Advertisement

Genetica

, Volume 125, Issue 2–3, pp 115–123 | Cite as

Genetic Structure of Wild Rice Oryza Glumaepatula Populations in Three Brazilian Biomes Using Microsatellite Markers

  • Rosana Pereira Vianello Brondani
  • Maria Imaculada Zucchi
  • Claudio Brondani
  • Paulo Hideo Nakano Rangel
  • Tereza Cristina De Oliveira Borba
  • Priscila Nascimento Rangel
  • Mara Rubia Magalhães
  • Roland Vencovsky
Article

Abstract

The existence of Oryza glumaepatula is threatened by devastation and, thus, the implementation of conservation strategies is extremely relevant. This study aimed to characterize the genetic variability and estimate population parameters of 30 O. glumaepatula populations from three Brazilian biomes using 10 microsatellite markers. The levels of allelic variability for the SSR loci presented a mean of 10.3 alleles per locus and a value of 0.10 for the average allelic frequency value. The expected total heterozygosity (He) ranged from 0.63 to 0.86. For the 30 populations tested, the mean observed (Ho) and expected heterozygosities (He) were 0.03 and 0.11within population, respectively, indicating an excess of homozygotes resulting from the preferentially self-pollinating reproduction habit. The estimated fixation index ( IS ) was 0.79 that differed significantly from zero, indicating high inbreeding within each O. glumaepatula population. The total inbreeding of the species (IT ) was 0.98 and the genetic diversity indexes among populations, ST and ST, were 0.85 and 0.90, respectively, indicating high genetic variability among them. Thus, especially for populations located in regions threatened with devastation, it is urgent that in situ preservation conditions should be created or that collections be made for ex situ preservation to prevent loss of the species genetic variability.

Keywords

genetic resources genetic variability molecular markers population genetics Oryza sp. 

