bfai restriction enzyme  (New England Biolabs)


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    Structured Review

    New England Biolabs bfai restriction enzyme
    Bfai Restriction Enzyme, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/bfai restriction enzyme/product/New England Biolabs
    Average 90 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    bfai restriction enzyme - by Bioz Stars, 2020-04
    90/100 stars

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    Related Articles

    Diagnostic Assay:

    Article Title: Resistance to Infection by Subgroups B, D, and E Avian Sarcoma and Leukosis Viruses Is Explained by a Premature Stop Codon within a Resistance Allele of the tvb Receptor Gene
    Article Snippet: To test whether the presence of this site could be used as a diagnostic marker for the presence of this allele, Southern blot analysis was performed with Bfa I-digested genomic DNA samples that were prepared from CEFs with different tvb genotypes. .. For the present studies, 25-μg samples of genomic DNA from line 72 ( tvb r / tvb r ), line 0 ( tvb s3 / tvb s3 ), and line15B 1 ( tvb s1 / tvb s1 ) CEFs were digested overnight with 15 U of Bfa I (New England Biolabs, Inc.).

    Centrifugation:

    Article Title: Application of New Primer-Enzyme Combinations to Terminal Restriction Fragment Length Polymorphism Profiling of Bacterial Populations in Human Feces
    Article Snippet: An equal volume of a solution containing 7 M guanidine-HCl and 200 mM MES (morpholinoethanesulfonic acid) (pH 5.6) was added to the PCR mixtures, and the DNA solutions were transferred to each well of the FB plate, followed by centrifugation at 1,000 × g for 5 min. Each well was washed twice by adding 80% ethanol and centrifugation and dried briefly under vacuum. .. In the case of digestion with Rsa I (recognition site, 5′-GT|AC-3′) plus Bfa I (5′-C|TAG-3′), a reaction mixture (10 μl) containing 2.5 U each of Rsa I (Nippon Gene, Toyama, Japan) and Bfa I (New England BioLabs, Beverly, Mass.), 1× NEB buffer 4 (New England BioLabs), 2 μl of the PCR product from the fecal DNA, and 0.5 μl of each of two kinds of the internal control DNAs was incubated at 37°C for 1 h. In the case of digestion with Bsl I (5′-CCNNNNN|NNGG-3′) or Bse LI, which is an isoschizomer of Bsl I, a reaction mixture (10 μl) containing 2 U of Bsl I (New England BioLabs) or Bse LI (MBI Fermentas, Amherst, N.Y.), 1× NEB buffer 3 (New England BioLabs), 2 μl of the PCR product from the fecal DNA, and 0.5 μl of either of two kinds of the internal control DNAs was incubated at 55°C for 1 h. The digestion of the internal control DNA derived from Lactobacillus sp. with Rsa I, Bfa I, or Bsl I gave a T-RF of 383, 311, or 657 bp, respectively.

    Amplification:

    Article Title: Genetic Characteristics of Borrelia coriaceae Isolates from the Soft Tick Ornithodoros coriaceus (Acari: Argasidae)
    Article Snippet: .. Ten microliters of the amplification products was restricted separately with Bfa I, Hph I, and Mse I (New England Biolabs, Beverly, Mass.). .. Restriction fragments were resolved in a 2.5% NuSieve GTG agarose gel (FMC BioProducts, Rockland, Maine) with 1× TBE ( ) at 5 V/cm for 3.5 h.

    Article Title: A variant allele of Growth Factor Independence 1 (GFI1) is associated with acute myeloid leukemia
    Article Snippet: As a second approach, 20 ng of genomic DNA was used for polymerase chain reaction (PCR) amplification of Exon 2. .. PCR product was restricted with Bfa I (New England Biolabs) for 24 hours.

    Article Title: Isolation and basic characterization of a β-glucosidase from a strain of Lactobacillus brevis isolated from a malolactic starter culture
    Article Snippet: .. Restriction analysis of the amplified 16S-rDNA fragment was done with the restriction enzymes Mse I and Bfa I (New England Biolabs) for 2 h at 37°C. .. The restriction fragments were separated on 2% agarose gels with ethidium bromide staining.

    Article Title: Resistance to Infection by Subgroups B, D, and E Avian Sarcoma and Leukosis Viruses Is Explained by a Premature Stop Codon within a Resistance Allele of the tvb Receptor Gene
    Article Snippet: For the present studies, 25-μg samples of genomic DNA from line 72 ( tvb r / tvb r ), line 0 ( tvb s3 / tvb s3 ), and line15B 1 ( tvb s1 / tvb s1 ) CEFs were digested overnight with 15 U of Bfa I (New England Biolabs, Inc.). .. These samples were hybridized with a 32 P-labeled tvb -specific probe that was derived by PCR amplification with the tvb s3 cDNA clone pBK7.6-2 as the template DNA ( ).

    Article Title: Evaluation of amplified rDNA restriction analysis (ARDRA) for the identification of Mycoplasma species
    Article Snippet: .. For a final identification, the amplified 16S rDNA of some strains were digested in addition with Bfa I (New England Biolabs, USA; sequence: C^TAG) or Hpy F10VI (Fermentas; sequence: GCNNNNN^NNGC). .. The restriction fragments were separated on a 3% Nusieve 3:1 agar (Tebu-Bio, France) for 2 hours at 130 V and visualized using a GeneGenius gel documentation system (Westburg, The Netherlands).

