Chloroplast DNA polymorphism reveals geographic structure and introgression in the Quercus crassifolia x Quercus crassipes hybrid complex in Mexico

Botany

Volumn 86, Issue 3, 2008, Pages 228-239

  Tovar Sanchez E ^a,d   Mussali Galante, P ^b   Esteban Jimenez R ^c   Pinero D ^c   Arias, D M ^d   Dorado, O ^d   Oyama, K ^a  

^a INSTITUTO DE INVESTIGACIONES EN ECOSISTEMAS Y SUSTENTABILIDAD   (Mexico)

^b UNIVERSIDAD NACIONAL AUTÓNOMA DE MÉXICO   (Mexico)

^c INSTITUTO DE ECOLOGÍA   (Mexico)

^d UNIVERSIDAD AUTÓNOMA DEL ESTADO DE MORELOS   (Mexico)

Author keywords

[No Author keywords available]

Indexed keywords

CELLS; GENES;

ALLOPATRIC POPULATIONS; MATERNAL LINEAGES;

FORESTRY;

CHLOROPLAST; CLADISTICS; COLONIZATION; DECIDUOUS TREE; DNA; GENETIC MARKER; GENETIC STRUCTURE; GENETIC VARIATION; HYBRID; HYBRID ZONE; INTROGRESSION; PHYLOGEOGRAPHY;

CELLS; FORESTRY; GENES;

MEXICO [NORTH AMERICA]; NORTH AMERICA;

QUERCUS CRASSIFOLIA; QUERCUS CRASSIPES;

EID: 42449153628     PISSN: 19162804     EISSN: None     Source Type: Journal    
DOI: 10.1139/B07-128     Document Type: Article

References (87)

