Identification, Analysis, and Confirmation of Seed Storability-Related Loci in Dongxiang Wild Rice (<i>Oryza rufipogon</i> Griff.)

Dongxiang wild rice (<i>Oryza rufipogon</i> Griff.) (DXWR) has strong seed storability and identifying its elite gene resources may facilitate genetic improvements in rice seed storability. In this study, we developed two backcross inbred lines (BILs) populations, with DXWR as a common d...

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Autores principales:	Minmin Zhao, Biaolin Hu, Yuanwei Fan, Gumu Ding, Wanling Yang, Yong Chen, Yanhong Chen, Jiankun Xie, Fantao Zhang
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	wild rice seed storability BSA-seq genetic resource rice improvement Genetics QH426-470
Acceso en línea:	https://doaj.org/article/e2bf95facb814cd184df300df7303a6d
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spelling	oai:doaj.org-article:e2bf95facb814cd184df300df7303a6d2021-11-25T17:42:30ZIdentification, Analysis, and Confirmation of Seed Storability-Related Loci in Dongxiang Wild Rice (<i>Oryza rufipogon</i> Griff.)10.3390/genes121118312073-4425https://doaj.org/article/e2bf95facb814cd184df300df7303a6d2021-11-01T00:00:00Zhttps://www.mdpi.com/2073-4425/12/11/1831https://doaj.org/toc/2073-4425Dongxiang wild rice (<i>Oryza rufipogon</i> Griff.) (DXWR) has strong seed storability and identifying its elite gene resources may facilitate genetic improvements in rice seed storability. In this study, we developed two backcross inbred lines (BILs) populations, with DXWR as a common donor parent and two rice varieties (F6 and R974) as recipient parents. Bulked segregant analysis via whole genome sequencing (BSA-seq) was used to identify seed storability-related loci in the DXWR and F6 population. Two main genomic regions containing 18,550,000–20,870,000 bp on chromosome 4 and 7,860,000–9,780,000 bp on chromosome 9 were identified as candidate loci of DXWR seed storability; these overlapped partially with seed storability-related quantitative trait loci (QTLs) discovered in previous studies, suggesting that these loci may provide important regions for isolating the responsible genes. In total, 448 annotated genes were predicted within the identified regions, of which 274 and 82 had nonsynonymous and frameshift mutations, respectively. We detected extensive metabolic activities and cellular processes during seed storability and confirmed the effects of the seed storability-related candidate loci using four BILs from DXWR and R974. These results may facilitate the cloning of DXWR seed storability-related genes, thereby elucidating rice seed storability and its improvement potential.Minmin ZhaoBiaolin HuYuanwei FanGumu DingWanling YangYong ChenYanhong ChenJiankun XieFantao ZhangMDPI AGarticlewild riceseed storabilityBSA-seqgenetic resourcerice improvementGeneticsQH426-470ENGenes, Vol 12, Iss 1831, p 1831 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	wild rice seed storability BSA-seq genetic resource rice improvement Genetics QH426-470
spellingShingle	wild rice seed storability BSA-seq genetic resource rice improvement Genetics QH426-470 Minmin Zhao Biaolin Hu Yuanwei Fan Gumu Ding Wanling Yang Yong Chen Yanhong Chen Jiankun Xie Fantao Zhang Identification, Analysis, and Confirmation of Seed Storability-Related Loci in Dongxiang Wild Rice (<i>Oryza rufipogon</i> Griff.)
description	Dongxiang wild rice (<i>Oryza rufipogon</i> Griff.) (DXWR) has strong seed storability and identifying its elite gene resources may facilitate genetic improvements in rice seed storability. In this study, we developed two backcross inbred lines (BILs) populations, with DXWR as a common donor parent and two rice varieties (F6 and R974) as recipient parents. Bulked segregant analysis via whole genome sequencing (BSA-seq) was used to identify seed storability-related loci in the DXWR and F6 population. Two main genomic regions containing 18,550,000–20,870,000 bp on chromosome 4 and 7,860,000–9,780,000 bp on chromosome 9 were identified as candidate loci of DXWR seed storability; these overlapped partially with seed storability-related quantitative trait loci (QTLs) discovered in previous studies, suggesting that these loci may provide important regions for isolating the responsible genes. In total, 448 annotated genes were predicted within the identified regions, of which 274 and 82 had nonsynonymous and frameshift mutations, respectively. We detected extensive metabolic activities and cellular processes during seed storability and confirmed the effects of the seed storability-related candidate loci using four BILs from DXWR and R974. These results may facilitate the cloning of DXWR seed storability-related genes, thereby elucidating rice seed storability and its improvement potential.
format	article
author	Minmin Zhao Biaolin Hu Yuanwei Fan Gumu Ding Wanling Yang Yong Chen Yanhong Chen Jiankun Xie Fantao Zhang
author_facet	Minmin Zhao Biaolin Hu Yuanwei Fan Gumu Ding Wanling Yang Yong Chen Yanhong Chen Jiankun Xie Fantao Zhang
author_sort	Minmin Zhao
title	Identification, Analysis, and Confirmation of Seed Storability-Related Loci in Dongxiang Wild Rice (<i>Oryza rufipogon</i> Griff.)
title_short	Identification, Analysis, and Confirmation of Seed Storability-Related Loci in Dongxiang Wild Rice (<i>Oryza rufipogon</i> Griff.)
title_full	Identification, Analysis, and Confirmation of Seed Storability-Related Loci in Dongxiang Wild Rice (<i>Oryza rufipogon</i> Griff.)
title_fullStr	Identification, Analysis, and Confirmation of Seed Storability-Related Loci in Dongxiang Wild Rice (<i>Oryza rufipogon</i> Griff.)
title_full_unstemmed	Identification, Analysis, and Confirmation of Seed Storability-Related Loci in Dongxiang Wild Rice (<i>Oryza rufipogon</i> Griff.)
title_sort	identification, analysis, and confirmation of seed storability-related loci in dongxiang wild rice (<i>oryza rufipogon</i> griff.)
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/e2bf95facb814cd184df300df7303a6d
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Identification, Analysis, and Confirmation of Seed Storability-Related Loci in Dongxiang Wild Rice (<i>Oryza rufipogon</i> Griff.)

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