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References

  • Clement, M., D. Posada, and K. Crandall. 2000. TCS: a computer program to estimate gene genealogies. Mol. Ecol. 9:16571660.
  • Drexler, J. Z. 2001. Maximum longevities of Rhizophora apiculata and R. mucronata propagules. Pac. Sci. 55:1722.
  • Duke, N. C., M. C. Ball, and J. C. Ellison. 1998. Factors influencing biodiversity and distributional gradients in mangroves. Glob. Ecol. Biogeogr. Lett. 7:2747.
  • Evanno, G., S. Regnaut, and J. Gouget. 2005. Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Mol. Ecol. 14:26112620.
  • Excoffier, L., and H. Lischer. 2010. Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Mol. Ecol. Resour. 10:564567.
  • Falush, D., M. Stephens, and J. K. Prichard. 2003. Inference of population structure using multilocus genotype data: linked loci and correlated allele Frequencies. Genetics 164:15671587.
  • FAO. 2007. P. 77 in The world's mangroves 1980–2005, FAO forestry paper 153. Forest Resources Division. FAO, Rome.
  • Gaut, B. S., B. R. Morton, B. C. McCaig, and M. T. Clegg. 1996. Substitution rate comparisons between grasses and palms: synonymous rate differences at the nuclear gene Adh parallel rate differences at the plastid gene rbcL. Proc. Natl Acad. Sci. USA 93:1027410279.
  • Geng, Q., C. Lian, S. Goto, J. Tao, M. Kimura, M. S. Islam, et al. 2008. Mating system, pollen and propagule dispersal, and spatial genetic structure in a high-density population of the mangrove tree Kandelia candel. Mol. Ecol. 17:47244739.
  • Giang, L. H., G. L. Geada, P. N. Hong, M. S. Tuan, T. H. Lien, S. Ikeda, et al. 2006. Genetic variation of two mangrove species in Kandelia (Rhizophoraceae) in vietnam and surrounding area revealed by microsatellite markers. Int. J. Plant Sci. 167:291298.
  • Goodall, J. A., and J. A. Stoddart. 1989. Techniques for the electrophoresis of mangrove tissue. Aquat. Bot. 35:197207.
  • Gossmann, T. I., B.-H. Song, A. J. Windsor, T. Mitchell-Olds, C. J. Dixon, M. V. Kapralov, et al. 2010. Genome wide analyses reveal little evidence for adaptive evolution in many plant species. Mol. Biol. Evol. 27:18221832.
  • Hamilton, M. B. 1999. Four primer pairs for the amplification of chloroplast intergenic regions with intraspecific variation. Mol. Ecol. 8:521523.
  • Hasegawa, M., H. Kishino, and T. Yano. 1985. Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. J. Mol. Evol. 22:160174.
  • Hey, J. 2010. Isolation with migration models for more than two populations. Mol. Biol. Evol. 27:905920.
  • Hey, J., and R. Nielsen. 2007. Integration within the Felsenstein equation for improved Markov chain Monte Carlo methods in population genetics. Proc. Natl Acad. Sci. USA 104:27852790.
  • Huang, Y., F. Tan, G. Su, S. Deng, H. He, and S. Shi. 2008. Population genetic structure of three species in the mangrove genus Ceriops (Rhizophoraceae) from the Indo West Pacific. Genetica 133:4756.
  • Hubisz, M. J., D. Falush, M. Stephens, and J. K. Pritchard. 2009. Inferring weak population structure with the assistance of sample group information. Mol. Ecol. Resour. 9:13221332.
  • Hudson, R., and N. Kaplan. 1985. Statistical properties of the number of recombination events in the history of a sample of DNA sequences. Genetics 111:147164.
  • Inomata, N., X. R. Wang, S. Changtragoon, and A. E. Szmidt. 2009. Levels and patterns of DNA variation in two sympatric mangrove species, Rhizophora apiculata and R. mucronata from Thailand. Genes Genet. Syst. 84:277286.
  • Jian, S., J. Ban, H. Ren, and H. Yan. 2010. Low genetic variation detected within the widespread mangrove species Nypa fruticans (Palmae) from Southeast Asia. Aquat. Bot. 92:2327.
  • Jukes, T. H., and C. R. Cantor. 1969. Evolution of protein molecules. Pp. 21131 in H. N. Munro, ed. Mammalian protein metabolism. Academic Press, New York.
  • Kado, T., H. Yoshimaru, Y. Tsumura, and H. Tachida. 2003. DNA variation in a conifer, Cryptomeria japonica (Cupressaceae sensu lato). Genetics 164:15471559.
