b thetaiotaomicron vpi 5482  (ATCC)


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    Name:
    Bacteroides thetaiotaomicron VPI 5482 CIP 104206T E50 NCTC 10582
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    Catalog Number:
    29148
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    Structured Review

    ATCC b thetaiotaomicron vpi 5482
    Selection of B. <t>thetaiotaomicron</t> <t>VPI</t> 5482 mutants with increased biofilm capacities. (A) Schematic representation of the positive-selection strategy used to identify transposon mutants with increased biofilm production. BF, biofilm formation. (B) Biofilm biomass formation on the internal spatulas of continuous-flow biofilm microfermentors after 24 h. (Left) Wild-type B. thetaiotaomicron VPI 5482; (middle and right) microfermentors and spatulas inoculated with a culture enriched for biofilm production after 4 cycles of positive selection. (C) Comparison of the biofilm formation capacities of WT B. thetaiotaomicron and eight identified mutants with an insertion in the BT3147 gene. (Bottom) Crystal violet staining in 96-well microtiter plates; (top) corresponding biomass quantification after resuspension in an acetone-ethanol mix and absorbance measured at 575 nm. Biofilm formation capacities of the WT (VPI 5482) have been set to 100%. Error bars indicate standard deviations from 3 technical replicates. *, P

    https://www.bioz.com/result/b thetaiotaomicron vpi 5482/product/ATCC
    Average 97 stars, based on 10 article reviews
    Price from $9.99 to $1999.99
    b thetaiotaomicron vpi 5482 - by Bioz Stars, 2020-08
    97/100 stars

    Images

    1) Product Images from "A Putative Type V Pilus Contributes to Bacteroides thetaiotaomicron Biofilm Formation Capacity"

    Article Title: A Putative Type V Pilus Contributes to Bacteroides thetaiotaomicron Biofilm Formation Capacity

    Journal: Journal of Bacteriology

    doi: 10.1128/JB.00650-18

    Selection of B. thetaiotaomicron VPI 5482 mutants with increased biofilm capacities. (A) Schematic representation of the positive-selection strategy used to identify transposon mutants with increased biofilm production. BF, biofilm formation. (B) Biofilm biomass formation on the internal spatulas of continuous-flow biofilm microfermentors after 24 h. (Left) Wild-type B. thetaiotaomicron VPI 5482; (middle and right) microfermentors and spatulas inoculated with a culture enriched for biofilm production after 4 cycles of positive selection. (C) Comparison of the biofilm formation capacities of WT B. thetaiotaomicron and eight identified mutants with an insertion in the BT3147 gene. (Bottom) Crystal violet staining in 96-well microtiter plates; (top) corresponding biomass quantification after resuspension in an acetone-ethanol mix and absorbance measured at 575 nm. Biofilm formation capacities of the WT (VPI 5482) have been set to 100%. Error bars indicate standard deviations from 3 technical replicates. *, P
    Figure Legend Snippet: Selection of B. thetaiotaomicron VPI 5482 mutants with increased biofilm capacities. (A) Schematic representation of the positive-selection strategy used to identify transposon mutants with increased biofilm production. BF, biofilm formation. (B) Biofilm biomass formation on the internal spatulas of continuous-flow biofilm microfermentors after 24 h. (Left) Wild-type B. thetaiotaomicron VPI 5482; (middle and right) microfermentors and spatulas inoculated with a culture enriched for biofilm production after 4 cycles of positive selection. (C) Comparison of the biofilm formation capacities of WT B. thetaiotaomicron and eight identified mutants with an insertion in the BT3147 gene. (Bottom) Crystal violet staining in 96-well microtiter plates; (top) corresponding biomass quantification after resuspension in an acetone-ethanol mix and absorbance measured at 575 nm. Biofilm formation capacities of the WT (VPI 5482) have been set to 100%. Error bars indicate standard deviations from 3 technical replicates. *, P

    Techniques Used: Selection, Staining

    C-terminal truncation of the BT3147 protein promotes B. thetaiotaomicron biofilm formation. (A, top) Schematic genetic organization of the BT3147 Δ 9 ΔBT3146-BT3145 mutant; (middle) comparison of the biofilm formation capacities of WT B. thetaiotaomicron VPI 5482 and the indicated mutant or plasmid-containing strains; (bottom) crystal violet staining in 96-well microtiter plates. Shown is the corresponding quantification after resuspension in acetone-ethanol and the absorbance measured at 575 nm. Biofilm formation capacities of the WT (VPI 5482) have been set to 100%. Error bars indicate standard deviations from 3 biological replicates. **, P
    Figure Legend Snippet: C-terminal truncation of the BT3147 protein promotes B. thetaiotaomicron biofilm formation. (A, top) Schematic genetic organization of the BT3147 Δ 9 ΔBT3146-BT3145 mutant; (middle) comparison of the biofilm formation capacities of WT B. thetaiotaomicron VPI 5482 and the indicated mutant or plasmid-containing strains; (bottom) crystal violet staining in 96-well microtiter plates. Shown is the corresponding quantification after resuspension in acetone-ethanol and the absorbance measured at 575 nm. Biofilm formation capacities of the WT (VPI 5482) have been set to 100%. Error bars indicate standard deviations from 3 biological replicates. **, P

    Techniques Used: Mutagenesis, Plasmid Preparation, Staining

    The B. thetaiotaomicron VPI 5482 strain forms poor biofilms compared to different isolates. (A and B) Biofilm formation in a 96-well-plate biofilm assay followed by crystal violet staining of B. thetaiotaomicron ( Bt ) VPI 5482 and various biofilm-forming B. thetaiotaomicron isolates (see also Fig. S1 in the supplemental material). Error bars indicate standard deviations from 3 technical replicates. *, P
    Figure Legend Snippet: The B. thetaiotaomicron VPI 5482 strain forms poor biofilms compared to different isolates. (A and B) Biofilm formation in a 96-well-plate biofilm assay followed by crystal violet staining of B. thetaiotaomicron ( Bt ) VPI 5482 and various biofilm-forming B. thetaiotaomicron isolates (see also Fig. S1 in the supplemental material). Error bars indicate standard deviations from 3 technical replicates. *, P

    Techniques Used: Biofilm Production Assay, Staining

    2) Product Images from "A Putative Type V Pilus Contributes to Bacteroides thetaiotaomicron Biofilm Formation Capacity"

    Article Title: A Putative Type V Pilus Contributes to Bacteroides thetaiotaomicron Biofilm Formation Capacity

    Journal: Journal of Bacteriology

    doi: 10.1128/JB.00650-18

    Selection of B. thetaiotaomicron VPI 5482 mutants with increased biofilm capacities. (A) Schematic representation of the positive-selection strategy used to identify transposon mutants with increased biofilm production. BF, biofilm formation. (B) Biofilm biomass formation on the internal spatulas of continuous-flow biofilm microfermentors after 24 h. (Left) Wild-type B. thetaiotaomicron VPI 5482; (middle and right) microfermentors and spatulas inoculated with a culture enriched for biofilm production after 4 cycles of positive selection. (C) Comparison of the biofilm formation capacities of WT B. thetaiotaomicron and eight identified mutants with an insertion in the BT3147 gene. (Bottom) Crystal violet staining in 96-well microtiter plates; (top) corresponding biomass quantification after resuspension in an acetone-ethanol mix and absorbance measured at 575 nm. Biofilm formation capacities of the WT (VPI 5482) have been set to 100%. Error bars indicate standard deviations from 3 technical replicates. *, P
    Figure Legend Snippet: Selection of B. thetaiotaomicron VPI 5482 mutants with increased biofilm capacities. (A) Schematic representation of the positive-selection strategy used to identify transposon mutants with increased biofilm production. BF, biofilm formation. (B) Biofilm biomass formation on the internal spatulas of continuous-flow biofilm microfermentors after 24 h. (Left) Wild-type B. thetaiotaomicron VPI 5482; (middle and right) microfermentors and spatulas inoculated with a culture enriched for biofilm production after 4 cycles of positive selection. (C) Comparison of the biofilm formation capacities of WT B. thetaiotaomicron and eight identified mutants with an insertion in the BT3147 gene. (Bottom) Crystal violet staining in 96-well microtiter plates; (top) corresponding biomass quantification after resuspension in an acetone-ethanol mix and absorbance measured at 575 nm. Biofilm formation capacities of the WT (VPI 5482) have been set to 100%. Error bars indicate standard deviations from 3 technical replicates. *, P

    Techniques Used: Selection, Staining

    C-terminal truncation of the BT3147 protein promotes B. thetaiotaomicron biofilm formation. (A, top) Schematic genetic organization of the BT3147 Δ 9 ΔBT3146-BT3145 mutant; (middle) comparison of the biofilm formation capacities of WT B. thetaiotaomicron VPI 5482 and the indicated mutant or plasmid-containing strains; (bottom) crystal violet staining in 96-well microtiter plates. Shown is the corresponding quantification after resuspension in acetone-ethanol and the absorbance measured at 575 nm. Biofilm formation capacities of the WT (VPI 5482) have been set to 100%. Error bars indicate standard deviations from 3 biological replicates. **, P
    Figure Legend Snippet: C-terminal truncation of the BT3147 protein promotes B. thetaiotaomicron biofilm formation. (A, top) Schematic genetic organization of the BT3147 Δ 9 ΔBT3146-BT3145 mutant; (middle) comparison of the biofilm formation capacities of WT B. thetaiotaomicron VPI 5482 and the indicated mutant or plasmid-containing strains; (bottom) crystal violet staining in 96-well microtiter plates. Shown is the corresponding quantification after resuspension in acetone-ethanol and the absorbance measured at 575 nm. Biofilm formation capacities of the WT (VPI 5482) have been set to 100%. Error bars indicate standard deviations from 3 biological replicates. **, P

