16s rrna sequence  (ATCC)


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    Structured Review

    ATCC 16s rrna sequence
    Phylogenetic tree of E. lenta strain VPI 0255 T and all type strains of the genus Eggerthella as well as the type strains from all other genera of the family Coriobacteriaceae inferred from 1,373 aligned characters [ 15 , 16 ] of the <t>16S</t> <t>rRNA</t> gene under the maximum likelihood criterion [ 17 ]. The branches are scaled in terms of the expected number of substitutions per site. Numbers above branches are support values from 1,000 bootstrap replicates if larger than 60%. Lineages with type strain genome sequencing projects registered in GOLD [ 18 ] are shown in blue, published genomes in bold, including two of which are reported in this issue of SIGS [ 19 , 20 ]
    16s Rrna Sequence, supplied by ATCC, used in various techniques. Bioz Stars score: 94/100, based on 9 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/16s rrna sequence/product/ATCC
    Average 94 stars, based on 9 article reviews
    Price from $9.99 to $1999.99
    16s rrna sequence - by Bioz Stars, 2022-10
    94/100 stars

    Images

    1) Product Images from "Complete genome sequence of Eggerthella lenta type strain (IPP VPI 0255T)"

    Article Title: Complete genome sequence of Eggerthella lenta type strain (IPP VPI 0255T)

    Journal: Standards in Genomic Sciences

    doi: 10.4056/sigs.33592

    Phylogenetic tree of E. lenta strain VPI 0255 T and all type strains of the genus Eggerthella as well as the type strains from all other genera of the family Coriobacteriaceae inferred from 1,373 aligned characters [ 15 , 16 ] of the 16S rRNA gene under the maximum likelihood criterion [ 17 ]. The branches are scaled in terms of the expected number of substitutions per site. Numbers above branches are support values from 1,000 bootstrap replicates if larger than 60%. Lineages with type strain genome sequencing projects registered in GOLD [ 18 ] are shown in blue, published genomes in bold, including two of which are reported in this issue of SIGS [ 19 , 20 ]
    Figure Legend Snippet: Phylogenetic tree of E. lenta strain VPI 0255 T and all type strains of the genus Eggerthella as well as the type strains from all other genera of the family Coriobacteriaceae inferred from 1,373 aligned characters [ 15 , 16 ] of the 16S rRNA gene under the maximum likelihood criterion [ 17 ]. The branches are scaled in terms of the expected number of substitutions per site. Numbers above branches are support values from 1,000 bootstrap replicates if larger than 60%. Lineages with type strain genome sequencing projects registered in GOLD [ 18 ] are shown in blue, published genomes in bold, including two of which are reported in this issue of SIGS [ 19 , 20 ]

    Techniques Used: Sequencing

    2) Product Images from "A Bacterial Bile Acid Metabolite Modulates Treg Activity through the Nuclear Hormone Receptor NR4A1"

    Article Title: A Bacterial Bile Acid Metabolite Modulates Treg Activity through the Nuclear Hormone Receptor NR4A1

    Journal: bioRxiv

    doi: 10.1101/2021.01.08.425963

    Identification of gut bacteria that produce isoalloLCA from the gut bacterial metabolite 3-oxoLCA. (A) Proposed biosynthetic pathway for the conversion of the primary bile acid chenodeoxycholic acid (CDCA) (1) to isoalloLCA (4) by human gut bacteria. Bacteria that produce isoalloLCA have not yet been identified. (B) Representative UPLC-MS traces (left) and quantification of isoalloLCA production (right) by bacteria from a screen of human isolates following incubation for 96 hours with 3-oxoLCA (100 μM) (n = 3 biological replicates per group, data are shown as the mean ± SEM, N.D. = not detected). (C) Representative UPLC-MS traces (left) and quantification of isoalloLCA production (right) showing that a triculture of Clostridium scindens ATCC 35703, Eggerthella lenta DSM 2243 and Parabacteroides merdae ATCC 43184 converted CDCA to isoalloLCA while monocultures of these bacteria did not produce isoalloLCA. C. scindens ATCC 35703 contains bai operon genes that can transform CDCA to LCA ( Ridlon et al., 2006 ), while E. lenta DSM 2243 contains a 3α-HSDH, Elen_0690, that transforms LCA into 3-oxoLCA (Paik, Yao et al., 2020, under review) (n = 3 biological replicates per group, data are shown as the mean ± SEM, N.D. = not detected).
    Figure Legend Snippet: Identification of gut bacteria that produce isoalloLCA from the gut bacterial metabolite 3-oxoLCA. (A) Proposed biosynthetic pathway for the conversion of the primary bile acid chenodeoxycholic acid (CDCA) (1) to isoalloLCA (4) by human gut bacteria. Bacteria that produce isoalloLCA have not yet been identified. (B) Representative UPLC-MS traces (left) and quantification of isoalloLCA production (right) by bacteria from a screen of human isolates following incubation for 96 hours with 3-oxoLCA (100 μM) (n = 3 biological replicates per group, data are shown as the mean ± SEM, N.D. = not detected). (C) Representative UPLC-MS traces (left) and quantification of isoalloLCA production (right) showing that a triculture of Clostridium scindens ATCC 35703, Eggerthella lenta DSM 2243 and Parabacteroides merdae ATCC 43184 converted CDCA to isoalloLCA while monocultures of these bacteria did not produce isoalloLCA. C. scindens ATCC 35703 contains bai operon genes that can transform CDCA to LCA ( Ridlon et al., 2006 ), while E. lenta DSM 2243 contains a 3α-HSDH, Elen_0690, that transforms LCA into 3-oxoLCA (Paik, Yao et al., 2020, under review) (n = 3 biological replicates per group, data are shown as the mean ± SEM, N.D. = not detected).