    Article Title: Mutations in FOXC2 (MFH-1), a Forkhead Family Transcription Factor, Are Responsible for the Hereditary Lymphedema-Distichiasis Syndrome
    Article Snippet: A 439-bp region of the FOXC2 gene was PCR amplified from genomic DNA, by means of the GC-rich protocol described by Baskaran et al. , with primers 5′-TCTCTCGCGCTCTCTCGCTC-3′ and 5′-TGCCAGCCCTGCTTGTTCTCC-3′. .. PCR products were column purified (Qiagen) and were digested with Bfa I (New England Biolabs) at 37°C for 1 h prior to gel electrophoresis.

    Article Title: Identification of mutations in the c-mpl gene in congenital amegakaryocytic thrombocytopenia
    Article Snippet: Amplified products were purified by using a QIAquick purification kit (Qiagen). .. PCR fragments of exons 4 and 10 were incubated at 37°C for 2 h with Pvu II (Boehringer Mannheim) and Bfa I (New England Biolabs), respectively, in accordance with the suppliers’ instructions.

    Electrophoresis:

    Article Title: Resistance to Infection by Subgroups B, D, and E Avian Sarcoma and Leukosis Viruses Is Explained by a Premature Stop Codon within a Resistance Allele of the tvb Receptor Gene
    Article Snippet: For the present studies, 25-μg samples of genomic DNA from line 72 ( tvb r / tvb r ), line 0 ( tvb s3 / tvb s3 ), and line15B 1 ( tvb s1 / tvb s1 ) CEFs were digested overnight with 15 U of Bfa I (New England Biolabs, Inc.). .. Approximately 10 μg of each sample was then subjected to electrophoresis on a 1% agarose gel, and the samples were then transferred to a nylon membrane (Amersham).

    Article Title: Identification of mutations in the c-mpl gene in congenital amegakaryocytic thrombocytopenia
    Article Snippet: PCR fragments of exons 4 and 10 were incubated at 37°C for 2 h with Pvu II (Boehringer Mannheim) and Bfa I (New England Biolabs), respectively, in accordance with the suppliers’ instructions. .. The digests were analyzed by electrophoresis in 1× TBE (90 mM Tris/64.6 mM boric acid/2.5 mM EDTA, pH 8.3) on 4% agarose (GIBCO/BRL) in parallel with a 100-bp ladder marker (New England Biolabs) and visualized with ethidium bromide staining.

    Incubation:

    Article Title: Isolation of Helicobacter canis from a Colony of Bengal Cats with Endemic Diarrhea
    Article Snippet: .. DNA digestion was accomplished by the addition of 10 U each of the restriction endonucleases Hha I and Bfa I (New England Biolabs, Beverly, Mass.) and 1 μl of restriction buffer (New England Biolabs) to 16 μl of DNA and incubation at 37°C for 3 h. The samples were separated on a 6% Visigel separation matrix (Stratagene), stained with ethidium bromide, and viewed by UV illumination. .. Bacteria isolated from both fecal samples from one cat were cultured on blood agar plates, and the cells were harvested and washed twice with 1 ml of double-distilled H2 O.

    Article Title: Application of New Primer-Enzyme Combinations to Terminal Restriction Fragment Length Polymorphism Profiling of Bacterial Populations in Human Feces
    Article Snippet: .. In the case of digestion with Rsa I (recognition site, 5′-GT|AC-3′) plus Bfa I (5′-C|TAG-3′), a reaction mixture (10 μl) containing 2.5 U each of Rsa I (Nippon Gene, Toyama, Japan) and Bfa I (New England BioLabs, Beverly, Mass.), 1× NEB buffer 4 (New England BioLabs), 2 μl of the PCR product from the fecal DNA, and 0.5 μl of each of two kinds of the internal control DNAs was incubated at 37°C for 1 h. In the case of digestion with Bsl I (5′-CCNNNNN|NNGG-3′) or Bse LI, which is an isoschizomer of Bsl I, a reaction mixture (10 μl) containing 2 U of Bsl I (New England BioLabs) or Bse LI (MBI Fermentas, Amherst, N.Y.), 1× NEB buffer 3 (New England BioLabs), 2 μl of the PCR product from the fecal DNA, and 0.5 μl of either of two kinds of the internal control DNAs was incubated at 55°C for 1 h. The digestion of the internal control DNA derived from Lactobacillus sp. with Rsa I, Bfa I, or Bsl I gave a T-RF of 383, 311, or 657 bp, respectively. .. The digestion of the internal control DNA derived from Staphylococcus sp. with Rsa I, Bfa I, or Bsl I gave a T-RF of 136, 498, or 518 bp, respectively.

    Article Title: In Vivo Bypass of 8-oxodG
    Article Snippet: .. For restriction digestion, 5 µl of the PCR reaction was incubated with 2 units of either Bfa I or Sph I (New England Biolabs) in the recommended buffer in a total volume of 15 µl at 37° overnight and analyzed by gel electrophoresis. ..

