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  • 92
    ATCC t denticola atcc 700768
    Bayesian phylogenetic trees of Treponema denticola strains based on individual 16S rRNA, <t>flaA</t> , recA , pyrH , ppnK , dnaN , era and radC gene datasets. The Bayesian 50% majority-rule consensus tree of 9,000 trees, following the removal of 1,000 trees as burn-in, is shown for each gene. Numbers above branches are posterior probabilities. Corresponding gene homologoues from Treponema vincentii LA-1 (ATCC 33580) and Treponema pallidum subsp. pallidum SS14 were included in the phylogenetic analysis as outgroups. The radC gene is absent from the T . pallidum genome.
    T Denticola Atcc 700768, supplied by ATCC, used in various techniques. Bioz Stars score: 92/100, based on 10 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    94
    ATCC t pectinovorum atcc 700769
    Roary matrix of the pan-genome of T. <t>pectinovorum</t> strains Marseille1-CSURP6641, Marseille2-CSURP6642, Marseille3-CSURP7641, and Marseille4-CSURP7639 and the type strain ATCC 700769.
    T Pectinovorum Atcc 700769, supplied by ATCC, used in various techniques. Bioz Stars score: 94/100, based on 5 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    99
    ATCC t denticola atcc 35405
    Roary matrix of the pan-genome of T. <t>pectinovorum</t> strains Marseille1-CSURP6641, Marseille2-CSURP6642, Marseille3-CSURP7641, and Marseille4-CSURP7639 and the type strain ATCC 700769.
    T Denticola Atcc 35405, supplied by ATCC, used in various techniques. Bioz Stars score: 99/100, based on 672 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    92
    ATCC t denticola
    ML phylogenetic tree of oral treponeme 16S rRNA genes. The maximum clade credibility tree topology is supported by bootstrapping for 1,000 replicates (first number) and Bayesian posterior probabilities (second number) separated with a forward slash “/” symbol in percentages; only values over 40% are shown beside the branch nodes. Sequences generated in this study are in boldface type. A scale bar indicates the nucleotide changes per position. Excessively long branches were trimmed in proportion to the scale bar (indicated by “//” on the branches). The respective oral treponeme species (phylogroups) are indicated with different color shadings. The corresponding HOT numbers are also indicated as follows: T. <t>denticola</t> (HOT 584), dark blue; T. putidum (HOT 743), red; T. vincentii (HOT 029), light green; Treponema sp. IA (HOT 231), purple; Treponema sp. IB (HOT 667), light blue; and Treponema sp. IC (HOT 231), orange.
    T Denticola, supplied by ATCC, used in various techniques. Bioz Stars score: 92/100, based on 357 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    91
    ATCC t vincentii strains
    ML phylogenetic tree of oral treponeme 16S rRNA genes. The maximum clade credibility tree topology is supported by bootstrapping for 1,000 replicates (first number) and Bayesian posterior probabilities (second number) separated with a forward slash “/” symbol in percentages; only values over 40% are shown beside the branch nodes. Sequences generated in this study are in boldface type. A scale bar indicates the nucleotide changes per position. Excessively long branches were trimmed in proportion to the scale bar (indicated by “//” on the branches). The respective oral treponeme species (phylogroups) are indicated with different color shadings. The corresponding HOT numbers are also indicated as follows: T. denticola (HOT 584), dark blue; T. putidum (HOT 743), red; T. <t>vincentii</t> (HOT 029), light green; Treponema sp. IA (HOT 231), purple; Treponema sp. IB (HOT 667), light blue; and Treponema sp. IC (HOT 231), orange.
    T Vincentii Strains, supplied by ATCC, used in various techniques. Bioz Stars score: 91/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    92
    ATCC t putidum strains
    ML phylogenetic tree of oral treponeme 16S rRNA genes. The maximum clade credibility tree topology is supported by bootstrapping for 1,000 replicates (first number) and Bayesian posterior probabilities (second number) separated with a forward slash “/” symbol in percentages; only values over 40% are shown beside the branch nodes. Sequences generated in this study are in boldface type. A scale bar indicates the nucleotide changes per position. Excessively long branches were trimmed in proportion to the scale bar (indicated by “//” on the branches). The respective oral treponeme species (phylogroups) are indicated with different color shadings. The corresponding HOT numbers are also indicated as follows: T. denticola (HOT 584), dark blue; T. <t>putidum</t> (HOT 743), red; T. vincentii (HOT 029), light green; Treponema sp. IA (HOT 231), purple; Treponema sp. IB (HOT 667), light blue; and Treponema sp. IC (HOT 231), orange.
    T Putidum Strains, supplied by ATCC, used in various techniques. Bioz Stars score: 92/100, based on 7 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Image Search Results


