bacteriophage φx174  (New England Biolabs)


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    Structured Review

    New England Biolabs bacteriophage φx174
    High-resolution velocity sedimentation gradients reveal two HCV capsid subpopulations. Higher-resolution 10 to 50% linear sucrose gradients were used to separate wheat germ cell-free reactions programmed with C173, C115, and HBV core transcript. Fractions were analyzed by SDS-PAGE and autoradiography. The graph shows the amount of core in each fraction (quantitated by densitometry) for C173 (solid diamonds), C115 (solid squares), and HBV core (open circles). Arrows indicate the migration of sedimentation markers (80S and 114S); 80S ribosomes were identified by Coomassie staining, and 114S was identified by titering bacteriophage <t>φX174</t> (open triangles). Shown are representative results from three independent experiments.
    Bacteriophage φx174, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 88/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/bacteriophage φx174/product/New England Biolabs
    Average 88 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    bacteriophage φx174 - by Bioz Stars, 2020-09
    88/100 stars

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    1) Product Images from "Unique Features of Hepatitis C Virus Capsid Formation Revealed by De Novo Cell-Free Assembly"

    Article Title: Unique Features of Hepatitis C Virus Capsid Formation Revealed by De Novo Cell-Free Assembly

    Journal: Journal of Virology

    doi: 10.1128/JVI.78.17.9257-9269.2004

    High-resolution velocity sedimentation gradients reveal two HCV capsid subpopulations. Higher-resolution 10 to 50% linear sucrose gradients were used to separate wheat germ cell-free reactions programmed with C173, C115, and HBV core transcript. Fractions were analyzed by SDS-PAGE and autoradiography. The graph shows the amount of core in each fraction (quantitated by densitometry) for C173 (solid diamonds), C115 (solid squares), and HBV core (open circles). Arrows indicate the migration of sedimentation markers (80S and 114S); 80S ribosomes were identified by Coomassie staining, and 114S was identified by titering bacteriophage φX174 (open triangles). Shown are representative results from three independent experiments.
    Figure Legend Snippet: High-resolution velocity sedimentation gradients reveal two HCV capsid subpopulations. Higher-resolution 10 to 50% linear sucrose gradients were used to separate wheat germ cell-free reactions programmed with C173, C115, and HBV core transcript. Fractions were analyzed by SDS-PAGE and autoradiography. The graph shows the amount of core in each fraction (quantitated by densitometry) for C173 (solid diamonds), C115 (solid squares), and HBV core (open circles). Arrows indicate the migration of sedimentation markers (80S and 114S); 80S ribosomes were identified by Coomassie staining, and 114S was identified by titering bacteriophage φX174 (open triangles). Shown are representative results from three independent experiments.

    Techniques Used: Sedimentation, SDS Page, Autoradiography, Migration, Staining

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    New England Biolabs bacteriophage φx174
    High-resolution velocity sedimentation gradients reveal two HCV capsid subpopulations. Higher-resolution 10 to 50% linear sucrose gradients were used to separate wheat germ cell-free reactions programmed with C173, C115, and HBV core transcript. Fractions were analyzed by SDS-PAGE and autoradiography. The graph shows the amount of core in each fraction (quantitated by densitometry) for C173 (solid diamonds), C115 (solid squares), and HBV core (open circles). Arrows indicate the migration of sedimentation markers (80S and 114S); 80S ribosomes were identified by Coomassie staining, and 114S was identified by titering bacteriophage <t>φX174</t> (open triangles). Shown are representative results from three independent experiments.
    Bacteriophage φx174, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 88/100, based on 2 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/bacteriophage φx174/product/New England Biolabs
    Average 88 stars, based on 2 article reviews
    Price from $9.99 to $1999.99
    bacteriophage φx174 - by Bioz Stars, 2020-09
    88/100 stars
      Buy from Supplier

