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Validation and delineation of a locus conferring Fusarium crown rot resistance on 1HL in barley by analysing transcriptomes from multiple pairs of near isogenic lines

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Gao, S ORCID: 0000-0002-2176-6553, Zheng, Z, Powell, J, Habib, A, Stiller, J, Zhou, M ORCID: 0000-0003-3009-7854 and Liu, C 2019 , 'Validation and delineation of a locus conferring Fusarium crown rot resistance on 1HL in barley by analysing transcriptomes from multiple pairs of near isogenic lines' , BMC Genomics, vol. 20 , pp. 1-11 , doi: 10.1186/s12864-019-6011-8.

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Abstract

BackgroundFusarium crown rot (FCR) is a chronic and severe disease in cereal production in semi-arid regions worldwide. A putative quantitative trait locus conferring FCR resistance, Qcrs.cpi-1H, had previously been mapped on the long arm of chromosome 1H in barley.ResultsIn this study, five pairs of near-isogenic lines (NILs) targeting the 1HL locus were developed. Analysing the NILs found that the resistant allele at Qcrs.cpi-1H significantly reduced FCR severity. Transcriptomic analysis was then conducted against three of the NIL pairs, which placed the Qcrs.cpi-1H locus in an interval spanning about 11 Mbp. A total of 56 expressed genes bearing single nucleotide polymorphisms (SNPs) were detected in this interval. Five of them contain non-synonymous SNPs. These results would facilitate detailed mapping as well as cloning gene(s) underlying the resistance locus.ConclusionNILs developed in this study and the transcriptomic sequences obtained from them did not only allow the validation of the resistance locus Qcrs.cpi-1H and the identification of candidate genes underlying its resistance, they also allowed the delineation of the resistance locus and the development of SNPs markers which formed a solid base for detailed mapping as well as cloning gene(s) underlying the locus.

Item Type: Article
Authors/Creators:Gao, S and Zheng, Z and Powell, J and Habib, A and Stiller, J and Zhou, M and Liu, C
Keywords: barley, crown rot, Fusarium crown rot, QTL validation, near-isogenic line, RNA-seq, transcriptome
Journal or Publication Title: BMC Genomics
Publisher: Biomed Central Ltd
ISSN: 1471-2164
DOI / ID Number: 10.1186/s12864-019-6011-8
Copyright Information:

Copyright 2019 The Authors. Licensed under Creative Commons Attribution 4.0 International (CC BY 4.0) https://creativecommons.org/licenses/by/4.0/

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