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Elemental Accumulation in Kernels of the Maize Nested Association Mapping Panel Reveals Signals of Gene by Environment Interactions

View ORCID ProfileGreg Ziegler, Philip J. Kear, Di Wu, Catherine Ziyomo, View ORCID ProfileAlexander E. Lipka, View ORCID ProfileMichael Gore, View ORCID ProfileOwen Hoekenga, Ivan Baxter
doi: https://doi.org/10.1101/164962
Greg Ziegler
1USDA-ARS, Donald Danforth Plant Science Center, St Louis, MO 63132
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  • ORCID record for Greg Ziegler
Philip J. Kear
2Plant Breeding and Genetics Section, School of Integrated Plant Science, Cornell University, Ithaca, NY 14853
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Di Wu
2Plant Breeding and Genetics Section, School of Integrated Plant Science, Cornell University, Ithaca, NY 14853
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Catherine Ziyomo
3Donald Danforth Plant Science Center, St Louis, MO 63132
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Alexander E. Lipka
4Departmemt of Crop Sciences, University of Illinois, IL 61801
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Michael Gore
2Plant Breeding and Genetics Section, School of Integrated Plant Science, Cornell University, Ithaca, NY 14853
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Owen Hoekenga
4Departmemt of Crop Sciences, University of Illinois, IL 61801
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Ivan Baxter
1USDA-ARS, Donald Danforth Plant Science Center, St Louis, MO 63132
3Donald Danforth Plant Science Center, St Louis, MO 63132
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  • For correspondence: ivan.baxter@ars.usda.gov
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Abstract

Elemental accumulation in seeds is the product of a combination of environment and a wide variety of genetically controlled physiological processes. We measured the kernel elemental composition of the Nested Association Mapping (NAM) of maize (Zea mays L.) grown in 4 different environments. Analysis of variance revealed strong effects of genotype, environment and genotype by environment interactions. Using Joint-linkage mapping on a set of 7000 markers we identified 354 quantitative trait loci (QTL) across 20 elements, four environments and a combination of the environments. Leveraging 20 M SNPs derived from genome resequencing on the parents of the population, genome-wide association mapping studies (GWAS) detected 8573 loci. While most of the GWAS SNPs were located near genes not previously implicated in elemental regulation, several SNPs were located next to orthologs of well-characterized elemental regulation genes.

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Posted July 20, 2017.
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Elemental Accumulation in Kernels of the Maize Nested Association Mapping Panel Reveals Signals of Gene by Environment Interactions
Greg Ziegler, Philip J. Kear, Di Wu, Catherine Ziyomo, Alexander E. Lipka, Michael Gore, Owen Hoekenga, Ivan Baxter
bioRxiv 164962; doi: https://doi.org/10.1101/164962
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Elemental Accumulation in Kernels of the Maize Nested Association Mapping Panel Reveals Signals of Gene by Environment Interactions
Greg Ziegler, Philip J. Kear, Di Wu, Catherine Ziyomo, Alexander E. Lipka, Michael Gore, Owen Hoekenga, Ivan Baxter
bioRxiv 164962; doi: https://doi.org/10.1101/164962

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