1. Aiba, S.-I., and Kitayama, K. 1999. Composition and species diversity in an altitude-substrate matrix of rain forest tree communities on Mount Kinabalu, Borneo. Plant Ecol. 140: 139-157. doi:10.1023/A:1009710618040.
2. Arntzen, J.W., and Wallis, G.P. 1991. Restricted gene flow in a moving hybrid zone of the newts Triturus cristatus and Triturus marmoratus in western France. Evolution, 45: 805-826. doi:10.2307/2409691.
3. Auffenberg, W., and Milstead, W.W. 1965. Reptiles in the Quaternary of North America. In The Quaternary of the United States. Edited by H.E. Wright and D.G. Frey. Princeton University Press, Princeton, N.J. pp. 557-567.
4. Bacilieri, R., Ducousso, A., and Kremer, A. 1995. Genetical, morphological, ecological and phenological differentiation between Quercus petrea (Matt.) Liebl., and Quercus robur L. in a mixed stand of northwest. Silvae Genet. 44: 1-10.
5. Bacilieri, R., Ducousso, A., Petit, R.J., and Kremer, A. 1996. Mating system and asymmetric hybridization in a mixed stand of European oaks. Evolution, 50: 900-908. doi:10.2307/2410861.
6. Barton, N.H. 2001. The role of hybridization in evolution. Mol. Ecol. 10: 551-568. doi:10.1046/j.1365-294x.2001.01216.x. PMID:11298968.
7. Barton, N.H., and Hewitt, G.M. 1985. Analysis of hybrid zones. Annu. Rev. Ecol. Syst. 16: 113-148. doi:10.1146/annurev.es.16.110185.000553.
8. Belahbib, N., Pemonge, M.H., Ouassou, A., Sbay, H., Kremer, A., and Petit, R.J. 2001. Frequent cytoplasmic exchange between oak species that are not closely related: Quercus suber and Q. ilex in Morocco. Mol. Ecol. 10: 2003-2012. doi:10.1046/j.0962-1083.2001.01330.x. PMID:11555243.
9. Birky, C.W., Jr., Fuerst, P., and 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. PMID:2714640.
10. Brumfield, R.T., Jernigan, R.W., McDonald, D.B., and Braun, M.J. 2001. Evolutionary implications of divergent clines in an avian (Manacus: Aves) hybrid zone. Evolution, 55: 2070-2087. PMID:11761066.
11. Bruschi, P., Vendramin, G.G., Bussotti, F., and Grossoni, P. 2000. Morphological and molecular differentiation between Quercus petrea (Matt.) Liebl., and Quercus pubescens Willd. (Fagaceae) in northern and central Italy. Ann. Bot. (Lond.), 85: 325-333. doi:10.1006/anbo.1999. 1046.
12. Burger, W.C. 1975. The species concept in Quercus. Taxon, 24: 45-50. doi:10.2307/1218998.
13. Cannon, C.H. 2001. Morphological and molecular diversity in Lithocarpus (Fagaceae) of Mount Kinabalu. Sabah Parks Nat. J. 4: 45-69.
14. Castelloe, J., and Templeton, A.R. 1994. Root probabilities for intraspecific gene trees under neutral coalescent theory. Mol. Phylogenet. Evol. 3: 102-113. doi:10.1006/mpev.1994.1013. PMID:8075830.
15. Challenger, A. 1998. Utilización y conservación de los ecosistemas terrestres de México. Pasado, presente, y futuro. Conabio, IBUNAM y Agrupación Sierra Madre, México.
16. Clement, M., Posada, D., and Crandall, K.A. 2000. TCS: a computer program to estimate gene genealogies. Mol. Ecol. 9: 1657-1659. doi:10.1046/j.1365-294x.2000.01020.x. PMID:11050560.
17. Cottam, W.P., Tucker, J.M., and Santamour, F.S. 1982. Oak hybridization at the University of Utah. State Arboretum of Utah, Salt Lake City, Utah.
18. Daghlian, C.P., and Crepet, W.L. 1983. The evolutionary significance of Quercus sect. Erythrobalanus from the Oligocene of East Texas. Am. J. Bot. 70: 639-649. doi:10.2307/2443119.
19. Dow, B.D., and Ashley, M.V. 1996. Microsatellite analysis of seed dispersal and parentage of saplings in bur oak, Quercus macrocarpa. Mol. Ecol. 5: 120-132.
20. Dumolin-Lapègue, S., Demesure, B., and Petit, R.J. 1995. Inheritance of chloroplast and mitochondrial genomes in pedunculate oak investigated with an efficient PCR method. Theor. Appl. Genet. 91: 1253-1256. doi:10.1007/BF00220937.
21. Dumolin-Lapègue, S., Demesure, B., Fineschi, S., Le Corre, V., and Petit, R.J. 1997. Phylogeographic structure of white oaks throughout the European Continent. Genetics, 146: 1475-1487. PMID:9258689.
22. Dumolin-Lapègue, S., Pemonge, M., and Petit, R.J. 1998. Association between chloroplast and mitochondrial lineages in oaks. Mol. Biol. Evol. 15: 1321-1331. PMID:9867518.
23. Dumolin-Lapègue, S., Kremer, A., and Petit, R.J. 1999. Are chloroplast and mitochondrial DNA variation species independent in oaks? Evolution, 53: 1406-1413. doi:10.2307/2640887.
