Molecular bioinformatics and expression analysis of the COBRA gene family in Huperzia serrata

Abstract

In order to clarify the molecular bioinformatics characteristics and tissue expression patterns of the COBRA gene family members of Huperzia serrata, the physicochemical properties, domains, conserved motifs, cis-acting elements, and genes expression of the family members (HsCOBRAs) were analyzed by bioinformatics techniques, based on the full-length transcriptome data of the H. serrata. The results were as follows: (1) A total of 24 HsCOBRAs family members were screened in the full-length transcriptome of H. serrata, including 9 acidic proteins, 11 stabilizing proteins, 5 hydrophobic proteins, 7 proteins with transmembrane structures, and 3 proteins with signal peptides. (2) Subcellular localization was found in the cell wall, chloroplast, nucleus, and cell membrane. (3) Structural analysis revealed that HsCOBRAs had 7 domains and 6 conserved motifs, and partial members had a highly conserved CCVS structure. (4) HsCOBRAs had 45 cis-acting elements such as CAAT-box and TATA-box. (5) HsCOBRA2 had the highest expressions in leaves, spores, stems and gemma. The study results can provide theoretical basis for further research and biological function verification of HsCOBRAs.

Keywords

• huperzia serrata
• cobra gene family
• bioinformatics
• full-length transcriptome
• expression analysis