Journal: Microbiology Spectrum

Article Title: Strain-level detection of Fusobacterium nucleatum in colorectal cancer specimens by targeting the CRISPR–Cas region

doi: 10.1128/spectrum.05123-22

Figure Lengend Snippet: Amplification of the targeted CRISPR region of F. nucleatum -type strains by F. nucleatum -strain genotyping PCR. ( a ) Electrophoresis pattern of PCR products of F. nucleatum -type strains. M, DNA ladder marker; an, F. nucleatum subsp. animalis ; nu, F. nucleatum subsp. nucleatum ; po, F. nucleatum subsp. polymorphum ; vi, F. nucleatum subsp. vincentii ; NC, negative control. The size of the marker fragments, from top to bottom, was 20 , 10, 7.0, 5.0 , 4.0, 3.0, 2.0 , 1.5, 1.3, 1.0 , 0.7, 0.5 , 0.4, 0.3, 0.2, and 0.1 kbp; the intensified fragments are underlined. ( b ) DNA sequences of the 5′- and 3′-ends of PCR amplicon of F. nucleatum subsp. animalis Type I-B1 [yellow square in ( a )] are shown and were used for the analysis. Repeat sequences are detected by CRISPRCasFinder and written in red. DNA sequences of other PCR amplicons are in .

Article Snippet: Type strains, F. nucleatum subsp. animalis JCM11025 T , F. nucleatum subsp. nucleatum JCM8532 T , F. nucleatum subsp. polymorphum JCM12990 T , and F. nucleatum subsp. vincentii JCM11023 T , were purchased from the Japan Collection of Microorganisms of RIKEN BioResource Research Center.

Techniques: Amplification, CRISPR, Electrophoresis, Marker, Negative Control

Journal: Microbiology Spectrum

Article Title: Strain-level detection of Fusobacterium nucleatum in colorectal cancer specimens by targeting the CRISPR–Cas region

doi: 10.1128/spectrum.05123-22

Figure Lengend Snippet: Detection of F. nucleatum strains from saliva of CRC patients by the F. nucleatum -strain genotyping PCR. ( a ) Detection of PCR amplicons from single and mixed multiple genomic DNA of F. nucleatum strains. From left to right, F. nucleatum subsp. animalis A3, A4, A5, A7 (Type I-B1); F. nucleatum subsp. polymorphum A-S11, P3, P7 (Type I-B2); F. nucleatum subsp. animalis A1, A8, F. nucleatum subsp. vincentii V7, F. nucleatum subsp. nucleatum N1 (Type II-A); F. nucleatum subsp. animalis A1, A3, F. nucleatum subsp. polymorphum P4 (Type III-A). Origins of many isolates are shown in Fig. S2. Strains A7, A8, and V7, A-S11, and A1, which are not in Fig. S2, were isolated from saliva of Patient H, saliva of Patient A, and CRC of Patient C, respectively, in our previous study . ( b ) Single genomic DNA of isolate or total genomic DNA extracted from saliva (the origin of the isolates) was used as a template (Patient M). The lane of total saliva (left, “S” in yellow) contains the bands identified in the isolates (blue arrowhead) and the amplicons derived from other non-isolates (pink arrowhead). Data are not available for strain V2 of Patient E and A12 of Patient M because these do not have all CRISPR types (see ).

Article Snippet: Type strains, F. nucleatum subsp. animalis JCM11025 T , F. nucleatum subsp. nucleatum JCM8532 T , F. nucleatum subsp. polymorphum JCM12990 T , and F. nucleatum subsp. vincentii JCM11023 T , were purchased from the Japan Collection of Microorganisms of RIKEN BioResource Research Center.

Techniques: Isolation, Derivative Assay, CRISPR

Journal:

Article Title: ?-Lactamase Production and Antimicrobial Susceptibility of Oral Heterogeneous Fusobacterium nucleatum Populations in Young Children

doi:

Figure Lengend Snippet: Characteristics of 20 children and the distribution of β-lactamase-producing F. nucleatum subspecies among their oral F. nucleatum populations a

Article Snippet: For the latter isolates, similarity indices were less than 0.3 (the highest possible match is 1.0) and/or the differences between the primary and secondary identification choices by MIS were less than 0.1. fig ft0 fig mode=article f1 fig/graphic|fig/alternatives/graphic mode="anchored" m1 Open in a separate window FIG. 1 caption a7 Dendrogram of β-lactamase-producing F. nucleatum isolates and the type strains F. nucleatum subsp. polymorphum ATCC 10953 T , F. nucleatum subsp. nucleatum ATCC 25586 T , F. nucleatum subsp. vincentii ATCC 49256 T , F. nucleatum subsp. fusiforme NCTC 11326 T , F. nucleatum subsp. animalis NCTC 12276 T , and F. periodonticum ATCC 33693 T , generated by cluster analysis of CFA profiles.

Techniques:

Journal:

Article Title: ?-Lactamase Production and Antimicrobial Susceptibility of Oral Heterogeneous Fusobacterium nucleatum Populations in Young Children

doi:

Figure Lengend Snippet: Dendrogram of β-lactamase-producing F. nucleatum isolates and the type strains F. nucleatum subsp. polymorphum ATCC 10953T, F. nucleatum subsp. nucleatum ATCC 25586T, F. nucleatum subsp. vincentii ATCC 49256T, F. nucleatum subsp. fusiforme NCTC 11326T, F. nucleatum subsp. animalis NCTC 12276T, and F. periodonticum ATCC 33693T, generated by cluster analysis of CFA profiles.

Article Snippet: For the latter isolates, similarity indices were less than 0.3 (the highest possible match is 1.0) and/or the differences between the primary and secondary identification choices by MIS were less than 0.1. fig ft0 fig mode=article f1 fig/graphic|fig/alternatives/graphic mode="anchored" m1 Open in a separate window FIG. 1 caption a7 Dendrogram of β-lactamase-producing F. nucleatum isolates and the type strains F. nucleatum subsp. polymorphum ATCC 10953 T , F. nucleatum subsp. nucleatum ATCC 25586 T , F. nucleatum subsp. vincentii ATCC 49256 T , F. nucleatum subsp. fusiforme NCTC 11326 T , F. nucleatum subsp. animalis NCTC 12276 T , and F. periodonticum ATCC 33693 T , generated by cluster analysis of CFA profiles.

Techniques: Generated

Journal:

Article Title: ?-Lactamase Production and Antimicrobial Susceptibility of Oral Heterogeneous Fusobacterium nucleatum Populations in Young Children

doi:

Figure Lengend Snippet: In vitro activities of antimicrobial agents against β-lactamase-producing and non-β-lactamase-producing F. nucleatum isolates

Article Snippet: For the latter isolates, similarity indices were less than 0.3 (the highest possible match is 1.0) and/or the differences between the primary and secondary identification choices by MIS were less than 0.1. fig ft0 fig mode=article f1 fig/graphic|fig/alternatives/graphic mode="anchored" m1 Open in a separate window FIG. 1 caption a7 Dendrogram of β-lactamase-producing F. nucleatum isolates and the type strains F. nucleatum subsp. polymorphum ATCC 10953 T , F. nucleatum subsp. nucleatum ATCC 25586 T , F. nucleatum subsp. vincentii ATCC 49256 T , F. nucleatum subsp. fusiforme NCTC 11326 T , F. nucleatum subsp. animalis NCTC 12276 T , and F. periodonticum ATCC 33693 T , generated by cluster analysis of CFA profiles.

Techniques: In Vitro