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GBS-based SNP map pinpoints the QTL associated with sorghum downy mildew resistance in maize (Zea mays L.)

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Title GBS-based SNP map pinpoints the QTL associated with sorghum downy mildew resistance in maize (Zea mays L.)
 
Creator Jadhav, Kashmiri Prakash
Saykhedkar, Gajanan R.
Tamilarasi, Pandiampalayam Marappan
Devasree, Subramani
Ranjani, Rajagopalan Veera
Sarankumar, Chandran
Bharathi, Pukalenthy
Karthikeyan, Adhimoolam
Arulselvi, Soosai
Vijayagowri, Esvaran
Ganesan, Kalipatty Nalliappan
Nair, Sudha Krishnan
Babu, Raman
Ramalingam, Jegadeesan
Raveendran, Muthurajan
Senthil, Natesan
 
Subject genotyping
maize
single nucleotide polymorphism
sorghum
downy mildews
quantitative trait loci
genetics
 
Description Sorghum downy mildew (SDM), caused by the biotrophic fungi Peronosclerospora sorghi, threatens maize production worldwide, including India. To identify quantitative trait loci (QTL) associated with resistance to SDM, we used a recombinant inbred line (RIL) population derived from a cross between resistant inbred line UMI936 (w) and susceptible inbred line UMI79. The RIL population was phenotyped for SDM resistance in three environments [E1-field (Coimbatore), E2-greenhouse (Coimbatore), and E3-field (Mandya)] and also utilized to construct the genetic linkage map by genotyping by sequencing (GBS) approach. The map comprises 1516 SNP markers in 10 linkage groups (LGs) with a total length of 6924.7 cM and an average marker distance of 4.57 cM. The QTL analysis with the phenotype and marker data detected nine QTL on chromosome 1, 2, 3, 5, 6, and 7 across three environments. Of these, QTL namely qDMR1.2, qDMR3.1, qDMR5.1, and qDMR6.1 were notable due to their high phenotypic variance. qDMR3.1 from chromosome 3 was detected in more than one environment (E1 and E2), explaining the 10.3% and 13.1% phenotypic variance. Three QTL, qDMR1.2, qDMR5.1, and qDMR6.1 from chromosomes 1, 5, and 6 were identified in either E1 or E3, explaining 15.2%–18% phenotypic variance. Moreover, genome mining on three QTL (qDMR3.1, qDMR5.1, and qDMR6.1) reveals the putative candidate genes related to SDM resistance. The information generated in this study will be helpful for map-based cloning and marker-assisted selection in maize breeding programs.
 
Date 2022-07-20
2023-01-01T16:14:02Z
2023-01-01T16:14:02Z
 
Type Journal Article
 
Identifier Jadhav, K.P., Saykhedkar, G.R., Tamilarasi, P.M., Devasree, S., Ranjani, R.V., Sarankumar, C., Bharathi, P., Karthikeyan, A., Arulselvi, S., Vijayagowri, E., Ganesan, K. N., Paranidharan, V., Nair, S.K., Babu, R., Ramalingam, J., Raveendran, M. and Senthil, N. 2022. GBS-based SNP map pin-points the QTL associated with sorghum downy mildew resistance in maize (Zea mays L.). Frontiers in Genetics 13:890133. https://hdl.handle.net/10883/22204
1664-8021
https://hdl.handle.net/10568/126438
https://hdl.handle.net/10883/22204
https://doi.org/10.3389/fgene.2022.890133
 
Language en
 
Rights CC-BY-4.0
Open Access
 
Format application/pdf
 
Publisher Frontiers Media SA
 
Source Frontiers in Genetics