Phylogeography of Angelica nitida (Apiaceae), an endemic to the QinghaiTibet Plateau

doi:10.7677/ynzwyj201312178

Abstract

Abstract:

In this study, we examined nuclear ribosomal DNA internal transcribed spacer (ITS) sequence variation of Angelica nitida, a perennial plant species that is endemic to alpine scree in the QinghaiTibetan Plateau. Seven ITS haplotypes were detected among 147 individuals sampled across 16 populations. All populations except one (population SP) contained haplotype (H1). However, analysis of molecular variance (AMOVA) showed that ITS variation was mainly present among populations (67%) and that significant phylogeographical structure was evident (NST>GST, P<0.05). We inferred from our results that the current distribution pattern of A.nitida resulted from range retreats and expansions during the Quaternary. During Quaternary glaciations A.nitida retreated to refugia at the edge of the QinghaiTibet Plateau , but then expanded its range during interglacials and the current postglacial period.

Key words: Angelica nitida, Phylogeography, Quaterary, Founder effect, ITS

CLC Number:

Q 948

ZHANG Xue-Mei, HE Xing-Jin. Phylogeography of Angelica nitida (Apiaceae), an endemic to the QinghaiTibet Plateau[J]. Plant Diversity, 2013, 35(4): 505-512.

References

刘腾靓, 2009. 西藏沙棘的谱系地理学研究［D］. 兰州大学, 硕士毕业论文
施雅风, 李吉均, 李炳元, 1998. 青藏高原晚新生代隆升与环境变化［M］. 广州: 科技出版社
吴征镒, 1980. 中国植被［M］. 北京: 科学出版社
Abbott RJ, Smith LC, Milne RI, 2000. Molecular analysis of plant migration and refugia in the Arctic［J］. Science, 289: 1343—1346
Avise JC, 2000. Phylogeography: the History and Formation of Species［M］. Cambridge, Massachusetts: Harvard University Press
Baldwin BG, Sanderson MJ, Porter JM et al., 1995. The ITS region of nuelear ribosomal DNA: avaluable source of evidence on angiosperm phylogeny［J］. Annals of the Missouri Botanieal Garden, 82: 247—277
Bandelt HJ, Forster P, Rhl A, 1999. Medianjoining networks for inferring intraspecific phylogenies［J］. Molecular Biology and Evolution, 16: 37—48
Chen SY, Wu GL, Zhang DJ et al., 2008. Molecular phylogeography of alpine plant Metagentiana striata (Gentianaceae) ［J］. Journal of Systematics and Evolution, 46 (4): 573—585
Doyle JJ, Doyle JL, 1987. A rapid DNA isolation procedure for small amounts of fresh leaf tissue［J］. Phytochem Bull, 19: 11—15
Drummond AJ, Rambaut A, 2007. BEAST: Bayesian evolutionary analysis by sampling trees［J］. BMC Evolutionary Biology, 7: 214. http://dx.doi.org/10.1186/1471-2148-7-214
Exeoffier L, Laval G, Schneider S, 2006. Arlequin version 3.1 Available from http://cmpg.unibe.ch/software/arlequin3/
Etterson JR, Shaw R, 2001. Constraint to adaptive evolution in response to global warming［J］. Science, 294: 151—154
Fu YX, 1997. Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection［J］. Genetics, 147: 915—925
Hallam A, 1994. An outline of Phanerozoic Biogeography［M］. Oxford: Oxford University Press, 1—246
Hewitt GM, 1996. Some genetic consequences of ice ages, and their role in divergence and speciation［J］. Biological Journal of the Linnean Society, 58: 247—276
Hewitt G, 2000. The genetic legacy of the Quaternary ice ages［J］. Nature, 405: 907—913
Hewitt GM, 2001. Speciation, hybrid zones and phylogeography or seeing genes in space and time［J］. Molecular and Evolution, 10: 537—549
Jeanmougin F, Thompson JD, Gouy M et al., 1998. Multiple sequence alignment with Clustal X［J］. Trends in Biochemical Sciences, 23: 403—405
Liao CY, Downie SR, Yu Y et al., 2012. Historical biogeography of the Angelica group (Apiaceae tribe Selineae) inferred from analyses of nrDNA and cpDNA sequences［J］. Journal of Systematics and Evolution, 50 (3): 206—217
Librado P, Rozas J, 2009. DnaSP v5: A software for comprehensive analysis of DNA polymorphism data［J］. Bioinformatics, 25: 1451—1452
Meng LH, Yang R, Abbott RJ et al., 2007. Mitochondrial and chloroplast phylogeography of Picea crassifolia Kom.(Pinaceae) in the QinghaiTibetan Plateau and adjacent highlands［J］. Molecular Ecology, 16: 4128—4137
