Diversity of 16S ribosomal DNA-defined bacterial population in acid rock drainage from Japanese pyrite mine

Ai Okabayashi, Satoshi Wakai, Tadayoshi Kanao, Tsuyoshi Sugio, Kazuo Kamimura

Research output: Contribution to journalArticle

25 Citations (Scopus)

Abstract

Four acidophilic bacteria (YARDs1-4) were isolated from an acid rock drainage (ARD) from Yanahara mine, Okayama prefecture, Japan. The physiological and 16S rDNA sequence analyses revealed that YARD1 was closely affiliated with Acidithiobacillus ferrooxidans, YARD2 was an Acidiphilium-like bacterium, and YARD3 and YARD4 were sulfur-oxidizing bacteria with a relatively close relationship to A. ferrooxidans in the phylogenetic analysis. A molecular approach based on the construction of a 16S rDNA clone library was used to investigate the microbial population of the ARD. Small-subunit rRNA genes were PCR amplified, subsequently cloned and screened for variation by a restriction fragment length polymorphism (RFLP) analysis. A total of 284 clones were grouped into 133 operational taxonomic units (OTUs) by the RFLP analysis. Among them, an OTU showing the same RFLP pattern as those of the isolates from the ARD was not detected. The phylogenetic analysis based on the 16S rDNA sequences from 10 major OTUs and their close relatives revealed that 4 OTUs containing 32.1% of the total clones were loosely affiliated with Verrucomicrobia, 2 OTUs containing 6.6% of the total clones were loosely affiliated with Chloribi, and other OTUs were affiliated with Actinobacteria, Nitrospirae, and β-Proteobacteria.

Original languageEnglish
Pages (from-to)644-652
Number of pages9
JournalJournal of Bioscience and Bioengineering
Volume100
Issue number6
DOIs
Publication statusPublished - Dec 2005

Fingerprint

Pyrites
Ribosomal DNA
Polymorphism
Drainage
Bacteria
DNA
Clone Cells
Rocks
Restriction Fragment Length Polymorphisms
Acids
Population
Acidiphilium
Verrucomicrobia
Acidithiobacillus
Sulfur
Proteobacteria
Actinobacteria
Genes
rRNA Genes
Sequence Analysis

Keywords

  • acid rock drainage
  • acidophile
  • phylogenetic analysis
  • restriction fragment length polymorphism (RFLP) analysis
  • Verrucomicrobia

ASJC Scopus subject areas

  • Biotechnology
  • Bioengineering

Cite this

Diversity of 16S ribosomal DNA-defined bacterial population in acid rock drainage from Japanese pyrite mine. / Okabayashi, Ai; Wakai, Satoshi; Kanao, Tadayoshi; Sugio, Tsuyoshi; Kamimura, Kazuo.

In: Journal of Bioscience and Bioengineering, Vol. 100, No. 6, 12.2005, p. 644-652.

Research output: Contribution to journalArticle

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