Genome-wide identification and expression profile analysis of the OMT gene family in response to cyst nematodes and multi-abiotic stresses in soybean
Kezhen Zhao A , Kuanwei Yu A , Xue Fu A , Xunchao Zhao A , Ning Xia B , Yuhang Zhan A , Xue Zhao
A * and Yingpeng Han A *
+ Author Affiliations
- Author Affiliations
A Key Laboratory of Soybean Biology in Chinese Ministry of Education (Northeastern Key Laboratory of Soybean Biology and Genetics and Breeding in Chinese Ministry of Agriculture), Northeast Agricultural University, Harbin 150030, China.
B College of Food, Northeast Agricultural University, Harbin 150030, China.
Crop & Pasture Science 73(11) 1279-1290 https://doi.org/10.1071/CP22002
Submitted: 21 January 2022 Accepted: 23 March 2022 Published: 22 June 2022
© 2022 The Author(s) (or their employer(s)). Published by CSIRO Publishing
Abstract
Context: Soybean cyst nematode is the most important pest of soybean (Glycine max (L.) Merr.) worldwide, causing serious yield losses. Lignin is a vital component of the cell wall that can provide resistance to cyst nematode. O-Methyltransferase (OMT) is a key enzyme involved in lignin metabolism in the phenylalanine pathway.
Aims: In this study, the soybean OMT gene family was systematically identified, and the expression response of GmOMT to abiotic and cyst nematode stresses was investigated.
Methods: In total, 67 OMT genes were obtained from the soybean genome through conserved structural domain alignment. GmOMT expression under abiotic stress of soybean was examined based on next-generation RNA sequencing (RNA-Seq). Comprehensive analysis of the genes was conducted, including gene structure, conserved structure, affinity, chromosomal localisation, functional prediction, Gene Ontology analysis, Kyoto Encyclopedia of Genes and Genomes analysis, promoter analysis, and expression pattern analysis.
Key results: The 67 GmOMT genes were identified and distributed among the 19 chromosomes. The GmOMT genes were classified into two categories: CCOMT subfamily and COMT subfamily. GmOMT genes from the same family shared similar gene structures and conserved structural domains, which have undergone strong purifying selection during evolution. The presence of multiple cis-responsive elements in the promoters of GmOMT genes suggested that members of the soybean OMT family may be involved in growth and developmental activities and resistance to stress in soybean.
Conclusions: GmOMT expression under abiotic stress showed that some of the genes may play a role in abiotic stress. Of them, GmCCOMT3 and GmCCOMT7 were closely associated with lignin synthesis based on both RNA-Seq and quantitative real-time PCR analysis.
Implications: These findings are valuable for elucidating the function of GmOMT in lignin metabolism and the relationship with SCN resistance.
Keywords: abiotic stress, bioinformatics analysis, CCOMT subfamily, expression pattern analysis, lignin, OMT gene family, soybean, soybean cyst nematode.
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