    Article Title: Identification of mutations in the c-mpl gene in congenital amegakaryocytic thrombocytopenia
    Article Snippet: .. PCR fragments of exons 4 and 10 were incubated at 37°C for 2 h with Pvu II (Boehringer Mannheim) and Bfa I (New England Biolabs), respectively, in accordance with the suppliers’ instructions. .. The digests were analyzed by electrophoresis in 1× TBE (90 mM Tris/64.6 mM boric acid/2.5 mM EDTA, pH 8.3) on 4% agarose (GIBCO/BRL) in parallel with a 100-bp ladder marker (New England Biolabs) and visualized with ethidium bromide staining.

    Activity Assay:

    Article Title: Application of New Primer-Enzyme Combinations to Terminal Restriction Fragment Length Polymorphism Profiling of Bacterial Populations in Human Feces
    Article Snippet: In the case of digestion with Rsa I (recognition site, 5′-GT|AC-3′) plus Bfa I (5′-C|TAG-3′), a reaction mixture (10 μl) containing 2.5 U each of Rsa I (Nippon Gene, Toyama, Japan) and Bfa I (New England BioLabs, Beverly, Mass.), 1× NEB buffer 4 (New England BioLabs), 2 μl of the PCR product from the fecal DNA, and 0.5 μl of each of two kinds of the internal control DNAs was incubated at 37°C for 1 h. In the case of digestion with Bsl I (5′-CCNNNNN|NNGG-3′) or Bse LI, which is an isoschizomer of Bsl I, a reaction mixture (10 μl) containing 2 U of Bsl I (New England BioLabs) or Bse LI (MBI Fermentas, Amherst, N.Y.), 1× NEB buffer 3 (New England BioLabs), 2 μl of the PCR product from the fecal DNA, and 0.5 μl of either of two kinds of the internal control DNAs was incubated at 55°C for 1 h. The digestion of the internal control DNA derived from Lactobacillus sp. with Rsa I, Bfa I, or Bsl I gave a T-RF of 383, 311, or 657 bp, respectively. .. In the case of the digestion with Bsl I or Bse LI, the addition of a larger amount of fluorescently labeled DNA to the reaction mixture appeared to induce star activity (an enzymatic activity with lowered specificity for the sequence recognition) for each of these enzymes.

    Mass Spectrometry:

    Article Title: Maternal Separation Enhances Conditioned Fear and Decreases the mRNA Levels of the Neurotensin Receptor 1 Gene with Hypermethylation of This Gene in the Rat Amygdala
    Article Snippet: Analysis of DNA methylation in the promoter of NTSR1 Genome DNA of MS and AFR rats were isolated from AMY with a DNeasy Blood & Tissue Kit (Qiagen). .. Genomic DNA was digested with Bfa I (New England Biolabs, Ipswich, MA) because the promoter region of NTSR1 contains the recognition site of Bfa I.

    Derivative Assay:

    Article Title: Application of New Primer-Enzyme Combinations to Terminal Restriction Fragment Length Polymorphism Profiling of Bacterial Populations in Human Feces
    Article Snippet: .. In the case of digestion with Rsa I (recognition site, 5′-GT|AC-3′) plus Bfa I (5′-C|TAG-3′), a reaction mixture (10 μl) containing 2.5 U each of Rsa I (Nippon Gene, Toyama, Japan) and Bfa I (New England BioLabs, Beverly, Mass.), 1× NEB buffer 4 (New England BioLabs), 2 μl of the PCR product from the fecal DNA, and 0.5 μl of each of two kinds of the internal control DNAs was incubated at 37°C for 1 h. In the case of digestion with Bsl I (5′-CCNNNNN|NNGG-3′) or Bse LI, which is an isoschizomer of Bsl I, a reaction mixture (10 μl) containing 2 U of Bsl I (New England BioLabs) or Bse LI (MBI Fermentas, Amherst, N.Y.), 1× NEB buffer 3 (New England BioLabs), 2 μl of the PCR product from the fecal DNA, and 0.5 μl of either of two kinds of the internal control DNAs was incubated at 55°C for 1 h. The digestion of the internal control DNA derived from Lactobacillus sp. with Rsa I, Bfa I, or Bsl I gave a T-RF of 383, 311, or 657 bp, respectively. .. The digestion of the internal control DNA derived from Staphylococcus sp. with Rsa I, Bfa I, or Bsl I gave a T-RF of 136, 498, or 518 bp, respectively.

    Article Title: Resistance to Infection by Subgroups B, D, and E Avian Sarcoma and Leukosis Viruses Is Explained by a Premature Stop Codon within a Resistance Allele of the tvb Receptor Gene
    Article Snippet: For the present studies, 25-μg samples of genomic DNA from line 72 ( tvb r / tvb r ), line 0 ( tvb s3 / tvb s3 ), and line15B 1 ( tvb s1 / tvb s1 ) CEFs were digested overnight with 15 U of Bfa I (New England Biolabs, Inc.). .. These samples were hybridized with a 32 P-labeled tvb -specific probe that was derived by PCR amplification with the tvb s3 cDNA clone pBK7.6-2 as the template DNA ( ).

