Bioinformatics Analysis and Function Prediction of <i>CesA7</i> Gene in Sugarcane
Welcome to Chinese Journal of Tropical Crops,

Chinese Journal of Tropical Crops ›› 2023, Vol. 44 ›› Issue (7): 1337-1347.DOI: 10.3969/j.issn.1000-2561.2023.07.004

• Omics & Biotechnology • Previous Articles     Next Articles

Bioinformatics Analysis and Function Prediction of CesA7 Gene in Sugarcane

KUANG Bowen1,2, ZHAO Jihan1,2, LI Sicheng1,2, WEI Ni1,2, FENG Mengfan1,2, YANG Xiping1,2,*()   

  1. 1. State Key Laboratory of Conservation and Utilization of Subtropical Agro-bioresources / Guangxi Key Laboratory of Sugarcane Biology, Guangxi University, Nanning, Guangxi 530004, China
    2. National Demonstration Center for Experimental Plant Science Education, College of Agriculture, Guangxi University, Nanning, Guangxi 530004, China
  • Received:2022-09-09 Revised:2022-10-08 Online:2023-07-25 Published:2023-07-24
  • Contact: * YANG Xiping,E-mail:xipingyang@gxu.edu.cn

Abstract:

Cellulose is one of the main components of plant roots, and plays a key role in lodging resistance. CesA7 is for cellulose synthesis, but its function is unknown in sugarcane. Rice OsCesA7 gene was used as the reference sequence to conduct homology analysis and functional prediction in the genomes of Sacchrum spontaneum, S. hybrid and S. officinarum. Phylogenetic analysis showed that CesA7 in S. hybrid was closer to that in S. officinarum, and grasses were clustered together, but herbs and woody plants could not be separated clearly. The promoter region of the sugarcane CesA7 genes had abundant light-responsive elements and methyl jasmonate element, indicating that the gene may be involved in the photomorphogenesis and the stress resistance response in sugarcane. Interaction prediction of the protein and analysis of the promoter indicated that CesA7 had interaction with MYB transcription factor, suggesting that CesA7 played a role in crop growth and development and stress response. In addition, functional predictions of CesA proteins in rice and sorghum showed involvement in regulating cellulose synthesis and lignin degradation processes. Transcriptomic analysis of roots and leaves of seven representative species of sugarcane at seedling stage revealed that CesA7 expression level in roots was much higher than that in leaves, suggesting that CesA7 might regulate sugarcane root development. The SNP variation of the gene was detected in the germplasm of sugarcane, and the nucleotide diversity was the highest in S. spontaneum. The nucleotide diversity in the exon region was significantly higher than that in the intron region, and the highest diversity was found in the region of exon 4 (about 2000 bp) of the gene. It is speculated that the functional differentiation of different alleles are caused by the balancing selection of this locus. After multiple sequence alignment combined with resequencing data analysis, two potential molecular markers were identified, which could distinguish S. spontaneum and S. officinarum samples. The study would provide theoretical guidance for subsequent research and use of CesA7 gene to improve sugarcane variety.

Key words: sugarcane, cellulose, CesA7 genes, evolutionary analysis

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