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In silico analysis and expression profiling for Resistance Gene Analogues (RGAs) and defence-related genes in early germinating conditions of rice against bakanae disease caused by Fusarium fujikuroi

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Title In silico analysis and expression profiling for Resistance Gene Analogues (RGAs) and defence-related genes in early germinating conditions of rice against bakanae disease caused by Fusarium fujikuroi
 
Creator Thakur, Swagata
Ekbal, Syed Sharmeen
Pandey, Shashi
Sharma, Sapna
S, Gopala Krishnan
Saharan, Mahendra Singh
Bashyal, Bishnu Maya
 
Subject Rice
Bakanae
Fusarium fujikuroi
Defence-related genes
RGAs
qPCR
 
Description 714-730
Rice is a popular staple food in the world. Rice production is generally affected by many biotic and abiotic stresses.
Among the biotic stresses affecting rice, bakanae has emerged as a serious challenge to Indian rice growers. Plant resistance
gene analogues (RGAs) are genes with conserved domains and motifs that contribute to host resistance to disease. RGAs are
frequently utilized in breeding programs and play a significant role in plant defence. The present study aimed to find out
resistance gene analogues (RGAs) and other defence-related genes which might provide resistance to bakanae during the
early germination stage of rice. A total of 32 gene IDs were selected from the previously reported transcriptome study of the
bakanae-infected resistant and susceptible plants. The protein structures, active domains and biological functions were
predicted via bioinformatical analysis. The predicted proteins were identified to possess one or more of the following
features - hydrolase activity and carbohydrate metabolism, kinase activity, Rx_N domain, Rx_CC domain, NB-ARC
domain, LRR domain, ADP/ATP binding site, and cytochrome site. Representatives of all the highlighted features were
selected to prepare a set of 10 genes which were further evaluated for their expression in the inoculated seeds during
germination via real-time PCR-based quantification. Four different rice genotypes viz, C101A51, Pusa 1342, PB1, and
PB1121 with respective disease reaction types as highly resistant (HR), resistant (R), susceptible (S) and highly susceptible
(HS) to bakanae were inoculated with two isolates of F. fujikuroi, F1121 and F1728. Based on the qPCR expression analysis
of rice genotypes, RGA 2, RGA 5(b), and RGA 5(c) were found as potential candidate RGAs which might play role in
providing resistance against bakanae in the early germination stage. Our study also identified one negative regulator i.e.
GDSL esterase in the early stages of interaction due to its constant downregulation in different combinations of hostpathogen
interactions. The outcome of this work will support the selection of essential RGAs and defence-related genes in
resistance breeding programmes against bakanae disease.
 
Date 2024-10-14T05:19:09Z
2024-10-14T05:19:09Z
2024-11
 
Type Article
 
Identifier 0975-0959 (Online)
0301-1208 (Print)
http://nopr.niscpr.res.in/handle/123456789/64714
https://doi.org/10.56042/ijbb.v61i11.10190
 
Language en
 
Publisher NIScPR-CSIR, India
 
Source IJBB Vol.61(11) [November 2024]