    Southern Blot:

    Article Title: Resistance to Infection by Subgroups B, D, and E Avian Sarcoma and Leukosis Viruses Is Explained by a Premature Stop Codon within a Resistance Allele of the tvb Receptor Gene
    Article Snippet: To test whether the presence of this site could be used as a diagnostic marker for the presence of this allele, Southern blot analysis was performed with Bfa I-digested genomic DNA samples that were prepared from CEFs with different tvb genotypes. .. For the present studies, 25-μg samples of genomic DNA from line 72 ( tvb r / tvb r ), line 0 ( tvb s3 / tvb s3 ), and line15B 1 ( tvb s1 / tvb s1 ) CEFs were digested overnight with 15 U of Bfa I (New England Biolabs, Inc.).

    Methylation:

    Article Title: Maternal Separation Enhances Conditioned Fear and Decreases the mRNA Levels of the Neurotensin Receptor 1 Gene with Hypermethylation of This Gene in the Rat Amygdala
    Article Snippet: The method was based on the Methylated CpG Island Recovery Assay (MIRA), which utilizes the high affinity of the MBD2b/MBD3L1 complex for methylated DNA. .. Genomic DNA was digested with Bfa I (New England Biolabs, Ipswich, MA) because the promoter region of NTSR1 contains the recognition site of Bfa I.

    Generated:

    Article Title: Resistance to Infection by Subgroups B, D, and E Avian Sarcoma and Leukosis Viruses Is Explained by a Premature Stop Codon within a Resistance Allele of the tvb Receptor Gene
    Article Snippet: The nucleotide difference between the ORFs of tvb r and tvb s1 generated a Bfa I restriction enzyme site that is specific to the resistance allele (Fig. ). .. For the present studies, 25-μg samples of genomic DNA from line 72 ( tvb r / tvb r ), line 0 ( tvb s3 / tvb s3 ), and line15B 1 ( tvb s1 / tvb s1 ) CEFs were digested overnight with 15 U of Bfa I (New England Biolabs, Inc.).

    Polymerase Chain Reaction:

    Article Title: Isolation of Helicobacter canis from a Colony of Bengal Cats with Endemic Diarrhea
    Article Snippet: The 1.2-kb PCR-amplified Helicobacter DNA from the two strains of H. canis isolated from the diarrheic cats, the two strains from the nondiarrheic cats, an H. canis strain from a dog, and H. canis ATCC 51401 was subjected to restriction fragment length polymorphism (RFLP) analysis. .. DNA digestion was accomplished by the addition of 10 U each of the restriction endonucleases Hha I and Bfa I (New England Biolabs, Beverly, Mass.) and 1 μl of restriction buffer (New England Biolabs) to 16 μl of DNA and incubation at 37°C for 3 h. The samples were separated on a 6% Visigel separation matrix (Stratagene), stained with ethidium bromide, and viewed by UV illumination.

    Article Title: A variant allele of Growth Factor Independence 1 (GFI1) is associated with acute myeloid leukemia
    Article Snippet: .. PCR product was restricted with Bfa I (New England Biolabs) for 24 hours. ..

    Article Title: Application of New Primer-Enzyme Combinations to Terminal Restriction Fragment Length Polymorphism Profiling of Bacterial Populations in Human Feces
    Article Snippet: .. In the case of digestion with Rsa I (recognition site, 5′-GT|AC-3′) plus Bfa I (5′-C|TAG-3′), a reaction mixture (10 μl) containing 2.5 U each of Rsa I (Nippon Gene, Toyama, Japan) and Bfa I (New England BioLabs, Beverly, Mass.), 1× NEB buffer 4 (New England BioLabs), 2 μl of the PCR product from the fecal DNA, and 0.5 μl of each of two kinds of the internal control DNAs was incubated at 37°C for 1 h. In the case of digestion with Bsl I (5′-CCNNNNN|NNGG-3′) or Bse LI, which is an isoschizomer of Bsl I, a reaction mixture (10 μl) containing 2 U of Bsl I (New England BioLabs) or Bse LI (MBI Fermentas, Amherst, N.Y.), 1× NEB buffer 3 (New England BioLabs), 2 μl of the PCR product from the fecal DNA, and 0.5 μl of either of two kinds of the internal control DNAs was incubated at 55°C for 1 h. The digestion of the internal control DNA derived from Lactobacillus sp. with Rsa I, Bfa I, or Bsl I gave a T-RF of 383, 311, or 657 bp, respectively. .. The digestion of the internal control DNA derived from Staphylococcus sp. with Rsa I, Bfa I, or Bsl I gave a T-RF of 136, 498, or 518 bp, respectively.

    Article Title: Isolation and basic characterization of a β-glucosidase from a strain of Lactobacillus brevis isolated from a malolactic starter culture
    Article Snippet: PCR conditions were: initial denaturation step 5 min at 94°C, followed by 35 cycles of denaturation at 94°C for 30s, annealing for 30s at 56°C, extension 1 min at 72°C and a final elongation step at 72°C for 5 min. .. Restriction analysis of the amplified 16S-rDNA fragment was done with the restriction enzymes Mse I and Bfa I (New England Biolabs) for 2 h at 37°C.

