Nationwide surveillance of bacterial respiratory pathogens conducted by the surveillance committee of Japanese Society of Chemotherapy, the Japanese Association for Infectious Diseases, and the Japanese Society for Clinical Microbiology in 2010: General view of the pathogens\u27 antibacterial susceptibility

The nationwide surveillance on antimicrobial susceptibility of bacterial respiratory pathogens from patients in Japan, was conducted by Japanese Society of Chemotherapy, Japanese Association for Infectious Diseases and Japanese Society for Clinical Microbiology in 2010.The isolates were collected from clinical specimens obtained from well-diagnosed adult patients with respiratory tract infections during the period from January and April 2010 by three societies. Antimicrobial susceptibility testing was conducted at the central reference laboratory according to the method recommended by Clinical and Laboratory Standard Institutes using maximum 45 antibacterial agents.Susceptibility testing was evaluable with 954 strains (206 Staphylococcus aureus, 189 Streptococcus pneumoniae, 4 Streptococcus pyogenes, 182 Haemophilus influenzae, 74 Moraxella catarrhalis, 139 Klebsiella pneumoniae and 160 Pseudomonas aeruginosa). Ratio of methicillin-resistant S.aureus was as high as 50.5%, and those of penicillin-intermediate and -resistant S.pneumoniae were 1.1% and 0.0%, respectively. Among H.influenzae, 17.6% of them were found to be β-lactamase-non-producing ampicillin (ABPC)-intermediately resistant, 33.5% to be β-lactamase-non-producing ABPC-resistant and 11.0% to be β-lactamase-producing ABPC-resistant strains. Extended spectrum β-lactamase-producing K.pneumoniae and multi-drug resistant P.aeruginosa with metallo β-lactamase were 2.9% and 0.6%, respectively.Continuous national surveillance of antimicrobial susceptibility of respiratory pathogens is crucial in order to monitor changing patterns of susceptibility and to be able to update treatment recommendations on a regular basis

Genomic information of <i>F</i>. <i>varium</i> Fv113-g1.

<p>Genomic information of <i>F</i>. <i>varium</i> Fv113-g1.</p

Predicted number of autotransporters and FadA adhesions in the whole-genome sequence of <i>Fusobacterium</i> spp.

<p>Predicted number of autotransporters and FadA adhesions in the whole-genome sequence of <i>Fusobacterium</i> spp.</p

Basic genome information of <i>F</i>. <i>varium</i> Fv113-g1.

<p>Circular representation of the Fv113-g1 genome (chromosome and two plasmids) along with comparative genome information of other <i>F</i>. <i>varium</i> strains (<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0189319#pone.0189319.s002" target="_blank">S1 Table</a>). Fv113-g1 genomic information is shown. From inward, slots 1–4 (slot 1, GC skew; slot 2, GC content; slot 3, open reading frames; slot 4, RNAs), slots 5–8 (comparative genome analysis of ATCC 8501^T, ATCC 27725, ATCC 49185 and 12-1B, respectively, with ≥90% aa identity), slot 9 (prophage), and slots 10–11 (possible virulence factors: autotransporter, FadA protein, and hemagglutinin).</p

FadA paralogs adjacent to T5SS.

<p>Potential invasion molecule FadA is closely located to T5SS, possibly associated with Fv113-g1 pathogenicity. ORF color is also illustrated in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0189319#pone.0189319.g001" target="_blank">Fig 1</a> (red, T5SS; black, pseudo T5SS; blue, FadA paralogs).</p

Characterization of <i>Fusobacterium varium</i> Fv113-g1 isolated from a patient with ulcerative colitis based on complete genome sequence and transcriptome analysis

<div><p><i>Fusobacterium</i> spp. present in the oral and gut flora is carcinogenic and is associated with the risk of pancreatic and colorectal cancers. <i>Fusobacterium</i> spp. is also implicated in a broad spectrum of human pathologies, including Crohn’s disease and ulcerative colitis (UC). Here we report the complete genome sequence of <i>Fusobacterium varium</i> Fv113-g1 (genome size, 3.96 Mb) isolated from a patient with UC. Comparative genome analyses totally suggested that Fv113-g1 is basically assigned as <i>F</i>. <i>varium</i>, in particular, it could be reclassified as notable <i>F</i>. <i>varium</i> subsp. similar to <i>F</i>. <i>ulcerans</i> because of partial shared orthologs. Compared with the genome sequences of <i>F</i>. <i>varium</i> ATCC 27725 (genome size, 3.30 Mb) and other strains of <i>Fusobacterium</i> spp., Fv113-g1 possesses many accessary pan-genome sequences with noteworthy multiple virulence factors, including 44 autotransporters (type V secretion system, T5SS) and 13 <i>Fusobacterium</i> adhesion (FadA) paralogs involved in potential mucosal inflammation. Indeed, transcriptome analysis demonstrated that Fv113-g1-specific accessary genes, such as multiple T5SS and <i>fadA</i> paralogs, showed notably increased expression with D-MEM cultivation than with brain heart infusion broth. This implied that growth condition may enhance the expression of such potential virulence factors, leading to remarkable survival against other gut microorganisms and to the pathogenicity to human intestinal epithelium.</p></div