Genome-wide association study and transcriptome analysis dissect the genetic control of silique length in Brassica napus L.

Abstract Background Rapeseed is the third-largest oilseed crop after soybeans and palm that produces vegetable oil for human consumption and biofuel for industrial production. Silique length (SL) is an important trait that is strongly related to seed yield in rapeseed. Although many studies related...

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Autores principales:	Jia Wang, Yueling Fan, Lin Mao, Cunmin Qu, Kun Lu, Jiana Li, Liezhao Liu
Formato:	article
Lenguaje:	EN
Publicado:	BMC 2021
Materias:	Brassica napus Silique length QTL GWAS WGCNA Meta-GWAS Fuel TP315-360 Biotechnology TP248.13-248.65
Acceso en línea:	https://doaj.org/article/92fccfa1bafe46a6956e39260416653f
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spelling	oai:doaj.org-article:92fccfa1bafe46a6956e39260416653f2021-11-14T12:24:55ZGenome-wide association study and transcriptome analysis dissect the genetic control of silique length in Brassica napus L.10.1186/s13068-021-02064-z1754-6834https://doaj.org/article/92fccfa1bafe46a6956e39260416653f2021-11-01T00:00:00Zhttps://doi.org/10.1186/s13068-021-02064-zhttps://doaj.org/toc/1754-6834Abstract Background Rapeseed is the third-largest oilseed crop after soybeans and palm that produces vegetable oil for human consumption and biofuel for industrial production. Silique length (SL) is an important trait that is strongly related to seed yield in rapeseed. Although many studies related to SL have been reported in rapeseed, only a few candidate genes have been found and cloned, and the genetic mechanisms regulating SL in rapeseed remain unclear. Here, we dissected the genetic basis of SL by genome-wide association studies (GWAS) combined with transcriptome analysis. Results We identified quantitative trait locus (QTL) for SL using a recombinant inbred line (RIL) population and two independent GWAS populations. Major QTLs on chromosomes A07, A09, and C08 were stably detected in all environments from all populations. Several candidate genes related to starch and sucrose metabolism, plant hormone signal transmission and phenylpropanoid biosynthesis were detected in the main QTL intervals, such as BnaA9.CP12-2, BnaA9.NST2, BnaA7.MYB63, and BnaA7.ARF17. In addition, the results of RNA-seq and weighted gene co-expression network analysis (WGCNA) showed that starch and sucrose metabolism, photosynthesis, and secondary cell wall biosynthesis play an important role in the development of siliques. Conclusions We propose that photosynthesis, sucrose and starch metabolism, plant hormones, and lignin content play important roles in the development of rapeseed siliques.Jia WangYueling FanLin MaoCunmin QuKun LuJiana LiLiezhao LiuBMCarticleBrassica napusSilique lengthQTLGWASWGCNAMeta-GWASFuelTP315-360BiotechnologyTP248.13-248.65ENBiotechnology for Biofuels, Vol 14, Iss 1, Pp 1-14 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Brassica napus Silique length QTL GWAS WGCNA Meta-GWAS Fuel TP315-360 Biotechnology TP248.13-248.65
spellingShingle	Brassica napus Silique length QTL GWAS WGCNA Meta-GWAS Fuel TP315-360 Biotechnology TP248.13-248.65 Jia Wang Yueling Fan Lin Mao Cunmin Qu Kun Lu Jiana Li Liezhao Liu Genome-wide association study and transcriptome analysis dissect the genetic control of silique length in Brassica napus L.
description	Abstract Background Rapeseed is the third-largest oilseed crop after soybeans and palm that produces vegetable oil for human consumption and biofuel for industrial production. Silique length (SL) is an important trait that is strongly related to seed yield in rapeseed. Although many studies related to SL have been reported in rapeseed, only a few candidate genes have been found and cloned, and the genetic mechanisms regulating SL in rapeseed remain unclear. Here, we dissected the genetic basis of SL by genome-wide association studies (GWAS) combined with transcriptome analysis. Results We identified quantitative trait locus (QTL) for SL using a recombinant inbred line (RIL) population and two independent GWAS populations. Major QTLs on chromosomes A07, A09, and C08 were stably detected in all environments from all populations. Several candidate genes related to starch and sucrose metabolism, plant hormone signal transmission and phenylpropanoid biosynthesis were detected in the main QTL intervals, such as BnaA9.CP12-2, BnaA9.NST2, BnaA7.MYB63, and BnaA7.ARF17. In addition, the results of RNA-seq and weighted gene co-expression network analysis (WGCNA) showed that starch and sucrose metabolism, photosynthesis, and secondary cell wall biosynthesis play an important role in the development of siliques. Conclusions We propose that photosynthesis, sucrose and starch metabolism, plant hormones, and lignin content play important roles in the development of rapeseed siliques.
format	article
author	Jia Wang Yueling Fan Lin Mao Cunmin Qu Kun Lu Jiana Li Liezhao Liu
author_facet	Jia Wang Yueling Fan Lin Mao Cunmin Qu Kun Lu Jiana Li Liezhao Liu
author_sort	Jia Wang
title	Genome-wide association study and transcriptome analysis dissect the genetic control of silique length in Brassica napus L.
title_short	Genome-wide association study and transcriptome analysis dissect the genetic control of silique length in Brassica napus L.
title_full	Genome-wide association study and transcriptome analysis dissect the genetic control of silique length in Brassica napus L.
title_fullStr	Genome-wide association study and transcriptome analysis dissect the genetic control of silique length in Brassica napus L.
title_full_unstemmed	Genome-wide association study and transcriptome analysis dissect the genetic control of silique length in Brassica napus L.
title_sort	genome-wide association study and transcriptome analysis dissect the genetic control of silique length in brassica napus l.
publisher	BMC
publishDate	2021
url	https://doaj.org/article/92fccfa1bafe46a6956e39260416653f
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Genome-wide association study and transcriptome analysis dissect the genetic control of silique length in Brassica napus L.

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