    Article Title: Resistance to Infection by Subgroups B, D, and E Avian Sarcoma and Leukosis Viruses Is Explained by a Premature Stop Codon within a Resistance Allele of the tvb Receptor Gene
    Article Snippet: For the present studies, 25-μg samples of genomic DNA from line 72 ( tvb r / tvb r ), line 0 ( tvb s3 / tvb s3 ), and line15B 1 ( tvb s1 / tvb s1 ) CEFs were digested overnight with 15 U of Bfa I (New England Biolabs, Inc.). .. These samples were hybridized with a 32 P-labeled tvb -specific probe that was derived by PCR amplification with the tvb s3 cDNA clone pBK7.6-2 as the template DNA ( ).

    Article Title: In Vivo Bypass of 8-oxodG
    Article Snippet: .. For restriction digestion, 5 µl of the PCR reaction was incubated with 2 units of either Bfa I or Sph I (New England Biolabs) in the recommended buffer in a total volume of 15 µl at 37° overnight and analyzed by gel electrophoresis. ..

    Article Title: Evaluation of amplified rDNA restriction analysis (ARDRA) for the identification of Mycoplasma species
    Article Snippet: Restriction digestion For all 60 strains, 10 μl of the 16S rDNA PCR product was digested with 5 U of restriction enzyme Alu I (Fermentas, Lithuania; sequence: AG^CT) and the associated Y+ /Tango restriction buffer (Fermentas) in a total volume of 20 μl for 2 hours at 37°C. .. For a final identification, the amplified 16S rDNA of some strains were digested in addition with Bfa I (New England Biolabs, USA; sequence: C^TAG) or Hpy F10VI (Fermentas; sequence: GCNNNNN^NNGC).

    Article Title: Mutations in FOXC2 (MFH-1), a Forkhead Family Transcription Factor, Are Responsible for the Hereditary Lymphedema-Distichiasis Syndrome
    Article Snippet: .. PCR products were column purified (Qiagen) and were digested with Bfa I (New England Biolabs) at 37°C for 1 h prior to gel electrophoresis. ..

    Article Title: Identification of mutations in the c-mpl gene in congenital amegakaryocytic thrombocytopenia
    Article Snippet: .. PCR fragments of exons 4 and 10 were incubated at 37°C for 2 h with Pvu II (Boehringer Mannheim) and Bfa I (New England Biolabs), respectively, in accordance with the suppliers’ instructions. .. The digests were analyzed by electrophoresis in 1× TBE (90 mM Tris/64.6 mM boric acid/2.5 mM EDTA, pH 8.3) on 4% agarose (GIBCO/BRL) in parallel with a 100-bp ladder marker (New England Biolabs) and visualized with ethidium bromide staining.

    Binding Assay:

    Article Title: Maternal Separation Enhances Conditioned Fear and Decreases the mRNA Levels of the Neurotensin Receptor 1 Gene with Hypermethylation of This Gene in the Rat Amygdala
    Article Snippet: Genomic DNA was digested with Bfa I (New England Biolabs, Ipswich, MA) because the promoter region of NTSR1 contains the recognition site of Bfa I. .. The MBD2b/MBD3L1 protein-DNA complex was added to the DNA fragments, specifically binding to CpG-methylated DNA.

    Nucleic Acid Electrophoresis:

    Article Title: In Vivo Bypass of 8-oxodG
    Article Snippet: .. For restriction digestion, 5 µl of the PCR reaction was incubated with 2 units of either Bfa I or Sph I (New England Biolabs) in the recommended buffer in a total volume of 15 µl at 37° overnight and analyzed by gel electrophoresis. ..

    Article Title: Mutations in FOXC2 (MFH-1), a Forkhead Family Transcription Factor, Are Responsible for the Hereditary Lymphedema-Distichiasis Syndrome
    Article Snippet: .. PCR products were column purified (Qiagen) and were digested with Bfa I (New England Biolabs) at 37°C for 1 h prior to gel electrophoresis. ..

    Fluorescence:

    Article Title: A variant allele of Growth Factor Independence 1 (GFI1) is associated with acute myeloid leukemia
    Article Snippet: PCR product was restricted with Bfa I (New England Biolabs) for 24 hours. .. Each call was verified with regard to the time course of the intensity increase of the 2 fluorescence markers.

    Magnetic Beads:

    Article Title: Maternal Separation Enhances Conditioned Fear and Decreases the mRNA Levels of the Neurotensin Receptor 1 Gene with Hypermethylation of This Gene in the Rat Amygdala
    Article Snippet: Genomic DNA was digested with Bfa I (New England Biolabs, Ipswich, MA) because the promoter region of NTSR1 contains the recognition site of Bfa I. .. These protein-DNA complexes were then captured with nickel-coated magnetic beads, and subsequent wash steps were performed to remove fragments with little or no methylation (unbound fragment; UF).

    Mutagenesis:

    Article Title: Resistance to Infection by Subgroups B, D, and E Avian Sarcoma and Leukosis Viruses Is Explained by a Premature Stop Codon within a Resistance Allele of the tvb Receptor Gene
    Article Snippet: Paragraph title: The point mutation in tvb r generates a Bfa I restriction enzyme site that can be used diagnostically. ... For the present studies, 25-μg samples of genomic DNA from line 72 ( tvb r / tvb r ), line 0 ( tvb s3 / tvb s3 ), and line15B 1 ( tvb s1 / tvb s1 ) CEFs were digested overnight with 15 U of Bfa I (New England Biolabs, Inc.).

