Genome-wide identification and evolution of the tubulin gene family in Camelina sativa

• Published in: BMC genomics 2024-06, Vol.25 (1), p.599-22
• Main Authors: Blume, Rostyslav Y, Rabokon, Anastasiia M, Pydiura, Mykola, Yemets, Alla I, Pirko, Yaroslav V, Blume, Yaroslav B
• Format: Article
• Language: English
• Subjects: Ancestral Crucifer Karyotype; Biodiesel fuels; Biofuels; Brassicaceae - genetics; Camelina sativa; Cell division; Cotton; Cruciferae; Cytoskeleton; Developmental stages; Energy crops; Evolution; Evolution, Molecular; Exons - genetics; Fatty acids; Flowering; Flowering plants; Gene Duplication; Gene evolution; Gene expression; Gene Expression Regulation, Plant; Gene mutations; Genes; Genetic aspects; Genetic research; Genome, Plant; Genomes; Identification and classification; Introns - genetics; Isotypes; Karyotypes; Lipids; Multigene Family; Oilseeds; Orthology; Phylogeny; Physiological aspects; Plant genetics; Plant Proteins - genetics; Plant Proteins - metabolism; Plants (botany); Polyploidy; Proteins; Synteny; Tubulin; Tubulin - genetics; Tubulins
• ISSN: 1471-2164; 1471-2164
• DOI: 10.1186/s12864-024-10503-y

Tubulins play crucial roles in numerous fundamental processes of plant development. In flowering plants, tubulins are grouped into α-, β- and γ-subfamilies, while α- and β-tubulins possess a large isotype diversity and gene number variations among different species. This circumstance leads to insufficient recognition of orthologous isotypes and significantly complicates extrapolation of obtained experimental results, and brings difficulties for the identification of particular tubulin isotype function. The aim of this research is to identify and characterize tubulins of an emerging biofuel crop Camelina sativa. We report comprehensive identification and characterization of tubulin gene family in C. sativa, including analyses of exon-intron organization, duplicated genes comparison, proper isotype designation, phylogenetic analysis, and expression patterns in different tissues. 17 α-, 34 β- and 6 γ-tubulin genes were identified and assigned to a particular isotype. Recognition of orthologous tubulin isotypes was cross-referred, involving data of phylogeny, synteny analyses and genes allocation on reconstructed genomic blocks of Ancestral Crucifer Karyotype. An investigation of expression patterns of tubulin homeologs revealed the predominant role of N (A) and N (B) subgenomes in tubulin expression at various developmental stages, contrarily to general the dominance of transcripts of H (C) subgenome. For the first time a complete set of tubulin gene family members was identified and characterized for allohexaploid C. sativa species. The study demonstrates the comprehensive approach of precise inferring gene orthology. The applied technique allowed not only identifying C. sativa tubulin orthologs in model Arabidopsis species and tracking tubulin gene evolution, but also uncovered that A. thaliana is missing orthologs for several particular isotypes of α- and β-tubulins.