    Bayesian phylogenetic trees of Treponema denticola strains based on individual 16S rRNA, flaA , recA , pyrH , ppnK , dnaN , era and radC gene datasets. The Bayesian 50% majority-rule consensus tree of 9,000 trees, following the removal of 1,000 trees as burn-in, is shown for each gene. Numbers above branches are posterior probabilities. Corresponding gene homologoues from Treponema vincentii LA-1 (ATCC 33580) and Treponema pallidum subsp. pallidum SS14 were included in the phylogenetic analysis as outgroups. The radC gene is absent from the T . pallidum genome.

    Journal: BMC Microbiology

    Article Title: Multilocus sequence analysis of Treponema denticola strains of diverse origin

    doi: 10.1186/1471-2180-13-24

    Figure Lengend Snippet: Bayesian phylogenetic trees of Treponema denticola strains based on individual 16S rRNA, flaA , recA , pyrH , ppnK , dnaN , era and radC gene datasets. The Bayesian 50% majority-rule consensus tree of 9,000 trees, following the removal of 1,000 trees as burn-in, is shown for each gene. Numbers above branches are posterior probabilities. Corresponding gene homologoues from Treponema vincentii LA-1 (ATCC 33580) and Treponema pallidum subsp. pallidum SS14 were included in the phylogenetic analysis as outgroups. The radC gene is absent from the T . pallidum genome.

    Article Snippet: In another study, Wyss et al . reported that the FlaA proteins from the ATCC 700768 and ATCC 700771 strains reacted positively towards the ‘pathogen-related oral spirochete’ (PROS) H9-2 antibody (raised against T . pallidum ); whilst the ATCC 35405, 35404, 33521, 33520 and ST10 strains were unreactive [ ].

    Techniques:

    Phylogenetic trees of Treponema denticola strains based on a concatenated 7 - gene dataset ( flaA , recA , pyrH , ppnK , dnaN , era and radC ), using Maximum Likelihood and Bayesian methods. A : Maximum likelihood (ML) tree generated under the GTR + I + G substitution model, with bootstrap values shown above branches. The scale bar represents 0.015 nucleotide changes per site. Numbers beneath the breakpoints in the branches indicate the respective nucleotide changes per site that have been removed. B : Ultrametric Bayesian (BA) 50% majority-rule consensus tree of 9,000 trees following the removal of 1,000 trees as burn-in. Numbers above branches are posterior probabilities. The respective clades formed in each tree are indicated with a Roman numeral (I-VI). Corresponding gene homologoues from Treponema vincentii LA-1 (ATCC 33580) and Treponema pallidum subsp. pallidum SS14 were included in the phylogenetic analysis as outgroups.

    Journal: BMC Microbiology

    Article Title: Multilocus sequence analysis of Treponema denticola strains of diverse origin

    doi: 10.1186/1471-2180-13-24

    Figure Lengend Snippet: Phylogenetic trees of Treponema denticola strains based on a concatenated 7 - gene dataset ( flaA , recA , pyrH , ppnK , dnaN , era and radC ), using Maximum Likelihood and Bayesian methods. A : Maximum likelihood (ML) tree generated under the GTR + I + G substitution model, with bootstrap values shown above branches. The scale bar represents 0.015 nucleotide changes per site. Numbers beneath the breakpoints in the branches indicate the respective nucleotide changes per site that have been removed. B : Ultrametric Bayesian (BA) 50% majority-rule consensus tree of 9,000 trees following the removal of 1,000 trees as burn-in. Numbers above branches are posterior probabilities. The respective clades formed in each tree are indicated with a Roman numeral (I-VI). Corresponding gene homologoues from Treponema vincentii LA-1 (ATCC 33580) and Treponema pallidum subsp. pallidum SS14 were included in the phylogenetic analysis as outgroups.