    Techniques Used: Mutagenesis, Plasmid Preparation, Staining

    The B. thetaiotaomicron VPI 5482 strain forms poor biofilms compared to different isolates. (A and B) Biofilm formation in a 96-well-plate biofilm assay followed by crystal violet staining of B. thetaiotaomicron ( Bt ) VPI 5482 and various biofilm-forming B. thetaiotaomicron isolates (see also Fig. S1 in the supplemental material). Error bars indicate standard deviations from 3 technical replicates. *, P
    Figure Legend Snippet: The B. thetaiotaomicron VPI 5482 strain forms poor biofilms compared to different isolates. (A and B) Biofilm formation in a 96-well-plate biofilm assay followed by crystal violet staining of B. thetaiotaomicron ( Bt ) VPI 5482 and various biofilm-forming B. thetaiotaomicron isolates (see also Fig. S1 in the supplemental material). Error bars indicate standard deviations from 3 technical replicates. *, P

    Techniques Used: Biofilm Production Assay, Staining

    Related Articles

    Modification:

    Article Title: Surface Exposure and Packing of Lipoproteins into Outer Membrane Vesicles Are Coupled Processes in Bacteroides
    Article Snippet: .. Searches were performed against the B. thetaiotaomicron (strain ATCC 29148/VPI-5482) proteome (UniProt proteome identifier UP000001414, downloaded 20 May 2017, 4,782 entries) with carbamidomethylation of cysteine set as a fixed modification and with variable modifications of oxidation of methionine and acetylation of protein N termini. ..

    Staining:

    Article Title: A Putative Type V Pilus Contributes to Bacteroides thetaiotaomicron Biofilm Formation Capacity
    Article Snippet: .. In order to analyze the ability of B. thetaiotaomicron VPI 5482 (ATCC 29148) ( ) to form biofilm, we performed in vitro biofilm assays, using either a static 96-well-plate model followed by crystal violet staining or dynamic continuous-flow biofilm microfermentors. ..

    Article Title: Evolution of Symbiotic Bacteria in the Distal Human Intestine Human Gut Hosts a Dynamically Evolving Microbial Ecosystem
    Article Snippet: .. These genomes were initially compared to the genomes of two other Bacteroidetes that live in the distal human gut: B. thetaiotaomicron (type stain ATCC 29148 [ ] and B. fragilis (strains YCH 46 and NCTC 9343 [ , ]). ..

    Mouse Assay:

    Article Title: Genomic and Metabolic Studies of the Impact of Probiotics on a Model Gut Symbiont and HostHow Bacterial Communities Expand Functional RepertoiresIn the Gut's Microbial Community, One Plus One Equals Many (Effects)
    Article Snippet: .. Six- to 8-wk-old male mice were each inoculated with 108 CFU of (1) B. thetaiotaomicron (ATCC 29148, also known as VPI-5482), that had been grown overnight in TYG medium (1% tryptone, 0.5% yeast extract, 0.2% glucose, w/v) supplemented with 100 mM potassium phosphate buffer, (pH 7.2), 4.1 mM cysteine, 200 μM histidine, 6.8 μM CaCl2 , 140 nM FeSO4 , 81 μM MgSO4 , 4.8 mM NaHCO3 , 1.4 mM NaCl, 1.9 μM hematin, plus 5.8 μM Vitamin K3 , and/or (2) B. longum (NCC2705) grown overnight in de Man-Rogosa-Sharpe medium (MRS; Sigma-Aldrich, St. Louis, Missouri, United States). ..

    Article Title: Genomic and Metabolic Studies of the Impact of Probiotics on a Model Gut Symbiont and HostHow Bacterial Communities Expand Functional RepertoiresIn the Gut's Microbial Community, One Plus One Equals Many (Effects)
    Article Snippet: .. Bi-association of Germ-Free Mice with B. thetaiotaomicron and B. longum Three groups of 7-wk-old, germ-free male mice belonging to the NMRI inbred strain and maintained on a standard polysaccharide-rich chow diet, were colonized with a single gavage of 108 colony forming units (CFU) of either B. thetaiotaomicron (ATCC 29148; isolated from the fecal microbiota of a healthy adult human) [ ], B. longum (NCC2705; recovered from an infant) [ ], or both bacterial species (n = 5 animals/group). .. Mice were sacrificed 10 d later, a period of time sufficient for the intestinal epithelium and its overlying mucus layer to turn over several times.

