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OJBTM
Online Journal of Bioinformatics©
Volume 21(1):
38-68, 2020.
Dof gene transcription factors for development of rice seed Oryza sativa ssp.
Vikram Singh Gaur1, U.S. Singh2, Vinay Singh1
and Anil Kumar1
1Department
of Molecular Biology and Genetic Engineering, College of Basic Sciences and
Humanities, G.B. Pant University of Agriculture and Technology, Pantnagar, Uttarakhand, 2Department
of Plant Pathology, College of Agriculture, G.B. Pant University of Agriculture
and Technology, Pantnagar, Uttarakhand,
INDIA.
ABSTRACT
Gaur VS, Singh US, Singh V, Kumar A., Dof gene transcription factors for development of rice seed Oryza sativa ssp, Onl J Bioinform., 21(1): 38-68, 2020. Seed
development is controlled by transcription factors (TF) temporally and
spatially expressed. Dof TF’s contain 30 annotated genes
and functions, mostly unknown. Analysis revealed expression of 5 genes
including Rice Prolamin Binding Factor (RPBF) in seed
during 6 days of development in MPSS database. We verified in silico expression of 30 rice Dof TF genes from flowering to dough stage 0 DAA, 8
DAA, 12 DAA and 24 DAA in Oryza sativa ssp (Nipponbare) by RT-PCR specific
primer sets. 17 genes were differentially expressed from flowering to maturity
as 6 constitutive, 4 up and 3 down regulated. Another was 1 gene maximally
expressed at flowering, 2 at watery ripe and 1 at milky stages. At all stages
there was involvement of more than one gene indicating combinatorial regulation
by Dof Tfs. Expression of RPBF
genes was maximally expressed at 8 DAA watery ripe stage but declined
thereafter suggesting seed specific expression. Previous reports of RPBF expression
in rice seeds reveals other Dof TFs expressed in
different developmental stages during transition from flowering to seed
maturity. The other 16 Dof TFs were not exclusively
seed specific but showed association with rice seed development and grain
filling. Further in silico study of
conserved regulatory elements present in the promoters of these genes revealed
that most of the Dof genes are possibly involved in diverse
signaling including jasmonote mediated pathway which probably
controls grain filling under stress.
Key words: Dof Transcription
factors, RT-PCR, Expression profiling.
Abbreviations: DAA: Days after anthesis, Dof: DNA binding with one finger.