    Article Snippet: In another study, Wyss et al . reported that the FlaA proteins from the ATCC 700768 and ATCC 700771 strains reacted positively towards the ‘pathogen-related oral spirochete’ (PROS) H9-2 antibody (raised against T . pallidum ); whilst the ATCC 35405, 35404, 33521, 33520 and ST10 strains were unreactive [ ].

    Techniques: Generated

    Roary matrix of the pan-genome of T. pectinovorum strains Marseille1-CSURP6641, Marseille2-CSURP6642, Marseille3-CSURP7641, and Marseille4-CSURP7639 and the type strain ATCC 700769.

    Journal: Journal of Clinical Microbiology

    Article Title: Passive Filtration, Rapid Scanning Electron Microscopy, and Matrix-Assisted Laser Desorption Ionization–Time of Flight Mass Spectrometry for Treponema Culture and Identification from the Oral Cavity

    doi: 10.1128/JCM.00517-19

    Figure Lengend Snippet: Roary matrix of the pan-genome of T. pectinovorum strains Marseille1-CSURP6641, Marseille2-CSURP6642, Marseille3-CSURP7641, and Marseille4-CSURP7639 and the type strain ATCC 700769.

    Article Snippet: The draft genome sequences of T. pectinovorum ATCC 700769, T. pectinovorum Marseille1-CSURP6641, T. pectinovorum Marseille2-CSURP6642, T. pectinovorum Marseille3-CSURP764, T. pectinovorum Marseille4-CSURP7639, and T. denticola Marseille5-CSURP7640 were deposited at EMBL-EBI under accession numbers , , , , , and , respectively.

    Techniques:

    ML phylogenetic tree of oral treponeme 16S rRNA genes. The maximum clade credibility tree topology is supported by bootstrapping for 1,000 replicates (first number) and Bayesian posterior probabilities (second number) separated with a forward slash “/” symbol in percentages; only values over 40% are shown beside the branch nodes. Sequences generated in this study are in boldface type. A scale bar indicates the nucleotide changes per position. Excessively long branches were trimmed in proportion to the scale bar (indicated by “//” on the branches). The respective oral treponeme species (phylogroups) are indicated with different color shadings. The corresponding HOT numbers are also indicated as follows: T. denticola (HOT 584), dark blue; T. putidum (HOT 743), red; T. vincentii (HOT 029), light green; Treponema sp. IA (HOT 231), purple; Treponema sp. IB (HOT 667), light blue; and Treponema sp. IC (HOT 231), orange.

    Journal: Applied and Environmental Microbiology

    Article Title: Multilocus Sequence Analysis of Phylogroup 1 and 2 Oral Treponeme Strains

    doi: 10.1128/AEM.02499-16

    Figure Lengend Snippet: ML phylogenetic tree of oral treponeme 16S rRNA genes. The maximum clade credibility tree topology is supported by bootstrapping for 1,000 replicates (first number) and Bayesian posterior probabilities (second number) separated with a forward slash “/” symbol in percentages; only values over 40% are shown beside the branch nodes. Sequences generated in this study are in boldface type. A scale bar indicates the nucleotide changes per position. Excessively long branches were trimmed in proportion to the scale bar (indicated by “//” on the branches). The respective oral treponeme species (phylogroups) are indicated with different color shadings. The corresponding HOT numbers are also indicated as follows: T. denticola (HOT 584), dark blue; T. putidum (HOT 743), red; T. vincentii (HOT 029), light green; Treponema sp. IA (HOT 231), purple; Treponema sp. IB (HOT 667), light blue; and Treponema sp. IC (HOT 231), orange.

    Article Snippet: The results from the ML phylogenetic analysis of the concatenated flaA-recA-pyrH data sets clearly separated T. putidum from T. denticola , with the T. denticola ATCC 700768 (OMZ 830) strain being a notable outlier.

    Techniques: Generated, IA

    ML phylogenetic tree of oral treponeme 16S rRNA genes. The maximum clade credibility tree topology is supported by bootstrapping for 1,000 replicates (first number) and Bayesian posterior probabilities (second number) separated with a forward slash “/” symbol in percentages; only values over 40% are shown beside the branch nodes. Sequences generated in this study are in boldface type. A scale bar indicates the nucleotide changes per position. Excessively long branches were trimmed in proportion to the scale bar (indicated by “//” on the branches). The respective oral treponeme species (phylogroups) are indicated with different color shadings. The corresponding HOT numbers are also indicated as follows: T. denticola (HOT 584), dark blue; T. putidum (HOT 743), red; T. vincentii (HOT 029), light green; Treponema sp. IA (HOT 231), purple; Treponema sp. IB (HOT 667), light blue; and Treponema sp. IC (HOT 231), orange.

    Journal: Applied and Environmental Microbiology

    Article Title: Multilocus Sequence Analysis of Phylogroup 1 and 2 Oral Treponeme Strains

    doi: 10.1128/AEM.02499-16

    Figure Lengend Snippet: ML phylogenetic tree of oral treponeme 16S rRNA genes. The maximum clade credibility tree topology is supported by bootstrapping for 1,000 replicates (first number) and Bayesian posterior probabilities (second number) separated with a forward slash “/” symbol in percentages; only values over 40% are shown beside the branch nodes. Sequences generated in this study are in boldface type. A scale bar indicates the nucleotide changes per position. Excessively long branches were trimmed in proportion to the scale bar (indicated by “//” on the branches). The respective oral treponeme species (phylogroups) are indicated with different color shadings. The corresponding HOT numbers are also indicated as follows: T. denticola (HOT 584), dark blue; T. putidum (HOT 743), red; T. vincentii (HOT 029), light green; Treponema sp. IA (HOT 231), purple; Treponema sp. IB (HOT 667), light blue; and Treponema sp. IC (HOT 231), orange.

    Article Snippet: All 11 of the T. vincentii strains formed a separate clade, with the ATCC 700013 strain appearing somewhat distinct from the others.

    Techniques: Generated, IA

    ML phylogenetic tree of oral treponeme 16S rRNA genes. The maximum clade credibility tree topology is supported by bootstrapping for 1,000 replicates (first number) and Bayesian posterior probabilities (second number) separated with a forward slash “/” symbol in percentages; only values over 40% are shown beside the branch nodes. Sequences generated in this study are in boldface type. A scale bar indicates the nucleotide changes per position. Excessively long branches were trimmed in proportion to the scale bar (indicated by “//” on the branches). The respective oral treponeme species (phylogroups) are indicated with different color shadings. The corresponding HOT numbers are also indicated as follows: T. denticola (HOT 584), dark blue; T. putidum (HOT 743), red; T. vincentii (HOT 029), light green; Treponema sp. IA (HOT 231), purple; Treponema sp. IB (HOT 667), light blue; and Treponema sp. IC (HOT 231), orange.

    Journal: Applied and Environmental Microbiology

    Article Title: Multilocus Sequence Analysis of Phylogroup 1 and 2 Oral Treponeme Strains

    doi: 10.1128/AEM.02499-16

    Figure Lengend Snippet: ML phylogenetic tree of oral treponeme 16S rRNA genes. The maximum clade credibility tree topology is supported by bootstrapping for 1,000 replicates (first number) and Bayesian posterior probabilities (second number) separated with a forward slash “/” symbol in percentages; only values over 40% are shown beside the branch nodes. Sequences generated in this study are in boldface type. A scale bar indicates the nucleotide changes per position. Excessively long branches were trimmed in proportion to the scale bar (indicated by “//” on the branches). The respective oral treponeme species (phylogroups) are indicated with different color shadings. The corresponding HOT numbers are also indicated as follows: T. denticola (HOT 584), dark blue; T. putidum (HOT 743), red; T. vincentii (HOT 029), light green; Treponema sp. IA (HOT 231), purple; Treponema sp. IB (HOT 667), light blue; and Treponema sp. IC (HOT 231), orange.

    Article Snippet: This is consistent with a previous report ( ) which stated that this strain had a notably different phenotype from the other T. denticola and T. putidum strains analyzed.

    Techniques: Generated, IA