xbai enzyme  (New England Biolabs)


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    Structured Review

    New England Biolabs xbai enzyme
    Xbai Enzyme, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 97/100, based on 5 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/xbai enzyme/product/New England Biolabs
    Average 97 stars, based on 5 article reviews
    Price from $9.99 to $1999.99
    xbai enzyme - by Bioz Stars, 2020-04
    97/100 stars

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    Related Articles

    Agarose Gel Electrophoresis:

    Article Title: Horizontal Acquisition of a Multidrug-Resistance Module (R-type ASSuT) Is Responsible for the Monophasic Phenotype in a Widespread Clone of Salmonella Serovar 4,[5],12:i:-
    Article Snippet: Total DNA (1 μg) was digested with FastDigest EcoRV (Fisher Scientific, Schwerte, Germany) and separated on a 1% agarose gel. .. PFGE with XbaI enzyme was performed according to the PulseNet Europe protocol (Ribot et al., ) and using Lamda PFG Ladder (New England, Biolabs, Ipswich) as molecular weight marker.

    Southern Blot:

    Article Title: Horizontal Acquisition of a Multidrug-Resistance Module (R-type ASSuT) Is Responsible for the Monophasic Phenotype in a Widespread Clone of Salmonella Serovar 4,[5],12:i:-
    Article Snippet: Paragraph title: Southern blot hybridization ... PFGE with XbaI enzyme was performed according to the PulseNet Europe protocol (Ribot et al., ) and using Lamda PFG Ladder (New England, Biolabs, Ipswich) as molecular weight marker.

    Labeling:

    Article Title: Horizontal Acquisition of a Multidrug-Resistance Module (R-type ASSuT) Is Responsible for the Monophasic Phenotype in a Widespread Clone of Salmonella Serovar 4,[5],12:i:-
    Article Snippet: PFGE with XbaI enzyme was performed according to the PulseNet Europe protocol (Ribot et al., ) and using Lamda PFG Ladder (New England, Biolabs, Ipswich) as molecular weight marker. .. Restriction fragments obtained by PFGE and total DNA digestion with EcoRV were transferred onto positively charged nylon membranes (Roche Diagnostics, GmbH, Mannheim, Germany) and hybridized with PCR-generated probes labeled with digoxigenin (DIG) for genes bla TEM−1 , sul2, tetA (B), merA , STM2759, iroB, gltS , and meth Δ using primers listed in Table S5.

    Marker:

    Article Title: Horizontal Acquisition of a Multidrug-Resistance Module (R-type ASSuT) Is Responsible for the Monophasic Phenotype in a Widespread Clone of Salmonella Serovar 4,[5],12:i:-
    Article Snippet: .. PFGE with XbaI enzyme was performed according to the PulseNet Europe protocol (Ribot et al., ) and using Lamda PFG Ladder (New England, Biolabs, Ipswich) as molecular weight marker. .. Restriction fragments obtained by PFGE and total DNA digestion with EcoRV were transferred onto positively charged nylon membranes (Roche Diagnostics, GmbH, Mannheim, Germany) and hybridized with PCR-generated probes labeled with digoxigenin (DIG) for genes bla TEM−1 , sul2, tetA (B), merA , STM2759, iroB, gltS , and meth Δ using primers listed in Table S5.

    Molecular Weight:

    Article Title: Horizontal Acquisition of a Multidrug-Resistance Module (R-type ASSuT) Is Responsible for the Monophasic Phenotype in a Widespread Clone of Salmonella Serovar 4,[5],12:i:-
    Article Snippet: .. PFGE with XbaI enzyme was performed according to the PulseNet Europe protocol (Ribot et al., ) and using Lamda PFG Ladder (New England, Biolabs, Ipswich) as molecular weight marker. .. Restriction fragments obtained by PFGE and total DNA digestion with EcoRV were transferred onto positively charged nylon membranes (Roche Diagnostics, GmbH, Mannheim, Germany) and hybridized with PCR-generated probes labeled with digoxigenin (DIG) for genes bla TEM−1 , sul2, tetA (B), merA , STM2759, iroB, gltS , and meth Δ using primers listed in Table S5.