    Techniques Used: Incubation

    Type strains of gut bacteria produce isoalloLCA from the gut bacterial metabolite 3-oxoLCA. (A) Schematic representation of the screen of gut human bacterial isolates for isoalloLCA production. Bacterial strains were isolated from human stool as described previously (Paik, Yao et al., 2020, under review). The 990 bacterial strains isolated were then incubated with either 100 μM LCA or 3-oxoLCA. IsoalloLCA-producing strains were identified by UPLC-MS analysis, and 16S rRNA sequencing was performed on these positive hits. (B) Representative UPLC-MS traces (left) and quantification of isoalloLCA production (right) showing that type strain P. merdae ATCC 43184, B. dorei DSM 17855 and B. vulgatus ATCC 8482 metabolize 3-oxoLCA to isoalloLCA. Aliquots were removed for UPLC-MS analysis following 96 h of incubation. (n = 3 biological replicates per group, data are shown as the mean ± SEM, N.D. = not detected). (C) Representative UPLC-MS traces showing that a co-culture of Eggerthella lenta DSM 2243 and Parabacteroides merdae ATCC 43184 converted LCA to isoalloLCA while monocultures of these bacteria did not produce isoalloLCA.
    Figure Legend Snippet: Type strains of gut bacteria produce isoalloLCA from the gut bacterial metabolite 3-oxoLCA. (A) Schematic representation of the screen of gut human bacterial isolates for isoalloLCA production. Bacterial strains were isolated from human stool as described previously (Paik, Yao et al., 2020, under review). The 990 bacterial strains isolated were then incubated with either 100 μM LCA or 3-oxoLCA. IsoalloLCA-producing strains were identified by UPLC-MS analysis, and 16S rRNA sequencing was performed on these positive hits. (B) Representative UPLC-MS traces (left) and quantification of isoalloLCA production (right) showing that type strain P. merdae ATCC 43184, B. dorei DSM 17855 and B. vulgatus ATCC 8482 metabolize 3-oxoLCA to isoalloLCA. Aliquots were removed for UPLC-MS analysis following 96 h of incubation. (n = 3 biological replicates per group, data are shown as the mean ± SEM, N.D. = not detected). (C) Representative UPLC-MS traces showing that a co-culture of Eggerthella lenta DSM 2243 and Parabacteroides merdae ATCC 43184 converted LCA to isoalloLCA while monocultures of these bacteria did not produce isoalloLCA.

    Techniques Used: Isolation, Incubation, Sequencing, Co-Culture Assay

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    ATCC 16s rrna sequence
    Phylogenetic tree of E. lenta strain VPI 0255 T and all type strains of the genus Eggerthella as well as the type strains from all other genera of the family Coriobacteriaceae inferred from 1,373 aligned characters [ 15 , 16 ] of the <t>16S</t> <t>rRNA</t> gene under the maximum likelihood criterion [ 17 ]. The branches are scaled in terms of the expected number of substitutions per site. Numbers above branches are support values from 1,000 bootstrap replicates if larger than 60%. Lineages with type strain genome sequencing projects registered in GOLD [ 18 ] are shown in blue, published genomes in bold, including two of which are reported in this issue of SIGS [ 19 , 20 ]
    16s Rrna Sequence, supplied by ATCC, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/16s rrna sequence/product/ATCC
    Average 94 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    16s rrna sequence - by Bioz Stars, 2022-10
    94/100 stars
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    Phylogenetic tree of E. lenta strain VPI 0255 T and all type strains of the genus Eggerthella as well as the type strains from all other genera of the family Coriobacteriaceae inferred from 1,373 aligned characters [ 15 , 16 ] of the 16S rRNA gene under the maximum likelihood criterion [ 17 ]. The branches are scaled in terms of the expected number of substitutions per site. Numbers above branches are support values from 1,000 bootstrap replicates if larger than 60%. Lineages with type strain genome sequencing projects registered in GOLD [ 18 ] are shown in blue, published genomes in bold, including two of which are reported in this issue of SIGS [ 19 , 20 ]

