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Blast Atlas of Calgary 2012 outbreak cluster isolates. A Blast Atlas was generated with GView Server using L. pneumophila genomes from the Calgary 2012 outbreak (turquoise) and Ontario (violet). Regions with Blast scores >80% identity and Expect values <e −10 to the reference genome (Calgary- 120 826) are displayed. Upper tracks: Blast analysis of draft genome sequences; lower tracks: Blast analysis of predicted CDSs and genomic elements, GC content, and GC skew. Components of the Dot/Icm system, Dot/Icm effectors, Vir/Tra homologs, Integrases, RtxA, and mobile elements (predicted by Island Viewer, PHAST, and PhiSPY) are indicated.

Journal: Epidemiology and Infection

Article Title: Unusual Legionnaires' outbreak in cool, dry Western Canada: an investigation using genomic epidemiology

doi: 10.1017/S0950268816001965

Figure Lengend Snippet: Blast Atlas of Calgary 2012 outbreak cluster isolates. A Blast Atlas was generated with GView Server using L. pneumophila genomes from the Calgary 2012 outbreak (turquoise) and Ontario (violet). Regions with Blast scores >80% identity and Expect values

Article Snippet: Preliminary identification of isolates suggestive of L. pneumophila was performed using MonoFluoTM L. pneumophila indirect immunofluorescent antibody test kit (Bio-Rad Laboratories, Canada).

Techniques: Generated

Genome alignment of L. pneumophila isolates showing genome architecture and synteny. The genome alignment and schematic were obtained using the Mauve software package and the CONTIGuator-generated pseudomolecules of the de novo assembled Calgary 2012 draft genomes. Homologous segments are illustrated as coloured blocks. Isolates 120 825 (case 5) and 120 842 (case 7) show translocated segments (pink and green, respectively) relative to the Toronto-2005 reference genome (CP012019) and to the other Calgary 2012 isolates (120 815, case 3; 120 824, case 2; 120 826, case 6).

Journal: Epidemiology and Infection

Article Title: Unusual Legionnaires' outbreak in cool, dry Western Canada: an investigation using genomic epidemiology

doi: 10.1017/S0950268816001965

Figure Lengend Snippet: Genome alignment of L. pneumophila isolates showing genome architecture and synteny. The genome alignment and schematic were obtained using the Mauve software package and the CONTIGuator-generated pseudomolecules of the de novo assembled Calgary 2012 draft genomes. Homologous segments are illustrated as coloured blocks. Isolates 120 825 (case 5) and 120 842 (case 7) show translocated segments (pink and green, respectively) relative to the Toronto-2005 reference genome (CP012019) and to the other Calgary 2012 isolates (120 815, case 3; 120 824, case 2; 120 826, case 6).

Article Snippet: Preliminary identification of isolates suggestive of L. pneumophila was performed using MonoFluoTM L. pneumophila indirect immunofluorescent antibody test kit (Bio-Rad Laboratories, Canada).

Techniques: Software, Generated

Maximum likelihood SNV phylogeny analysis of ST222 L. pneumophila isolates. Maximum likelihood phylogenetic model of L. pneumophila ST222 isolates based on 1688 core SNV loci (Supplementary Table S3) illustrating a close relationship (⩽1 SNV) among Calgary 2012 outbreak isolates (refer to Methods section). The Calgary cluster is distinguished from Ontario strains by ⩾11 core SNVs (Mississauga-2006). Strains associated with sporadic Legionnaires' disease cases are denoted with an asterisk (*). Reference genome: Toronto-2005 (CP012019). The number of SNVs between isolates according the phylogenetic model is indicated and a distance bar is shown. Calgary 2012 isolates: 120 815, case 3; 120 824, case 2; 120 825, case 5; 120 826, case 6; 120 842, case 7.

Journal: Epidemiology and Infection

Article Title: Unusual Legionnaires' outbreak in cool, dry Western Canada: an investigation using genomic epidemiology

doi: 10.1017/S0950268816001965

Figure Lengend Snippet: Maximum likelihood SNV phylogeny analysis of ST222 L. pneumophila isolates. Maximum likelihood phylogenetic model of L. pneumophila ST222 isolates based on 1688 core SNV loci (Supplementary Table S3) illustrating a close relationship (⩽1 SNV) among Calgary 2012 outbreak isolates (refer to Methods section). The Calgary cluster is distinguished from Ontario strains by ⩾11 core SNVs (Mississauga-2006). Strains associated with sporadic Legionnaires' disease cases are denoted with an asterisk (*). Reference genome: Toronto-2005 (CP012019). The number of SNVs between isolates according the phylogenetic model is indicated and a distance bar is shown. Calgary 2012 isolates: 120 815, case 3; 120 824, case 2; 120 825, case 5; 120 826, case 6; 120 842, case 7.

Article Snippet: Preliminary identification of isolates suggestive of L. pneumophila was performed using MonoFluoTM L. pneumophila indirect immunofluorescent antibody test kit (Bio-Rad Laboratories, Canada).

Techniques: