Disna Ratnasekera
Department of Agricultural Biology, Faculty of Agriculture, University of Ruhuna, Matara, Sri LankaPublications
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Research Article
Optimized genotyping-by-sequencing for high-resolution SNP discovery in rice (Oryza sativa L.)
Author(s): Ayesha Farooq, Muhammad Ali, Muhammad Asrar, Muhammad Bilal Chatham, Shahbaz Ahmad, Shabnum Shaheen, Disna Ratnasekera, Zhiyong Xu, Sammina Mahmood, Qurban Ali*, Muhammad Ashfaq* and Farah Khan
Rice (Oryza sativa L.) is a staple crop vital to food security worldwide, particularly in South Asia. Enhancing its yield potential and disease resistance through genomic tools is a pressing necessity for sustainable agriculture. This study aimed to identify genome-wide Single Nucleotide Polymorphisms (SNPs) associated with key agronomic traits in Pakistani rice germplasm using Genotyping-By-Sequencing (GBS) and Genome-Wide Association Studies (GWAS). Fourteen diverse rice varieties were genotyped using ApeKI-based GBS, generating high-quality sequencing data. Following quality filtering and alignment to the MSU v6.0 Nipponbare reference genome, a total of 208 highly significant SNPs (-log??P ≥ 4) were identified. GWAS was conducted using a mixed linear model incorporating population structure and kinship, while STRUCTURE analysis was employed to assess subpopulation stratif.. Read More»
DOI: 10.5281/zenodo.17658913