Assessment of Genetic and Functional Relationship of Antagonistic Fluorescent Pseudomonads of Rice Rhizosphere by Repetitive Sequence, Protein Coding Sequence and Functional Gene Analyses

Jayakumar Pathma; Niraikulam Ayyadurai; Natarajan Sakthivel

doi:10.1007/s12275-010-0064-3

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Research Support, Non-U.S. Gov't
Assessment of Genetic and Functional Relationship of Antagonistic Fluorescent Pseudomonads of Rice Rhizosphere by Repetitive Sequence, Protein Coding Sequence and Functional Gene Analyses: Jayakumar Pathma , Niraikulam Ayyadurai , Natarajan Sakthivel; Journal of Microbiology 2010;48(6):715-727.
DOI: https://doi.org/10.1007/s12275-010-0064-3
Published online: January 9, 2011

Department of Biotechnology, Pondicherry University, Kalapet, Puducherry 605014, IndiaDepartment of Biotechnology, Pondicherry University, Kalapet, Puducherry 605014, India

Corresponding author: Natarajan Sakthivel , Tel: +91-413-265-4430,

Received: 17 February 2010 • Accepted: 30 June 2010

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Abstract

Antagonistic fluorescent pseudomonads isolated from rice rhizospheric soil were characterized using biochemical, taxonomical and molecular tools. Production of cyclopropane fatty acid (CFA) was correlated with their antagonistic potential. Strains were grouped into 18 different genotypes on the basis of amplified ribosomal DNA restriction analysis (ARDRA) and repetitive (rep)-PCR based genotypic fingerprinting analyses. High phylogenetic resolution among antagonistic fluorescent pseudomonad strains was obtained based on the DNA gyrase B subunit (gyrB) and RNA polymerase sigma factor 70 (rpoD) gene sequence analyses. Combined gyrB and rpoD sequence analysis resulted in the accurate estimation of molecular phylogeny and provided a significant correlation between the genetic distances among strains. Present study demonstrated the genetic and functional relationship of fluorescent pseudomonads. The knowledge on genetic and functional potential of fluorescent pseudomonads associated with rice rhizosphere is useful to understand their ecological role and for their utilization in sustainable agriculture.

Keywords: fluorescent pseudomonads;antagonistic potential;cyclopropane;gyrB;rpoD;rep-PCR

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Assessment of Genetic and Functional Relationship of Antagonistic Fluorescent Pseudomonads of Rice Rhizosphere by Repetitive Sequence, Protein Coding Sequence and Functional Gene Analyses

J. Microbiol. 2010;48(6):715-727. Published online January 9, 2011

DOI: https://doi.org/10.1007/s12275-010-0064-3

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