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QTL mapping by whole genome re-sequencing and analysis of candidate genes for salt tolerance in linseed(Linum usitatissmum L.)

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Oil Crop Science 2022年第2期7卷 80-85页

作者： Wei Zhao Yanping Zhang Jianping Zhang Yanni Qi Limin Wang Zhao Dang Yaping Xie Wenjuan Li Li Zhao Crop Institute Gansu Academy of Agricultural SciencesLanzhou730070China Gansu Provincial Academy of Agricultural Sciences Institute of Biotechnology Lanzhou730070China

Soil salinization is detrimental to the growth and development of flax and ultimately leads to a decrease in yield.However,the molecular mechanism of linseed response to salt stress is still unclear.In this study,a salt-tolerant(ST)linseed variety STS and a salt-sensitive(SS)variety DYM were selected as experiment materials.Bulk segregation analysis and whole-genome resequencing technologies were performed to map salt tolerance quantitative trait loci(QTL).A total of 38,625 QTL loci were identified.Fifteen genes(which were not annotated in the reference genome)were identified within a 2.597 Mb region in chromosome 1.Two salt tolerance candidate genes Lus.***.m.scaffold91.141 and Lus.o.m.Scaffold1.14 encoding WD40 and cytochrome P450 were identified by predicting protein functions.Previous studies showed that WD40 and cytochrome P450 could significantly improve plant salt stress tolerance.In this paper,results showed that Lus.***.m.scaffold91.141 and Lus.o.m.Scaffold1.14 might be involved in response to salt stress in lineseed.The fine mapping and functional analysis of these genes provide a molecular breeding basis for the genetic improvement of high salt-tolerant linseed varieties.

关键词： Linseed Salt-tolerant whole-genome re-sequencing QTL Candidate genes

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Getting started in mapping-by-sequencing

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Journal of Integrative Plant Biology 2015年第7期57卷 606-612页

作者： Héctor Candela Rubén Casanova-Sáez José Luis Micol Instituto de Bioingeniería Universidad Miguel Hernández Department of Forest Genetics and Plant Physiology Umea Plant Science CenterSwedish University of Agricultural Sciences

Next-generation sequencing （NGS） technologies allow the cost-effective sequencing of whole genomes and have expanded the scope of genomics to novel applications, such as the genome-wide characterization of intraspecific polymorphisms and the rapid mapping and identification of point mutations. Next-generation sequencing platforms, such as the Illumina HiSeq2ooo platform, are now commercially available at affordable prices and routinely produce an enormous amount of sequence data, but their wide use is often hindered by a lack of knowledge on how to manipulateand process the information produced. In this review, we focus on the strategies that are available to geneticists who wish to incorporate these novel approaches into their research but who are not familiar with the necessary bioinformatic concepts and computational tools. In particular, we comprehensively summarize case studies where the use of NGS technologies has led to the identification of point mutations, a strategy that has been dubbed ＂mapping-by-sequencing＇, and review examples from plants and other model species such as Caenorhabditis elegans, Saccharomyces cerevisiae, and Drosophila mela- nogaster. As these technologies are becoming cheaper and more powerful, their use is also expanding to allow mutation identification in species with larger genomes, such as many crop plants.

关键词： Mapping-by-sequencing massively parallel sequencing mutation identification SHOremapping whole-genome re-sequencing

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