    In Vitro:

    Article Title: A Putative Type V Pilus Contributes to Bacteroides thetaiotaomicron Biofilm Formation Capacity
    Article Snippet: .. In order to analyze the ability of B. thetaiotaomicron VPI 5482 (ATCC 29148) ( ) to form biofilm, we performed in vitro biofilm assays, using either a static 96-well-plate model followed by crystal violet staining or dynamic continuous-flow biofilm microfermentors. ..

    Article Title: A Putative Type V Pilus Contributes to Bacteroides thetaiotaomicron Biofilm Formation Capacity
    Article Snippet: .. In the present study, we show that although in vitro biofilm development is widespread among natural B. thetaiotaomicron isolates, the reference B. thetaiotaomicron strain VPI 5482 (ATCC 29148) commonly used in human gut microbiota studies forms poor biofilm. .. We hypothesized that functions involved in VPI 5482 in vitro biofilm formation could be repressed or masked, and the use of transposon mutagenesis and a positive-selection procedure allowed us to identify a mutation in the BT3147 gene, altering the C-terminal region of BT3147 and increasing VPI 5482 biofilm formation.

    Isolation:

    Article Title: Genomic and Metabolic Studies of the Impact of Probiotics on a Model Gut Symbiont and HostHow Bacterial Communities Expand Functional RepertoiresIn the Gut's Microbial Community, One Plus One Equals Many (Effects)
    Article Snippet: .. Bi-association of Germ-Free Mice with B. thetaiotaomicron and B. longum Three groups of 7-wk-old, germ-free male mice belonging to the NMRI inbred strain and maintained on a standard polysaccharide-rich chow diet, were colonized with a single gavage of 108 colony forming units (CFU) of either B. thetaiotaomicron (ATCC 29148; isolated from the fecal microbiota of a healthy adult human) [ ], B. longum (NCC2705; recovered from an infant) [ ], or both bacterial species (n = 5 animals/group). .. Mice were sacrificed 10 d later, a period of time sufficient for the intestinal epithelium and its overlying mucus layer to turn over several times.

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  • 97
    ATCC bacteroides thetaiotaomicron
    Binding efficiency of human norovirus and representative surrogate viruses to select bacteria. The line indicates the total virus input. Data are expressed as log 10 mean concentration ± the standard deviation of bacteria bound (in RT-qPCRU) (bars) and percent binding efficiency as determined by loss-to-supernatant ([total input virus-supernatant virus]/total input virus) (numerical). The black bars correspond to ATCC or control strains. The gray bars correspond to bacteria isolated in this study. All bacteria grew anaerobically in TSB with the following exceptions: B . <t>thetaiotaomicron</t> (chopped meat medium), L . gasseri (MRS) and L . plantarum (MRS). Asterisks (*) represent values for which there was a statistically significant difference (p
    Bacteroides Thetaiotaomicron, supplied by ATCC, used in various techniques. Bioz Stars score: 97/100, based on 21 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/bacteroides thetaiotaomicron/product/ATCC
    Average 97 stars, based on 21 article reviews
    Price from $9.99 to $1999.99
    bacteroides thetaiotaomicron - by Bioz Stars, 2020-08
    97/100 stars
      Buy from Supplier

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    Binding efficiency of human norovirus and representative surrogate viruses to select bacteria. The line indicates the total virus input. Data are expressed as log 10 mean concentration ± the standard deviation of bacteria bound (in RT-qPCRU) (bars) and percent binding efficiency as determined by loss-to-supernatant ([total input virus-supernatant virus]/total input virus) (numerical). The black bars correspond to ATCC or control strains. The gray bars correspond to bacteria isolated in this study. All bacteria grew anaerobically in TSB with the following exceptions: B . thetaiotaomicron (chopped meat medium), L . gasseri (MRS) and L . plantarum (MRS). Asterisks (*) represent values for which there was a statistically significant difference (p

    Journal: PLoS ONE

    Article Title: Human norovirus binding to select bacteria representative of the human gut microbiota

    doi: 10.1371/journal.pone.0173124

    Figure Lengend Snippet: Binding efficiency of human norovirus and representative surrogate viruses to select bacteria. The line indicates the total virus input. Data are expressed as log 10 mean concentration ± the standard deviation of bacteria bound (in RT-qPCRU) (bars) and percent binding efficiency as determined by loss-to-supernatant ([total input virus-supernatant virus]/total input virus) (numerical). The black bars correspond to ATCC or control strains. The gray bars correspond to bacteria isolated in this study. All bacteria grew anaerobically in TSB with the following exceptions: B . thetaiotaomicron (chopped meat medium), L . gasseri (MRS) and L . plantarum (MRS). Asterisks (*) represent values for which there was a statistically significant difference (p

    Article Snippet: Reference strains, provided by the American Type Culture Collection (ATCC; Manassass, VA) included Staphylococcus aureus (ATCC 25235), Enterobacter cloacae (ATCC 13047) and Bacteroides thetaiotaomicron (ATCC 29148).

