Multi-model genome-wide association studies for appearance quality in rice
OAR@ICRISAT
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Relation |
http://oar.icrisat.org/12512/
https://www.frontiersin.org/journals/plant-science/articles/10.3389/fpls.2023.1304388/full https://doi.org/10.3389/fpls.2023.1304388 |
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Title |
Multi-model genome-wide association studies for appearance quality in rice
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Creator |
Sachdeva, S
Singh, R Maurya, A Singh, V K Singh, U M Kumar, A Singh, G P |
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Subject |
Rice
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Description |
Improving the quality of the appearance of rice is critical to meet market acceptance. Mining putative quality-related genes has been geared towards the development of effective breeding approaches for rice. In the present study, two SL-GWAS (CMLM and MLM) and three ML-GWAS (FASTmrEMMA, mrMLM, and FASTmrMLM) genome-wide association studies were conducted in a subset of 3K-RGP consisting of 198 rice accessions with 553,831 SNP markers. A total of 594 SNP markers were identified using the mixed linear model method for grain quality traits. Additionally, 70 quantitative trait nucleotides (QTNs) detected by the ML-GWAS models were strongly associated with grain aroma (AR), head rice recovery (HRR, %), and percentage of grains with chalkiness (PGC, %). Finally, 39 QTNs were identified using single- and multi-locus GWAS methods. Among the 39 reliable QTNs, 20 novel QTNs were identified for the above-mentioned three quality-related traits. Based on annotation and previous studies, four functional candidate genes (LOC_Os01g66110, LOC_Os01g66140, LOC_Os07g44910, and LOC_Os02g14120) were found to influence AR, HRR (%), and PGC (%), which could be utilized in rice breeding to improve grain quality traits.
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Publisher |
Frontiers Media
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Date |
2024-01-11
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Type |
Article
PeerReviewed |
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Format |
application/pdf
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Language |
en
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Rights |
cc_attribution
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Identifier |
http://oar.icrisat.org/12512/1/Frontiers%20in%20Plant%20Science_14_01-16_2024.pdf
Sachdeva, S and Singh, R and Maurya, A and Singh, V K and Singh, U M and Kumar, A and Singh, G P (2024) Multi-model genome-wide association studies for appearance quality in rice. Frontiers in Plant Science (TSI), 14. 01-16. ISSN 1664-462X |
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