TY  - JA
AU  - Sagar Krushnaji Rangari
AU  - Namita Dube
AU  - Sharma,V.
AU  - Gangurde,S.S.
AU  - Sharma,M.
AU  - Gangashetty,P.I.
AU  - Saxena,R.K.
AU  - Abhinav Moghiya
AU  - Sharma,V.K.
AU  - Bhutia,K.L.
AU  - Kant,R.
AU  - Thudi,M.
AU  - Satheesh Naik,S.J.
AU  - Pratap,A.
AU  - Dixit,G.P.
AU  - Mayes,S.
AU  - Pandey,M.K.
TI  - InDels in an intronic region of gene Ccsmd04 coding for dormancy/auxin-associated protein control sterility mosaic disease resistance in pigeonpea
SN  - 0141-8130
PY  - 2025///
CY  - Amsterdam (Netherlands)
PB  - Elsevier
KW  - Pigeon peas
KW  - AGROVOC
KW  - Quantitative Trait Loci
KW  - Genotyping
N1  - Peer review; Open Access
N2  - Sterility mosaic disease (SMD) presents a significant challenge to pigeonpea cultivation in the Indian subcontinent, potentially leading to total crop failure. The development of diagnostic molecular markers for SMD resistance can aid in developing SMD-resistant varieties. In this context, a QTL-seq approach identified genomic regions associated with SMD resistance using a recombinant inbred line population generated from ICP8863 × ICPL87119. In total, 6105 high-confidence variants were identified in the genomic region, smdCc04 based on the ΔSNP index. A genomic region smdCc04 on chromosome Cc04 spans 3.2 Mb (9.3–12.5 Mb) comprises 5 missense variants and 9 Indels. A total of 211 candidate genes were identified from this region. 1 bp insertion, 21 bp insertion, 9 bp deletion, and 3 bp insertion at different intronic positions in 22 susceptible genotypes leads to downregulation of Dormancy/auxin associated protein (Ccsmd04 gene) resulting in loss of signaling in disease resistance pathways. The identified sites recognize four important disease and plant growth related transcription factors. A total of 4 InDels and 8 SNPs were validated from smdCc04 genomic region using whole genome re-sequencing data and kompititive allele specific polymerase chain reaction (KASP) genotyping in resistant and susceptible pigeonpea genotypes. Gene-based markers snpCC00149 and snpCC00150 present in the genomic region smdCc04 can be used in pigeonpea breeding programs for developing SMD resistant varieties
UR  - https://doi.org/10.1016/j.ijbiomac.2025.145777
DO  - https://doi.org/10.1016/j.ijbiomac.2025.145777
T2  - International Journal of Biological Macromolecules
ER  -