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LTTRPred: A tool for prediction of LysR-type transcriptional regulator of pyoluteorin pathway in plant growth promoting Pseudomonas spp.

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Title LTTRPred: A tool for prediction of LysR-type transcriptional regulator of pyoluteorin pathway in plant growth promoting Pseudomonas spp.
Not Available
 
Creator Anil Paul
N. Hemalatha
M.K. Rajesh
 
Subject Antagonism
phosphate solubilizer
potassium solubilizing bacteria
tea soil
 
Description Not Available
Plant growth promoting Pseudomonas spp. produce an antifungal compound called pyoluteorin (Plt) that suppress diseases caused by phytopathogenic fungi. The pathway specific regulator PltR, a typical LysR-type transcriptional regulator (LTTR), is responsible for the transcriptional activation of the Plt biosynthetic operon. The LTTR family represents one of the largest classes of bacterial transcriptional regulatory proteins. A large number of LTTRs possess function as global transcriptional activators or repressors of unlinked genes or operons involved in metabolism, quinoline signal, virulence etc. The proposed method, LTTRPred, is an useful tool developed for identifying and predicting the LTTR, which is responsible for the activation of Plt transcription
regulators, from whole genomes of various Pseudomonas spp. LTTRPred was developed using support vector machine (SVM) and Waikato Environment for Knowledge Analysis (WEKA) based on the composition of amino acid and amino acid pairs. Modules in SVM were developed using traditional amino acid, dipeptide (n+1) and hybrid amino acid composition modules and an overall accuracy of 100, 100 and 98 per cent respectively, was achieved. Modules in WEKA were also developed using the same modules and an overall accuracy of 100 per cent achieved for all. The performance of the tool was tested using various datasets of LTTR genes from different Pseudomonas spp. The best performing SVM and WEKA modules from the present investigation was implemented as a dynamic web server ‘LTTRPred’, which is freely available and can be accessed online
(http://210.212.229.56/lttrpred/). This tool can be used for the functional annotation of the Pseudomonas spp. possessing LTTR genes.
Not Available
 
Date 2019-10-29T08:43:22Z
2019-10-29T08:43:22Z
2014-09-01
 
Type Article
 
Identifier Journal of Plantation Crops, 2014, 42(3):377-385
2454-8480
http://krishi.icar.gov.in/jspui/handle/123456789/24158
 
Language English
 
Relation Not Available;
 
Publisher Indian Society of Plantation Crops