Open Access

ARTICLE

Analysis of Intraspecies Diversity of Rice Reveals Variation Patterns of Oryza sativa Basic Leucine Zippers

by Jing Wang^1,#, Wenqing Xiao^1,#, Qingnan Wang¹, Xu Wang¹, Bin Jiang¹, Yangchun Han², Yang Sun^1,*

1 Anhui Provincial Key Laboratory of Molecular Enzymology and Mechanism of Major Diseases, Key Laboratory for Conservation and Use of Important Biological Resources of Anhui Province, College of Life Sciences, Anhui Normal University, Wuhu, 241000, China
2 Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, 210000, China

* Corresponding Author: Yang Sun. Email:

Phyton-International Journal of Experimental Botany 2024, 93(5), 859-873. https://doi.org/10.32604/phyton.2024.048151

Received 29 November 2023; Accepted 19 March 2024; Issue published 28 May 2024

Abstract

The basic leucine zipper (bZIP) is an important class of transcription factors in plants, playing a critical role in plant growth and development and responses to biotic and abiotic stress. Due to gene presence/absence variations, it is limited to identify bZIP genes based on the reference genome. Therefore, we performed the bZIP gene family analysis in the rice pan-genome. By employing a rice pan-genome, ninety-four OsbZIPs (72 core genes and 22 variable genes) were identified and divided into 11 groups in a phylogenetic tree. Based upon Ka/Ks values in 33 accessions, OsbZIPs were subjected to different selection pressures during domestication. The analysis of the effects of structural variations (SVs) on gene expression, gene structure, and conserved domains showed that SVs could significantly alter the expression levels of certain OsbZIPs, leading to gene truncation and the emergence of numerous atypical genes. Thirty-four differentially expressed OsbZIPs were identified by analyzing RNA-seq data of the Xanthomonas oryzae pv. oryzae (Xoo) infection susceptible (IR24) and resistant (IRBB67) lines under high temperature, and by counting the number of differentially expressed OsbZIPs in different subgroups. These OsbZIPs were found to respond to Xoo infection at an early stage and may not be involved in the mechanism of Xa4 and Xa7 resistance to Xoo. The multiple variation patterns of OsbZIP genes provide new insights into the OsbZIP genes in rice. These results provide new resources and offer new directions for functional studies of OsbZIPs.

---

Keywords

---

Supplementary Material

Supplementary Material File

---