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Genome-wide association study of quality traits and starch pasting properties of maize kernels

BACKGROUND: Starch are the main nutritional components of maize (Zea mays L.), and starch pasting properties are widely used as essential indicators for quality estimation. Based on the previous studies, various genes related to pasting properties have been identified in maize. However, the loci und...

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Autores principales: Guo, Xinmei, Ge, Zhaopeng, Wang, Ming, Zhao, Meiai, Pei, Yuhe, Song, Xiyun
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9893588/
https://www.ncbi.nlm.nih.gov/pubmed/36732681
http://dx.doi.org/10.1186/s12864-022-09031-4
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author Guo, Xinmei
Ge, Zhaopeng
Wang, Ming
Zhao, Meiai
Pei, Yuhe
Song, Xiyun
author_facet Guo, Xinmei
Ge, Zhaopeng
Wang, Ming
Zhao, Meiai
Pei, Yuhe
Song, Xiyun
author_sort Guo, Xinmei
collection PubMed
description BACKGROUND: Starch are the main nutritional components of maize (Zea mays L.), and starch pasting properties are widely used as essential indicators for quality estimation. Based on the previous studies, various genes related to pasting properties have been identified in maize. However, the loci underlying variations in starch pasting properties in maize inbred lines remain to be identified. RESULTS: To investigate the genetic architecture of these traits, the starch pasting properties were examined based on 292 maize inbred lines, which were genotyped with the MaizeSNP50 BeadChip composed of 55,126 evenly spaced, random SNPs. A genome-wide association study (GWAS) implemented in the software package FarmCPU was employed to identify genomic loci for the starch pasting properties. 48 SNPs were found to be associated with pasting properties. Moreover, 37 candidate genes were correlated with pasting properties. Among the candidate genes, GRMZM2G143646 and GRMZM2G166407 were associated with breakdown and final viscosity significantly, and both genes encode PPR (Pentatricopeptide repeat) protein. We used GWAS to explore candidate genes of maize starch pasting properties in this study. The identified candidate genes will be useful for further understanding of the genetic architecture of starch pasting properties in maize. CONCLUSION: This study showed a complex regulation network about maize quality trait and starch pasting properties. It may provide some useful markers for marker assisted selection and a basis for cloning the genes behind these SNPs.
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spelling pubmed-98935882023-02-03 Genome-wide association study of quality traits and starch pasting properties of maize kernels Guo, Xinmei Ge, Zhaopeng Wang, Ming Zhao, Meiai Pei, Yuhe Song, Xiyun BMC Genomics Research BACKGROUND: Starch are the main nutritional components of maize (Zea mays L.), and starch pasting properties are widely used as essential indicators for quality estimation. Based on the previous studies, various genes related to pasting properties have been identified in maize. However, the loci underlying variations in starch pasting properties in maize inbred lines remain to be identified. RESULTS: To investigate the genetic architecture of these traits, the starch pasting properties were examined based on 292 maize inbred lines, which were genotyped with the MaizeSNP50 BeadChip composed of 55,126 evenly spaced, random SNPs. A genome-wide association study (GWAS) implemented in the software package FarmCPU was employed to identify genomic loci for the starch pasting properties. 48 SNPs were found to be associated with pasting properties. Moreover, 37 candidate genes were correlated with pasting properties. Among the candidate genes, GRMZM2G143646 and GRMZM2G166407 were associated with breakdown and final viscosity significantly, and both genes encode PPR (Pentatricopeptide repeat) protein. We used GWAS to explore candidate genes of maize starch pasting properties in this study. The identified candidate genes will be useful for further understanding of the genetic architecture of starch pasting properties in maize. CONCLUSION: This study showed a complex regulation network about maize quality trait and starch pasting properties. It may provide some useful markers for marker assisted selection and a basis for cloning the genes behind these SNPs. BioMed Central 2023-02-02 /pmc/articles/PMC9893588/ /pubmed/36732681 http://dx.doi.org/10.1186/s12864-022-09031-4 Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
spellingShingle Research
Guo, Xinmei
Ge, Zhaopeng
Wang, Ming
Zhao, Meiai
Pei, Yuhe
Song, Xiyun
Genome-wide association study of quality traits and starch pasting properties of maize kernels
title Genome-wide association study of quality traits and starch pasting properties of maize kernels
title_full Genome-wide association study of quality traits and starch pasting properties of maize kernels
title_fullStr Genome-wide association study of quality traits and starch pasting properties of maize kernels
title_full_unstemmed Genome-wide association study of quality traits and starch pasting properties of maize kernels
title_short Genome-wide association study of quality traits and starch pasting properties of maize kernels
title_sort genome-wide association study of quality traits and starch pasting properties of maize kernels
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9893588/
https://www.ncbi.nlm.nih.gov/pubmed/36732681
http://dx.doi.org/10.1186/s12864-022-09031-4
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