TY - JOUR
T1 - Homotypic clustering of OsMYB4 binding site motifs in promoters of the rice genome and cellular-level implications on sheath blight disease resistance
AU - Pooja, Singh
AU - Sweta, Kumari
AU - Mohanapriya, A.
AU - Sudandiradoss, C.
AU - Siva, Ramamoorthy
AU - Gothandam, Kodiveri M.
AU - Babu, Subramanian
N1 - Funding Information:
The funding provided by the Department of Science and Technology, Government of India under the project ‘Targeted proteomics based discovery and overexpression of key cross-talking protein for multiple stress tolerance in rice (No. SR/FT/LS-120/2010 ) is gratefully acknowledged. We acknowledge the National Institute of Agrobiological Sciences, Japan, for the supply of cDNA clone. The authors also acknowledge the support rendered by the management, VIT University, Vellore, India.
Publisher Copyright:
© 2015 Elsevier B.V.
Copyright:
Copyright 2015 Elsevier B.V., All rights reserved.
PY - 2015/5/1
Y1 - 2015/5/1
N2 - The promoter regions (1. kb upstream sequences) of 45,836 annotated genes of rice were analyzed for the presence of OsMYB4 binding sites using a Perl program algorithm. Based on the homotypic clustering concept, 113 promoters were found to have more than 4 binding site motifs. Among the downstream genes of these promoters, five genes which are known to have a role in disease resistance were selected and the binding capacity of OsMYB4 protein in the promoter regions was analyzed by docking studies. Expression level of these genes was analyzed by RT-PCR in Rhizoctonia solani infected rice seedlings. Upon pathogen challenge, higher expression of aminotransferase, ankyrin and WRKY 12 genes was observed corresponding to higher expression of Osmyb4. Over-expression of Osmyb4 cDNA in rice leaf tissues by agro-infection failed to result in similar over-expression of aminotransferase, ankyrin and WRKY 12 as expected. Although the role of OsMYB4 in sheath blight resistance was found to be definitive based on our initial results, artificial over-expression of this TF was observed to be insufficient in regulating the disease resistance related genes.
AB - The promoter regions (1. kb upstream sequences) of 45,836 annotated genes of rice were analyzed for the presence of OsMYB4 binding sites using a Perl program algorithm. Based on the homotypic clustering concept, 113 promoters were found to have more than 4 binding site motifs. Among the downstream genes of these promoters, five genes which are known to have a role in disease resistance were selected and the binding capacity of OsMYB4 protein in the promoter regions was analyzed by docking studies. Expression level of these genes was analyzed by RT-PCR in Rhizoctonia solani infected rice seedlings. Upon pathogen challenge, higher expression of aminotransferase, ankyrin and WRKY 12 genes was observed corresponding to higher expression of Osmyb4. Over-expression of Osmyb4 cDNA in rice leaf tissues by agro-infection failed to result in similar over-expression of aminotransferase, ankyrin and WRKY 12 as expected. Although the role of OsMYB4 in sheath blight resistance was found to be definitive based on our initial results, artificial over-expression of this TF was observed to be insufficient in regulating the disease resistance related genes.
KW - Homotypic clusters
KW - OsMYB4
KW - Rice
KW - Sheath blight
KW - Transcription factor
UR - http://www.scopus.com/inward/record.url?scp=84926181260&partnerID=8YFLogxK
U2 - 10.1016/j.gene.2015.02.031
DO - 10.1016/j.gene.2015.02.031
M3 - Article
C2 - 25688880
AN - SCOPUS:84926181260
SN - 0378-1119
VL - 561
SP - 209
EP - 218
JO - Gene
JF - Gene
IS - 2
ER -