Genome wide association analysis of sorghum mini core lines regarding anthracnose, downy mildew, and head smut

Ahn, E and Hu, Z and Perumal, R and Prom, L K and Odvody, G and Upadhyaya, H D and Magill, C (2019) Genome wide association analysis of sorghum mini core lines regarding anthracnose, downy mildew, and head smut. PLoS ONE (TSI), 14 (5). pp. 1-16. ISSN 1932-6203

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Abstract

In previous studies, a sorghum mini core collection was scored over several years for response to Colletotrichum sublineola, Peronosclerospora sorghi, and Sporisorium reilianum, the causal agents of the disease anthracnose, downy mildew, and head smut, respectively. The screening results were combined with over 290,000 Single nucleotide polymorphic (SNP) loci from an updated version of a publicly available genotype by sequencing (GBS) dataset available for the mini core collection. GAPIT (Genome Association and Prediction Integrated Tool) R package was used to identify chromosomal locations that differ in disease response. When the top scoring SNPs were mapped to the most recent version of the published sorghum genome, in each case, a nearby and most often the closest annotated gene has precedence for a role in host defense.

Item Type:	Article
Divisions:	Research Program : Genetic Gains
CRP:	UNSPECIFIED
Uncontrolled Keywords:	Sorghum, sorghum mini core collection, SNPs
Subjects:	Mandate crops > Sorghum Others > Genetics and Genomics Others > Germplasm
Depositing User:	Mr Ramesh K
Date Deposited:	21 Aug 2019 08:41
Last Modified:	21 Aug 2019 08:41
URI:	http://oar.icrisat.org/id/eprint/11262
Official URL:	https://doi.org/10.1371/journal.pone.0216671
Projects:	UNSPECIFIED
Funders:	UNSPECIFIED
Acknowledgement:	This work was supported by: USDA NIFA Project #1009370 (https://nifa.usda.gov) to CM; Global Crop Diversity Trust #GSP09GRD2 2.4 02 (https://www.croptrust.org) to CM & RP. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
Links:	Google Scholar

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