Genomic insights into methanotrophy: the complete genome sequence of Methylococcus capsulatus (Bath)

PLoS Biology
Naomi WardJonathan A Eisen

Abstract

Methanotrophs are ubiquitous bacteria that can use the greenhouse gas methane as a sole carbon and energy source for growth, thus playing major roles in global carbon cycles, and in particular, substantially reducing emissions of biologically generated methane to the atmosphere. Despite their importance, and in contrast to organisms that play roles in other major parts of the carbon cycle such as photosynthesis, no genome-level studies have been published on the biology of methanotrophs. We report the first complete genome sequence to our knowledge from an obligate methanotroph, Methylococcus capsulatus (Bath), obtained by the shotgun sequencing approach. Analysis revealed a 3.3-Mb genome highly specialized for a methanotrophic lifestyle, including redundant pathways predicted to be involved in methanotrophy and duplicated genes for essential enzymes such as the methane monooxygenases. We used phylogenomic analysis, gene order information, and comparative analysis with the partially sequenced methylotroph Methylobacterium extorquens to detect genes of unknown function likely to be involved in methanotrophy and methylotrophy. Genome analysis suggests the ability of M. capsulatus to scavenge copper (including a previously unrepor...Continue Reading

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Datasets Mentioned

BETA
MCA0232
AE017282

Methods Mentioned

BETA
PCR
phylogenetic profile

Software Mentioned

MUMmer
BLASTP
Automated Phylogenetic Inference System
In
GLIMMER
Condor
house
Perl
Linux shell scripts

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