Genome-wide association studies in tropical maize germplasm reveal novel and known genomic regions for resistance to Northern corn leaf blight

Abstract Northern Corn Leaf Blight (NCLB) caused by Setosphaeria turcica, is one of the most important diseases of maize world-wide, and one of the major reasons behind yield losses in maize crop in Asia. In the present investigation, a high-resolution genome wide association study (GWAS) was conduc...

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Autores principales:	Zerka Rashid, Mehrajuddin Sofi, Sharanappa I. Harlapur, Rajashekhar M. Kachapur, Zahoor Ahmed Dar, Pradeep Kumar Singh, Pervez Haider Zaidi, Bindiganavile Sampath Vivek, Sudha Krishnan Nair
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2020
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/3f0a4492eb15418c95e30ffa5eb2e582
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spelling	oai:doaj.org-article:3f0a4492eb15418c95e30ffa5eb2e5822021-12-02T13:34:00ZGenome-wide association studies in tropical maize germplasm reveal novel and known genomic regions for resistance to Northern corn leaf blight10.1038/s41598-020-78928-52045-2322https://doaj.org/article/3f0a4492eb15418c95e30ffa5eb2e5822020-12-01T00:00:00Zhttps://doi.org/10.1038/s41598-020-78928-5https://doaj.org/toc/2045-2322Abstract Northern Corn Leaf Blight (NCLB) caused by Setosphaeria turcica, is one of the most important diseases of maize world-wide, and one of the major reasons behind yield losses in maize crop in Asia. In the present investigation, a high-resolution genome wide association study (GWAS) was conducted for NCLB resistance in three association mapping panels, predominantly consisting of tropical lines adapted to different agro-ecologies. These panels were phenotyped for disease severity across three locations with high disease prevalence in India. High density SNPs from Genotyping-by-sequencing were used in GWAS, after controlling for population structure and kinship matrices, based on single locus mixed linear model (MLM). Twenty-two SNPs were identified, that revealed a significant association with NCLB in the three mapping panels. Haplotype regression analysis revealed association of 17 significant haplotypes at FDR ≤ 0.05, with two common haplotypes across three maize panels. Several of the significantly associated SNPs/haplotypes were found to be co-located in chromosomal bins previously reported for major genes like Ht2, Ht3 and Htn1 and QTL for NCLB resistance and multiple foliar disease resistance. Phenotypic variance explained by these significant SNPs/haplotypes ranged from low to moderate, suggesting a breeding strategy of combining multiple resistance alleles towards resistance for NCLB.Zerka RashidMehrajuddin SofiSharanappa I. HarlapurRajashekhar M. KachapurZahoor Ahmed DarPradeep Kumar SinghPervez Haider ZaidiBindiganavile Sampath VivekSudha Krishnan NairNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 10, Iss 1, Pp 1-16 (2020)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Zerka Rashid Mehrajuddin Sofi Sharanappa I. Harlapur Rajashekhar M. Kachapur Zahoor Ahmed Dar Pradeep Kumar Singh Pervez Haider Zaidi Bindiganavile Sampath Vivek Sudha Krishnan Nair Genome-wide association studies in tropical maize germplasm reveal novel and known genomic regions for resistance to Northern corn leaf blight
description	Abstract Northern Corn Leaf Blight (NCLB) caused by Setosphaeria turcica, is one of the most important diseases of maize world-wide, and one of the major reasons behind yield losses in maize crop in Asia. In the present investigation, a high-resolution genome wide association study (GWAS) was conducted for NCLB resistance in three association mapping panels, predominantly consisting of tropical lines adapted to different agro-ecologies. These panels were phenotyped for disease severity across three locations with high disease prevalence in India. High density SNPs from Genotyping-by-sequencing were used in GWAS, after controlling for population structure and kinship matrices, based on single locus mixed linear model (MLM). Twenty-two SNPs were identified, that revealed a significant association with NCLB in the three mapping panels. Haplotype regression analysis revealed association of 17 significant haplotypes at FDR ≤ 0.05, with two common haplotypes across three maize panels. Several of the significantly associated SNPs/haplotypes were found to be co-located in chromosomal bins previously reported for major genes like Ht2, Ht3 and Htn1 and QTL for NCLB resistance and multiple foliar disease resistance. Phenotypic variance explained by these significant SNPs/haplotypes ranged from low to moderate, suggesting a breeding strategy of combining multiple resistance alleles towards resistance for NCLB.
format	article
author	Zerka Rashid Mehrajuddin Sofi Sharanappa I. Harlapur Rajashekhar M. Kachapur Zahoor Ahmed Dar Pradeep Kumar Singh Pervez Haider Zaidi Bindiganavile Sampath Vivek Sudha Krishnan Nair
author_facet	Zerka Rashid Mehrajuddin Sofi Sharanappa I. Harlapur Rajashekhar M. Kachapur Zahoor Ahmed Dar Pradeep Kumar Singh Pervez Haider Zaidi Bindiganavile Sampath Vivek Sudha Krishnan Nair
author_sort	Zerka Rashid
title	Genome-wide association studies in tropical maize germplasm reveal novel and known genomic regions for resistance to Northern corn leaf blight
title_short	Genome-wide association studies in tropical maize germplasm reveal novel and known genomic regions for resistance to Northern corn leaf blight
title_full	Genome-wide association studies in tropical maize germplasm reveal novel and known genomic regions for resistance to Northern corn leaf blight
title_fullStr	Genome-wide association studies in tropical maize germplasm reveal novel and known genomic regions for resistance to Northern corn leaf blight
title_full_unstemmed	Genome-wide association studies in tropical maize germplasm reveal novel and known genomic regions for resistance to Northern corn leaf blight
title_sort	genome-wide association studies in tropical maize germplasm reveal novel and known genomic regions for resistance to northern corn leaf blight
publisher	Nature Portfolio
publishDate	2020
url	https://doaj.org/article/3f0a4492eb15418c95e30ffa5eb2e582
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Genome-wide association studies in tropical maize germplasm reveal novel and known genomic regions for resistance to Northern corn leaf blight

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