24. Estoup, A., Jarne, P., and Cornuet, J.M. 2002. Homoplasy and mutation model at microsattelite loci and their consequences for population genetic analysis. Mol. Ecol. 11: 1591-1604. doi:10.1046/j.1365-294X.2002.01576.x. PMID:12207711.
25. Excoffier, L., Smouse, P., and Quattro, J. 1992. Analysis of molecular variance inferred from metric distance among DNA haplotypes: applications to human mitochondrial DNA restriction data. Genetics, 131: 479-491. PMID:1644282.
26. Ferrusquía-Villafranca, I. 1993. Geology of Mexico: a synopsis. In Biological diversity of Mexico: origins and distribution. Edited by T.P. Ramamoorthy, R. Bye, A. Lot, and J. Fa. Oxford University Press, New York. pp. 3-107.
27. Flores-Villela, O., and Gerez, P. 1994. Biodiversidad y conservación en México: vertebrados, vegetación y uso de suelo. Conabio and UNAM, México.
28. González-Rodríguez, A., Bain, J.F., Golden, J.L., and Oyama, K. 2004. Chloroplast DNA variation in the Quercus affinis-Q. laurina complex in Mexico: geographic structure and associations with nuclear and morphological variation. Mol. Ecol. 13: 3467-3476. doi:10.1111/j.1365-294X.2004.02344.x. PMID:15488004.
29. Goodman, S.J., Barton, N.H., Swanson, G., Abernethy, K., and Pemberton, J.M. 1999. Introgression through rare hybridization: a genetic study of a hybrid zone between red and sika deer (genus Cervus) in Argyll, Scotland. Genetics, 152: 355-371. PMID:10224266.
30. Govaerts, R., and Frodin, D.G. 1998. World checklist and bibliography of Fagales (Betulaceae, Corylaceae, Fagaceae and Ticodendraceae). Royal Botanic Gardens, Kew, Surrey, UK.
31. Govindaraju, D.R. 1988. Relationship between dispersal ability and levels of gene flow in plants. Oikos, 52: 31-35. doi:10.2307/3565978.
32. Graham, A. 1993. Historical factors and biological diversity in Mexico. In Biological diversity of Mexico: origins and distributions. Edited by T.P. Ramamoorthy, R. Bye, A. Lot, and J. Fa. Oxford University Press, New York. pp. 109-127.
33. Grant, V. 1981. Plant speciation. Columbia University Press, New York.
34. Haldane, J.B.S. 1948. The theory of a cline. J. Genet. 48: 277-284.
35. Hardin, J.W. 1975. Hybridization and introgression in Quercus alba. J. Arnold Arbor. Harv. Univ. 56: 336-363.
36. Hare, M.P., Cipriano, F., and Palumbi, S.R. 2002. Genetic evidence on the demography of speciation in allopatric dolphin species. Evolution, 56: 804-816. PMID:12038538.
37. Harrison, R.G., and Bogdanowicz, S.M. 1997. Patterns of variation and linkage disequilibrium in a field cricket hybrid zone. Evolution, 51: 493-505. doi:10.2307/2411122.
38. Hewitt, G.M. 1989. The subdivision of species by hybrid zones. In Speciation and its consequences. Edited by D. Otte and J.A. Endler. Sinauer, Sunderland, Mass. pp. 85-110.
39. Howard, D.J., Preszler, R.W., Williams, J., Fenchel, S., and Boecklen, W.J. 1997. How discrete are oaks species? Insights from a hybrid zone between Quercus grisea and Quercus gambelii. Evolution, 51: 747-755. doi:10.2307/2411151.
40. Ishida, T.A., Hattori, K., Sato, H., and Kimura, M.T. 2003. Differentiation and hybridization between Quercus crispula and Q. dentata (Fagaceae): insights from morphological traits, amplified fragment length polymorphism markers, and leaf miner composition. Am. J. Bot. 90: 769-776.
41. Jakobsson, M., and Säll, T. 2007. Evolution of chloroplast mononucleotide microsatellites in Arabidopsis thaliana. Theor. Appl. Genet. 114: 223-235. doi:10.1007/s00122-006-0425-9. PMID:17123063.
42. Jensen, R.J., Hokanson, S.C., Isebrands, J.G., and Hancock, J.F. 1993. Morphometric variation in oaks of the Apostle Islands in Wisconsin: evidence of hybridization between Quercus rubra and Q. ellipsoidalis (Fagaceae). Am. J. Bot. 80: 1358-1366. doi:10.2307/2445721.
43. Jiggins, C.D., and Mallet, J. 2000. Bimodal hybrid zones and speciation. Trends Ecol. Evol. 15: 250-255. doi:10.1016/S0169-5347(00)01873-5. PMID:10802556.
44. Kleinschmit, J.R., Bacilieri, G.R., Kremer, A., and Roloff, A. 1995. Comparison of morphological and genetic traits of penduculate oak (Quercus robur (L.) and sessile oak (Quercus petrea (Matt.)) Liebl.). Silvae Genet. 44: 5-6.
