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High Resolution Melt (HRM) analysis is an efficient tool to genotype EMS mutants in complex crop genomes

Lochlainn, S. O., Amoah, S., Graham, N. S., Alamer, K., Rios, J. J., Kurup, S., Stoute, A., Hammond, J. P. ORCID: https://orcid.org/0000-0002-6241-3551, Ostergaard, L., King, G. J., White, P. J. and Broadley, M. R. (2011) High Resolution Melt (HRM) analysis is an efficient tool to genotype EMS mutants in complex crop genomes. Plant Methods, 7. 43. ISSN 1746-4811

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To link to this item DOI: 10.1186/1746-4811-7-43

Abstract/Summary

Background: Targeted Induced Loci Lesions IN Genomes (TILLING) is increasingly being used to generate and identify mutations in target genes of crop genomes. TILLING populations of several thousand lines have been generated in a number of crop species including Brassica rapa. Genetic analysis of mutants identified by TILLING requires an efficient, high-throughput and cost effective genotyping method to track the mutations through numerous generations. High resolution melt (HRM) analysis has been used in a number of systems to identify single nucleotide polymorphisms (SNPs) and insertion/deletions (IN/DELs) enabling the genotyping of different types of samples. HRM is ideally suited to high-throughput genotyping of multiple TILLING mutants in complex crop genomes. To date it has been used to identify mutants and genotype single mutations. The aim of this study was to determine if HRM can facilitate downstream analysis of multiple mutant lines identified by TILLING in order to characterise allelic series of EMS induced mutations in target genes across a number of generations in complex crop genomes. Results: We demonstrate that HRM can be used to genotype allelic series of mutations in two genes, BraA.CAX1a and BraA.MET1.a in Brassica rapa. We analysed 12 mutations in BraA.CAX1.a and five in BraA.MET1.a over two generations including a back-cross to the wild-type. Using a commercially available HRM kit and the Lightscanner™ system we were able to detect mutations in heterozygous and homozygous states for both genes. Conclusions: Using HRM genotyping on TILLING derived mutants, it is possible to generate an allelic series of mutations within multiple target genes rapidly. Lines suitable for phenotypic analysis can be isolated approximately 8-9 months (3 generations) from receiving M3 seed of Brassica rapa from the RevGenUK TILLING service.

Item Type:Article
Refereed:Yes
Divisions:No Reading authors. Back catalogue items
Interdisciplinary centres and themes > Centre for Food Security
Life Sciences > School of Agriculture, Policy and Development > Department of Crop Science
ID Code:33870
Publisher:BioMed Central

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