    Techniques: Binding Assay, Concentration Assay, Standard Deviation, Isolation

    Selection of B. thetaiotaomicron VPI 5482 mutants with increased biofilm capacities. (A) Schematic representation of the positive-selection strategy used to identify transposon mutants with increased biofilm production. BF, biofilm formation. (B) Biofilm biomass formation on the internal spatulas of continuous-flow biofilm microfermentors after 24 h. (Left) Wild-type B. thetaiotaomicron VPI 5482; (middle and right) microfermentors and spatulas inoculated with a culture enriched for biofilm production after 4 cycles of positive selection. (C) Comparison of the biofilm formation capacities of WT B. thetaiotaomicron and eight identified mutants with an insertion in the BT3147 gene. (Bottom) Crystal violet staining in 96-well microtiter plates; (top) corresponding biomass quantification after resuspension in an acetone-ethanol mix and absorbance measured at 575 nm. Biofilm formation capacities of the WT (VPI 5482) have been set to 100%. Error bars indicate standard deviations from 3 technical replicates. *, P

    Journal: Journal of Bacteriology

    Article Title: A Putative Type V Pilus Contributes to Bacteroides thetaiotaomicron Biofilm Formation Capacity

    doi: 10.1128/JB.00650-18

    Figure Lengend Snippet: Selection of B. thetaiotaomicron VPI 5482 mutants with increased biofilm capacities. (A) Schematic representation of the positive-selection strategy used to identify transposon mutants with increased biofilm production. BF, biofilm formation. (B) Biofilm biomass formation on the internal spatulas of continuous-flow biofilm microfermentors after 24 h. (Left) Wild-type B. thetaiotaomicron VPI 5482; (middle and right) microfermentors and spatulas inoculated with a culture enriched for biofilm production after 4 cycles of positive selection. (C) Comparison of the biofilm formation capacities of WT B. thetaiotaomicron and eight identified mutants with an insertion in the BT3147 gene. (Bottom) Crystal violet staining in 96-well microtiter plates; (top) corresponding biomass quantification after resuspension in an acetone-ethanol mix and absorbance measured at 575 nm. Biofilm formation capacities of the WT (VPI 5482) have been set to 100%. Error bars indicate standard deviations from 3 technical replicates. *, P

    Article Snippet: In the present study, we show that although in vitro biofilm development is widespread among natural B. thetaiotaomicron isolates, the reference B. thetaiotaomicron strain VPI 5482 (ATCC 29148) commonly used in human gut microbiota studies forms poor biofilm.

    Techniques: Selection, Staining

    C-terminal truncation of the BT3147 protein promotes B. thetaiotaomicron biofilm formation. (A, top) Schematic genetic organization of the BT3147 Δ 9 ΔBT3146-BT3145 mutant; (middle) comparison of the biofilm formation capacities of WT B. thetaiotaomicron VPI 5482 and the indicated mutant or plasmid-containing strains; (bottom) crystal violet staining in 96-well microtiter plates. Shown is the corresponding quantification after resuspension in acetone-ethanol and the absorbance measured at 575 nm. Biofilm formation capacities of the WT (VPI 5482) have been set to 100%. Error bars indicate standard deviations from 3 biological replicates. **, P

    Journal: Journal of Bacteriology

    Article Title: A Putative Type V Pilus Contributes to Bacteroides thetaiotaomicron Biofilm Formation Capacity

    doi: 10.1128/JB.00650-18

    Figure Lengend Snippet: C-terminal truncation of the BT3147 protein promotes B. thetaiotaomicron biofilm formation. (A, top) Schematic genetic organization of the BT3147 Δ 9 ΔBT3146-BT3145 mutant; (middle) comparison of the biofilm formation capacities of WT B. thetaiotaomicron VPI 5482 and the indicated mutant or plasmid-containing strains; (bottom) crystal violet staining in 96-well microtiter plates. Shown is the corresponding quantification after resuspension in acetone-ethanol and the absorbance measured at 575 nm. Biofilm formation capacities of the WT (VPI 5482) have been set to 100%. Error bars indicate standard deviations from 3 biological replicates. **, P

    Article Snippet: In the present study, we show that although in vitro biofilm development is widespread among natural B. thetaiotaomicron isolates, the reference B. thetaiotaomicron strain VPI 5482 (ATCC 29148) commonly used in human gut microbiota studies forms poor biofilm.

