Development and validation of functional marker targeting an InDel in the major rice blast disease resistance gene Pi54 (Pik h )
- 1.2k Downloads
Rice blast is one of the most devastating diseases affecting the rice crop throughout the world. In molecular breeding for host plant resistance, functional markers are very useful for enhancing the precision and accuracy in marker-assisted selection (MAS) of target gene(s) with minimum effort, time and cost. Pi54 (which was earlier known as Pik h ) is one of the major blast resistance genes and has been observed to show resistance against many isolates of the blast pathogen in India. The gene has been cloned through map-based strategy and encodes a nucleotide-binding site–leucine-rich repeat (NBS–LRR) domain-containing protein. In the present study, we carried out allele mining for this gene and identified a 144-bp insertion/deletion (InDel) polymorphism in the exonic region of the gene. A PCR-based co-dominant molecular marker targeting this InDel, named Pi54 MAS, was developed. Pi54 MAS was observed to perfectly co-segregate with blast resistance in a mapping population with no recombinants. Validation of this marker in 105 genotypes which are either susceptible or resistant to rice blast disease showed that the marker is polymorphic in most of the resistant–susceptible genotype combinations and is more accurate than the earlier reported markers for Pi54. Hence this functional, co-dominant marker is suggested for routine deployment in MAS of Pi54 in breeding programs.
KeywordsRice blast Pi54 InDel Functional marker Magnaporthe oryzae
The Authors thank the Department of Biotechnology, Government of India for providing funds for carrying out the research work. Ramkumar is grateful to CSIR for the award of a senior research fellowship.
- Hari Y, Srinivasarao K, Ramesha MS, Viraktamath BC, laha GS, Balachandran SM, Prasad MS, Reddy CS, Prasad ASH, Natarajkumar P, Sujatha K, Sundaram RM (2008) Improvement of maintainer line (IR58025B) for bacterial blight (BB) and blast resistance through marker assisted selection. National symposium on new biology in agriculture, Punjab University, Chandigarh, p 80, 7–8 November 2008Google Scholar
- Manandhar HK, Shrestha K, Amatya P (1992) Seed-borne diseases. In: Mathur SB, Amatya P, Shrestha K, Manandhar HK (eds) Plant diseases, seed production and seed health testing in Nepal. DGISP, Denmark, pp 59–74Google Scholar
- Ramkumar G, Biswal AK, Mohan KM, Sakthivel K, Sivaranjani AKP, Neeraja CN, Ram T, Balachandran SM, Sundaram RM, Prasad MS, Rani NS, Viraktamath BC, Madhav MS (2010b) Identification of novel alleles of rice blast resistance genes Pik h and Pita through allele mining. Int Rice Res Notes 35:1–6Google Scholar
- Sharma TR, Madhav MS, Singh BK, Shanker P, Jana TK, Dalal V, Pandit A, Singh A, Gaikwad K, Upreti HC, Singh NK (2005) High-resolution mapping, cloning and molecular characterization of the Pi-kh gene of rice, which confers resistance to Magnaporthe grisea. Mol Genet Genomics 274:569–578CrossRefPubMedGoogle Scholar
- Sharma TR, Rai AK, Gupta GK, Singh NK (2010) Broad spectrum blast resistance gene Pik h cloned from the rice line tetep designated as Pi54. J Plant Biochem Biotechnol 19:1Google Scholar
- Spooner D, van Treuren R, de Vicente MC (2005) Molecular markers for genebank management. Technical bulletin no. 10, International Plant Genetic Resources Institute, ItalyGoogle Scholar
- Srinivasarao K, Hari Y, Ramesha MS, Mishra B, Viraktamath BC, Laha GS, Balachandran SM, Prasad MS, Reddy CS, Prasad ASH, Natarajkumar P, Sujatha K, Sundaram RM (2008) Improvement of Hybrid rice parental lines for bacterial leaf blight (BLB) and blast resistance through marker assisted selection. 1st AP science congress 2008—emerging trends in science and technology, Hyderabad, p 115, 14–16 Nov 2008Google Scholar
- Srinivasarao K, Hari Y, Laha GS, Virakthamath BC, Mishra B, Hariprasad AS, Natarajkumar P, Mohan KM, Prasad MS, Sundaram RM (2009) Marker assisted introgression of bacterial blight and rice blast resistance genes into hybrid rice parental lines. Proceedings of 6th international rice genetics symposium, IRRI, Philippines, pp 3–56, 16–19 Nov 2009Google Scholar