Use of a Microchip Electrophoresis System for Estimation of Bacterial Phylogeny and Analysis of NO3−Reducing Bacterial Flora in Field Soils | Zendy

K. Watanabe | Zendy; N. Koga | Zendy

Open Access

Use of a Microchip Electrophoresis System for Estimation of Bacterial Phylogeny and Analysis of NO₃⁻Reducing Bacterial Flora in Field Soils

Author(s) -

K. Watanabe,

N. Koga

Publication year - 2009

Publication title -

bioscience biotechnology and biochemistry

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 0.509

H-Index - 116

eISSN - 1347-6947

pISSN - 0916-8451

DOI - 10.1271/bbb.70712

Subject(s) - biology , 16s ribosomal rna , ralstonia , acinetobacter , microbiology and biotechnology , burkholderia , bacteria , phylogenetic tree , sequence analysis , pseudomonas , genetics , dna , gene

Phylogenetic estimation method without determination of DNA sequence was developed. By this method, fragment length polymorphism separately digested with multiple restriction enzymes was measured using microchip electrophoresis and affiliated with those calculated from corresponding DNA sequence in the theoretical database. The phylogenies of 129 NO(3)(-) reducing bacteria newly isolated from field soils were estimated by this method, and were compared to those by carbon source utilization profiles and by comparative sequence analysis of 16S rDNA. Various bacteria such as Micrococcus sp. (one isolate), Acidovorax delofieldii (one isolate), Cupriavidus necator (one isolate), Burkholderia sp., (seven isolates), Commamonas acidovorans (two isolates), Herbaspirillum seropedicae (two isolates), Ralstonia sp. (six isolates), Pseudomonas spp. (14 isolates), and Acinetobacter spp. (one isolate), were affiliated as similar to those by sequence analysis of 16S rDNA, while exact affiliation of genus was difficult for those belonging to Enterobacteriaceae.

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