Characterization of new COBRA like (COBL) genes in wheat (Triticum aestivum) and their expression analysis under drought stress

• Published in: Molecular biology reports 2022-02, Vol.49 (2), p.1379-1387
• Main Authors: Zaheer, Muhammad, Rehman, Shoaib Ur, Khan, Sultan Habibullah, Shahid, Shahmeer, Rasheed, Awais, Naz, Rabia, Sajjad, Muhammad
• Format: Article
• Language: English
• Subjects: Amino Acid Sequence; Amino acids; Animal Anatomy; Animal Biochemistry; Bioinformatics; Biomedical and Life Sciences; Cell Wall - metabolism; Cell walls; Cellulose; Drought resistance; Droughts; Gene Expression - genetics; Gene Expression Profiling - methods; Gene Expression Regulation, Plant - genetics; Genes; Glycosylphosphatidylinositol; Histology; Karyotypes; Life Sciences; Molecular weight; Morphology; Mucilage; Multigene Family; Ontology; Original Article; Phylogeny; Plant Proteins - genetics; Promoter Regions, Genetic; Regulatory sequences; Seed coats; Single-nucleotide polymorphism; Stress, Physiological - genetics; Transcriptome - genetics; Triticum - genetics; Triticum aestivum
• ISSN: 0301-4851; 1573-4978
• DOI: 10.1007/s11033-021-06971-0

Background The COBL genes encode a plant-specific glycosylphosphatidylinositol (GPI)-anchored protein. Recently identified COBRA genes are supposed as a key regulator of the orientation of cell expansion in the root indicating that COBRA gene family members are likely to be important players at the plasma membrane-cell wall interface. Methods and results Five COBL gene namely, TaCOBL 1, TaCOBL 2, TaCOBL 3, TaCOBL 4 and TaCOBL 5 were identified using database search and domain predictions. Chromosomal location of each gene was mapped on karyotype. Structure of genes, promoter analysis and phylogenetic analysis were performed using different bioinformatics tools. Set of novel SNPs were also predicted. Gene ontologies were analyzed, and the processes and pathways were identified in which COBRA genes were involved. The molecular weight all the cobra proteins was in range of 50–75 KDa with 429–461 amino acid residues. The COBL genes were mapped on homeologous groups 2, 4, 5, 6 and 7. Gene ontology analysis revealed that TaCOBL genes were involved in cellulose microfibril organization, mucilage biosynthetic process involved in seed coat development, plant-type cell wall biogenesis plant-type cell wall cellulose biosynthetic process, seed coat development and seed development. Three drought responsive cis-elements (WRKY, ABRE and DRE) were found nearby COBL genes The qRT-PCR revealed TaCOBL genes are drought responsive and can be further explored to understand their role in drought tolerance in wheat. Conclusion The comprehensive annotation and expression profiling of COBL genes revealed that all five COBL genes are drought response. The promoter cis-regulatory element analysis revealed that COBL genes had stress related WRKY, ABRE and DRE cis-regulatory elements. This evidence suggest that TaCOBL genes are involved in drought stress tolerance.