Insilico identification and characterization of abiotic stress responsive genes in Cucumis melo L. using bioinformatics tools
Paper Details
Insilico identification and characterization of abiotic stress responsive genes in Cucumis melo L. using bioinformatics tools
Abstract
Plants are exposed to various abiotic stress responsive genes. The present study was designed to investigate cold, drought and salt stress responsive genes in Cucumis melo L. for regulation of gene expression as 101273 ESTs of Cucumis melo L. and 3702 ESTs of Arabidopsis thaliana were explored for insilico of twenty one abiotic stress responsive genes. RAB18 (96%), CSD1 (94%), HVA22A (86%) GSTF7 (73%), CDSP32 (65%), ATMRK1 (65%) MPK3 (63%), ELIP1 (59%), COR47 (56%), ERD14 (42%), DDF1 (42%) DI19 (41%), LOS4 (40%), ABCF3 (37%), P5CS1 (36%), CDPK1 (27%), DREB2A (23%), STZ (18%) and HOS10 (57%) gene was expressed in three stresses cold drought and salt. Bioinformatics tools NCBI, ORF, BLAST, CDD, and MUSCLE were used to find out homology, conserved domains then conserved analysis of nucleotides and phylogenetic analysis of Cucumis melo L. The current study revealed that similarly conserved domain families in Arabidopsis thaliana and Cucumis melo L. were Ras super-family (RAB18), Cu-Zn-superoxide-Disntase super-family (CSD1), TB2-DP1-HVA22 super-family (HVA22A), GST-N-Phi thioredoxin-like super family (GSTF7), TRX-COSP32 (CDSP32), PKc-like super-family (ATMRK1), (MPK3), ), Chloroa-b-bind super-family (ELIP1), Dehydrin super-family (COR47,(ERD14), AP2 super-family (DDF1), Zf-Di19 super family (DI19), DEXDc super-family (LOS4), SunT super-family (HOS10) and (ABCF3), PROB super-family (P5CS1)and Zf-C2H2-6 super-family (STZ). Phylogenetic results revealed interesting fact although genes DI19, DREB2A, CDPK1 were more closely related to in Arabidopsis thaliana and Cucumis mel L. beside this ATMRK1, ERD14, LOS4, MPK3,CDSP32, P5CS1 not showing close relations.
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