1st International and 10th National Iranian Conference on Bioinformatics
Home Accepted Papers
CAMTA gene family analysis in tomato and expression of genes responsive to developmental stages
Paper ID : 1212-ICB10
Authors:
Zohreh Hajibarat *1, عباس سعیدی1, محمد رضا غفاری2, مهرشاد زین العابدینی3
1دانشکده علوم و فناوری زیستی
2سامانه های زیستی، موسسه تحقیقاتی بیوتکنولوژی کشاورزی (َAbrii)، کرج، ایران
3پژوهشگاه بیوتکنولوژی کشاورزی ایران
Abstract:
Calmodulin-binding transcription factors (CAMTAs) are recognized as one of the stress-responsive proteins. In this study, six SlCAMTA genes were selected in tomato. Chromosomal distribution, gene structure, conserved motifs, synteny analysis, phylogenetic tree of SlCAMTA genes in tomato were analyzed to further evaluate their performance. To detect expression levels in developmental stages, mRNA analysis of SlCAMTA genes were performed using publicly available expression data in the genvestigator. The aim of study was to identify and characterize SlCAMTA genes, via insilico genome-wide analysis approach. Chromosomal position indicated that SlCAMTA genes were distributed on chromosomes 1, 4, 5, and 12. Our findings showed that all genes were increased expression except SlCAMTA3 gene. The second group of SlCAMTA genes had 2 introns, while the first group contained one intron. Gene structure was similar in most proteins in each group, confirming the phylogenetic classification of SlCAMTA. Prediction of cis-elements in the promoter region of genes showed that DOF and AP2 / ERF, GATA and Homodomain had the highest cis-elements in the promoter region of SlCAMTA genes. The conserved motifs and gene structure in most proteins in each group were similar, validating the CAMTA phylogenetic classification. The analysis of synteny showed that SlCAMTA4 with SlCAMTA4.1 genes were orthologous.This study could be considered as a useful source for future CAMTA comparative studies in different plant species. The maximum number of cis-elements was belonged to SlCAMTA4 gene which this indicates that this gene is highly resistant to different stresses. This study could be considered as a useful resource for future comparative studies of CAMTA in different plant species and provide useful information for finding candidate genes in response to stress.
Keywords:
Calmodulin-binding transcription factors, gene expression, Developmental stages, gene structure
Status : Paper Accepted (Poster Presentation)