title: Assessment of genetic and functional relationship of antagonistic fluorescent pseudomonads of rice rhizosphere by repetitive sequence, protein coding sequence and functional gene analyses.
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.
authors.affiliation: Department of Biotechnology, Pondicherry University, Kalapet, Puducherry, 605014, India.
authors.forename: Jayakumar
authors.initials: J
authors.lastname: Pathma
authors.forename: Niraikulam
authors.initials: N
authors.lastname: Ayyadurai
authors.forename: Natarajan
authors.initials: N
authors.lastname: Sakthivel
mesh_terms: D000898:Antibiosis; D001426:Bacterial Proteins / Q000235:genetics; D015373:Bacterial Typing Techniques; D016000:Cluster Analysis; D003521:Cyclopropanes / Q000378:metabolism; D016172:DNA Fingerprinting; D027081:DNA Gyrase / Q000235:genetics; D004269:DNA, Bacterial / Q000737:chemistry / Q000235:genetics*; D012321:DNA-Directed RNA Polymerases / Q000235:genetics; D005227:Fatty Acids / Q000378:metabolism; D008969:Molecular Sequence Data; D012275:Oryza / Q000382:microbiology*; D010802:Phylogeny; D018517:Plant Roots / Q000382:microbiology*; D011549:Pseudomonas / Q000145:classification* / Q000235:genetics* / Q000302:isolation & purification; D012091:Repetitive Sequences, Nucleic Acid; D058441:Rhizosphere; D017422:Sequence Analysis, DNA; D012808:Sigma Factor / Q000235:genetics; D012988:Soil Microbiology
chemical_list: D001426:Bacterial Proteins; D003521:Cyclopropanes; D004269:DNA, Bacterial; D005227:Fatty Acids; D012808:Sigma Factor; C028775:cyclopropane fatty acids; C081775:RNA polymerase sigma 70; D012321:DNA-Directed RNA Polymerases; D027081:DNA Gyrase