title: The membrane-associated monooxygenase in the butane-oxidizing Gram-positive bacterium Nocardioides sp. strain CF8 is a novel member of the AMO/PMO family.
abstract: The Gram-positive bacterium Nocardioides sp. strain CF8 uses a membrane-associated monooxygenase (pBMO) to grow on butane. The nucleotide sequences of the genes encoding this novel monooxygenase were revealed through analysis of a de novo assembled draft genome sequence determined by high-throughput sequencing of the whole genome. The pBMO genes were in a similar arrangement to the genes for ammonia monooxygenase (AMO) from the ammonia-oxidizing bacteria and for particulate methane monooxygenase (pMMO) from the methane-oxidizing bacteria. The pBMO genes likely constitute an operon in the order bmoC, bmoA and bmoB. The nucleotide sequence was less than 50% similar to the genes for AMO and pMMO. The operon for pBMO was confirmed to be a single copy in the genome by Southern and computational analyses. In an incubation on butane the increase of transcriptional activity of the pBmoA gene was congruent with the increase of pBMO activity and suggested correspondence between gene expression and the utilization of butane. Phylogenetic comparison revealed distant but significant similarity of all three pBMO subunits to homologous members of the AMO/pMMO family and indicated that the pBMO represents a deeply branching third lineage of this group of particulate monooxygenases. No other bmoCAB-like genes were found to cluster with pBMO lineage in phylogenetic analysis by database searches including genomic and metagenomic sequence databases. pBMO is the first example of the AMO/pMMO-like monooxygenase from Gram-positive bacteria showing similarities to proteobacterial pMMO and AMO sequences.
authors.affiliation: Department of Botany and Plant Pathology Molecular and Cellular Biology Program Center for Genome Research and Biocomputing, Oregon State University, Corvallis, OR 97331, USA. Center for Marine Environmental Studies, Ehime University, Bunkyo 3, Matsuyama, Ehime 790-8577, Japan. Department of Chemical Engineering, National Taiwan University, Taipei, 106, Taiwan.
authors.forename: Luis A
authors.initials: LA
authors.lastname: Sayavedra-Soto
authors.forename: Natsuko
authors.initials: N
authors.lastname: Hamamura
authors.forename: Chih-Wen
authors.initials: CW
authors.lastname: Liu
authors.forename: Jeffrey A
authors.initials: JA
authors.lastname: Kimbrel
authors.forename: Jeff H
authors.initials: JH
authors.lastname: Chang
authors.forename: Daniel J
authors.initials: DJ
authors.lastname: Arp