Colonization of the Tibetan Plateau by the homoploid hybrid pine Pinus densata

Molecular Ecology

Volumn 20, Issue 18, 2011, Pages 3796-3811

  Wang, Baosheng ^a   Mao, Jian Feng ^b   Gao, Jie ^b,c   Zhao, Wei ^b,c   Wang, Xiao Ru ^a  

^a UMEÅ UNIVERSITY   (Sweden)

^b INSTITUTE OF BOTANY   (China)

^c UNIVERSITY OF CHINESE ACADEMY OF SCIENCES   (China)

Author keywords

bottleneck; colonization history; hybrid speciation; mtDNA recombination; population structure

Indexed keywords

CHLOROPLAST DNA; MITOCHONDRIAL DNA;

ARTICLE; CHINA; DEMOGRAPHY; DNA SEQUENCE; EVOLUTION; GENETIC VARIABILITY; GENETICS; HAPLOTYPE; HYBRIDIZATION; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYSIOLOGY; PINE; PLOIDY; POPULATION GENETICS;

BASE SEQUENCE; BIOLOGICAL EVOLUTION; DEMOGRAPHY; DNA, CHLOROPLAST; DNA, MITOCHONDRIAL; GENETIC VARIATION; GENETICS, POPULATION; HAPLOTYPES; HYBRIDIZATION, GENETIC; MOLECULAR SEQUENCE DATA; PINUS; PLOIDIES; SEQUENCE ANALYSIS, DNA; TIBET;

PINUS DENSATA;

EID: 80052536376     PISSN: 09621083     EISSN: 1365294X     Source Type: Journal    
DOI: 10.1111/j.1365-294X.2011.05157.x     Document Type: Article

References (68)