    80
    New England Biolabs bacteriophage φx174 virion dna
    Diagrams of FEN substrates. (A) Pseudo-Y structure formed by annealing oligonucleotides FS and FA; (B) structure formed by annealing a primer (P-4, P-6, or P-15) to <t>φX174</t> virion <t>DNA</t> and extending; (C) substitution of oligonucleotide FA-T for FA; (D) annealing of oligonucleotide FA-C to FA; (E) annealing of oligonucleotide FS-C to FS; (F) ligation of oligonucleotide FS-L to FS.
    Bacteriophage φx174 Virion Dna, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 80/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/bacteriophage φx174 virion dna/product/New England Biolabs
    Average 80 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    bacteriophage φx174 virion dna - by Bioz Stars, 2020-09
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    80
    New England Biolabs double stranded ds phage φx174 dna
    Glycerol gradient sedimentation analysis of the mthMCM preparation. ( A ) The purified HiTrap-Q column fraction of the mthMCM protein (0.1 ml, 75 μg) was loaded onto a 5-ml 15–35% glycerol gradient and centrifuged for 13 hr at 45,000 rpm in a Beckman SW50.1 rotor at 4°C. Eighteen fractions were collected from the bottom, and aliquots (15 μl) of each fraction were loaded onto an SDS/10% polyacrylamide gel, subjected to electrophoresis, and stained with Coomassie blue. Arrows indicate the positions of marker proteins. ( B ) Distribution of <t>DNA</t> helicase activity in glycerol gradient fractions. The assay for helicase activity was carried out with 2 μl of each fraction in reaction mixtures containing 10 fmol of the HS-M substrate (S). P, product. ( C ) Distribution of DNA-dependent ATPase activity. The ATPase activity was assayed in the presence of <t>φX174</t> ssDNA (30 ng/μl), using 2 μl of each fraction.
    Double Stranded Ds Phage φx174 Dna, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 80/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Price from $9.99 to $1999.99
    double stranded ds phage φx174 dna - by Bioz Stars, 2020-09
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    High-resolution velocity sedimentation gradients reveal two HCV capsid subpopulations. Higher-resolution 10 to 50% linear sucrose gradients were used to separate wheat germ cell-free reactions programmed with C173, C115, and HBV core transcript. Fractions were analyzed by SDS-PAGE and autoradiography. The graph shows the amount of core in each fraction (quantitated by densitometry) for C173 (solid diamonds), C115 (solid squares), and HBV core (open circles). Arrows indicate the migration of sedimentation markers (80S and 114S); 80S ribosomes were identified by Coomassie staining, and 114S was identified by titering bacteriophage φX174 (open triangles). Shown are representative results from three independent experiments.

    Journal: Journal of Virology

    Article Title: Unique Features of Hepatitis C Virus Capsid Formation Revealed by De Novo Cell-Free Assembly

    doi: 10.1128/JVI.78.17.9257-9269.2004

    Figure Lengend Snippet: High-resolution velocity sedimentation gradients reveal two HCV capsid subpopulations. Higher-resolution 10 to 50% linear sucrose gradients were used to separate wheat germ cell-free reactions programmed with C173, C115, and HBV core transcript. Fractions were analyzed by SDS-PAGE and autoradiography. The graph shows the amount of core in each fraction (quantitated by densitometry) for C173 (solid diamonds), C115 (solid squares), and HBV core (open circles). Arrows indicate the migration of sedimentation markers (80S and 114S); 80S ribosomes were identified by Coomassie staining, and 114S was identified by titering bacteriophage φX174 (open triangles). Shown are representative results from three independent experiments.

    Article Snippet: Bacteriophage φX174 and E. coli strain H4714 were gifts from P. Gouldfarb, New England Biolabs.

    Techniques: Sedimentation, SDS Page, Autoradiography, Migration, Staining

    RPA promotes ssDNA-directed synthesis of dsRNA by QDE-1. (A) In vitro DdRP assay using circular ssDNA from bacteriophages M13 or φX174 as templates. The nature of the products was characterized by various nuclease treatments and native agarose gel (0.6%) electrophoresis. (B) In vitro DdRP assay using full-length recombinant QDE-1 with various concentrations of the RPA complex. The 175 nt ssDNA template was pre-incubated with RPA before adding QDE-1, and the products were resolved by 6% urea containing polyacrylamide gel. The DNA/RNA hybrid refers to the single-stranded, labeled RNA products of the denatured hybrids. The dsRNA species migrated at higher molecular weight positions in the denaturing gels due to their synthesis by back-priming initiation. (C) The QDE-1 RdRP products with 0 or 70 nM RPA were treated with recombinant Dicer and resolved in 6% (top) or 16% (bottom) urea-containing polyacrylamide gels. The DNA/RNA hybrid refers to the single-stranded, labeled RNA products of the denatured hybrids.

    Journal: PLoS Biology

    Article Title: The DNA/RNA-Dependent RNA Polymerase QDE-1 Generates Aberrant RNA and dsRNA for RNAi in a Process Requiring Replication Protein A and a DNA Helicase

    doi: 10.1371/journal.pbio.1000496

    Figure Lengend Snippet: RPA promotes ssDNA-directed synthesis of dsRNA by QDE-1. (A) In vitro DdRP assay using circular ssDNA from bacteriophages M13 or φX174 as templates. The nature of the products was characterized by various nuclease treatments and native agarose gel (0.6%) electrophoresis. (B) In vitro DdRP assay using full-length recombinant QDE-1 with various concentrations of the RPA complex. The 175 nt ssDNA template was pre-incubated with RPA before adding QDE-1, and the products were resolved by 6% urea containing polyacrylamide gel. The DNA/RNA hybrid refers to the single-stranded, labeled RNA products of the denatured hybrids. The dsRNA species migrated at higher molecular weight positions in the denaturing gels due to their synthesis by back-priming initiation. (C) The QDE-1 RdRP products with 0 or 70 nM RPA were treated with recombinant Dicer and resolved in 6% (top) or 16% (bottom) urea-containing polyacrylamide gels. The DNA/RNA hybrid refers to the single-stranded, labeled RNA products of the denatured hybrids.

    Article Snippet: The genomic ssDNAs of bacteriophages φX174 and M13mp18 were purchased from New England Biolabs.

