International Journal of
Genetics and Molecular Biology

  • Abbreviation: Int. J. Genet. Mol. Biol.
  • Language: English
  • ISSN: 2006-9863
  • DOI: 10.5897/IJGMB
  • Start Year: 2009
  • Published Articles: 135

Full Length Research Paper

Application of subspecies-specific marker system identified from Oryza sativa to Oryza glaberrima accessions and Oryza sativa × Oryza glaberrima F1 interspecific progenies

Isaac Kofi Bimpong1,2, Joong Hyoun Chin2*, Joie Ramos2 and Hee-Jong Koh3
  1Africa Rice Centre, BP 96. St Louis, Senegal. 2International Rice Research Institute (IRRI), DAPO Box 7777, Metro Manila, Philippines. 3Department of Plant Science, College of Agriculture and Life Sciences, Seoul National University, Seoul, 151-921, Korea
Email: [email protected]

  •  Accepted: 07 December 2010
  •  Published: 31 January 2011



Interspecific hybrids (F1's) between Asian rice (Oryza sativa 2n=24 AA) and African rice (Oryza glaberrima 2n=24 AA) are almost completely sterile. This hybrid sterility barrier is mainly caused by an arrest of pollen development at the microspore stage. Intersubspecific F1 hybrid sterility is mainly caused by cryptic chromosomal aberrations and allelic interaction between indica and japonica. To identify O. glaberrima specific loci, 67 subspecies-specific (SS) sequenced-tagged site (STS) marker were used to evaluate 30 O. glaberrimaaccessions, which could be classified into sub eleven groups. SPI (subspecies-prototype index) of O. glaberrima accessions ranged from 51.67 to 60.00, suggesting intermediate subspecific type based on whole-genome. Some informative markers for classifying O.glaberrima accessions, called reference markers, S01054, S01160, S02085, S02140, S03041, and S08107, showed indica allele, which might have contributed to genomic diversification of O. glaberrima. Ten (14.9%) SS markers generated glaberrima-specific allele, implying loci adjacent with these markers could be a key for interspecific hybrid sterility. Only 40 (59.7%) SS markers might be useful in O. glaberrima analysis, as other markers did not amplify heterozygous allele in Fof O. sativa × O. glaberrima.


Key words: Oryza glaberrima, Oryza sativa, sequenced-tagged site, subspecies-specific,interspecific progenies