    Techniques: Mutagenesis, Plasmid Preparation, Staining

    The B. thetaiotaomicron VPI 5482 strain forms poor biofilms compared to different isolates. (A and B) Biofilm formation in a 96-well-plate biofilm assay followed by crystal violet staining of B. thetaiotaomicron ( Bt ) VPI 5482 and various biofilm-forming B. thetaiotaomicron isolates (see also Fig. S1 in the supplemental material). Error bars indicate standard deviations from 3 technical replicates. *, P

    Journal: Journal of Bacteriology

    Article Title: A Putative Type V Pilus Contributes to Bacteroides thetaiotaomicron Biofilm Formation Capacity

    doi: 10.1128/JB.00650-18

    Figure Lengend Snippet: The B. thetaiotaomicron VPI 5482 strain forms poor biofilms compared to different isolates. (A and B) Biofilm formation in a 96-well-plate biofilm assay followed by crystal violet staining of B. thetaiotaomicron ( Bt ) VPI 5482 and various biofilm-forming B. thetaiotaomicron isolates (see also Fig. S1 in the supplemental material). Error bars indicate standard deviations from 3 technical replicates. *, P

    Article Snippet: In the present study, we show that although in vitro biofilm development is widespread among natural B. thetaiotaomicron isolates, the reference B. thetaiotaomicron strain VPI 5482 (ATCC 29148) commonly used in human gut microbiota studies forms poor biofilm.

    Techniques: Biofilm Production Assay, Staining

    Carbohydrate Utilization by B. thetaiotaomicron and B. longum in the Presence or Absence of One Another (A) and (B) Average expression levels for five cecal samples are shown for genes encoding enzymes that shunt the indicated monosaccharides into the glycolytic or pentose phosphate pathways. Values obtained from mono-associated mice are shown with black bars, and from co-colonized mice with white bars. Significant differences in expression levels were determined using Student t -test; double asterisks (**) indicate p

    Journal: PLoS Biology

    Article Title: Genomic and Metabolic Studies of the Impact of Probiotics on a Model Gut Symbiont and HostHow Bacterial Communities Expand Functional RepertoiresIn the Gut's Microbial Community, One Plus One Equals Many (Effects)

    doi: 10.1371/journal.pbio.0040413

    Figure Lengend Snippet: Carbohydrate Utilization by B. thetaiotaomicron and B. longum in the Presence or Absence of One Another (A) and (B) Average expression levels for five cecal samples are shown for genes encoding enzymes that shunt the indicated monosaccharides into the glycolytic or pentose phosphate pathways. Values obtained from mono-associated mice are shown with black bars, and from co-colonized mice with white bars. Significant differences in expression levels were determined using Student t -test; double asterisks (**) indicate p

    Article Snippet: Six- to 8-wk-old male mice were each inoculated with 108 CFU of (1) B. thetaiotaomicron (ATCC 29148, also known as VPI-5482), that had been grown overnight in TYG medium (1% tryptone, 0.5% yeast extract, 0.2% glucose, w/v) supplemented with 100 mM potassium phosphate buffer, (pH 7.2), 4.1 mM cysteine, 200 μM histidine, 6.8 μM CaCl2 , 140 nM FeSO4 , 81 μM MgSO4 , 4.8 mM NaHCO3 , 1.4 mM NaCl, 1.9 μM hematin, plus 5.8 μM Vitamin K3 , and/or (2) B. longum (NCC2705) grown overnight in de Man-Rogosa-Sharpe medium (MRS; Sigma-Aldrich, St. Louis, Missouri, United States).

    Techniques: Expressing, Mouse Assay

    Impact of Co-colonization on B. thetaiotaomicron and B. longum Glycoside Hydrolase and Polysaccharide Lyase Gene Expression (A) and (B) Bacterial glycoside hydrolase and polysaccharide lyase genes (rows) exhibiting differential expression in mono-associated versus co-colonized mice. Colors indicate the deviation of a gene's signal above (red) and below (green) its mean expression value across all ten samples. Thirty-three B. thetaiotaomicron enzymes and seven B. longum enzymes meet the selection criteria for differential expression described in Materials and Methods (FDR

