Mills, M.G., McNutt, J.W., Ginsberg, J., Kat, P.W., Mamiya, K.H., Wayne, R.K., 2001. Patterns of population subdivision, gene flow and genetic variability in the African wild dog (Lycaonpictus). Mol. Ecol. 10, 1703–1723. Gu, Z., Wang, R., Hong, D., 1985. Hipparion were found on north-eastern fringes of the Qinghai-Tibet Plateau. Vertebr. Palasiat. 23, 246. Hickerson, M., Carstens, B., Cavender-Bares, J., Crandall, K., Graham, C, Johnson, J., Rissler, L., Victoriano, P., Yoder, A., 2010. Phylogeography’s past, present, and future: 10 years after Avise, 2000. Mol. Phylogenet. Evol. 54, 291–301. Huelsenbeck, J., Ronquist, F., 2001. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17, 754–755. Huhndorf, M.H., Kerbis Peterhans, J.C., Loew, S.S., 2007. Comparative phylogeography of three endemic rodents from the Albertine Rift, east central Africa. Mol. Ecol. 16, 663–674. Irwin, D., Kocher, T., Wilson, A., 1991. Evolution of the cytochrome bgene of mammals. J. Mol. Evol. 32, 123–144. Jin, Y., Brown, R., Liu, N., 2008. Cladogenesisand phylogeography of the lizard Phrynocephalus vlangalii (Agamidae) on the Tibetan plateau. Mol. Ecol. 17, 1971–1982. Li, C.,1981. Pontiansand-rat from Yushe basin, Shansi. Vertebr. Palasiat. 19, 321–326. Li, J., Fang, X., Pan, B., Zhao, Z., Song, Y., 2001. Late Cenozoic intensive uplift of Qinghai-Xizang plateau and its impacts on environments in surrounding area. Quat. Sci. 21, 381–391. Liu, H., Feng, J., Li, C, Shi, Y., Yang, G., Chen, Z., Wang, G., 1984. The ecological studies and investigations of Meriones meridianus. Chin. J. Zool. 4, 21–25. Lu, B., Zheng, Y., Murphy, R.W., Zeng, X., 2012. Coalescence patterns of endemic Tibetan species of stream salamanders (Hynobiidae: Batrachuperus). Mol. Ecol. 12, 3308–3324. Luo, Z., Chen, W., Gao, W., 2000. Fauna sinica, Mammalia-Rodentia part III: Criceti-dae. Science Press, Beijing. Moussalli, A., Moritz, C, Williams, S.E., Carnaval, A.C., 2009. Variable responses of skinks to a common history of rainforest fluctuation: concordance between phylogeography and palaeo-distribution models. Mol. Ecol. 18, 483–499. Myers, N., Mittermeier, R.A., Mittermeier, C.G., Da Fonseca, G.A.B., Kent, J., 2000. Biodiversity hotspots for conservation priorities. Nature 403, 853–858. Nicolas, V., Mboumba,J.F., Verheyen, E., Denys, C, Lecompte, E., Olayemi, A., Missoup, A.D., Katuala, P., Colyn, M., 2008. Phylogeographic structure and regional history of Lemniscomys striatus (Rodentia: Muridae) in tropical Africa. J. Biogeogr. 35, 2074–2089. Nylander, J.A.A., 2004. MrModeltest v2. Program Distributed by the Author. Evolutionary Biology Centre, Uppsala University. Perdices, A., Coelho, M., 2006. Comparative phylogeography of Zacco platypus and Opsariichthys bidens (Teleostei, Cyprinidae) in China based on cytochrome b sequences. J. Zool. Syst. Evol. Res. 44, 330–338. Polzin, T., Daneshmand, S.V., 2003. On Steiner trees and minimum spanning trees in hypergraphs. Oper. Res. Lett. 31, 12–20. Pybus, O., Rambaut, A., 2002. GENIE: estimating demographic history from molecular phylogenies. Bioinformatics 18, 1404–1405. Qiu, Z., Li, C, 2004. Evolution of cenozoic mammalian faunal regions of China and the Qinghai-Tibet uplift. Sci. China Ser. D: Earth Sci. 9, 845–854. Qu, Y., Lei, F., 2009. Comparative phylogeography of two endemic birds of the Tibetan plateau, the white-rumped snow finch (Onychostruthus taczanowskii) and the Hume’s ground tit (Pseudopodoces humilis). Mol. Phylogenet. Evol. 51, 312–326. Qu, Y., Lei, F., Zhang, R., Lu, X., 2010. Comparative phylogeography of five avian species: implications for Pleistocene evolutionary history in the Qinghai-Tibetan plateau. Mol. Ecol. 19, 338–351. Rambaut, A., 2009. Computer program and documentation distributed by the author, beastbioedacuk. Rambaut, A., Drummond, A., 2007. Tracer, version 1.4 Computer program and documentation distributed by the author, https://doi.org/beast.bio.ed.ac.uk. Renaud, S., Auffray, J., 2009. Adaptation and plasticity in insular evolution of the house mouse mandible. J. Zool. Syst. Evol. Res. 48, 138–150. Rogers, A.R., Harpending, H., 