MINING SINGLE NUCLEOTIDE POLYMORPHISM FROM PUBLICLY AVAILABLE ESTS OF BREAD WHEAT (TRITICUM AESTIVUM L.)
Keywords:Wheat (Triticum aestivum), SNPs, SOLiD-SAGE, ESTs, Leaf rust
Objective: The present study was undertaken to discover Single Nucleotide Polymorphisms (SNPs) in bread wheat with reference to leaf rust disease.
Methods: Next Generation Sequencing platform sequencing by Oligonucleotide Ligation and Detection (SOLiD) was performed on four Serial Analysis of Gene Expression (SAGE) libraries of mock and leaf rust pathogen infected near-isogenic lines HD2329Â±Lr28. CLC Genomics Workbench was used for computational prediction of the SNPs. The predicted SNPs were filtered by Blast using wheat Expressed Sequence Tags (ESTs). The SNP-containing ESTs were annotated, and their expression was checked in response to inoculation of Puccinia triticina.
Results: We have identified 191 SNPs from data obtained through the These EST-SNPs participated in various physiological and biochemical processes that influence important traits, such as cell rescue, defense and disease resistance.
Conclusion: Very little knowledge exists on SNPs in hexaploid bread wheat (Triticum aestivum L.) because of the difficulty to discern the true polymorphic loci. This study has revealed fast and costs effective approach for SNP discovery which will be helpful in molecular breeding with important agronomic traits.
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