Identification of QTN and candidate genes for Salinity Tolerance at the Germination and Seedling Stages in Rice by Genome-Wide Association Analyses

Abstract To facilitate developing rice varieties tolerant to salt stress, a panel of 208 rice mini-core accessions collected from 25 countries were evaluated for 13 traits associated with salt tolerance (ST) at the germination and seedling stages. The rice panel showed tremendous variation for all m...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Shahzad Amir Naveed, Fan Zhang, Jian Zhang, Tian-Qing Zheng, Li-Jun Meng, Yun-Long Pang, Jian-Long Xu, Zhi-Kang Li
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2018
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/abb4a5e3db5f48598ba033b639949141
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:abb4a5e3db5f48598ba033b639949141
record_format	dspace
spelling	oai:doaj.org-article:abb4a5e3db5f48598ba033b6399491412021-12-02T15:09:05ZIdentification of QTN and candidate genes for Salinity Tolerance at the Germination and Seedling Stages in Rice by Genome-Wide Association Analyses10.1038/s41598-018-24946-32045-2322https://doaj.org/article/abb4a5e3db5f48598ba033b6399491412018-04-01T00:00:00Zhttps://doi.org/10.1038/s41598-018-24946-3https://doaj.org/toc/2045-2322Abstract To facilitate developing rice varieties tolerant to salt stress, a panel of 208 rice mini-core accessions collected from 25 countries were evaluated for 13 traits associated with salt tolerance (ST) at the germination and seedling stages. The rice panel showed tremendous variation for all measured ST traits and eight accessions showing high levels of ST at either and/or both the germination and seedling stages. Using 395,553 SNP markers covering ~372 Mb of the rice genome and multi-locus mixed linear models, 20 QTN associated with 11 ST traits were identified by GWAS, including 6 QTN affecting ST at the germination stage and 14 QTN for ST at the seedling stage. The integration of bioinformatic with haplotype analyses for the ST QTN lets us identify 22 candidate genes for nine important ST QTN (qGR3, qSNK1, qSNK12, qSNC1, qSNC6, qRNK2, qSDW9a, qSST5 and qSST9). These candidate genes included three known ST genes (SKC1, OsTZF1 and OsEATB) for QTN qSNK1 qSST5 and qSST9. Candidate genes showed significant phenotypic differences in ST traits were detected between or among 2–4 major haplotypes. Thus, our results provided useful materials and genetic information for improving rice ST in future breeding and for molecular dissection of ST in rice.Shahzad Amir NaveedFan ZhangJian ZhangTian-Qing ZhengLi-Jun MengYun-Long PangJian-Long XuZhi-Kang LiNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 8, Iss 1, Pp 1-11 (2018)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Shahzad Amir Naveed Fan Zhang Jian Zhang Tian-Qing Zheng Li-Jun Meng Yun-Long Pang Jian-Long Xu Zhi-Kang Li Identification of QTN and candidate genes for Salinity Tolerance at the Germination and Seedling Stages in Rice by Genome-Wide Association Analyses
description	Abstract To facilitate developing rice varieties tolerant to salt stress, a panel of 208 rice mini-core accessions collected from 25 countries were evaluated for 13 traits associated with salt tolerance (ST) at the germination and seedling stages. The rice panel showed tremendous variation for all measured ST traits and eight accessions showing high levels of ST at either and/or both the germination and seedling stages. Using 395,553 SNP markers covering ~372 Mb of the rice genome and multi-locus mixed linear models, 20 QTN associated with 11 ST traits were identified by GWAS, including 6 QTN affecting ST at the germination stage and 14 QTN for ST at the seedling stage. The integration of bioinformatic with haplotype analyses for the ST QTN lets us identify 22 candidate genes for nine important ST QTN (qGR3, qSNK1, qSNK12, qSNC1, qSNC6, qRNK2, qSDW9a, qSST5 and qSST9). These candidate genes included three known ST genes (SKC1, OsTZF1 and OsEATB) for QTN qSNK1 qSST5 and qSST9. Candidate genes showed significant phenotypic differences in ST traits were detected between or among 2–4 major haplotypes. Thus, our results provided useful materials and genetic information for improving rice ST in future breeding and for molecular dissection of ST in rice.
format	article
author	Shahzad Amir Naveed Fan Zhang Jian Zhang Tian-Qing Zheng Li-Jun Meng Yun-Long Pang Jian-Long Xu Zhi-Kang Li
author_facet	Shahzad Amir Naveed Fan Zhang Jian Zhang Tian-Qing Zheng Li-Jun Meng Yun-Long Pang Jian-Long Xu Zhi-Kang Li
author_sort	Shahzad Amir Naveed
title	Identification of QTN and candidate genes for Salinity Tolerance at the Germination and Seedling Stages in Rice by Genome-Wide Association Analyses
title_short	Identification of QTN and candidate genes for Salinity Tolerance at the Germination and Seedling Stages in Rice by Genome-Wide Association Analyses
title_full	Identification of QTN and candidate genes for Salinity Tolerance at the Germination and Seedling Stages in Rice by Genome-Wide Association Analyses
title_fullStr	Identification of QTN and candidate genes for Salinity Tolerance at the Germination and Seedling Stages in Rice by Genome-Wide Association Analyses
title_full_unstemmed	Identification of QTN and candidate genes for Salinity Tolerance at the Germination and Seedling Stages in Rice by Genome-Wide Association Analyses
title_sort	identification of qtn and candidate genes for salinity tolerance at the germination and seedling stages in rice by genome-wide association analyses
publisher	Nature Portfolio
publishDate	2018
url	https://doaj.org/article/abb4a5e3db5f48598ba033b639949141
work_keys_str_mv	AT shahzadamirnaveed identificationofqtnandcandidategenesforsalinitytoleranceatthegerminationandseedlingstagesinricebygenomewideassociationanalyses AT fanzhang identificationofqtnandcandidategenesforsalinitytoleranceatthegerminationandseedlingstagesinricebygenomewideassociationanalyses AT jianzhang identificationofqtnandcandidategenesforsalinitytoleranceatthegerminationandseedlingstagesinricebygenomewideassociationanalyses AT tianqingzheng identificationofqtnandcandidategenesforsalinitytoleranceatthegerminationandseedlingstagesinricebygenomewideassociationanalyses AT lijunmeng identificationofqtnandcandidategenesforsalinitytoleranceatthegerminationandseedlingstagesinricebygenomewideassociationanalyses AT yunlongpang identificationofqtnandcandidategenesforsalinitytoleranceatthegerminationandseedlingstagesinricebygenomewideassociationanalyses AT jianlongxu identificationofqtnandcandidategenesforsalinitytoleranceatthegerminationandseedlingstagesinricebygenomewideassociationanalyses AT zhikangli identificationofqtnandcandidategenesforsalinitytoleranceatthegerminationandseedlingstagesinricebygenomewideassociationanalyses
_version_	1718387957982822400

Identification of QTN and candidate genes for Salinity Tolerance at the Germination and Seedling Stages in Rice by Genome-Wide Association Analyses

Ejemplares similares