Genetic interrogation of phenotypic plasticity informs genome-enabled breeding in cotton

Yuefan Huang; Zhengyang Qi; Jianying Li; Jiaqi You; Xianlong Zhang; Maojun Wang

doi:10.1016/j.jgg.2023.05.004

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Genetic interrogation of phenotypic plasticity informs genome-enabled breeding in cotton

doi: 10.1016/j.jgg.2023.05.004

National Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural University, Wuhan, Hubei 430070, China

Funds: This study was supported by the National Key Research and Development Program of China (2021YFF1000900) and the National Natural Science Foundation of China (32170645). This study was also supported by the Foundation of Hubei Hongshan Laboratory (2021hszd014). We thank the high-performance computing platform at National Key Laboratory of Crop Genetic Improvement in Huazhong Agricultural University.

Received Date: 2023-02-20
Accepted Date: 2023-05-04
Rev Recd Date: 2023-04-19

Available Online: 2023-05-19

Abstract

Abstract

Phenotypic plasticity, or the ability to adapt to and thrive in changing climates and variable environments, is essential for developmental programs in plants. Despite its importance, the genetic underpinnings of phenotypic plasticity for key agronomic traits remain poorly understood in many crops. In this study, we aimed to fill this gap by using genome-wide association study (GWAS) to identify genetic variations associated with phenotypic plasticity in upland cotton (Gossypium hirsutum L.). We identified 73 additive QTLs, 32 dominant QTLs and 6799 epistatic QTLs associated with 20 traits. We also identified 117 additive QTLs, 28 dominant QTLs and 4691 epistatic QTLs associated with phenotypic plasticity in 19 traits. Our findings reveal new genetic factors, including additive, dominant, and epistatic QTLs, that are linked to phenotypic plasticity and agronomic traits. Meanwhile, we find that the genetic factors controlling the mean phenotype and phenotypic plasticity are largely independent in upland cotton, indicating the potential for simultaneous improvement. Additionally, we envision a genomic design strategy by utilizing the identified QTLs to facilitate cotton breeding. Taken together, our study provides new insights into the genetic basis of phenotypic plasticity in cotton, which should be valuable for future breeding.
- cotton,
- phenotype plasticity,
- genotype-environment interaction,
- genomic selection,
- genome-wide association study

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References

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