Genome-wide identification, characterization, evolution and expression analysis of the DIR gene family in potato (Solanum tuberosum)

Wenqi Jia; Yuting Xiong; Man Li; Shengli Zhang; Zhongcai Han; Kuihua Li

doi:10.3389/fgene.2023.1224015

Genome-wide identification, characterization, evolution and expression analysis of the DIR gene family in potato (Solanum tuberosum)

Front Genet. 2023 Aug 23:14:1224015. doi: 10.3389/fgene.2023.1224015. eCollection 2023.

Authors

Wenqi Jia¹, Yuting Xiong¹, Man Li¹, Shengli Zhang², Zhongcai Han², Kuihua Li¹

Affiliations

¹ Agricultural College, Yanbian University, Yanji, Jilin, China.
² Jilin Academy of Vegetable and Flower Science, Changchun, Jilin, China.

Abstract

The dirigent (DIR) gene is a key player in environmental stress response and has been identified in many multidimensional tube plant species. However, there are few studies on the StDIR gene in potato. In this study, we used genome-wide identification to identify 31 StDIR genes in potato. Among the 12 potato chromosomes, the StDIR gene was distributed on 11 chromosomes, among which the third chromosome did not have a family member, while the tenth chromosome had the most members with 11 members. 22 of the 31 StDIRs had a classical DIR gene structure, with one exon and no intron. The conserved DIR domain accounts for most of the proteins in the 27 StDIRs. The structure of the StDIR gene was analyzed and ten different motifs were detected. The StDIR gene was divided into three groups according to its phylogenetic relationship, and 22 duplicate genes were identified. In addition, four kinds of cis-acting elements were detected in all 31 StDIR promoter regions, most of which were associated with biotic and abiotic stress. The findings demonstrated that the StDIR gene exhibited specific responses to cold stress, salt stress, ABA, and drought stress. This study provides new candidate genes for improving potato's resistance to stress.

Keywords: DIR; abiotic stress; bioinformatics; gene family; potato.

Grants and funding

This work was supported by the Jilin Province Science and Technology Development Plan (No. 20210202114NC, No. 20230203167SF), The National Natural Science Foundation of China (No. 32160702), and The National System of Modern Agriculture Industrial Technology of China (No. CARS-09-ES07).