  • Kimura, M. 1969. The number of heterozygous nucleotide sites maintained in a finite population due to steady flux of mutations. Genetics 61:893903.
  • Larkin, M. A., G. Blackshields, N. P. Brown, R. Chenna, P. A. McGettigan, H. McWilliam, et al. 2007. Clustal W and Clustal X version 2.0. Bioinformatics 23:29472948.
  • Liao, P. C., S. Havanond, and S. Huang. 2007. Phylogeography of Ceriops tagal (Rhizophoraceae) in Southeast Asia: the land barrier of the Malay Peninsula has caused population differentiation between the Indian Ocean and South China Sea. Conserv. Genet. 8:8998.
  • Librado, P., and J. Rozas. 2009. DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25:14511452.
  • Ma, X. F., A. E. Szmidt, and X. R. Wang. 2006. Genetic structure and evolutionary history of a diploid pine Pinus densata inferred from the nucleotide variation at seven gene loci. Mol. Biol. Evol. 23:807816.
  • Marguire, T. L., P. Saenger, P. Baverstock, and R. Henry. 2000. Microsatellite analysis of genetic structure in the mangrove species Avicennia marina (Forsk.) Vierh. (Avicenniaceae). Mol. Ecol. 9:18531862.
  • Minobe, S., S. Fukui, R. Sasaki, T. Kajita, S. Changtragoon, N. A. A. Shukor, et al. 2010. Highly differentiated population structure of a mangrove species, Bruguiera gymnorrhiza (Rhizophoraceae) revealed by one nuclear GapCp and one chloroplast intergenic spacer trnF-trnL. Conserv. Genet. 11:301310.
  • Miyama, M., H. Shimizu, M. Sugiyama, and N. Hanagata. 2006. Sequencing and analysis of 14,842 expressed sequence tags of burma mangrove, Bruguiera gymnorrhiza. Plant Sci. 171:234241.
  • Murray, M. G., and W. F. Tompson. 1980. Rapid isolation of high molecular weight plant DNA. Nucleic Acid Res. 8:43214325.
  • Nei, M. 1987. Molecular evolutionary genetics. Columbia Univ. Press, New York, NY.
  • Pil, W. P., M. R. T. Boeger, V. C. Muschner, M. R. Pie, A. Ostrensky, and W. A. Boeger. 2011. Postglacial north-south expansion of populations of Rhizophora mangle (Rhizophoraceae) along the Brazilian coast revealed by microsatellite analysis. Am. J. Bot. 98:10311039.
  • Pritchard, J. K., M. Stephens, and P. Donnelly. 2000. Inference of population structure using multilocus genotype data. Genetics 155:945959.
  • Schmid, K. J., S. Ramos-Onsins, H. Ringys-Beckstein, B. Weisshaar, and T. Mitchell-Olds. 2005. A multilocus sequence survey in Arabidopsis thaliana reveals a genome-wide departure from a neutral model of DNA sequence polymorphism. Genetics 169:16011615.
  • Sun, M., and E. Y. Y. Lo. 2011. Genomic markers reveal introgressive hybridization in the Indo-West Pacific mangroves: a case study. PLoS ONE 6:e19671.
  • Tomlinson, P. B. 1986. The botany of mangroves. Cambridge Univ. Press, Cambridge.
  • Voris, H. K. 2000. Maps of Pleistocene sea levels in Southeast Asia: shorelines, river systems and time durations. J. Biogeogr. 27:11531167.
  • Weir, B. S., and C. C. Cockerham. 1984. Estimating F-statistics for the analysis of population structure. Evolution 38:13581370.
  • Willyard, A., J. Syring, D. S. Gernandt, A. Liston, and R. Cronn. 2007. Fossil calibration of molecular divergence infers a moderate mutation rate and recent radiations for Pinus. Mol. Biol. Evol. 24:90101.
  • Zhou, R., K. Zeng, W. Wu, X. Chen, Z. Yang, S. Shi, et al. 2007. Population genetics of speciation in nonmodel organisms: i. Ancestral polymorphism in mangroves. Mol. Biol. Evol. 24:27462754.
  • Zhou, R., X. Gong, D. Boufford, C. I. Wu, and S. Shi. 2008. Testing a hypothesis of unidirectional hybridization in plants: observations on Sonneratia, Bruguiera and Lingularia. BMC Evol. Biol. 8:149.
  • Zhou, R., S. Ling, W. Zhao, N. Osada, S. Chen, Z. Meng, et al. 2011. Population genetics in nonmodel organisms: II. Natural selection in marginal habitats revealed by deep sequencing on dual platforms. Mol. Biol. Evol. 28:28332842.