    Polymerase Chain Reaction:

    Article Title: Horizontal Acquisition of a Multidrug-Resistance Module (R-type ASSuT) Is Responsible for the Monophasic Phenotype in a Widespread Clone of Salmonella Serovar 4,[5],12:i:-
    Article Snippet: PFGE with XbaI enzyme was performed according to the PulseNet Europe protocol (Ribot et al., ) and using Lamda PFG Ladder (New England, Biolabs, Ipswich) as molecular weight marker. .. Restriction fragments obtained by PFGE and total DNA digestion with EcoRV were transferred onto positively charged nylon membranes (Roche Diagnostics, GmbH, Mannheim, Germany) and hybridized with PCR-generated probes labeled with digoxigenin (DIG) for genes bla TEM−1 , sul2, tetA (B), merA , STM2759, iroB, gltS , and meth Δ using primers listed in Table S5.

    Transmission Electron Microscopy:

    Article Title: Horizontal Acquisition of a Multidrug-Resistance Module (R-type ASSuT) Is Responsible for the Monophasic Phenotype in a Widespread Clone of Salmonella Serovar 4,[5],12:i:-
    Article Snippet: PFGE with XbaI enzyme was performed according to the PulseNet Europe protocol (Ribot et al., ) and using Lamda PFG Ladder (New England, Biolabs, Ipswich) as molecular weight marker. .. Restriction fragments obtained by PFGE and total DNA digestion with EcoRV were transferred onto positively charged nylon membranes (Roche Diagnostics, GmbH, Mannheim, Germany) and hybridized with PCR-generated probes labeled with digoxigenin (DIG) for genes bla TEM−1 , sul2, tetA (B), merA , STM2759, iroB, gltS , and meth Δ using primers listed in Table S5.

    Hybridization:

    Article Title: Horizontal Acquisition of a Multidrug-Resistance Module (R-type ASSuT) Is Responsible for the Monophasic Phenotype in a Widespread Clone of Salmonella Serovar 4,[5],12:i:-
    Article Snippet: Paragraph title: Southern blot hybridization ... PFGE with XbaI enzyme was performed according to the PulseNet Europe protocol (Ribot et al., ) and using Lamda PFG Ladder (New England, Biolabs, Ipswich) as molecular weight marker.

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    New England Biolabs xbai restriction enzymes
    The biotin pull-down assay. ( A , B ) Schematic illustration of the biotin pull-down assay via the SDSA ( A ) and ssDI ( B ) pathways. In the case of ssDI ( B ), the biotinylated ODN is predicted to be incorporated into the target genomic locus, whereas in SDSA ( A ), it should not. The XhoI- and <t>XbaI-digested</t> genomic fragments covalently linked to biotin can be enriched using streptavidin beads under denaturing conditions. The primers BFP_QF and BFP_QR can specifically amplify these genomic fragments with ODN incorporation but not free ODN donors. Biotin, yellow circles; streptavidin, orange ovals; genomic <t>DNA,</t> black lines; ODN sequence, solid red lines; DNA synthesis, dashed red lines; chromophore sequence, TY and SH; genomic lesions, hatched orange lines; homology regions, dashed silver crosses; restriction sites, XhoI and XbaI; PCR primers, horizontal arrows. ( C ), and detected on an agarose gel.
    Xbai Restriction Enzymes, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 7 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/xbai restriction enzymes/product/New England Biolabs
    Average 99 stars, based on 7 article reviews
    Price from $9.99 to $1999.99
    xbai restriction enzymes - by Bioz Stars, 2020-04
    99/100 stars
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    The biotin pull-down assay. ( A , B ) Schematic illustration of the biotin pull-down assay via the SDSA ( A ) and ssDI ( B ) pathways. In the case of ssDI ( B ), the biotinylated ODN is predicted to be incorporated into the target genomic locus, whereas in SDSA ( A ), it should not. The XhoI- and XbaI-digested genomic fragments covalently linked to biotin can be enriched using streptavidin beads under denaturing conditions. The primers BFP_QF and BFP_QR can specifically amplify these genomic fragments with ODN incorporation but not free ODN donors. Biotin, yellow circles; streptavidin, orange ovals; genomic DNA, black lines; ODN sequence, solid red lines; DNA synthesis, dashed red lines; chromophore sequence, TY and SH; genomic lesions, hatched orange lines; homology regions, dashed silver crosses; restriction sites, XhoI and XbaI; PCR primers, horizontal arrows. ( C ), and detected on an agarose gel.

