Draft Genome Sequence of Campylobacter fetus MMM01, Isolated from a Chronic Kidney Disease Patient with Sepsis.

Campylobacter fetus is a Gram-negative bacterium that has caused several cases of human and animal disease. Here, we report the draft genome sequence of C. fetus MMM01, isolated from the blood of a 60-year-old patient with type II diabetes and chronic kidney disease. The sequence has a total length of 1,740,393 bp and an average G+C content of 33.1%. The availability of the draft genome sequence of C. fetus MMM01 isolated from a case of chronic kidney disease will contribute to a better understanding of the pathophysiological mechanisms of this organism.

GENOME ANNOUNCEMENT

Campylobacter fetus is a Gram-negative bacterium composed of two subspecies: C. fetus subsp. fetus and C. fetus subsp. venerealis, which cause several kinds of diseases in humans and animals (1, 2). The ecological niches of these subspecies are different, and they can be isolated from a variety of different hosts (3, 4). Cases of bacteremia in humans, particularly immunocompromised individuals, due to C. fetus have been reported in recent years in several parts of the world (2). Here, we report the draft genome sequence of C. fetus MMM01 isolated from the blood of a 60-year-old patient with type II diabetes and chronic kidney disease. The organism was identified as C. fetus with a matrix-assisted laser desorption ionization–time of flight mass spectrometry (MALDI TOF MS) system (Bruker Daltonics, Bremen, Germany).

Genomic DNA was extracted from C. fetus MMM01 using the QIAamp DNA minikit (Qiagen, Germany). A concentration of 50 ng/µl was used for the genome sequencing, which was performed on an Ion Torrent PGM platform, according to the manufacturer’s protocol (Bioserve Biotechnologies, India). The sequence data were assembled using CLC Genomics Workbench version 6. Structural gene prediction and functional annotation were performed using the Rapid Annotations using Subsystems Technology (RAST) server (5).

A total of 209,580 reads with a mean read length of 150 bp for 200-bp fragmentation chemistry obtained from the Ion PGM were assembled into 143 contigs. The draft genome of C. fetus MMM01 has a total length of 1,740,393 bp, with an average G+C content of 33.1%. Annotation of the C. fetus MMM01 draft genome was done using RAST and contains 2,278 open reading frames. All 143 contigs from C. fetus MMM01 were assembled to C. fetus subsp. fetus 82-40 (6) using Geneious 6.1.6 and showed a high degree of similarity to C. fetus subsp. fetus 82-40 (isolated from the blood of a human patient who had a renal transplant). The analysis obtained from RAST revealed 296 subsystems. The annotated genome has 87 genes responsible for virulence, including genes involved in adhesion, toxins, superantigens, bacteriocins, ribosomally synthesized antibacterial peptides, resistance to antibiotics and toxic compounds, invasion, and intracellular survival. The draft genome of C. fetus MMM01 has a continuous sequence of approximately 6,445 bp and contains genes coding for the multidrug efflux system (cmeABC), including its transcriptional repressor sequences. The genome also contains genes coding for macrolide specific efflux pumps, macA and macB.

The availability of the draft genome sequence of C. fetus MMM01 isolated from a case chronic kidney disease will contribute to a better understanding of the pathophysiological mechanisms of this organism. However, further studies are essential to investigate the virulence potential of this pathogen.

Nucleotide sequence accession numbers.

This whole-genome shotgun project has been deposited at DDBJ/EMBL/GenBank under the accession no. JRKX00000000. The version described in this paper is the first version, accession no. JRKX01000000.