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Genome wide association analysis of sorghum mini core lines regarding anthracnose, downy mildew, and head smut
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 combin...
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2019
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6516728/ https://www.ncbi.nlm.nih.gov/pubmed/31086384 http://dx.doi.org/10.1371/journal.pone.0216671 |
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author | Ahn, Ezekiel Hu, Zhenbin Perumal, Ramasamy Prom, Louis K. Odvody, Gary Upadhyaya, Hari D. Magill, Clint |
author_facet | Ahn, Ezekiel Hu, Zhenbin Perumal, Ramasamy Prom, Louis K. Odvody, Gary Upadhyaya, Hari D. Magill, Clint |
author_sort | Ahn, Ezekiel |
collection | PubMed |
description | 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. |
format | Online Article Text |
id | pubmed-6516728 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-65167282019-05-31 Genome wide association analysis of sorghum mini core lines regarding anthracnose, downy mildew, and head smut Ahn, Ezekiel Hu, Zhenbin Perumal, Ramasamy Prom, Louis K. Odvody, Gary Upadhyaya, Hari D. Magill, Clint PLoS One Research Article 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. Public Library of Science 2019-05-14 /pmc/articles/PMC6516728/ /pubmed/31086384 http://dx.doi.org/10.1371/journal.pone.0216671 Text en https://creativecommons.org/publicdomain/zero/1.0/ This is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 (https://creativecommons.org/publicdomain/zero/1.0/) public domain dedication. |
spellingShingle | Research Article Ahn, Ezekiel Hu, Zhenbin Perumal, Ramasamy Prom, Louis K. Odvody, Gary Upadhyaya, Hari D. Magill, Clint Genome wide association analysis of sorghum mini core lines regarding anthracnose, downy mildew, and head smut |
title | Genome wide association analysis of sorghum mini core lines regarding anthracnose, downy mildew, and head smut |
title_full | Genome wide association analysis of sorghum mini core lines regarding anthracnose, downy mildew, and head smut |
title_fullStr | Genome wide association analysis of sorghum mini core lines regarding anthracnose, downy mildew, and head smut |
title_full_unstemmed | Genome wide association analysis of sorghum mini core lines regarding anthracnose, downy mildew, and head smut |
title_short | Genome wide association analysis of sorghum mini core lines regarding anthracnose, downy mildew, and head smut |
title_sort | genome wide association analysis of sorghum mini core lines regarding anthracnose, downy mildew, and head smut |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6516728/ https://www.ncbi.nlm.nih.gov/pubmed/31086384 http://dx.doi.org/10.1371/journal.pone.0216671 |
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