1992. Population growth makes waves in the distribution of pairwise genetic differences. Mol. Biol. Evol. 9, 552. Rozas, J., Sánchez-DelBarrio, J.C., Messeguer, X., Rozas, R., 2003. DnaSP DNA polymorphism analyses by the coalescent and other methods. Bioinformatics 19, 2496. Rozihan, M., Ismail, E., 2011. Impact of Malaysian continental drift on the genetic diversity of horseshoe crab inferred through mt DNA sequence analysis. Int. J. Biol. 4, 104–110. Sakka, H., QuÉRÉ, J.P., Kartavtseva, I., Pavlenko, M., Chelomina, G., Atopkin, D., Bog-danov, A., Michaux, J., 2010. Comparative phylogeography of four Apodemus species (Mammalia: Rodentia) in the Asian Far East: evidence of quaternary climatic changes in their genetic structure. Biol. J. Linn. Soc. 100, 797–821. Schneider, S., Roessli, D., Excoffier, L., 2000. Arlequin: a software for population genetics data analysis. User manual ver 2., pp. 2496–2497. Shi, Z., Fang, X., Song, Y., An, Z., Yang, S., 2006. Loess sediments in the north slope of Tianshan mountains and its indication of desertification since middle pleistocene. Mar. Geol. Quat. Geol. 3, 109–114. Steel, M., McKenzie, A., 2001. Properties of phylogenetic trees generated by Yule-type speciation models. Math. Biosci. 170, 91–112. Swofford, D.L., 2003. PAUP*. Phylogenetic Analysis Using Parsimony (* and Other Methods). Version 4.0b10. Sinauer Associates, Sunderland, Massachusetts. Tajima, F., 1989. The effect of change in population size on DNA polymorphism. Genetics 123, 597. Tamura, K., Peterson, D., Peterson, N., Stecher, G., Nei, M., Kumar, S., 2011. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol. Biol. Evol. 28, 2731–2739. Tang, L., Wang, L., Cai, Z., Zhang, T., Ci, H., Lin, G., Su, J., Liu, J., 2010. Allopatric divergence and phylogeographic structure of the plateau zokor (Eospalax baileyi), a fossorial rodent endemic to the Qinghai-Tibetan Plateau. J. Biogeogr. 37, 657–668. 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. Nucleic Acids Res. 25, 4876. Wang, X., Xie, G., Li, Q., Qiu, Z., Tseng, Z.J., Takeuchi, G.T., Wang, B., Fortelius, M., Rosenstr(O)M-Fortelius, A., Wahlquist, H., Downs, W.R., Zhang, C, Wang, Y., 2011. Early explorations of Qaidam basin (Tibetan plateau) by Birger Bohlin-reconciling classic vertebrate fossil localities with modern biostratigraphy. Vertebr. Palasiat. 49, 285–310. Zhan, X., Zheng, Y., Wei, F., Bruford, M.W., Jia, C, 2011. Molecular evidence for Pleistocene refugia at the eastern edge of the Tibetan Plateau. Mol. Ecol. 20, 3014–3026. Zhang, R., 1979. Chinese Nature Geoscience. Science Press, Beijing. Zhang, L., Song, Y., 2001. The effect of the Qinghai-Tibet Plateau uplift on the space-time distributing pattern of Chinese desert and desertification. China Popul. Resour. Environ. 3, 367–372. Zhang, J., Wang, Z., 1963. Faunistic studies of mammals of the Chinghai province. Acta Zool. Sin. 15, 125–127. Zhang, R., Zheng, C, 1985. The geographical distribution of mammals and the evolution of mammalian fauna in Qinghai-Xizang Plateau. Acta Geogr. Sin. 40, 225–230. Zhang, Q., Chiang, T., George, M., Liu, J., Abbott, R., 2005. Phylogeography of the Qinghai-Tibetan Plateau endemic Juniperus przewalskii (Cupressaceae) inferred from chloroplast DNA sequence variation. Mol. Ecol. 14, 3513–3524. Zhao, K., 1991. China’s Jerboas. J. Suzhou Railw. Normal Coll. 8, 29–36. Zhao, Q., Liu, H., Luo, L.,Ji,X., 2011. Comparative population genetics and phylogeography of two lacertid lizards (Eremias argus and E. brenchleyi) from China. Mol. Phylogenet. Evol. 58, 478–491. Zheng, S., Cai, B., Li, Q., 2006. The Plio-Pleistocen small mammals from Donggou section of Nihewan Basin, Hebei, China. Vertebr. Palasiat. 44, 320–331. Zhou, L, Ma, Y., Li, D., 2001. Spatial distribution patterns of Chinese gerbils (gerbilline) in relation to environmental factors. Acta Zool. Sin. 47, 616–624. Zhu, X., Kang, A., Han, D., Wang, Y., Kang, Q., 2003. Relation among Quaternary environmental evolution, tectonic deformation in the Qaidam Basin and uplifting of the Qinghai-Tibet Plateau. Chin. J. Geol. 38, 367–376.