title: Functional and transcriptional analyses of the initial oxygenase genes for acenaphthene degradation from Sphingomonas sp. strain A4.
abstract: Sphingomonas sp. strain A4 is capable of utilizing acenaphthene as its sole carbon and energy source. To isolate the genes responsible for acenaphthene degradation, transposon mutagenesis was performed on strain A4 and four mini-Tn5-inserted mutants lacking the ability to utilize acenaphthene were isolated. In three of the four mini-Tn5 inserted mutants, the mini-Tn5s were inserted into the same locus (within about 16 kb) as the arhA1A2 genes, which had previously been identified as the genes encoding the terminal oxygenase components for the initial oxygenation of acenaphthene. The nucleotide sequence analysis of the corresponding 16.4 kb DNA fragment revealed the existence of 16 ORFs and a partial ORF. From these ORFs, the genes encoding the ferredoxin (ArhA3) and ferredoxin reductase (ArhA4) complementary to ArhA1A2 were identified. RT-PCR analysis suggested that a 13.5 kb gene cluster, consisting of 13 ORFs and including all the arhA genes, forms an operon, although it includes several ORFs that are apparently unnecessary for acenaphthene degradation. Furthermore, using gene disruption and quantitative RT-PCR analyses, the LysR-type activator, ArhR, required for expression of the 13.5 kb gene cluster was also identified. Transcription of the gene cluster by ArhR was induced in the presence of acenaphthene (or its metabolite), and a putative binding site (T-N11-A motif) for ArhR was found upstream from the transcription start point of arhA3.
authors.affiliation: Biotechnology Research Center, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan.
authors.forename: Atsushi
authors.initials: A
authors.lastname: Kouzuma
authors.affiliation: Department of Microbiology, Faculty of Science, Chulalongkorn University, Bangkok 10330, Thailand.
authors.forename: Onruthai
authors.initials: O
authors.lastname: Pinyakong
authors.affiliation: Biotechnology Research Center, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan.
authors.forename: Hideaki
authors.initials: H
authors.lastname: Nojiri
authors.affiliation: Department of Industrial Chemistry, Faculty of Engineering, Shibaura Institute of Technology, 3-9-14 Shibaura, Minato-ku, Tokyo 108-8548, Japan.
authors.forename: Toshio
authors.initials: T
authors.lastname: Omori
authors.affiliation: Biotechnology Research Center, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan.
authors.forename: Hisakazu
authors.initials: H
authors.lastname: Yamane
authors.affiliation: Biotechnology Research Center, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan.
authors.forename: Hiroshi
authors.initials: H
authors.lastname: Habe
mesh_terms: D000073:Acenaphthenes / Q000378:metabolism*; D001483:Base Sequence; D004251:DNA Transposable Elements; D005288:Ferredoxins / Q000378:metabolism; D005809:Genes, Regulator; D008969:Molecular Sequence Data; D009876:Operon; D010105:Oxygenases / Q000235:genetics* / Q000502:physiology; D020133:Reverse Transcriptase Polymerase Chain Reaction; D017422:Sequence Analysis, DNA; D020578:Sphingomonas / Q000378:metabolism*; D014158:Transcription, Genetic
chemical_list: D000073:Acenaphthenes; D004251:DNA Transposable Elements; D005288:Ferredoxins; D010105:Oxygenases; C042552:acenaphthene