Bioinformatics Analysis of WRKY Family Genes in Erianthus fulvus Ness

• Published in: Genes Vol. 13; no. 11; p. 2102
• Main Authors: Chen, Haowen, Li, Xuzhen, Li, Fusheng, Li, Dengyu, Dong, Yang, Fan, Yuanhong
• Format: Journal Article
• Language: English
• Published: Switzerland MDPI AG 12.11.2022; MDPI
• Subjects: Amino acids; Animals; Bioinformatics; bioinformatics analysis; Cell membranes; Chromosomes; Computational Biology; Conserved sequence; Defense mechanisms; Drought; Erianthus fulvus ness; Gene amplification; Genomes; Herbivores; Isoelectric points; Localization; Molecular weight; Multigene Family; Ontology; Perciformes - genetics; Phylogenetics; Plant Proteins - metabolism; Proteins; Regulatory sequences; Saccharum - genetics; Saccharum - metabolism; Software; Sorghum; structural domains; Sugarcane; Transcription factors; Transcription Factors - metabolism; WRKY gene family; Erianthus fulvus ness; WRKY gene family; structural domains; bioinformatics analysis
• ISSN: 2073-4425; 2073-4425
• DOI: 10.3390/genes13112102

One of the most prominent transcription factors in higher plants, the gene family, is crucial for secondary metabolism, phytohormone signaling, plant defense responses, and plant responses to abiotic stresses. It can control the expression of a wide range of target genes by coordinating with other DNA-binding or non-DNA-binding interacting proteins. In this study, we performed a genome-wide analysis of the genes and initially identified 89 members of the transcription factor family. Using some members of the transcription factor family, an evolutionary tree was built using the neighbor-joining (NJ) method to classify the 89 members of the transcription factor family into three major taxa and one unclassified group. Molecular weights ranged from 22,614.82 to 303,622.06 Da; hydrophilicity ranged from (-0.983)-(0.159); instability coefficients ranged from 40.97-81.30; lipid coefficients ranged from 38.54-91.89; amino acid numbers ranged from 213-2738 bp; isoelectric points ranged from 4.85-10.06. A signal peptide was present in but not in the other proteins, and was subcellularly localized to the cell membrane. Chromosome localization revealed that the gene was present on each chromosome, proving that the conserved pattern WRKYGQK is the family's central conserved motif. Conserved motif analysis showed that practically all members have this motif. Analysis of the cis-acting elements indicated that, in addition to the fundamental TATA-box, CAAT-box, and light-responsive features (GT1-box), there are response elements implicated in numerous hormones, growth regulation, secondary metabolism, and abiotic stressors. These results inform further studies on the function of genes and will lead to the improvement of sugarcane.