Pan BT (潘保田), Li JJ (李吉均), 1996. QinghaiTibetan plateau: A driver and amplifier of the global climatic change［J］. Journal of Lanzhou University (Natural Sciences) (兰州大学学报·自然科学版), 32 (1): 108—115
Petit RJ, Grivet D, 2002. Optimal randomization strategies when testing the existence of a Phylogeographic strueture［J］. Geneties, 161: 469—471
Petit RJ, Aguinagalde I, de Beaulieu JL et al., 2003. Glacial refugia: hotspots but not melting pots of genetic diversity［J］. Science, 300: 1563—1565
Polzin T, Daneshmand SV, 2003. On Steiner trees and minimum spanning trees in hypergraphs［J］. Operations Research Letters, 31: 12—20
Pons O, Petit RJ, 1996. Measuring and testing genetic differentiation with ordered versus unordered alleles［J］. Genetics, 144: 1237—1245
Qiu YX, Fu CX, Hans PC, 2011. Plant molecular phylogeography in China and adjacent regions: Tracing the genetic imprints of Quaternary climate and environmental change in the world’s most diverse temperate flora［J］. Molecular Phylogenetics and Evolution, 59: 225—244
Raymo ME, Ruddiman WF, 1992. Tectonic forcing of late Cenozoic climate［J］. Nature, 359: 117—122
Rogers AR, Harpending H, 1992. Population growth makes waves in the distribution of pairwise genetic differences［J］. Molecular Biology and Evolution, 9: 552—569
Rogers A, 1995. Genetic evidence for a Pleistocene population explosion［J］. Evolution, 49: 608—615
Sheh ML, Pu FT, Pan ZH et al., 2005. Apiaceae (Umbelliferae) ［A］. Flora of China Vol.14［M］. Beijing: Science Press, 60—74
Stehlik I, Sehneller JJ, Bachmann K, 2001. Resistance or emigration: response of the highapline Plant Eritriehium nanum (L.) Gaudin to the ice age within the Central Alps［J］. Molecular Ecology, 10: 357—370
Tajima F, 1989. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism［J］. Genetics, 7: 381—397
Wang LY, Abbott RJ, Zheng W et al., 2009a. History and evolution of alpine plants endemic to the QinghaiTibetan Plateau: Aconitum gymnandrum (Ranunculaceae) ［J］. Molecular Ecology, 18: 709—721
Wang LY, Hiroshi I, Liu TL et al., 2009b. Repeated range expansion and glacial endurance of Potentilla glabra (Rosaceae) in the QinghaiTibetan Plateau［J］. Journal of Integrative Plant Biology. Available online at www.jipb.net
Wang XX (王晓雄), Yue JP (乐霁培), Sun H (孙航) et al., 2011. Phylogeographical study on Eriophyton wallichii (Labiatae) from alpine scree of QinghaiTibetan Plateau［J］. Plant Diversity and Resources (植物分类与资源学报), 33 (6): 605—614
Weir BS, Cockerham CC, 1984. Estimating F statistics for the analysis of population structure［J］. Evolution, 38: 1358—1370
White TJ, Bruns T, Lee S et al., 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics［A］. In: Innis MA, Gelfand DH, Sninsky JJ et al (eds.), PCR Protocols: A Guide to Methods and Application［M］. San Diego, California: Academic Press, 315—322
Wu LL, Cui XK, Richard IM et al., 2010. Multiple autopolyploidizations and range expansion of Allium przewalskianum Regel.(Alliaceae) in the QinghaiTibetan Plateau［J］. Molecular Ecology, 19: 1691—1704
Yang FS, Li YF, Ding X et al., 2008. Extensive population expansion of Pedicularis longiflora (Orobanchaceae) on the QinghaiTibetan Plateau and its correlation with the Quaternary climate change［J］. Molecular Ecology, 17: 5135—5145
Yang ZY, Yi TS, Pan YZ et al., 2012. Phylogeography of an alpine plant Ligularia vellerea (Asteraceae) in the Hengduan Mountains［J］. Journal of Systematics and Evolution, 50 (4): 316—324
Zhang XS, 1983. The Tibetan Plateau in relation to the vegetation of China［J］. Annals of Missouri Botanieal Garden, 70: 564—570
Zhang Q (张茜), Yang R (杨瑞), Wang Q (王钦) et al., 2005. Phylogeography of Juniperus przewalskii (Cupressaceae) inferred from the chloroplast DNA trnTtrnF sequence variation［J］. Acta Phytotaxonomica Sinica (植物分类学报), 43 (6): 503—512
Zheng B, Xu Q, Shen Y, 2002. The relationship beween climate change and Quaternary glacial cycles on the QinghaiTibet Plateau: review and speculation［J］. Quaternary International, 9798: 93—101

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