    Journal: PLoS Biology

    Article Title: Genomic and Metabolic Studies of the Impact of Probiotics on a Model Gut Symbiont and HostHow Bacterial Communities Expand Functional RepertoiresIn the Gut's Microbial Community, One Plus One Equals Many (Effects)

    doi: 10.1371/journal.pbio.0040413

    Figure Lengend Snippet: Impact of Co-colonization on B. thetaiotaomicron and B. longum Glycoside Hydrolase and Polysaccharide Lyase Gene Expression (A) and (B) Bacterial glycoside hydrolase and polysaccharide lyase genes (rows) exhibiting differential expression in mono-associated versus co-colonized mice. Colors indicate the deviation of a gene's signal above (red) and below (green) its mean expression value across all ten samples. Thirty-three B. thetaiotaomicron enzymes and seven B. longum enzymes meet the selection criteria for differential expression described in Materials and Methods (FDR

    Article Snippet: Six- to 8-wk-old male mice were each inoculated with 108 CFU of (1) B. thetaiotaomicron (ATCC 29148, also known as VPI-5482), that had been grown overnight in TYG medium (1% tryptone, 0.5% yeast extract, 0.2% glucose, w/v) supplemented with 100 mM potassium phosphate buffer, (pH 7.2), 4.1 mM cysteine, 200 μM histidine, 6.8 μM CaCl2 , 140 nM FeSO4 , 81 μM MgSO4 , 4.8 mM NaHCO3 , 1.4 mM NaCl, 1.9 μM hematin, plus 5.8 μM Vitamin K3 , and/or (2) B. longum (NCC2705) grown overnight in de Man-Rogosa-Sharpe medium (MRS; Sigma-Aldrich, St. Louis, Missouri, United States).

    Techniques: Expressing, Mouse Assay, Selection

    Changes in the B. thetaiotaomicron Transcriptome in Response to Co-colonization with B. animalis or L. casei (A) B. thetaiotaomicron genes that show significantly increased expression levels upon co-colonization with either of the two fermented dairy product–associated strains are shown. Selection criteria: (1) a 1.2-fold or greater difference in expression using the 90% confidence bound of the fold-change; (2) difference in signal ≥ 25; (3) p -value ≤ 0.025 using Student t -test; (4) transcript called “present” in 66% or more of the GeneChips in the co-colonized group; and (5) a median FDR less than 0.05 based on 50 permutated comparisons. (B) COG-based functional classification of genes identified in (A). Thirty-five of 53 genes with higher expression in the presence of L. casei and 30 of 58 genes with higher expression in the presence of B. animalis could be assigned to COGs. Functional categories with significant over-representation in the dataset of differentially expressed genes, compared to their representation in the B. thetaiotaomicron genome, were determined using a hypergeometric distribution; an asterisk (*) indicates p

    Journal: PLoS Biology

    Article Title: Genomic and Metabolic Studies of the Impact of Probiotics on a Model Gut Symbiont and HostHow Bacterial Communities Expand Functional RepertoiresIn the Gut's Microbial Community, One Plus One Equals Many (Effects)

    doi: 10.1371/journal.pbio.0040413

    Figure Lengend Snippet: Changes in the B. thetaiotaomicron Transcriptome in Response to Co-colonization with B. animalis or L. casei (A) B. thetaiotaomicron genes that show significantly increased expression levels upon co-colonization with either of the two fermented dairy product–associated strains are shown. Selection criteria: (1) a 1.2-fold or greater difference in expression using the 90% confidence bound of the fold-change; (2) difference in signal ≥ 25; (3) p -value ≤ 0.025 using Student t -test; (4) transcript called “present” in 66% or more of the GeneChips in the co-colonized group; and (5) a median FDR less than 0.05 based on 50 permutated comparisons. (B) COG-based functional classification of genes identified in (A). Thirty-five of 53 genes with higher expression in the presence of L. casei and 30 of 58 genes with higher expression in the presence of B. animalis could be assigned to COGs. Functional categories with significant over-representation in the dataset of differentially expressed genes, compared to their representation in the B. thetaiotaomicron genome, were determined using a hypergeometric distribution; an asterisk (*) indicates p

    Article Snippet: Six- to 8-wk-old male mice were each inoculated with 108 CFU of (1) B. thetaiotaomicron (ATCC 29148, also known as VPI-5482), that had been grown overnight in TYG medium (1% tryptone, 0.5% yeast extract, 0.2% glucose, w/v) supplemented with 100 mM potassium phosphate buffer, (pH 7.2), 4.1 mM cysteine, 200 μM histidine, 6.8 μM CaCl2 , 140 nM FeSO4 , 81 μM MgSO4 , 4.8 mM NaHCO3 , 1.4 mM NaCl, 1.9 μM hematin, plus 5.8 μM Vitamin K3 , and/or (2) B. longum (NCC2705) grown overnight in de Man-Rogosa-Sharpe medium (MRS; Sigma-Aldrich, St. Louis, Missouri, United States).

