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Genome-wide association study of physical and microstructure-related traits in peanut shell

Published online by Cambridge University Press:  08 October 2021

Kailu Cui Open the ORCID record for Kailu Cui [Opens in a new window] ,
Feiyan Qi ,
Ziqi Sun ,
Jingjing Feng ,
Bingyan Huang ,
Wenzhao Dong  and
Xinyou Zhang
Kailu Cui
Affiliation:
School of Life Sciences, Zhengzhou University, Zhengzhou 450001, Henan, China
Feiyan Qi
Affiliation:
Henan Academy of Crops Molecular Breeding/Key Laboratory of Oil Crops in Huang-Huai-Hai Planis, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou 450002, Henan, China
Ziqi Sun
Affiliation:
Henan Academy of Crops Molecular Breeding/Key Laboratory of Oil Crops in Huang-Huai-Hai Planis, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou 450002, Henan, China
Jingjing Feng
Affiliation:
Henan Academy of Crops Molecular Breeding/Key Laboratory of Oil Crops in Huang-Huai-Hai Planis, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou 450002, Henan, China
Bingyan Huang
Affiliation:
Henan Academy of Crops Molecular Breeding/Key Laboratory of Oil Crops in Huang-Huai-Hai Planis, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou 450002, Henan, China
Wenzhao Dong*
Affiliation:
Henan Academy of Crops Molecular Breeding/Key Laboratory of Oil Crops in Huang-Huai-Hai Planis, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou 450002, Henan, China
Xinyou Zhang*
Affiliation:
School of Life Sciences, Zhengzhou University, Zhengzhou 450001, Henan, China Henan Academy of Crops Molecular Breeding/Key Laboratory of Oil Crops in Huang-Huai-Hai Planis, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou 450002, Henan, China
*
Author for correspondence: Xinyou Zhang, E-mail: [email protected]; Wenzhao Dong, E-mail: [email protected]
Author for correspondence: Xinyou Zhang, E-mail: [email protected]; Wenzhao Dong, E-mail: [email protected]
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Abstract

Peanut shell plays key roles in protecting the seed from diseases and pest infestation but also in the processing of peanut and is an important byproduct of peanut production. Most studies on peanut shell have focused on the utilization of its chemical applications, but the genetic basis of shell-related traits is largely unknown. A panel of 320 peanut (Arachis hypogaea) accessions including var. hypogaea, var. vulgaris, var. fastigiata and var. hirsuta was used to study the genetic basis of two physical and five microstructure-related traits in peanut shell. Significant phenotypic differences were revealed among the accessions of var. hypogaea, var. hirsuta, var. vulgaris and var. fastigiata for mechanical strength, thickness, three sclerenchymatous layer projections and main cell shape of the sclerenchymatous layer. We identified 10 significant single nucleotide polymorphisms (SNPs) through genome-wide association study (P < 5.0 × 10−6) combining the shell-related traits and high-quality SNPs. In total, 192 genes were located in physical proximity to the significantly associated SNPs, and 11 candidate genes were predicted related to their potential contribution to the development and structure of the peanut shell. All SNPs were detected on the B genome demonstrating the biased contribution of the B genome for the phenotypical make-up of peanut. Exploring the newly identified candidate genes will provide insight into the molecular pathways that regulate peanut shell-related traits and provide valuable information for molecular marker-assisted breeding of an improved peanut shell.

Keywords

Candidate genesgenotyping-by-sequencingGWASpeanut shellSNPs
Type
Research Article
Information
Plant Genetic Resources , Volume 19 , Issue 5 , October 2021 , pp. 394 - 404
Copyright
Copyright © The Author(s), 2021. Published by Cambridge University Press on behalf of NIAB

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Footnotes

*

These authors contributed equally to this work.

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