Identification of genomic regions linked to seed dormancy related traits using bulk segregant analysis in rice (Oryza sativa L.)

Abstract

A total of 119 F6:7 RILs of a cross between BPT 2231 (non- seed dormant parent) and MTU 1001 (seed dormant parent) were analyzed to identify the markers associated with seed dormancy. Parental polymorphism survey with 188 SSR markers revealed 10 polymorphic markers between the parents. The bulk segregant analysis results with 10 polymorphic markers revealed that four markers showed polymorphism between the bulks. The association of putative markers viz., RM346, RM22565, RM7051 and RM10793 identified based on DNA pooling from selected segregants was analyzed by Single Marker Anaysis (SMA). The results of SMA revealed that RM22565 on chromosome 8 showed significant association with germination per cent at five days after harvesting indicating that the chromosomal region linked to the marker RM 22565 on chromosome 8 may be associated with seed dormancy. Out of the four polymorphic markers used in the present study, RM346 was notified as a seed dormancy linked marker from previous studies. The other three markers viz., RM22565, RM7051 and RM10793 identified as seed dormancy linked markers in the present study, needs further validation on alternative set of population or a set of germplasm lines for their further utilization in the marker assisted breeding programme. Based on germination percentage, physiological parameters and genotyping studies, the RILs viz., SD 3, SD 12, SD 15 and SD 68 were identified as donors for the future breeding programme for the development of seed dormant varieties.

Keywords

• rice
• seed dormancy
• ssr markers
• bsa
• single marker analysis
• rils