Genetic Resources and Crop Evolution

, Volume 57, Issue 6, pp 915–926 | Cite as

Ecological, morphological and genetic diversity in Oryza rufipogon Griff. (Poaceae) from Hainan Island, China

  • Dong Yibo
  • Pei XinwuEmail author
  • Yuan Qianhua
  • Wu Hongjin
  • Wang Xujing
  • Jia Shirong
  • Peng YufaEmail author
Research Article


In this study, ecological, morphological and genetic diversity in 11 surviving populations of Oryza rufipogon Griff. from Hainan Island, China were investigated. These data served to provide much needed data in support of conservation strategies. The results divided O. rufipogon into six ecotypes. The cluster analysis based on 19 morphological features showed clear differentiation among populations or within populations. The cluster analysis based on SSR also revealed similar results. The ecological, morphological and genetic diversity observed in O. rufipogon resulted in the following conservation recommendations: (1) the four currently protected O. rufipogon localities should be maintained, due to the different ecological communities represented at these sites; (2) some populations, such as HL (Hele county, Hainan Island), should be protected, but some populations, such as FC (Fucheng county, Hainan Island) and DL (Dalu county, Hainan Island), might not be protected. (3) An isolation zone should be established to avoid possible introgression between O. sativa L. and O. rufipogon; and human activities that impact O. rufipogon should be reduced or eliminated.


Conservation Ecological, morphological and genetic diversity Introgression Natural populations Oryza rufipogon Griff. 



We appreciate the support of the National basic research program of China (2007CB109202) and the National Special Program of Transgenic Research (2008ZX08011-001). We thank Crop Science Research Institute in CAAS and Guangdong Academy of Agricultual Sciences for providing partial samples.


