High‐density single nucleotide polymorphism‐based linkage mapping reveals novel quantitative trait loci for rice (Oryza sativa) sheath blight resistance from wild rice (Oryza rufipogon)‐derived introgression line

Rice sheath blight is one of the most important fungal disease‐causing yield losses up to 50%. An Oryza rufipogon‐derived introgression line (Pusa 1908‐13‐12‐5) identified to be highly resistant to sheath blight was used for developing a RIL population by crossing with a highly susceptible rice cult...

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Bibliographic Details
Published in:Plant breeding 2024-12, Vol.143 (6), p.828-839
Main Authors: Senapati, Manoranjan, Tiwari, Ajit, Vinod, Kunnummal Kurungara, Bashyal, Bishnu Maya, Amaresh, Nagarajan, Mariappan, Dhawan, Gaurav, Gowda, Munegowda Manoj, Ellur, Ranjith Kumar, Bhowmick, Prolay Kumar, Bollinedi, Haritha, Singh, Ashok Kumar, Subbaiyan, Gopala Krishnan
Format: Article
Language:English
Subjects:
Blight
Chromosome 1
Chromosomes
Crop yield
Cultivars
Disease resistance
Fungal diseases
Gene mapping
Gene polymorphism
Inoculation
Interspecific hybridization
introgression line
Mapping
Nucleotides
Oryza rufipogon
Plant breeding
Polymorphism
Population genetics
QTL mapping
Quantitative trait loci
Rhizoctonia solani
Rice
RIL
Sheath blight
Sheaths
Single-nucleotide polymorphism
validation
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Summary:Rice sheath blight is one of the most important fungal disease‐causing yield losses up to 50%. An Oryza rufipogon‐derived introgression line (Pusa 1908‐13‐12‐5) identified to be highly resistant to sheath blight was used for developing a RIL population by crossing with a highly susceptible rice cultivar, Pusa Basmati 1 (PB 1). The RIL population was genotyped with 80K Rice Pangenome (RPAN) single nucleotide polymorphism (SNP) array and phenotyped for disease response under artificial inoculation for 2 consecutive years. Inclusive composite interval mapping could identify six quantitative trait loci (QTLs) for two traits, namely, relative lesion height and relative yield loss per plant. Among these QTLs, four were major QTLs and three are novel QTLs. Three major QTLs were co‐localised within 1.4 Mb region on chromosome 1. In silico analysis revealed the presence of 12 candidate genes with potential role in disease resistance. Kompetitive Allele Specific PCR (KASP™) assay was developed for the linked SNPs and used for validation in an independent BC1F2:3 population (PB 1121/Pusa 1908‐13‐12‐5). One SNP (AX‐182186537) on chromosome 1 was validated, which offers scope for its utilisation in marker‐assisted breeding.
ISSN:0179-9541
1439-0523
DOI:10.1111/pbr.13210