1. Abbott RJ, Hegarty MJ, Hiscock SJ, Brennan AC, (2010) Homoploid hybrid speciation in action. Taxon, 59, 1375-1386.
2. Arnold ML, (1993) Iris nelsonii (Iridaceae): origin and genetic composition of a homoploid hybrid species. American Journal of Botany, 80, 577-583.
3. Bandelt HJ, Forster P, Röhl A, (1999) Median-joining networks for inferring intraspecific phylogenies. Molecular Biology and Evolution, 16, 37-48. (Pubitemid 29024937)
4. Birky CW, Fuerst P, Maruyama T, (1989) Organelle gene diversity under migration, mutation, and drift: equilibrium expectations, approach to equilibrium, effects of heteroplasmic cells, and comparison to nuclear genes. Genetics, 121, 613-627. (Pubitemid 19077114)
5. Drouin G, Daoud H, Xia J, (2008) Relative rates of synonymous substitutions in the mitochondrial, chloroplast and nuclear genomes of seed plants. Molecular Phylogenetics and Evolution, 49, 827-831.
6. Du FK, Petit RJ, Liu JQ, (2009) More introgression with less gene flow: chloroplast vs. mitochondrial DNA in the Picea asperata complex in China, and comparison with other conifers. Molecular Ecology, 18, 1396-1407.
7. Dupanloup I, Schneider S, Excoffier L, (2002) A simulated annealing approach to define the genetic structure of populations. Molecular Ecology, 11, 2571-2581. (Pubitemid 35436677)
8. Edmonds CA, Lillie AS, Cavalli-Sforza LL, (2004) Mutations arising in the wave front of an expanding population. Proceedings of the National Academy of Sciences, USA, 101, 975-979. (Pubitemid 38160569)
9. Excoffier L, Smouse PE, Quattro JM, (1992) Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics, 131, 479-491.
10. Excoffier L, Laval G, Schneider S, (2005) Arlequin (version 3.0): an integrated software package for population genetics data analysis. Evolutionary Bioinformatics, 1, 47-50.
11. Excoffier L, Foll M, Petit RJ, (2009) Genetic consequences of range expansions. Annual Review of Ecology, Evolution and Systematics, 40, 481-501.
12. Florin R, (1963) The distribution of conifer and taxad genera in time and space. Acta Horticulturae Bergiani, 20, 122-312.
13. Frenzel B, (1968) The Pleistocene vegetation of northern Eurasia: recent vegetation of northern Eurasia resulted from a relentless contest between steppe and forest. Science, 161, 637-649.
14. Frenzel B, Bräuning A, Adamczyk S, (2003) On the problem of possible last-glacial forest-refuge-areas within the deep valleys of eastern Tibet. Erdkunde, 57, 182-198. (Pubitemid 37379535)
15. Galtier N, Nabholz B, Glémin S, Hurst GDD, (2009) Mitochondrial DNA as a marker of molecular diversity: a reappraisal. Molecular Ecology, 18, 4541-4550.
16. Gao QB, Zhang DJ, Chen SY, et al. (2009) Chloroplast DNA phylogeography of Rhodiola alsia (Crassulaceae) in the Qinghai-Tibet Plateau. Botany, 87, 1077-1088.
17. Gross BL, Rieseberg LH, (2005) The ecological genetics of homoploid hybrid speciation. Journal of Heredity, 96, 241-252. (Pubitemid 40434678)
18. Gross BL, Schwarzbach AE, Rieseberg LH, (2003) Origin(s) of the diploid hybrid species Helianthus deserticola (Asteraceae). American Journal of Botany, 90, 1708-1719. (Pubitemid 38092681)
19. Gugger PF, Sugita S, Cavender-Bares J, (2010) Phylogeography of Douglas-fir based on mitochondrial and chloroplast DNA sequences: testing hypotheses from the fossil record. Molecular Ecology, 19, 1877-1897.
20. Hallatschek O, Nelson DR, (2008) Gene surfing in expanding populations. Theoretical Population Biology, 73, 158-170.
21. Harrison TM, Copeland P, Kidd WSF, Yin A, (1992) Raising Tibet. Science, 255, 1663-1670.
22. Hewitt G, (2000) The genetic legacy of the Quaternary ice ages. Nature, 405, 907-913. (Pubitemid 30435039)
23. Houliston GJ, Olson MS, (2006) Nonneutral evolution of organelle genes in Silene vulgaris. Genetics, 174, 1983-1994. (Pubitemid 46011588)
24. Hu XS, Ennos RA, (1999) Impacts of seed and pollen flow on population genetic structure for plant genomes with three contrasting modes of inheritance. Genetics, 152, 441-450. (Pubitemid 29222546)
25. Hudson RR, Kaplan NL, (1985) Statistical properties of the number of recombination events in the history of a sample of DNA sequence. Genetics, 111, 147-164. (Pubitemid 16248827)
26. Jaramillo-Correa JP, Bousquet J, (2005) Mitochondrial genome recombination in the zone of contact between two hybridizing conifers. Genetics, 171, 1951-1962.