    Isolation:

    Article Title: Isolation of Helicobacter canis from a Colony of Bengal Cats with Endemic Diarrhea
    Article Snippet: The 1.2-kb PCR-amplified Helicobacter DNA from the two strains of H. canis isolated from the diarrheic cats, the two strains from the nondiarrheic cats, an H. canis strain from a dog, and H. canis ATCC 51401 was subjected to restriction fragment length polymorphism (RFLP) analysis. .. DNA digestion was accomplished by the addition of 10 U each of the restriction endonucleases Hha I and Bfa I (New England Biolabs, Beverly, Mass.) and 1 μl of restriction buffer (New England Biolabs) to 16 μl of DNA and incubation at 37°C for 3 h. The samples were separated on a 6% Visigel separation matrix (Stratagene), stained with ethidium bromide, and viewed by UV illumination.

    Article Title: Isolation and basic characterization of a β-glucosidase from a strain of Lactobacillus brevis isolated from a malolactic starter culture
    Article Snippet: Paragraph title: Isolation and identification of Lactic acid bacteria ... Restriction analysis of the amplified 16S-rDNA fragment was done with the restriction enzymes Mse I and Bfa I (New England Biolabs) for 2 h at 37°C.

    Article Title: Maternal Separation Enhances Conditioned Fear and Decreases the mRNA Levels of the Neurotensin Receptor 1 Gene with Hypermethylation of This Gene in the Rat Amygdala
    Article Snippet: Analysis of DNA methylation in the promoter of NTSR1 Genome DNA of MS and AFR rats were isolated from AMY with a DNeasy Blood & Tissue Kit (Qiagen). .. Genomic DNA was digested with Bfa I (New England Biolabs, Ipswich, MA) because the promoter region of NTSR1 contains the recognition site of Bfa I.

    Labeling:

    Article Title: Application of New Primer-Enzyme Combinations to Terminal Restriction Fragment Length Polymorphism Profiling of Bacterial Populations in Human Feces
    Article Snippet: Fluorescently labeled PCR products (20 μl) were purified by using the MultiScreen FB filter plate (Millipore, Bedford, Mass.) as follows. .. In the case of digestion with Rsa I (recognition site, 5′-GT|AC-3′) plus Bfa I (5′-C|TAG-3′), a reaction mixture (10 μl) containing 2.5 U each of Rsa I (Nippon Gene, Toyama, Japan) and Bfa I (New England BioLabs, Beverly, Mass.), 1× NEB buffer 4 (New England BioLabs), 2 μl of the PCR product from the fecal DNA, and 0.5 μl of each of two kinds of the internal control DNAs was incubated at 37°C for 1 h. In the case of digestion with Bsl I (5′-CCNNNNN|NNGG-3′) or Bse LI, which is an isoschizomer of Bsl I, a reaction mixture (10 μl) containing 2 U of Bsl I (New England BioLabs) or Bse LI (MBI Fermentas, Amherst, N.Y.), 1× NEB buffer 3 (New England BioLabs), 2 μl of the PCR product from the fecal DNA, and 0.5 μl of either of two kinds of the internal control DNAs was incubated at 55°C for 1 h. The digestion of the internal control DNA derived from Lactobacillus sp. with Rsa I, Bfa I, or Bsl I gave a T-RF of 383, 311, or 657 bp, respectively.

    Purification:

    Article Title: Application of New Primer-Enzyme Combinations to Terminal Restriction Fragment Length Polymorphism Profiling of Bacterial Populations in Human Feces
    Article Snippet: Paragraph title: Purification of PCR product and restriction enzyme digestion. ... In the case of digestion with Rsa I (recognition site, 5′-GT|AC-3′) plus Bfa I (5′-C|TAG-3′), a reaction mixture (10 μl) containing 2.5 U each of Rsa I (Nippon Gene, Toyama, Japan) and Bfa I (New England BioLabs, Beverly, Mass.), 1× NEB buffer 4 (New England BioLabs), 2 μl of the PCR product from the fecal DNA, and 0.5 μl of each of two kinds of the internal control DNAs was incubated at 37°C for 1 h. In the case of digestion with Bsl I (5′-CCNNNNN|NNGG-3′) or Bse LI, which is an isoschizomer of Bsl I, a reaction mixture (10 μl) containing 2 U of Bsl I (New England BioLabs) or Bse LI (MBI Fermentas, Amherst, N.Y.), 1× NEB buffer 3 (New England BioLabs), 2 μl of the PCR product from the fecal DNA, and 0.5 μl of either of two kinds of the internal control DNAs was incubated at 55°C for 1 h. The digestion of the internal control DNA derived from Lactobacillus sp. with Rsa I, Bfa I, or Bsl I gave a T-RF of 383, 311, or 657 bp, respectively.

    Article Title: Isolation and basic characterization of a β-glucosidase from a strain of Lactobacillus brevis isolated from a malolactic starter culture
    Article Snippet: Restriction analysis of the amplified 16S-rDNA fragment was done with the restriction enzymes Mse I and Bfa I (New England Biolabs) for 2 h at 37°C. .. Additionally, the amplified 16S-rDNA fragments were purified with the Wizard SV Gel and PCR Clean-UP System (Promega) and sequenced (Agowa GmbH, Germany).

