Insights into the Genetic Determination of the Autotetraploid Potato Plant Height

Long Zhao; Meiling Zou; Sirong Jiang; Xiaorui Dong; Ke Deng; Tiancang Na; Jian Wang; Zhiqiang Xia; Fang Wang

doi:10.3390/genes14020507

Insights into the Genetic Determination of the Autotetraploid Potato Plant Height

Genes (Basel). 2023 Feb 16;14(2):507. doi: 10.3390/genes14020507.

Authors

Long Zhao^{1

2

3}, Meiling Zou³, Sirong Jiang³, Xiaorui Dong³, Ke Deng^{1

2

3}, Tiancang Na^{1

2}, Jian Wang^{1

2}, Zhiqiang Xia³, Fang Wang^{1

2}

Affiliations

¹ Academy of Agriculture and Forestry Sciences, Qinghai University, Xining 810016, China.
² National Key Laboratory of Sanjiangyuan Ecology and Plateau Agriculture and Animal Husbandry, Qinghai University, Xining 810016, China.
³ Hainan Yazhou Bay Seed Laboratory, Sanya Nanfan Research Institute, College of Tropical Crops, Hainan University, Sanya 572025, China.

Abstract

Plant height is an important characteristic, the modification of which can improve the ability of stress adaptation as well as the yield. In this study, genome-wide association analysis was performed for plant height traits in 370 potato cultivars using the tetraploid potato genome as a reference. A total of 92 significant single nucleotide polymorphism (SNP) loci for plant height were obtained, which were particularly significant in haplotypes A3 and A4 on chromosome 1 and A1, A2, and A4 on chromosome 5. Thirty-five candidate genes were identified that were mainly involved in the gibberellin and brassinolide signal transduction pathways, including the FAR1 gene, methyltransferase, ethylene response factor, and ubiquitin protein ligase. Among them, PIF3 and GID1a were only present on chromosome 1, with PIF3 in all four haplotypes and GID1a in haplotype A3. This could lead to more effective genetic loci for molecular marker-assisted selection breeding as well as more precise localization and cloning of genes for plant height traits in potatoes.

Keywords: autotetraploid potato; genome-wide association analysis (GWAS); plant height; significant SNP; whole genome re-sequencing (WGRS).

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Genome-Wide Association Study
Haplotypes
Phenotype
Quantitative Trait Loci
Solanum tuberosum* / genetics

Grants and funding

This research was funded by Genome wide association analysis of main agronomic traits of cultivated potato (2023-HZ-807), China Agriculture Research System of MOF and MARA (NO.CARS-9), Developing Bioinformatics Platform in Hainan Yazhou Bay Seed Lab (B21HJ0001) and Hainan University Startup Fund (KYQD(ZR)-20101).