Enhancing Crop Resilience: GWAS and Gene-by-Environment Interaction

A special issue of Agronomy (ISSN 2073-4395). This special issue belongs to the section "Crop Breeding and Genetics".

Deadline for manuscript submissions: 25 May 2025 | Viewed by 422

Special Issue Editors


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Guest Editor
College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
Interests: genome-wide association studies; QTL mapping; comparative genomics and bioinformatics; bulked segregant analysis
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Guest Editor
Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
Interests: quantitative methodology; genomics assisted breeding; cancer bioinformatics
Special Issues, Collections and Topics in MDPI journals
Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
Interests: genomic selection; genome-wide association studies; QTL mapping
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

Since the establishment of genome-wide association studies (GWAS) in 1996, GWAS have focused on detecting genes for binary, categorical and quantitative traits in animal, plant and human genetics. However, as climate change intensifies, attention is turning to the identification of gene-by-environment interactions (GEIs) for these traits, such as phenotypic plasticity. Recent advances in GWAS methodologies, such as the establishment of the compressed variance component mixed model method for identifying GEIs and deciphering phenotypic plasticity, are opening up new opportunities for improving crop resilience.

This Special Issue focuses on recent advances in “Enhancing Crop Resilience: GWAS and Gene-by-Environment Interaction”. We welcome new research and reviews covering all related topics, including new methods and software packages, and their development and application in crop breeding: gene-by-environment interaction, phenotypic plasticity, linkage mapping, GWAS, marker-assisted selection, fine mapping, and genomic selection. This issue will provide a good picture of the state-of-the-art and potential future of gene-by-environment interactions

Dr. Yuan-Ming Zhang
Dr. Zhenyu (Arthur) Jia
Dr. Shibo Wang
Guest Editors

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Keywords

  • gene-by-environment interactions
  • phenotypic plasticity
  • linkage mapping
  • GWAS
  • fine mapping
  • genomic selection
  • marker assisted selection
  • genomics breeding

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Published Papers (1 paper)

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Research

17 pages, 15369 KiB  
Article
Phenotypic Plasticity of Maize Flowering Time and Plant Height Using the Interactions Between QTNs and Meteorological Factors
by Xuelian Han, Yan Luo, Guoping Shu, Aifang Wang, Yibo Wang and Yuanming Zhang
Agronomy 2025, 15(5), 1078; https://doi.org/10.3390/agronomy15051078 - 29 Apr 2025
Abstract
Although phenotypic plasticity facilitates the understanding of trait variation, its study remains limited. To study phenotypic plasticity, in this study, 203 inbred maize lines were phenotyped for flowering time and plant height in Zhengzhou, Ningjin, Tieling, and Binxian and genotyped with 121,871 high-quality [...] Read more.
Although phenotypic plasticity facilitates the understanding of trait variation, its study remains limited. To study phenotypic plasticity, in this study, 203 inbred maize lines were phenotyped for flowering time and plant height in Zhengzhou, Ningjin, Tieling, and Binxian and genotyped with 121,871 high-quality SNPs. The regression slopes and intercepts of flowering time and plant height on four meteorological factors in their corresponding, most significant correlation windows were used to estimate the phenotypic plasticity of the above traits and to further indirectly detect the interactions between quantitative trait nucleotides and meteorological factors. Of the two known and seven candidate genes identified in this study, ZmCCT, GRMZM2G035417, GRMZM2G069651, and GRMZM2G359322 can be used to explain why spring maize has a longer flowering time than summer maize, as these genes delay pollen development and flowering regulators under long day and low temperature; while ZmPIN1b, GRMZM2G062045, GRMZM2G370777, GRMZM2G077752, and GRMZM2G126397 can be used to explain why Tieling has higher plant height than other regions, as these genes enhance auxin transport and suppress dwarfing genes under increased precipitation and low temperature. This study explains the phenotypic plasticity of these traits. Full article
(This article belongs to the Special Issue Enhancing Crop Resilience: GWAS and Gene-by-Environment Interaction)
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