title: Nucleotide diversity of Pita, a major blast resistance gene and identification of its minimal promoter.
abstract: Improvement of host plant resistance is one of the best methods to protect the yield from biotic stresses. Incorporation of major resistance genes or their variants into elite rice varieties will enhance the host plant resistance and its durability. Allele mining is a preferred choice to discover the novel allelic variants of major genes from wide range of germplasm. 'True' allele mining includes coding and noncoding regions, which are known to affect the plant phenotype, eventually. In this study, major blast resistance gene, Pita was analyzed by allele and promoter mining strategy and its different allelic variants were discovered from landraces and wild Oryza species. Polymorphisms at allelic sequences as well as transcription factor binding motif (TFBM) level were examined. At motif level, MYB1AT is present in Pita(Tadukan) and other resistance alleles, but was absent in the susceptible allele. Core promoter was demarked with 449 bp, employing serial promoter deletion strategy. Promoter with 1592 bp upstream region could express the gfp two fold higher than the core promoter. The identified Pita resistance allele (Pita(Konibora)) can be directly used in rice blast resistance breeding programs. Moreover, characterization of Pita core promoter led to deeper understanding of resistance gene's regulation and the identified core promoter can be utilized to express similar genes in rice.
authors.affiliation: Biotechnology, Crop Improvement, DRR-ICAR, Hyderabad-30, India.
authors.forename: G
authors.initials: G
authors.lastname: Ramkumar
authors.affiliation: Biotechnology, Crop Improvement, DRR-ICAR, Hyderabad-30, India. Electronic address: sheshu24@gmail.com.
authors.forename: M S
authors.initials: MS
authors.lastname: Madhav
authors.affiliation: Biotechnology, Crop Improvement, DRR-ICAR, Hyderabad-30, India.
authors.forename: S J S
authors.initials: SJ
authors.lastname: Rama Devi
authors.affiliation: Biotechnology, Crop Improvement, DRR-ICAR, Hyderabad-30, India.
authors.forename: P
authors.initials: P
authors.lastname: Manimaran
authors.affiliation: Biotechnology, Crop Improvement, DRR-ICAR, Hyderabad-30, India.
authors.forename: K M
authors.initials: KM
authors.lastname: Mohan
authors.affiliation: Plant Pathology, DRR-ICAR, Hyderabad-30, India.
authors.forename: M S
authors.initials: MS
authors.lastname: Prasad
authors.affiliation: Biotechnology, Crop Improvement, DRR-ICAR, Hyderabad-30, India.
authors.forename: S M
authors.initials: SM
authors.lastname: Balachandran
authors.affiliation: Biotechnology, Crop Improvement, DRR-ICAR, Hyderabad-30, India.
authors.forename: C N
authors.initials: CN
authors.lastname: Neeraja
authors.affiliation: Biotechnology, Crop Improvement, DRR-ICAR, Hyderabad-30, India.
authors.forename: R M
authors.initials: RM
authors.lastname: Sundaram
authors.affiliation: Biotechnology, Crop Improvement, DRR-ICAR, Hyderabad-30, India.
authors.forename: B C
authors.initials: BC
authors.lastname: Viraktamath
mesh_terms: D000483:Alleles; D020816:Amino Acid Motifs; D060467:Disease Resistance / Q000235:genetics*; D017343:Genes, Plant / Q000502:physiology*; D012275:Oryza / Q000235:genetics*; D011110:Polymorphism, Genetic; D011401:Promoter Regions, Genetic / Q000235:genetics*
keywords: Allele mining; Core promoter; Pita; Promoter mining; Transcription factor binding sites