    Article Title: Mutations in FOXC2 (MFH-1), a Forkhead Family Transcription Factor, Are Responsible for the Hereditary Lymphedema-Distichiasis Syndrome
    Article Snippet: .. PCR products were column purified (Qiagen) and were digested with Bfa I (New England Biolabs) at 37°C for 1 h prior to gel electrophoresis. ..

    Article Title: Identification of mutations in the c-mpl gene in congenital amegakaryocytic thrombocytopenia
    Article Snippet: Amplified products were purified by using a QIAquick purification kit (Qiagen). .. PCR fragments of exons 4 and 10 were incubated at 37°C for 2 h with Pvu II (Boehringer Mannheim) and Bfa I (New England Biolabs), respectively, in accordance with the suppliers’ instructions.

    Sequencing:

    Article Title: Application of New Primer-Enzyme Combinations to Terminal Restriction Fragment Length Polymorphism Profiling of Bacterial Populations in Human Feces
    Article Snippet: In the case of digestion with Rsa I (recognition site, 5′-GT|AC-3′) plus Bfa I (5′-C|TAG-3′), a reaction mixture (10 μl) containing 2.5 U each of Rsa I (Nippon Gene, Toyama, Japan) and Bfa I (New England BioLabs, Beverly, Mass.), 1× NEB buffer 4 (New England BioLabs), 2 μl of the PCR product from the fecal DNA, and 0.5 μl of each of two kinds of the internal control DNAs was incubated at 37°C for 1 h. In the case of digestion with Bsl I (5′-CCNNNNN|NNGG-3′) or Bse LI, which is an isoschizomer of Bsl I, a reaction mixture (10 μl) containing 2 U of Bsl I (New England BioLabs) or Bse LI (MBI Fermentas, Amherst, N.Y.), 1× NEB buffer 3 (New England BioLabs), 2 μl of the PCR product from the fecal DNA, and 0.5 μl of either of two kinds of the internal control DNAs was incubated at 55°C for 1 h. The digestion of the internal control DNA derived from Lactobacillus sp. with Rsa I, Bfa I, or Bsl I gave a T-RF of 383, 311, or 657 bp, respectively. .. In the case of the digestion with Bsl I or Bse LI, the addition of a larger amount of fluorescently labeled DNA to the reaction mixture appeared to induce star activity (an enzymatic activity with lowered specificity for the sequence recognition) for each of these enzymes.

    Article Title: Comparative Mapping of the Wild Perennial Glycine latifolia and Soybean (G. max) Reveals Extensive Chromosome Rearrangements in the Genus Glycine
    Article Snippet: DNA samples were digested with Bfa I and Pst I-HF restriction enzymes (New England Biolabs, Ipswich, MA) as described by Thurber et al. . .. For these experiments, Bfa I was selected because it did not produce strong banding patterns in preliminary restriction enzyme digestions of G. latifolia DNA and Pst I was selected because G. latifolia sequence data contained an intermediate number of Pst I recognition sites.

    Article Title: Evaluation of amplified rDNA restriction analysis (ARDRA) for the identification of Mycoplasma species
    Article Snippet: .. For a final identification, the amplified 16S rDNA of some strains were digested in addition with Bfa I (New England Biolabs, USA; sequence: C^TAG) or Hpy F10VI (Fermentas; sequence: GCNNNNN^NNGC). .. The restriction fragments were separated on a 3% Nusieve 3:1 agar (Tebu-Bio, France) for 2 hours at 130 V and visualized using a GeneGenius gel documentation system (Westburg, The Netherlands).

    Article Title: Mutations in FOXC2 (MFH-1), a Forkhead Family Transcription Factor, Are Responsible for the Hereditary Lymphedema-Distichiasis Syndrome
    Article Snippet: Sequence analysis of the proband in family 1 revealed the TAC→TAG mutation creating a novel Bfa I restriction site. .. PCR products were column purified (Qiagen) and were digested with Bfa I (New England Biolabs) at 37°C for 1 h prior to gel electrophoresis.

    Agarose Gel Electrophoresis:

    Article Title: Genetic Characteristics of Borrelia coriaceae Isolates from the Soft Tick Ornithodoros coriaceus (Acari: Argasidae)
    Article Snippet: Ten microliters of the amplification products was restricted separately with Bfa I, Hph I, and Mse I (New England Biolabs, Beverly, Mass.). .. Restriction fragments were resolved in a 2.5% NuSieve GTG agarose gel (FMC BioProducts, Rockland, Maine) with 1× TBE ( ) at 5 V/cm for 3.5 h.

    Article Title: Resistance to Infection by Subgroups B, D, and E Avian Sarcoma and Leukosis Viruses Is Explained by a Premature Stop Codon within a Resistance Allele of the tvb Receptor Gene
    Article Snippet: For the present studies, 25-μg samples of genomic DNA from line 72 ( tvb r / tvb r ), line 0 ( tvb s3 / tvb s3 ), and line15B 1 ( tvb s1 / tvb s1 ) CEFs were digested overnight with 15 U of Bfa I (New England Biolabs, Inc.). .. Approximately 10 μg of each sample was then subjected to electrophoresis on a 1% agarose gel, and the samples were then transferred to a nylon membrane (Amersham).