    Techniques: Expressing, Selection, Functional Assay

    Gene Expression Changes in the Cecal Epithelium Induced by Colonization (A) Cluster diagram from GeneChip studies of laser capture microdissected mouse cecal epithelium illustrates genes that meet the four criteria described in Materials and Methods including a 2-fold or greater increase in expression (using the 90% confidence bound of fold-change) in B. thetaiotaomicron mono-associated (Bt), B. longum mono-associated (Bl), or co-colonized ceca (Bt/Bl) compared with germ-free (GF) controls. (B) Genes involved in immuno-inflammatory responses that are up-regulated in at least one colonization state; fold-increase in expression in each colonization state is relative to the germ-free state. The expression pattern for Pap (Pancreatitis associated protein, a member of the C-type family of lectins known to bind terminal glycan structures in fungi and bacteria), and several other genes was confirmed using an independent GeneChip platform that queries a subset of genes in the mouse genome relevant to carbohydrate metabolism (Glyco-GeneChips; see Figure S9 ). (C) Real-time quantitative PCR assays of laser-captured microdissected cecal epithelial RNA isolated from individual animals colonized with B. thetaiotaomicron (Bt), B. longum (Bl), or co-colonized with both organisms (Bt/Bl) ( n = 4 mice/group), using primers specific for Reg3γ or Isg15 . Fold-changes are expressed relative to a reference RNA created by pooling equivalent masses of laser-captured microdissected cecal epithelial RNA from four germ-free animals. Average fold-changes for each group are indicated at the bottom, together with fold-changes derived from the GeneChip analysis. Significant differences in expression between groups for each gene were identified using a one-way ANOVA and Tukey post test; double asterisks (**) indicate p

    Journal: PLoS Biology

    Article Title: Genomic and Metabolic Studies of the Impact of Probiotics on a Model Gut Symbiont and HostHow Bacterial Communities Expand Functional RepertoiresIn the Gut's Microbial Community, One Plus One Equals Many (Effects)

    doi: 10.1371/journal.pbio.0040413

    Figure Lengend Snippet: Gene Expression Changes in the Cecal Epithelium Induced by Colonization (A) Cluster diagram from GeneChip studies of laser capture microdissected mouse cecal epithelium illustrates genes that meet the four criteria described in Materials and Methods including a 2-fold or greater increase in expression (using the 90% confidence bound of fold-change) in B. thetaiotaomicron mono-associated (Bt), B. longum mono-associated (Bl), or co-colonized ceca (Bt/Bl) compared with germ-free (GF) controls. (B) Genes involved in immuno-inflammatory responses that are up-regulated in at least one colonization state; fold-increase in expression in each colonization state is relative to the germ-free state. The expression pattern for Pap (Pancreatitis associated protein, a member of the C-type family of lectins known to bind terminal glycan structures in fungi and bacteria), and several other genes was confirmed using an independent GeneChip platform that queries a subset of genes in the mouse genome relevant to carbohydrate metabolism (Glyco-GeneChips; see Figure S9 ). (C) Real-time quantitative PCR assays of laser-captured microdissected cecal epithelial RNA isolated from individual animals colonized with B. thetaiotaomicron (Bt), B. longum (Bl), or co-colonized with both organisms (Bt/Bl) ( n = 4 mice/group), using primers specific for Reg3γ or Isg15 . Fold-changes are expressed relative to a reference RNA created by pooling equivalent masses of laser-captured microdissected cecal epithelial RNA from four germ-free animals. Average fold-changes for each group are indicated at the bottom, together with fold-changes derived from the GeneChip analysis. Significant differences in expression between groups for each gene were identified using a one-way ANOVA and Tukey post test; double asterisks (**) indicate p

    Article Snippet: Six- to 8-wk-old male mice were each inoculated with 108 CFU of (1) B. thetaiotaomicron (ATCC 29148, also known as VPI-5482), that had been grown overnight in TYG medium (1% tryptone, 0.5% yeast extract, 0.2% glucose, w/v) supplemented with 100 mM potassium phosphate buffer, (pH 7.2), 4.1 mM cysteine, 200 μM histidine, 6.8 μM CaCl2 , 140 nM FeSO4 , 81 μM MgSO4 , 4.8 mM NaHCO3 , 1.4 mM NaCl, 1.9 μM hematin, plus 5.8 μM Vitamin K3 , and/or (2) B. longum (NCC2705) grown overnight in de Man-Rogosa-Sharpe medium (MRS; Sigma-Aldrich, St. Louis, Missouri, United States).

    Techniques: Expressing, Real-time Polymerase Chain Reaction, Isolation, Mouse Assay, Derivative Assay