  1. Anderberg MR (1973) Cluster analysis for applications. Academic Press, New YorkGoogle Scholar
  2. Cai HW, Wang XK, Morishima H (2004) Comparison of population genetic structures of common wild rice (Oryza rufipogon Griff.), as revealed by analyses of quantitative traits, allozymes, and RFLPs. Heredity 92:409–417CrossRefPubMedGoogle Scholar
  3. Chen CB, Pan DJ (2006) Wild rice germplasm resources described norms and standards for data. Chinese Agricultural Press, BeijingGoogle Scholar
  4. Chen CB, Pang HH (2001) Genetic diversity of Oryza rufipogon Griff. from Guangxi I: ecological system diversity of Oryza rufipogon Griff. J Plant Genet Resour 2:16–21Google Scholar
  5. Dong YB, Kong H, Peng YF et al (2008) Flowering and reproduction habits of Oryza rufipogon in Wanning city of Hainan province. J Plant Genet Resour 9:218–222Google Scholar
  6. Doyle J, Morgante M, Tingey S et al (1998) Size homoplasy in chloroplast microsatellites of wild perennial relatives of soybean. Mol Biol Evol 15:215–218PubMedGoogle Scholar
  7. Elizabeth AV, Edson FS, Eliana AS et al (2008) Morphoagronomic genetic diversity in American wild rice. Braz Arch Biol Technol 51:95–104Google Scholar
  8. Everitt B (1980) Cluster analysis. Halsted Press, New YorkGoogle Scholar
  9. Frankham R (2003) Genetics and conservation biology in Comptes rendus. Biologies 326:22–29CrossRefGoogle Scholar
  10. Fu J (2000) Distant hybridization between wild rice and rice. Science and Technology Press, HunanGoogle Scholar
  11. Gao LZ (2004) Population structure and conservation genetics of wild rice Oryza rufipogon (Poaceae) a region-wide perspective from microsatellite variation. Mol Ecol 13:1009–1024CrossRefPubMedGoogle Scholar
  12. Gao LZ, Chen W, Jiang WZ et al (2000a) Genetic erosion in the Northern marginal population of the common wild rice Oryza rufipogon Griff. and its conservation, revealed by the change of population genetic structure. Heredity 133:47–53CrossRefGoogle Scholar
  13. Gao LZ, Hong DY, Ge S (2000b) Allozyme variation and population genetic structure of common wild rice Oryza rufipogon Griff. in China. Theor Appl Genet 101:494–502CrossRefGoogle Scholar
  14. Gao LZ, Ge S, Hong DY (2000c) A preliminary study on ecological differentiation within the common wild rice Oryza rufipogon Griff. Acta Agron Sin 26:210–216Google Scholar
  15. Gao LZ, Ge S, Hong DY et al (2002a) Allozyme variation and conservation genetics of common wild rice (Oryza rufipogon Griff.) in Yunnan, China. Euphytica 124:273–281CrossRefGoogle Scholar
  16. Gao LZ, Schaal BA, Zhang CH et al (2002b) Assessment of population genetic structure in common wild rice Oryza rufipogon Griff. using microsatellite and allozyme markers. Theor Appl Genet 106:173–180PubMedGoogle Scholar
  17. Hau B, Kranz J (1990) Mathematics and statistics for analysis in epidemiology. In: Kranz J (ed) Epidemics of plant diseases: mathematical analysis and modeling. Springer, Berlin, pp 12–52Google Scholar
  18. Hong DY (1995) Rescuing genetic resources of wild rice in China. Bull Chin Acad Sci l0:325–326Google Scholar
  19. Huang JG, Sheng JS (1991) Chinese rice resource directory (wild rice). Agricultural Press, BeijingGoogle Scholar
  20. Li Y, Yang X, Zhao F et al (2006) SSR markers on indica-japonica differentiation of natural population of Oryza rufipogon in Yuanjiang, Yunnan province. Chin J Rice Sci 20:137–140Google Scholar
  21. Lu BR, Fu Q, Shen ZC (2008) Commercialization of transgenic rice in China: potential environmental biosafety issues. Biodivers Sci 16:426–436Google Scholar
  22. Morishima H, Sano Y, Oka HI (1984) Differentiation of perennial and annual types due to habitat conditions in the wild rice Oryza perennis. Plant Syst Evol 144:119–135CrossRefGoogle Scholar
  23. National exploring group of wild rice (1984) Investigation of resources of wild rice in China. Acta Agron Sin 6:1–8Google Scholar
  24. Oka HI (1974) Experimental studies on the origin of cultivated rice. Genetics 974:475–486Google Scholar
  25. Oka HI (1988) Origin of cultivated rice. Japan Scientific Societies Press, TokyoGoogle Scholar
  26. Oka HI, Chang WT (1961) Hybrid swarms between wild and cultivated rice species, Oryza perennis and O. sativa. Evolution 15:418–430CrossRefGoogle Scholar
  27. Pang HH, Chen CB (2002) Chinese wild rice resource. Guangxi Science and Technology Press, GuangxiGoogle Scholar
  28. Pang HH, Cai HW, Wang XK (1995) Morphological classification of common wild rice (Oryza rufipogon Griff.) in China. Acta Agron Sin 21:17–24Google Scholar
  29. Qian J, He TH, Song ZP et al (2005) Genetic evaluation of in situ conserved and reintroduced populations of wild rice Oryza rufipogon (Poaceae) in China. Biochem Genet 43:561–575CrossRefPubMedGoogle Scholar
  30. Ren FG, Lu BR, Li SQ et al (2003) A comparative study of genetic relationships among the AA-genome Oryza species using RAPD and SSR markers. Theor Appl Genet 108:113–120CrossRefPubMedGoogle Scholar
  31. Shane WW (1987) The use of principal component analysis and cluster analysis in crop loss assessment. In: Teng PS (ed) Crop loss assessment and pest management. APS Press, USA, pp 139–149Google Scholar
  32. Song ZP, Xu X, Wang B et al (2003) Genetic diversity in the northernmost Oryza rufipogon Griff. Populations estimated by SSR markers. Theor Appl Genet 107:1492–1499CrossRefPubMedGoogle Scholar
  33. Song ZP, Zhu WY, Rong J (2006) Evidences of introgression from cultivated rice to Oryza rufipogon (Poaceae) populations based on SSR fingerprinting implications for wild rice differentiation and conservation. Evol Ecol 20:501–522CrossRefGoogle Scholar
  34. Sun CQ, Wang XK, Yoshimura A (2002) Genetic differentiation for nuclear, mitochondrial and chloroplast genomes in common wild rice (O. rufipogon Griff.) and cultivated rice (O. sativa L.). Theor Appl Genet 104:1335–1345CrossRefPubMedGoogle Scholar
  35. Tan LB, Zhang PJ, Liu FX et al (2008) Quantitative trait loci underlying domestication- and yield-related traits in an Oryza sativa × Oryza rufipogon advanced backcross population. Genome 51:692–704CrossRefPubMedGoogle Scholar
  36. Tanksley SD, McCouch SR (1997) Seed banks and molecular maps: unlocking genetic potential from the wild. Science 277:1063–1066CrossRefPubMedGoogle Scholar
  37. Vaughan DA, Chang TT (1992) In situ conservation of rice genetic resources. Econ Bot 46:368–383Google Scholar
  38. Wang J, Chen FP, Tu JC et al (2004) Cluster analysis of morphological traits of Gaozhou wild rice populations in Guangdong Province, China. J South China Agric Univ 25:63–66Google Scholar
  39. Wang MX, Zhang HL, Zhang DL et al (2008) Genetic structure of Oryza rufipogon Griff. in China. Heredity 101:527–535CrossRefPubMedGoogle Scholar
  40. Wright SI, Gaut BS (2005) Molecular population genetics and the search for adaptive evolution in plants. Mol Biol Evol 22:506–519CrossRefPubMedGoogle Scholar
  41. Xiao J, Grandillo S, Ahn SN et al (1996) Genes from wild rice improve yield. Nature 384:223–224CrossRefGoogle Scholar
  42. Xie ZW, Ge S, Hong DY (1999) Preparation of DNA from silica gel a dried mini-amount of leaves of Oryza rufipogon for RAPD study and total DNA bank construction. Acta Bot Sin 41:807–812Google Scholar
  43. Xie ZW, Lu YQ, Ge S et al (2001) Clonality in wild rice (Oryza rufipogon, Poaceae) and its implications for conservation management. Am J Bot 88:1058–1064CrossRefGoogle Scholar
  44. Yang QW, Chen CB, Zhang WX et al (2005) Minimum number of SSR alleles needed for genetic structure analysis of Oryza rufipogon populations. Chin J Rice Sci 19:297–302Google Scholar
  45. Zhou HF, Xie ZW, Ge S (2003) Microsatellite analysis of genetic diversity and population genetic structure of a wild rice (Oryza rufipogon Griff.) in China. Theor Appl Genet 107:332–339CrossRefPubMedGoogle Scholar

Copyright information

© Springer Science+Business Media B.V. 2010

Authors and Affiliations

  1. 1.State Key Laboratory for Biology of Plant Disease and Insect Pests, Institute of Plant ProtectionChinese Academy of Agricultural SciencesBeijingChina
  2. 2.Institute of BiotechnologyChinese Academy of Agricultural SciencesBeijingChina
  3. 3.College of Agriculture Science, MOE Key Lab of Tropic Biological ResourcesHainan UniversityHaikouChina

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