Genome-Wide Identification of the Oxidative Stress 3 (OXS3) Gene Family and Analysis of Its Expression Pattern During Ovule Development and Under Abiotic Stress in Cotton

Yu Chen; Rui Yang; Haojie Wang; Xianghui Xiao; Baoguang Xing; Yanfang Li; Qiankun Liu; Quanwei Lu; Renhai Peng; Guodong Chen; Yongbo Wang; Pengtao Li

doi:10.3390/biology13110903

Genome-Wide Identification of the Oxidative Stress 3 (OXS3) Gene Family and Analysis of Its Expression Pattern During Ovule Development and Under Abiotic Stress in Cotton

Biology (Basel). 2024 Nov 6;13(11):903. doi: 10.3390/biology13110903.

Authors

Yu Chen¹, Rui Yang^{1

2}, Haojie Wang¹, Xianghui Xiao¹, Baoguang Xing¹, Yanfang Li¹, Qiankun Liu¹, Quanwei Lu¹, Renhai Peng¹, Guodong Chen³, Yongbo Wang⁴, Pengtao Li¹

Affiliations

¹ School of Biotechnology and Food Engineering, Anyang Institute of Technology, Anyang 455000, China.
² Xinjiang Production and Construction Corps Seventh Division Agricultural Research Institute, Kuitun 833200, China.
³ College of Agriculture, Tarim University, Alar 843300, China.
⁴ Cotton Sciences Research Institute of Hunan, Changde 415101, China.

Abstract

Oxidative Stress 3 (OXS3) encodes a plant-specific protein that makes great contributions to a plant's stress tolerance. However, reports on genome-wide identification and expression pattern analyses of OXS3 were only found for Arabidopsis, wheat, and rice. The genus Gossypium (cotton) serves as an ideal model for studying allopolyploidy. Therefore, two diploid species (G. raimondii and G. arboreum) and two tetraploid species (G. hirsutum and G. barbadense) were chosen in this study for a bioinformatics analysis, resulting in 12, 12, 22, and 23 OXS3 members, respectively. A phylogenetic tree was constructed using 69 cotton OXS3 genes alongside 8 Arabidopsis, 10 rice, and 9 wheat genes, which were classified into three groups (Group 1-3). A consistent evolutionary relationship with the phylogenetic tree was observed in our structural analysis of the cotton OXS3 genes and the clustering of six conserved motifs. Gene duplication analysis across the four representative Gossypium species suggested that whole-genome duplication, segmental duplication, and tandem duplication might play significant roles in the expansion of the OXS3 gene family. Some existing elements responsive to salicylic acid (SA), jasmonic acid (JA), and abscisic acid (ABA) were identified by cis-regulatory element analysis in the promoter regions, which could influence the expression levels of cotton OXS3 genes. Furthermore, the expression patterns of the GhOXS3 gene were examined in different tissues or organs, as well as in developing ovules and fibers, with the highest expression observed in ovules. GhOXS3 genes exhibited a more pronounced regulatory response to abiotic stresses, of which ten GhOXS3 genes showed similar expression patterns under cold, heat, salt, and drought treatments. These observations were verified by quantitative real-time PCR experiments. These findings enhance our understanding of the evolutionary relationships and expression patterns of the OXS3 gene family and provide valuable insights for the identification of vital candidate genes for trait improvement in cotton breeding.

Keywords: OXS3; abiotic stress response; cotton; genome-wide identification; phylogenetic analysis.

Grants and funding

This research was funded by the National Natural Science Foundation of China (32272179 and 31801404), the Regional Innovation Guidance Project of Xinjiang Production and Construction Corps (2021BB012), the Program for Innovative Research Team (in Science and Technology) of the University of Henan Province (20IRTSTHN021), the Postgraduate Education Reform and Quality Improvement Project of Henan Province (YJS2022JD47), the National Key R&D Program of China (2021YFE0101200), Zhongyuan Scholars Workstation (224400510020), the Tianchi Talent Introduction Plan, the High Quality Cotton New Variety Zhongmiansuo 703 Efficient Technology Integration Demonstration Project of Kashgar Regional Science and Technology Plan (KS2023003), Financial science and technology project of Huyanghe City, the seventh Division of Xinjiang Production and Construction Corps (2023C15 and 2024C01), Scientific and technological project of Anyang City (2022C01NY003 and 2022C01SF118), National Key Laboratory of Cotton Bio-breeding and Integrated Utilization Open Fund (CB2023A26), PhD start-up fund of Anyang Institute of Technology (BSJ2020011 and BSJ2019014), and the seventh Division of Huyanghe City grassroots scientific and technological backbone talent project: Innovation of germplasm resources for early maturing, disease-resistant and machine-suitable cotton harvesting.