Characterization of nitrogen-fixingPaenibacillusspecies by polymerase chain reaction–restriction fragment length polymorphism analysis of part of genes encoding 16S rRNA and 23S rRNA and by multilocus enzyme electrophoresis

Abstract

Forty-two strains representing the eight recognized nitrogen-fixing Paenibacillus species and 12 non-identified strains were examined by restriction fragment length polymorphism (RFLP) analysis of part of 16S and 23S rRNA genes amplified by polymerase chain reaction (PCR). Eleven different 16S rDNA genotypes were obtained from the combined data of RFLP analysis with four endonucleases and they were in agreement with the established taxonomic classification. Only one group of unclassified strains (Group I) was assigned in a separate genotype, suggesting they belong to a new species. Using the 23S PCR^RFLP method only six genotypes were detected, showing that this method is less discriminative than the 16S PCR^RFLP. Using the multilocus enzyme electrophoresis (MLEE) assay, the 48 strains tested could be classified into 35 zymovars. The seven enzymatic loci tested were polymorphic and the different profiles obtained among strains allowed the grouping of strains into 10 clusters. The PCR^RFLP methods together with the MLEE assay provide a rapid tool for the characterization and the establishment of the taxonomic position of isolates belonging to this nitrogen-fixing group, which shows a great potentiality in promoting plant growth.

Seasonal dynamics of dimethylarsinic-acid-decomposing bacteria dominating in Lake Kahokugata

“…39,40 Moreover seasonal dynamics in the Vibrio population could be investigated using RFLP analysis. 41 On the phylogenetic tree, the representative isolates of the BBA or AAC type groups each form a single cluster relating to genus Comamonas or genus Pseudomonas respectively, whereas those of the BAA type group did not relate to each other and formed five clusters (Fig.…”

Draft Genome Sequence of the Paenibacillus polymyxa Type Strain (ATCC 842 T ), a Plant Growth-Promoting Bacterium

“…Its plant growth-promoting activity is often ascribed to nitrogen fixation, production of antimicrobial compounds against plant pathogens, and secretion of hydrolytic enzymes that can enhance the availability of nutrients to the plants (5,15,17). There is also evidence that certain Paenibacillus strains produce plant growth hormones, such as cytokinin and auxin (6,11,16,20).…”

Classification for Dimethylarsenate-decomposing Bacteria Using a Restrict Fragment Length Polymorphism Analysis of 16S rRNA Genes

“…The RFLP analysis of 16S rDNA sequences was used to classify various bacterial groups, such as celluloselytic bacteria, 15,16 bacterioplankton, 32 and nitrogen-fixation bacteria isolated from solids. 33,34 In the present study, the RFLP analysis of DMAA decomposing bacteria revealed that 27 isolates obtained from Lake Kahokugata and Lake Kibagata were classified into 12 types. Moreover, no RFLP type was common between Lake Kibagata and Lake Kahokugata, suggesting that the composition of DMAA decomposing bacteria would be specific for each lake.…”