27. Klopfstein S, Currat M, Excoffier L, (2006) The fate of mutations surfing on the wave of a range expansion. Molecular Biology and Evolution, 23, 482-490. (Pubitemid 43278259)
28. Lehmkuhl F, (1998) Extent and spatial distribution of Pleistocene glaciations in eastern Tibet. Quaternary International, 45-46, 123-134.
29. Lehmkuhl F, Owen LA, (2005) Late Quaternary glaciation of Tibet and the bordering mountains: a review. Boreas, 34, 87-100. (Pubitemid 40686841)
30. Liu ZL, Zhang D, Hong DY, Wang XR, (2003) Chromosomal localization of 5S and 18S-5.8S-25S ribosomal DNA sites in five Asian pines using fluorescence in situ hybridization. Theoretical and Applied Genetics, 106, 198-204. (Pubitemid 36599874)
31. Liu JQ, Wang YJ, Wang AL, Hideaki O, Abbott RJ, (2006) Radiation and diversification within the Ligularia-Cremanthodium-Parasenecio complex (Asteraceae) triggered by uplift of the Qinghai-Tibetan Plateau. Molecular Phylogenetics and Evolution, 38, 31-49. (Pubitemid 41773272)
32. Ma XF, Szmidt AE, Wang XR, (2006) Genetic structure and evolutionary history of a diploid hybrid pine Pinus densata inferred from the nucleotide variation at seven gene loci. Molecular Biology and Evolution, 23, 807-816.
33. Mao JF, Wang XR, (2011) Distinct niche divergence chracterizes the homoploid hybrid speciation of Pinus densata on the Tibetan Plateau. American Naturalist, 177, 424-439.
34. Mao JF, Li Y, Wang XR, (2009) Empirical assessment of the reproductive fitness components of the hybrid pine Pinus densata on the Tibetan Plateau. Evolutionary Ecology, 23, 447-462.
35. Marques I, Feliner GN, Munt DD, Martins-LouÃÃo MA, Aguilar JF, (2010) Unraveling cryptic reticulate relationships and the origin of orphan hybrid disjunct populations in Narcissus. Evolution, 64, 2353-2368.
36. Marshall HD, Newton C, Ritland K, (2001) Sequence-repeat polymorphisms exhibit the signature of recombination in lodgepole pine chloroplast DNA. Molecular Biology and Evolution, 18, 2136-2138. (Pubitemid 33026786)
37. Meng LH, Yang R, Abbott RJ, Miehe G, Hu TH, Liu JQ, (2007) Mitochondrial and chloroplast phylogeography of Picea crassifolia Kom. (Pinaceae) in the Qinghai-Tibetan Plateau and adjacent highlands. Molecular Ecology, 16, 4128-4137. (Pubitemid 47481047)
38. Navascués M, Vaxevanidou Z, González-Martínez SC, Climent J, Gil L, Emerson BC, (2006) Chloroplast microsatellites reveal colonization and metapopulation dynamics in the Canary Island pine. Molecular Ecology, 15, 2691-2698. (Pubitemid 44215447)
39. Neale DB, Sederoff RR, (1989) Paternal inheritance of chloroplast DNA and maternal inheritance of mitochondrial DNA in loblolly pine. Theoretical and Applied Genetics, 77, 212-216.
40. Opgenoorth L, Vendramin GG, Mao KS, et al. (2010) Tree endurance on the Tibetan Plateau marks the world's highest known tree line of the Last Glacial Maximum. New Phytologist, 185, 332-342.
41. Petit RJ, Vendramin GG, (2007) Plant phylogeography based on organelle genes: an introduction. In: Phylogeography of Sothern European Refugia: Evolutionary Perspective on the Origins and Conservation of European Biodiversity (eds, Weiss S, Ferrand N,). pp. 23-97, Springer, Heidelberg, Germany.
42. Petit RJ, Aguinagalde I, de Beaulieu JL, et al. (2003) Glacial refugia: hotspots but not melting pots of genetic diversity. Science, 300, 1563-1565. (Pubitemid 36682886)
43. Petit RJ, Duminil J, Fineschi S, Hampe A, Salvini D, Vendramin GG, (2005) Comparative organization of chloroplast, mitochondrial and nuclear diversity in plant populations. Molecular Ecology, 14, 689-701. (Pubitemid 40346461)
44. Pons O, Petit RJ, (1996) Measuring and testing genetic differentiation with ordered versus unordered alleles. Genetics, 144, 1237-1245. (Pubitemid 26378263)
45. Provan J, Soranzo N, Wilson NJ, et al. (1998) Gene-pool variation in Caledonian and European Scots pine (Pinus sylvestris L.) revealed by chloroplast simple-sequence repeats. Proceedings of the Royal Society of London, Series B-Biological Sciences, 265, 1697-1705. (Pubitemid 28451340)
46. Rieseberg LH, (1997) Hybrid origins of plant species. Annual Review of Ecology and Systematics, 28, 359-389. (Pubitemid 28012297)
47. Rogers AR, Harpending H, (1992) Population growth makes waves in the distribution of pairwise genetic differences. Molecular Biology and Evolution, 9, 552-569.