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

References

  1. Akagi, H., Yokozeki, Y., Inagaki, A., Fujimura, T. 1996Microsatellite DNA markers for rice chromosomesTheor. Appl. Genet.9310711077CrossRefGoogle Scholar
  2. Akimoto, M., Shimamoto, Y., Morishima, H. 1998Population genetic structure of wild rice Oryza glumaepatula distributed in the Amazon flood area influenced by its life-history traitsMol. Ecol.713711381CrossRefGoogle Scholar
  3. Akimoto, M., Shimamoto, Y., Morishima, H. 1999The extinction of genetic resource of Asian wild rice Oryza rufipogon Griff: a case study in ThailandGen. Res. Crop Evol.46419425CrossRefGoogle Scholar
  4. Brar, D.S., Khush, G.S. 1997Alien introgression in ricePlant Mol.353547CrossRefGoogle Scholar
  5. Bassam, B.J., Caetano-Anolles, G., Gresshoff, P.M. 1991Fast and sensitive silver staining of DNA in polyacrylamide gelsAnal. Biochem.1968083CrossRefPubMedGoogle Scholar
  6. Brondani, C., Brondani, R.P.V., Rangel, P.H.N., Ferreira, M.E. 2001Development and mapping of Oryza glumaepatula-derived microsatellite markers in the interspecific cross O. glumaepatula  × O. sativaHereditas1345971CrossRefPubMedGoogle Scholar
  7. Brondani, C., Rangel, P.H.N., Brondani, R.P.V., Ferreira, M.E. 2002QTL mapping and introgression of yield-related traits from Oryza glumaepatula to cultivated rice (Oryza sativa) using microsatellite markersTheor. Appl. Genet.10411921203CrossRefPubMedGoogle Scholar
  8. Buso, G.S.C., Rangel, P.H.N., Ferreira, M.E. 1998Analysis of genetic variability of South American wild rice populations (Oryza glumaepatula) with isozymes and RAPD markersMol. Ecol.7107117CrossRefGoogle Scholar
  9. Chen, X., Temnykh, S., Xu, Y., Cho, Y.G., McCouch, S.R. 1997Development of a microsatellite framework map providing genome-wide coverage in rice (Oryza sativa L)Theor. Appl. Genet.95553567CrossRefGoogle Scholar
  10. Collevatti, R.G, Brondani, R.P.V., Grattapaglia, D. 1999Development and characterization of microsatellite markers for genetic analysis of a Brazilian endangered tree species Caryocar brasilienseHeredity83748756PubMedGoogle Scholar
  11. Davierwala, A.P., Chowdari, K.V., Kumar, S., Peddy, A.P.K., Ranjekar, P.K., Gupta, V.S. 2000Use of three different marker systems to estimate genetic diversity of Indian elite rice varietiesGenetica108269284CrossRefPubMedGoogle Scholar
  12. Doyle, J.J., Doyle, J.L. 1987Isolation of plant DNA from fresh tissueFocus121315Google Scholar
  13. Frankel, O.H., Brown, A.H.D., Burdon, J.J. 1998The Conservation of Plant BiodiversityCambridge University PressCambridgeGoogle Scholar
  14. Goodman, S.J. 1997RSTCalc: a collection of computer program for calculating estimates of genetic differentiation from microsatellite and determining their significanceMol. Ecol.6881885CrossRefGoogle Scholar
  15. Hamrick, J.L., Godt, M.J.W. 1989Allozyme diversity in plantsBrown, A.H.D.Clegg,  M.T.Kahler &, A.L.Weir, B.S. eds. Plant Population Genetics, Breeding and Genetic ResourcesSinauerSunderland, Massachusetts4363Google Scholar
  16. Jukes, T.H. & C.R. Cantor, 1969. Evolution in protein molecules, pp. 121–23 in Mammalian Protein Metabolism, edited by H.N. Munro. Academic Press, New York, NYGoogle Scholar
  17. Ishii, T., Xu, Y., McCouch, S.R. 2001Nuclear and chloroplast microsatellite variation in A-genome species of riceGenome44658666CrossRefPubMedGoogle Scholar
  18. Khush, G. S. 1997Origin, dispersal, cultivation and variation of ricePlant Mol. Biol.352534CrossRefPubMedGoogle Scholar
  19. Lemes, M.R., Brondani, R.P.V., Grattapaglia, D. 2002Multiplexed systems of microsatellite markers for genetic analysis of Mahogany, Swietenia macrophylla King (Meliaceae), a Threatened Neotropical Timber SpeciesJ. Hered.93287291CrossRefPubMedGoogle Scholar
  20. Lewis, P.O. & D. Zaykin, 2000. Genetic Data Analysis: Computer Program for the Analysis of Allelic Data. Version 1.0 (d15) Available from http://alleyn.eeb.uconn.edu/gda/2000Google Scholar
  21. Miller, M., 1997. Tools For Population Genetic Analyses (TFPGA) 1.3: A Windows Program for Analyses of Allozyme and Molecular Population Genetic DataGoogle Scholar
  22. Qian, W., Ge, S., Hong, D. -Y. 2001Genetic variation within and among populations of a wild rice Oryza granulata from China detected by RAPD and ISSR markersTheor. Appl. Genet.102440449CrossRefGoogle Scholar
  23. Rohlf, F.J. 1989NTSYS-Pc: Numerical Taxonomy and Multivariate Analysis SystemExeter PublisherNew York, NYGoogle Scholar
  24. Slatkin, M. 1985Rare alleles as indicators of gene flowEvolution395365Google Scholar
  25. Slatkin, M. 1995A measure of population subdivision based on microsatellite allele frequenciesGenetics130457462Google Scholar
  26. Song, Z.P., Xu, X., Wang, B., Chen, J.K., Lu, B.-R. 2003Genetic diversity in the northernmost Oryza rufipogon populations estimated by SSR markersTheor. Appl. Genet.10714921499CrossRefPubMedGoogle Scholar
  27. Temnykh, S., Park, W.D., Ayres, N., Cartinhour, S., Hauck, N., Lipovich, L., Cho, Y.G.T., Ishii McCouch, S.R. 2000Mapping and genome organization of microsatellite sequences in rice (Oryza sativa L.)Theor. Appl. Genet.100697712CrossRefGoogle Scholar
  28. Vaughan, D.A., Morishima, H., Kadowaki, K. 2003Diversity in the Oryza genusCurr. Opin. Plant Biol.6139146CrossRefPubMedGoogle Scholar
  29. Vencovsky, R., Crossa, J. 2003Measurements of representativeness used in resources conservation and plant breedingCrop Sci.4319121921Google Scholar
  30. Weir, B.S. 1996Genetics Data Analysis II – Methods for Discrete Population Genetic DataSinauer Associates, Inc. PublishersSuderland, MAGoogle Scholar
  31. Wright, S. 1931The genetical structure of populationsAnn. Eugen.15395420Google Scholar
  32. Wright, J.M., Bentzen, P. 1994Microsatellites: genetic markers of the futureRev. Fish Biol. Fish.4384388CrossRefGoogle Scholar
  33. Zhou, H.-F., Xie Ge, Z.-W.S. 2003Microsatellite analysis of genetic diversity and population genetic structure of a wild rice (Oryza rufipogon Griff) in ChinaTheor. Appl. Genet.107332339CrossRefPubMedGoogle Scholar

Copyright information

© Springer 2005

Authors and Affiliations

  • Rosana Pereira Vianello Brondani
    • 1
  • Maria Imaculada Zucchi
    • 2
  • Claudio Brondani
    • 1
  • Paulo Hideo Nakano Rangel
    • 1
  • Tereza Cristina De Oliveira Borba
    • 1
  • Priscila Nascimento Rangel
    • 1
  • Mara Rubia Magalhães
    • 1
  • Roland Vencovsky
    • 2
  1. 1.Laboratório de Biotecnologia VegetalEmbrapa-CNPAFGoiâniaBrazil
  2. 2.Departamento de Genética ESALQ/USPPiracicabaBrazil

Personalised recommendations