Fig. 1
Representing available pMMO sequences including the sequence obtained in this study. The tree was constructed using consensus sequence, based on the fraction and frequency of residues at an alignment position chosen within pmoC using both ARB’s PHYML (amino Acids) tool within the maximum likelihood method and Phylip PROTPARS within the maximum parsimony method. Since the two trees were highly similar, only maximum likelihood is shown here. Due to size limitation, the tree is partially collapsed for an easier illustration and pXMO is used as the outgroup instead of AOB sequences that are omitted from this figure. The tree was built with 100 bootstraps and the ranges of values are shown with the respective colored circles at each node. Clone sequences with their respective accession numbers are highlighted in blue and the numbers in the brackets correspond to the number of sequences within a group. Gammaproteobacteria, Alphaproteobacteria, NC10 and Verrucomicrobia are clearly distinguished in the figure. Origin of clones: BS bulk soil, ROOT rhizosphere, VM volcanic mud, WW waste water sludge, RV bioreactor enrichment from vercelli, RS Methylacidiphilum fumariolicum SolV, DAMO Methylomirabilis oxyfera enrichment culture