    DNA Methylation Assay:

    Article Title: Maternal Separation Enhances Conditioned Fear and Decreases the mRNA Levels of the Neurotensin Receptor 1 Gene with Hypermethylation of This Gene in the Rat Amygdala
    Article Snippet: Paragraph title: Analysis of DNA methylation in the promoter of NTSR1 ... Genomic DNA was digested with Bfa I (New England Biolabs, Ipswich, MA) because the promoter region of NTSR1 contains the recognition site of Bfa I.

    Produced:

    Article Title: Comparative Mapping of the Wild Perennial Glycine latifolia and Soybean (G. max) Reveals Extensive Chromosome Rearrangements in the Genus Glycine
    Article Snippet: DNA samples were digested with Bfa I and Pst I-HF restriction enzymes (New England Biolabs, Ipswich, MA) as described by Thurber et al. . .. Up to 96 samples were sequenced per lane of a HiSeq2000 (Illumina Inc., San Diego, CA) at the W. M. Keck Center at the University of Illinois, Urbana, IL, USA to produced 100-nt single-end reads.

    Marker:

    Article Title: Isolation and basic characterization of a β-glucosidase from a strain of Lactobacillus brevis isolated from a malolactic starter culture
    Article Snippet: Restriction analysis of the amplified 16S-rDNA fragment was done with the restriction enzymes Mse I and Bfa I (New England Biolabs) for 2 h at 37°C. .. The 50 bp and 100 bp ladders from New England Biolabs were used as molecular size marker, the reference strains used were O. oeni DSMZ 20252 and L. brevis DSMZ 20054.

    Article Title: Resistance to Infection by Subgroups B, D, and E Avian Sarcoma and Leukosis Viruses Is Explained by a Premature Stop Codon within a Resistance Allele of the tvb Receptor Gene
    Article Snippet: To test whether the presence of this site could be used as a diagnostic marker for the presence of this allele, Southern blot analysis was performed with Bfa I-digested genomic DNA samples that were prepared from CEFs with different tvb genotypes. .. For the present studies, 25-μg samples of genomic DNA from line 72 ( tvb r / tvb r ), line 0 ( tvb s3 / tvb s3 ), and line15B 1 ( tvb s1 / tvb s1 ) CEFs were digested overnight with 15 U of Bfa I (New England Biolabs, Inc.).

    Article Title: Evaluation of amplified rDNA restriction analysis (ARDRA) for the identification of Mycoplasma species
    Article Snippet: For a final identification, the amplified 16S rDNA of some strains were digested in addition with Bfa I (New England Biolabs, USA; sequence: C^TAG) or Hpy F10VI (Fermentas; sequence: GCNNNNN^NNGC). .. A 50-bp ladder was used as a DNA marker (Fermentas).

    Article Title: Identification of mutations in the c-mpl gene in congenital amegakaryocytic thrombocytopenia
    Article Snippet: PCR fragments of exons 4 and 10 were incubated at 37°C for 2 h with Pvu II (Boehringer Mannheim) and Bfa I (New England Biolabs), respectively, in accordance with the suppliers’ instructions. .. The digests were analyzed by electrophoresis in 1× TBE (90 mM Tris/64.6 mM boric acid/2.5 mM EDTA, pH 8.3) on 4% agarose (GIBCO/BRL) in parallel with a 100-bp ladder marker (New England Biolabs) and visualized with ethidium bromide staining.

    Staining:

    Article Title: Isolation of Helicobacter canis from a Colony of Bengal Cats with Endemic Diarrhea
    Article Snippet: .. DNA digestion was accomplished by the addition of 10 U each of the restriction endonucleases Hha I and Bfa I (New England Biolabs, Beverly, Mass.) and 1 μl of restriction buffer (New England Biolabs) to 16 μl of DNA and incubation at 37°C for 3 h. The samples were separated on a 6% Visigel separation matrix (Stratagene), stained with ethidium bromide, and viewed by UV illumination. .. Bacteria isolated from both fecal samples from one cat were cultured on blood agar plates, and the cells were harvested and washed twice with 1 ml of double-distilled H2 O.

    Article Title: Isolation and basic characterization of a β-glucosidase from a strain of Lactobacillus brevis isolated from a malolactic starter culture
    Article Snippet: Restriction analysis of the amplified 16S-rDNA fragment was done with the restriction enzymes Mse I and Bfa I (New England Biolabs) for 2 h at 37°C. .. The restriction fragments were separated on 2% agarose gels with ethidium bromide staining.

    Article Title: Identification of mutations in the c-mpl gene in congenital amegakaryocytic thrombocytopenia
    Article Snippet: PCR fragments of exons 4 and 10 were incubated at 37°C for 2 h with Pvu II (Boehringer Mannheim) and Bfa I (New England Biolabs), respectively, in accordance with the suppliers’ instructions. .. The digests were analyzed by electrophoresis in 1× TBE (90 mM Tris/64.6 mM boric acid/2.5 mM EDTA, pH 8.3) on 4% agarose (GIBCO/BRL) in parallel with a 100-bp ladder marker (New England Biolabs) and visualized with ethidium bromide staining.

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    New England Biolabs bfai
    Bfai, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 5 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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