45. Magni, C.R., Docousso, A., Caron, H., Petit, R.J., and Kremer, A. 2005. Chloroplast DNA variation of Quercus rubra L. in North America and comparison with Fagaceae. Mol. Ecol. 14: 513-524. doi:10.1111/j.1365- 294X.2005.02400.x. PMID:15660942.
46. Mantel, N. 1967. The detection of disease clustering and a generalized regression approach. Cancer Res. 27: 209-220. PMID:6018555.
47. Martin, P.S., and Harrell, B.E. 1957. The Pleistocene history of temperate biotas in Mexico and eastern United States. Ecology, 38: 468-480. doi:10.2307/1929892.
48. Matos, J.A., and Schaal, B.A. 2000. Chloroplast evolution in the Pinus montezumae complex: a coalescent approach to hybridization. Evolution, 54: 1218-1233. PMID:11005290.
49. Morley, R.J. 2001. Why are there so many primitive angiosperms in the rain forests of Far East? In Faunal and floral migrations and evolution in SE Asia-Australasia. Edited by I. Metcalfe, J.M.B. Smith, M. Morwood, and I. Davidson. Balkema Publishers, Lisse, Netherlands. pp. 185-200.
50. Muir, G., Fleming, C.C., and Schlotterer, C. 2001. Three divergent rDNA clusters predate the species divergence in Quercus petraea (Matt.) Liebl., and Quercus robur L. Mol. Biol. Evol. 18: 112-119. PMID:11158370.
51. Muller, C. 1952. Ecological control of hybridization in Quercus: a factor in the mechanism of evolution. Evolution, 6: 147-161. doi:10.2307/2405620.
52. Navascués, M., and Emerson, B.C. 2005. Chloroplast microsatellites: measure of genetic diversity and the effect of homoplasy. Mol. Ecol. 14: 1333-1341. doi:10.1111/j.1365-294X.2005.02504.x. PMID:15813774.
53. Nei, M. 1987. Molecular evolutionary genetics. Columbia University Press, New York.
54. Nei, M., Tajima, F., and Tateto, Y. 1983. Accuracy of estimated phylogenetic tree from molecular data. II. Gene frequencies data. J. Mol. Evol. 19: 153-170. doi:10.1007/BF02300753. PMID:6571220.
55. Nicholas, K.B., and Nicholas, H.B. 1997. GeneDoc: a tool for editing and annotating multiple sequence alignments. Version 2.6.
56. Nixon, K.C. 1993. The genus Quercus in Mexico. In Biological Diversity of Mexico, origins and distributions. Edited by K.C. Nixon. Oxford University Press, New York. pp. 447-458.
57. Palmer, E.J. 1948. Hybrid oaks of North America. J. Arnold Arbor. Harv. Univ. 29: 1-48.
58. Petit, R.J., Kremer, A., and Wagner, D.B. 1993. Geographic structure of chloroplast DNA polymorphisms in European oaks. Theor. Appl. Genet. 87: 122-128. doi:10.1007/BF00223755.
59. Petit, R.J., Pineau, E., Demesure, B., Bacilieri, R., Ducousso, A., and Kremer, A. 1997. Chloroplast DNA footprint of postglacial recolonization by oaks. Proc. Natl. Acad. Sci. U.S.A. 94: 9996-10001. doi:10.1073/pnas.94. 18.9996. PMID:11038572.
60. Petit, R.J., Csaikl, U.M., Bordàcs, S., Burg, K., Coart, E., Cottrell, J., van Dam, B., Deans, J.D., Dumolin-Lapàgue, S., Fineschi, S., Finkeldey, R., Gillies, A., Glaz, I., Goicoechea, P.G., Jensen, J.S., König, A.O., Lowe, A.J., Madsen, S.F., Màtyàs, G., Munro, R.C., Olalde, M., Pemonge, M.H., Popescu, F., Slade, D., Tabbener, H., Taurchini, D., De Vries, S.G.M., Ziegenhagen, B., and Kremer, A. 2002. Chloroplast DNA variation in European white oaks - phylogeography and patterns of diversity based on data from over 2600 populations. For. Ecol. Manag. 156: 5-26. doi:10.1016/S0378-1127(01)00645-4.
61. Posada, D., Crandall, K.A., and Templeton, A.R. 2000. GeoDis: a program for the cladistic nested analysis of the geographical distribution of genetic haplotypes. Mol. Ecol. 9: 487-488. doi:10.1046/j.1365-294x.2000.00887.x. PMID:10736051.
62. Raven, P.H. 1976. Systematics and plant population biology. Syst. Bot. 1: 284-316. doi:10.2307/2418721.
63. Rieseberg, L.H. 1995. The role of hybridization in evolution: old wine in new skins. Am. J. Bot. 82: 944-953. doi:10.2307/2445981.
64. Rieseberg, L.H., and Soltis, D.E. 1991. Phylogenetic consequences of cytoplasmic gene flow in plants. Evol. Trends Plants, 5: 65-84.
65. Rieseberg, L.H., Whitton, J., and Gardner, K. 1999. Hybrid zones and the genetic architecture of a barrier to gene flow between two sunflower species. Genetics, 152: 713-727. PMID:10353912.
66. Rushton, B.S. 1993. Natural hybridization within the genus Quercus L. Ann. Sci. For. 50(Suppl.): 73-90. doi:10.1051/forest:19930707.