    Journal: Genome Research

    Article Title: Mechanisms of precise genome editing using oligonucleotide donors

    doi: 10.1101/gr.214775.116

    Figure Lengend Snippet: The biotin pull-down assay. ( A , B ) Schematic illustration of the biotin pull-down assay via the SDSA ( A ) and ssDI ( B ) pathways. In the case of ssDI ( B ), the biotinylated ODN is predicted to be incorporated into the target genomic locus, whereas in SDSA ( A ), it should not. The XhoI- and XbaI-digested genomic fragments covalently linked to biotin can be enriched using streptavidin beads under denaturing conditions. The primers BFP_QF and BFP_QR can specifically amplify these genomic fragments with ODN incorporation but not free ODN donors. Biotin, yellow circles; streptavidin, orange ovals; genomic DNA, black lines; ODN sequence, solid red lines; DNA synthesis, dashed red lines; chromophore sequence, TY and SH; genomic lesions, hatched orange lines; homology regions, dashed silver crosses; restriction sites, XhoI and XbaI; PCR primers, horizontal arrows. ( C ), and detected on an agarose gel.

    Article Snippet: The genomic DNA was digested to completion with XhoI and XbaI restriction enzymes (New England Biolabs).

    Techniques: Pull Down Assay, Sequencing, DNA Synthesis, Polymerase Chain Reaction, Agarose Gel Electrophoresis

    Pulse-field gel electrophoresis patterns of ( a ) XbaI-digested genomic DNA of B. breve isolates and ( b ) ApaI-digested genomic DNA of L. plantarum isolates from human milk and infant faeces. The unedited versions of these images can be found as Supplementary Figures S3 and S4 .

    Journal: Scientific Reports

    Article Title: The Composition of Human Milk and Infant Faecal Microbiota Over the First Three Months of Life: A Pilot Study

    doi: 10.1038/srep40597

    Figure Lengend Snippet: Pulse-field gel electrophoresis patterns of ( a ) XbaI-digested genomic DNA of B. breve isolates and ( b ) ApaI-digested genomic DNA of L. plantarum isolates from human milk and infant faeces. The unedited versions of these images can be found as Supplementary Figures S3 and S4 .

    Article Snippet: The restriction enzyme XbaI was used to cleave bifidobacterial chromosomal DNA and ApaI (New England Biolabs, MA, United States) was used for Lactobacillus .

    Techniques: Nucleic Acid Electrophoresis

    Dendrogram showing the relatedness between the 41 XbaI profiles derived from the 75 different E. coli strains (REP profiles) found in this study. At a cut-off value of 70%, 22 major clusters were obtained. REP profiles associated to each of the XbaI patterns are indicated between brackets

    Journal: BMC Microbiology

    Article Title: Genotype variation and genetic relationship among Escherichia coli from nursery pigs located in different pens in the same farm

    doi: 10.1186/s12866-016-0912-3

    Figure Lengend Snippet: Dendrogram showing the relatedness between the 41 XbaI profiles derived from the 75 different E. coli strains (REP profiles) found in this study. At a cut-off value of 70%, 22 major clusters were obtained. REP profiles associated to each of the XbaI patterns are indicated between brackets

    Article Snippet: Genomic macro-restriction pulsed-field gel electrophoresis (PFGE) analysis Genomic DNA from isolates representing different REP profiles was independently typed by PFGE using XbaI restriction enzyme (New England Biolabs, BioNordika, Herlev, Denmark, 20000 U/ml; 2 h at 37 °C).

    Techniques: Derivative Assay