Genome-Wide Identification of DUF26 Domain-Containing Genes in Dongxiang Wild Rice and Analysis of Their Expression Responses under Submergence

Cheng Huang; Dianwen Wang; Hongping Chen; Wei Deng; Dazhou Chen; Ping Chen; Jilin Wang

doi:10.3390/cimb44080231

Genome-Wide Identification of DUF26 Domain-Containing Genes in Dongxiang Wild Rice and Analysis of Their Expression Responses under Submergence

Curr Issues Mol Biol. 2022 Jul 27;44(8):3351-3363. doi: 10.3390/cimb44080231.

Authors

Cheng Huang¹, Dianwen Wang¹, Hongping Chen¹, Wei Deng¹, Dazhou Chen¹, Ping Chen¹, Jilin Wang¹

Affiliation

¹ Rice National Engineering Research Center (Nanchang), Rice Research Institute, Jiangxi Academy of Agricultural Sciences, Nanchang 330200, China.

Abstract

The DUF26 domain-containing protein is an extracellular structural protein, which plays an important role in signal transduction. Dongxiang wild rice (Oryza rufipogon Griff.) is the northern-most common wild rice in China. Using domain analysis, 85 DUF26 domain-containing genes were identified in Dongxiang wild rice (DXWR) and further divided into four categories. The DUF26 domain-containing genes were unevenly distributed on chromosomes, and there were 18 pairs of tandem repeats. Gene sequence analysis showed that there were significant differences in the gene structure and motif distribution of the DUF26 domain in different categories. Motifs 3, 8, 9, 13, 14, 16, and 18 were highly conserved in all categories. It was also found that there were eight plasmodesmata localization proteins (PDLPs) with a unique motif 19. Collinearity analysis showed that DXWR had a large number of orthologous genes with wheat, maize, sorghum and zizania, of which 17 DUF26 domain-containing genes were conserved in five gramineous crops. Under the stress of anaerobic germination and seedling submergence treatment, 33 DUF26 domain-containing genes were differentially expressed in varying degrees. Further correlation analysis with the expression of known submergence tolerance genes showed that these DUF26 domain-containing genes may jointly regulate the submergence tolerance process with these known submergence tolerance genes in DXWR.

Keywords: DUF26 domain; Dongxiang wild rice (Oryza rufipogon Griff.); expression mode; submergence tolerance.

Grants and funding

This research was jointly funded by the National Natural Science Foundation of China (31960076); the Project of Discovery of Favorable Genes of Wild Rice and Breeding of Green and Efficient Varieties of Jiangxi Province (20213AAF01001); the Jiangxi Technological Innovation Guidance Program (20212BDH81023); the Jiangxi Modern Agricultural Scientific Research Collaborative Innovation Special Project (JXXTCXBSJJ202204); and the Doctoral Startup Fund Project of Jiangxi Academy of Agricultural Sciences (20191CBS002).