67. Rzedowski, J. 1978. Vegetación de México. Limusa, México. Schneider, S., Roessli, L., and Excoffier, L. 2000. Arlequin version 2.000: a software for population genetics data analysis.
68. Slatkin, M. 1995. A measure of population subdivision based on microsatellite allele frequencies. Genetics, 139: 457-462. PMID:7705646.
69. Spellenberg, R. 1995. On the hybrid nature of Quercus basaseachicensis (Fagaceae: Sect. Quercus). SIDA Contrib. Bot. 16: 427-437.
70. Stanley, R.G., and Linskens, H.F. 1974. Pollen: biology, biochemistry and management. Springer, Berlin, Germany.
71. Styles, B.T. 1993. El género Pinus: su panorama en México. In Diversidad Biológica de México. orígenes y distribución. Edited by T.P. Ramamoorthy, R. Bye, A. Lot and J. Fa. Instituto de Biología, UNAM, México. pp. 385-408.
72. Swift, C.S., Gilbert, C.R., Bortone, S.A., Burgess, G.H., and Yerger, R.W. 1986. Zoogeography of the freshwater fishes of the southeastern United States: savannah river to lake Pontchartrain. In The zoogeography of North American freshwater fishes. Edited by C.H. Hocutt and E.O. Wiley. John Wiley and Sons, New York. pp. 213-266.
73. Templeton, A.R. 1994. The role of molecular genetics in speciation studies. In Molecular ecology and evolution: approaches and applications. Edited by B. Schierwater, B. Streit, G.P. Wagner, and R. DeSalle. Birkhäuser, Basel, Switzerland. pp. 455-477.
74. Templeton, A.R. 1998. Nested clade analyses of phylogeographic data: testing hypotheses about gene flow and population history. Mol. Ecol. 7: 381-397. doi:10.1046/j.1365-294x.1998.00308.x. PMID:9627999.
75. Templeton, A.R., Boerwinkle, E., and Sing, C.F. 1987. A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping. I. Basic theory and an analysis of alcohol dehydrogenase activity in Drosophila. Genetics, 117: 343-351. PMID:2822535.
76. Templeton, A.R., Crandall, K.A., and Sing, C.F. 1992. A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. III. Cladogram estimation. Genetics, 132: 619-633. PMID:1385266.
77. Templeton, A.R., and Sing, C.F. 1993. A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping. IV. Nested analyses with cladogram uncertainty and recombination. Genetics, 134: 659-669. PMID:8100789.
78. Templeton, A.R., Routman, E., and Phillips, C.A. 1995. Separating population structure from population history: a cladistic analysis of the geographical distribution of mitochondrial DNA Haplotypes in the tiger salamander, Ambystoma tigrinum. Genetics, 140: 767-782. PMID:7498753.
79. Tomlinson, P.T., Jensen, R.J., and Hancock, J.F. 2000. Do whole tree silvic characters indicate hybridization in red oak (Quercus Section Lobatae). Am. Midl. Nat. 143: 154-168. doi:10.1674/0003-0031(2000) 143[0154:DWTSCI]2.0.CO;2.
80. Tovar-Sánchez, E., and Oyama, K. 2004. Natural hybridization and hybrid zones between Quercus crassifolia and Quercus crassipes (Fagaceae) in Mexico. Morphological and molecular evidence. Am. J. Bot. 91: 1352-1363.
81. Tucker, J.M. 1961. Studies in the Quercus undulate complex I. A preliminary statement. Am. J. Bot. 48: 202-208. doi:10.2307/2439397.
82. Turner, B.L., and Nesom, G.L. 1993. Biogeografía, diversidad y situación de peligro o amenaza de Asteraceae de México. In Diversidad Biológica de México: orígenes y distribución. Edited by T.P. Ramamoorthy, R. Bye, A. Lot, and J. Fa. Instituto de Biología, UNAM, México. pp. 545-562.
83. Valencia, A.S. 2004. Diversidad del género Quercus (Fagaceae) en México. Bol. Soc. Bot. Mex. 75: 33-53.
84. Weising, K., and Gardner, R. 1999. A set of conserved PCR primers for the analysis of simple sequence repeat polymorphisms in chloroplast genomes of dicotyledonous angiosperms. Genome, 42: 9-19. doi:10.1139/gen-42-1-9. PMID:10207998.
85. Whittemore, A.T., and Schaal, B.A. 1991. Interspecific gene flow in sympatric oaks. Proc. Natl. Acad. Sci. U.S.A. 88: 2540-2544. doi:10.1073/pnas.88.6.2540. PMID:11607170.
86. Wiens, J.J., and Penkrot, T.A. 2002. Delimiting species using DNA and morphological variation and discordant species limits in spiny lizards (Sceloporus). Syst. Biol. 51: 69-91. doi:10.1080/ 106351502753475880. PMID:11943093.
87. Wolfram, S. 1998. The mathematica book. Version 4.0.1. Cambridge University press, Cambridge, UK.