    Journal: Standards in Genomic Sciences

    Article Title: Complete genome sequence of Eggerthella lenta type strain (IPP VPI 0255T)

    doi: 10.4056/sigs.33592

    Figure Lengend Snippet: Phylogenetic tree of E. lenta strain VPI 0255 T and all type strains of the genus Eggerthella as well as the type strains from all other genera of the family Coriobacteriaceae inferred from 1,373 aligned characters [ 15 , 16 ] of the 16S rRNA gene under the maximum likelihood criterion [ 17 ]. The branches are scaled in terms of the expected number of substitutions per site. Numbers above branches are support values from 1,000 bootstrap replicates if larger than 60%. Lineages with type strain genome sequencing projects registered in GOLD [ 18 ] are shown in blue, published genomes in bold, including two of which are reported in this issue of SIGS [ 19 , 20 ]

    Article Snippet: The sequences of the three identical copies of the 16S rRNA gene in the genome differ by three nucleotides from the previously published 16S rRNA sequence generated from ATCC 25559 (AF292375).

    Techniques: Sequencing

    Identification of gut bacteria that produce isoalloLCA from the gut bacterial metabolite 3-oxoLCA. (A) Proposed biosynthetic pathway for the conversion of the primary bile acid chenodeoxycholic acid (CDCA) (1) to isoalloLCA (4) by human gut bacteria. Bacteria that produce isoalloLCA have not yet been identified. (B) Representative UPLC-MS traces (left) and quantification of isoalloLCA production (right) by bacteria from a screen of human isolates following incubation for 96 hours with 3-oxoLCA (100 μM) (n = 3 biological replicates per group, data are shown as the mean ± SEM, N.D. = not detected). (C) Representative UPLC-MS traces (left) and quantification of isoalloLCA production (right) showing that a triculture of Clostridium scindens ATCC 35703, Eggerthella lenta DSM 2243 and Parabacteroides merdae ATCC 43184 converted CDCA to isoalloLCA while monocultures of these bacteria did not produce isoalloLCA. C. scindens ATCC 35703 contains bai operon genes that can transform CDCA to LCA ( Ridlon et al., 2006 ), while E. lenta DSM 2243 contains a 3α-HSDH, Elen_0690, that transforms LCA into 3-oxoLCA (Paik, Yao et al., 2020, under review) (n = 3 biological replicates per group, data are shown as the mean ± SEM, N.D. = not detected).

    Journal: bioRxiv

    Article Title: A Bacterial Bile Acid Metabolite Modulates Treg Activity through the Nuclear Hormone Receptor NR4A1

    doi: 10.1101/2021.01.08.425963

    Figure Lengend Snippet: Identification of gut bacteria that produce isoalloLCA from the gut bacterial metabolite 3-oxoLCA. (A) Proposed biosynthetic pathway for the conversion of the primary bile acid chenodeoxycholic acid (CDCA) (1) to isoalloLCA (4) by human gut bacteria. Bacteria that produce isoalloLCA have not yet been identified. (B) Representative UPLC-MS traces (left) and quantification of isoalloLCA production (right) by bacteria from a screen of human isolates following incubation for 96 hours with 3-oxoLCA (100 μM) (n = 3 biological replicates per group, data are shown as the mean ± SEM, N.D. = not detected). (C) Representative UPLC-MS traces (left) and quantification of isoalloLCA production (right) showing that a triculture of Clostridium scindens ATCC 35703, Eggerthella lenta DSM 2243 and Parabacteroides merdae ATCC 43184 converted CDCA to isoalloLCA while monocultures of these bacteria did not produce isoalloLCA. C. scindens ATCC 35703 contains bai operon genes that can transform CDCA to LCA ( Ridlon et al., 2006 ), while E. lenta DSM 2243 contains a 3α-HSDH, Elen_0690, that transforms LCA into 3-oxoLCA (Paik, Yao et al., 2020, under review) (n = 3 biological replicates per group, data are shown as the mean ± SEM, N.D. = not detected).

    Article Snippet: In Vitro Co-culture Assays for IsoalloLCA Production Starting from single colonies, Clostridium scindens ATCC 35703, Eggerthella lenta DSM 2243 and Parabacteroides merdae ATCC 43184 were grown anaerobically for 24 hours in CHG + 0.5% arginine media at 37 °C.

    Techniques: Incubation