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Comparative structural analysis and allele mining of dreb2 transcription factor in sorghum [sorghum biocolor (L.) moench]

KrishiKosh

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Title Comparative structural analysis and allele mining of dreb2 transcription factor in sorghum [sorghum biocolor (L.) moench]
 
Creator Shivanand Lathe Rahul
 
Contributor M.S.Kuruvinashetty
 
Subject Plant Bio-Technology
 
Description genetic diversity. Identification of novel regulatory genes involved in abiotic stress tolerance
and allele mining would lead to better and quicker solution for improving stress tolerance in
crop plants. Structural and functional analysis of genomic DNA of DREB2 transcription
factor including allele mining was done in sorghum. Sorghum DREB2 (SbDREB2) genomic
clone was found to be 1591 bp long with an internal intron of 747 bp between 68 and 815 bp.
SbDREB2 encodes a putative protein of 262 amino acids with a predicted molecular
mass of 28.88 KDa and has potential four casein kinase II phosphorylation sites, five protein
kinase C phosphorylation sites and one tyrosine kinase phosphorylation site. Multiple
sequence alignment of SbDREB2 with other DREB genes revealed presence of single, highly
conserved, functional 58 amino acids long AP2/ERF domain. Its features show that it could
act as a phospoprotein. The comparative modeling of AP2/ERF domain revealed a 3 stranded
-sheet and an -helix antiparellel to -sheet. The 14th valine and 19th glutamic acid
positioned on -sheet were conserved within AP2/ERF domain indicating their critical role in
DNA binding. Phylogenetically SbDREB2 is closely related to DREBs of
monocotyledonous.
The CaMV35S::SbDREB2 was subcloned into a plant expression vector pHS100 and
transferred into tobacco by Agrobacterium method. Semiqantitative RT-PCR indicated
SbDREB2 expression level equivalent to tobacco actin gene. Allele mining of SbDREB2
gene across selected 12 sorghum accessions revealed 25 nucleotide variations; 15 in intron
and 10 in exon. Among the 10 variants in exon, 9 were found to change amino acid sequence
and were mostly confined to N-terminal end. No nucleotide variation was observed in the
functional AP2/ERF domain. Observed variations in SbDREB2 could be important in
differential stress tolerance of sorghum accessions.
 
Date 2016-10-18T09:08:26Z
2016-10-18T09:08:26Z
2007
 
Type Thesis
 
Identifier http://krishikosh.egranth.ac.in/handle/1/80769
 
Format application/pdf
 
Publisher UAS, Dharwad