Complete genome sequence of Denitrovibrio acetiphilus type strain (N2460)

Abstract

Denitrovibrio acetiphilus Myhr and Torsvik 2000 is the type species of the genus Denitrovibrio in the bacterial family Deferribacteraceae. It is of phylogenetic interest because there are only six genera described in the family Deferribacteraceae. D. acetiphilus was isolated as a representative of a population reducing nitrate to ammonia in a laboratory column simulating the conditions in off-shore oil recovery fields. When nitrate was added to this column undesirable hydrogen sulfide production was stopped because the sulfate reducing populations were superseded by these nitrate reducing bacteria. Here we describe the features of this marine, mesophilic, obligately anaerobic organism respiring by nitrate reduction, together with the complete genome sequence, and annotation. This is the second complete genome sequence of the order Deferribacterales and the class Deferribacteres, which is the sole class in the phylum Deferribacteres. The 3,222,077 bp genome with its 3,034 protein-coding and 51 RNA genes is part of the Genomic Encyclopedia of Bacteria and Archaea project.

Keywords: Deferribacteraceae; Deferribacteres; GEBA; dissimilatory nitrate-reducer; free-living; marine; mesophile; motile; obligately anaerobic.

Figure 1

Phylogenetic tree highlighting the position of D. acetiphilus strain N2460^T relative to the other species within the phylum Deferribacteres. The tree was inferred from 1,460 aligned characters [3,4] of the 16S rRNA sequence under the maximum likelihood criterion [5] and rooted with Caldithrix abyssi ('Unclassified Deferribacterales'). The branches are scaled in terms of the expected number of substitutions per site. Numbers above branches are support values from 800 bootstrap replicates [6] if larger than 60%. Strains with a genome sequencing project registered in GOLD [7] are printed in blue; published genomes in bold [8].

Figure 2

Scanning electron micrograph of D. acetiphilus strain N2460^T

Figure 3

Graphical circular map of the chromosome. From outside to the center: Genes on forward strand (color by COG categories), Genes on reverse strand (color by COG categories), RNA genes (tRNAs green, rRNAs red, other RNAs black), GC content, GC skew.