48. Rokas A, Ladoukakis E, Zouros E, (2003) Animal mitochondrial DNA recombination revisited. Trends in Ecology and Evolution, 18, 411-417. (Pubitemid 36933031)
49. Shi Y, (2002) Characteristics of late Quaternary monsoonal glaciation on the Tibetan Plateau and in East Asia. Quaternary International, 97-8, 79-91. (Pubitemid 35259188)
50. Song BH, Wang XQ, Wang XR, Ding KY, Hong DY, (2003) Cytoplasmic composition in Pinus densata and population establishment of the diploid hybrid pine. Molecular Ecology, 12, 2995-3001.
51. Städler T, Delph LF, (2002) Ancient mitochondrial haplotypes and evidence for intragenic recombination in a gynodioecious plant. Proceedings of the National Academy of Sciences, USA, 99, 11730-11735. (Pubitemid 34994467)
52. Ståhlberg D, Hedrén M, (2008) Systematics and phylogeography of the Dactylorhiza maculata complex (Orchidaceae) in Scandinavia: insights from cytological, morphological and molecular data. Plant Systematics and Evolution, 273, 107-132.
53. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG, (1997) The CLUSTAL-X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Research, 25, 4876-4882.
54. Vendramin GG, Lelli L, Rossi P, Morgante M, (1996) A set of primers for the amplification of 20 chloroplast microsatellites in Pinaceae. Molecular Ecology, 5, 595-598. (Pubitemid 27108422)
55. Wakasugi T, Tsudzuki J, Ito S, Nakashima K, Tsudzuki T, Sugiura M, (1994) Loss of all ndh genes as determined by sequencing the entire chloroplast genome of the black pine Pinus thunbergii. Proceedings of the National Academy of Sciences, USA, 91, 9794-9798. (Pubitemid 24311894)
56. Wang XR, Szmidt AE, (1994) Hybridization and chloroplast DNA variation in a Pinus species complex from Asia. Evolution, 48, 1020-1031.
57. Wang XR, Szmidt AE, Lu MZ, (1996) Genetic evidence for the presence of cytoplasmic DNA in pollen and megagametophytes and maternal inheritance of mitochondrial DNA in Pinus. Forest genetics, 3, 37-44.
58. Wang XR, Szmidt AE, Savolainen O, (2001) Genetic composition and diploid hybrid speciation of a high mountain pine, Pinus densata, native to the Tibetan Plateau. Genetics, 159, 337-346. (Pubitemid 32917382)
59. Wang LY, Abbott RJ, Zheng W, Chen P, Wang YJ, Liu JQ, (2009) History and evolution of alpine plants endemic to the Qinghai-Tibetan Plateau: Aconitum gymnandrum (Ranunculaceae). Molecular Ecology, 18, 709-721.
60. Wang H, Qiong L, Sun K, et al. (2010) Phylogeographic structure of Hippophae tibetana (Elaeagnaceae) highlights the highest microrefugia and the rapid uplift of the Qinghai-Tibetan Plateau. Molecular Ecology, 19, 2964-2979.
61. Wu CL, (1956) The taxonomic revision and phytogeographical study of Chinese pines. Acta Phytotaxonomica Sinica, 5, 131-163 (in Chinese).
62. Xu TT, Abbott RJ, Milne RI, et al. (2010) Phylogeography and allopatric divergence of cypress species (Cupressus L.) in the Qinghai-Tibetan Plateau and adjacent regions. BMC Evolutionary Biology, 10, 194.
63. Yang FS, Li YF, Ding X, Wang XQ, (2008) Extensive population expansion of Pedicularis longiflora (Orobanchaceae) on the Qinghai-Tibetan Plateau and its correlation with the Quaternary climate change. Molecular Ecology, 17, 5135-5145.
64. Yue JP, Sun H, Baum DA, Li JH, Al-Shehbaz IA, Ree R, (2009) Molecular phylogeny of Solms-laubachia (Brassicaceae) s.l., based on multiple nuclear and plastid DNA sequences, and its biogeographic implications. Journal of Systematics and Evolution, 47, 402-415.
65. Zhang Q, Chiang TY, George M, Liu JQ, Abbott RJ, (2005) Phylogeography of the Qinghai-Tibetan Plateau endemic Juniperus przewalskii (Cupressaceae) inferred from chloroplast DNA sequence variation. Molecular Ecology, 14, 3513-3524.
66. Zhisheng A, Kutzbach JE, Prell WL, Porter SC, (2001) Evolution of Asian monsoons and phased uplift of the Himalayan-Tibetan Plateau since Late Miocene times. Nature, 411, 62-66. (Pubitemid 32428188)
67. Zhou SZ, Wang XL, Wang J, Xu LB, (2006) A preliminary study on timing of the oldest Pleistocene glaciation in Qinghai-Tibetan Plateau. Quaternary International, 154, 44-51.
68. Zhou YF, Abbott RJ, Jiang ZY, Du FK, Milne RI, Liu JQ, (2010) Gene flow and species delimitation: a case study of two pine species with overlapping distribution in southeast China. Evolution, 64, 2342-2352.