    Techniques: Recombinase Polymerase Amplification, In Vitro, Agarose Gel Electrophoresis, Electrophoresis, Recombinant, Incubation, Labeling, Molecular Weight

    Diagrams of FEN substrates. (A) Pseudo-Y structure formed by annealing oligonucleotides FS and FA; (B) structure formed by annealing a primer (P-4, P-6, or P-15) to φX174 virion DNA and extending; (C) substitution of oligonucleotide FA-T for FA; (D) annealing of oligonucleotide FA-C to FA; (E) annealing of oligonucleotide FS-C to FS; (F) ligation of oligonucleotide FS-L to FS.

    Journal: Journal of Bacteriology

    Article Title: Methanococcus jannaschii Flap Endonuclease: Expression, Purification, and Substrate Requirements

    doi:

    Figure Lengend Snippet: Diagrams of FEN substrates. (A) Pseudo-Y structure formed by annealing oligonucleotides FS and FA; (B) structure formed by annealing a primer (P-4, P-6, or P-15) to φX174 virion DNA and extending; (C) substitution of oligonucleotide FA-T for FA; (D) annealing of oligonucleotide FA-C to FA; (E) annealing of oligonucleotide FS-C to FS; (F) ligation of oligonucleotide FS-L to FS.

    Article Snippet: Bacteriophage φX174 virion DNA was purchased from New England Biolabs, Inc. (NEB).

    Techniques: Ligation

    Glycerol gradient sedimentation analysis of the mthMCM preparation. ( A ) The purified HiTrap-Q column fraction of the mthMCM protein (0.1 ml, 75 μg) was loaded onto a 5-ml 15–35% glycerol gradient and centrifuged for 13 hr at 45,000 rpm in a Beckman SW50.1 rotor at 4°C. Eighteen fractions were collected from the bottom, and aliquots (15 μl) of each fraction were loaded onto an SDS/10% polyacrylamide gel, subjected to electrophoresis, and stained with Coomassie blue. Arrows indicate the positions of marker proteins. ( B ) Distribution of DNA helicase activity in glycerol gradient fractions. The assay for helicase activity was carried out with 2 μl of each fraction in reaction mixtures containing 10 fmol of the HS-M substrate (S). P, product. ( C ) Distribution of DNA-dependent ATPase activity. The ATPase activity was assayed in the presence of φX174 ssDNA (30 ng/μl), using 2 μl of each fraction.

    Journal: Proceedings of the National Academy of Sciences of the United States of America

    Article Title: The single minichromosome maintenance protein of Methanobacterium thermoautotrophicum ?H contains DNA helicase activity

    doi:

    Figure Lengend Snippet: Glycerol gradient sedimentation analysis of the mthMCM preparation. ( A ) The purified HiTrap-Q column fraction of the mthMCM protein (0.1 ml, 75 μg) was loaded onto a 5-ml 15–35% glycerol gradient and centrifuged for 13 hr at 45,000 rpm in a Beckman SW50.1 rotor at 4°C. Eighteen fractions were collected from the bottom, and aliquots (15 μl) of each fraction were loaded onto an SDS/10% polyacrylamide gel, subjected to electrophoresis, and stained with Coomassie blue. Arrows indicate the positions of marker proteins. ( B ) Distribution of DNA helicase activity in glycerol gradient fractions. The assay for helicase activity was carried out with 2 μl of each fraction in reaction mixtures containing 10 fmol of the HS-M substrate (S). P, product. ( C ) Distribution of DNA-dependent ATPase activity. The ATPase activity was assayed in the presence of φX174 ssDNA (30 ng/μl), using 2 μl of each fraction.

    Article Snippet: Single-stranded (ss) and double-stranded (ds) phage φX174 DNA and plasmid pUC19 were from New England Biolabs.

    Techniques: Sedimentation, Purification, Electrophoresis, Staining, Marker, Activity Assay

    The mthMCM protein contains DNA-dependent ATPase activity. ( A ) The influence of various DNA preparations on the ATPase activity of the mthMCM protein. The ATPase activity of the multimeric glycerol gradient peak was determined in the absence or presence of the various indicated DNAs (30 ng/μl). The numbers at the bottom of the autoradiogram indicate the amount of 32 P i released (quantitated by phosphorimager analysis). ( B ) Influence of DNA concentration on ATPase activity. ATPase activity assay was measured in the presence of the indicated amount of φX174 ssDNA (○) or pUC19 dsDNA (●) and the mthMCM multimeric glycerol gradient peak fraction (80 ng). The activity observed with no DNA added (5 pmol) was set at a value of 1; ATP hydrolysis in the presence of DNA at various concentrations was calculated relative to this value.

    Journal: Proceedings of the National Academy of Sciences of the United States of America

    Article Title: The single minichromosome maintenance protein of Methanobacterium thermoautotrophicum ?H contains DNA helicase activity

    doi:

    Figure Lengend Snippet: The mthMCM protein contains DNA-dependent ATPase activity. ( A ) The influence of various DNA preparations on the ATPase activity of the mthMCM protein. The ATPase activity of the multimeric glycerol gradient peak was determined in the absence or presence of the various indicated DNAs (30 ng/μl). The numbers at the bottom of the autoradiogram indicate the amount of 32 P i released (quantitated by phosphorimager analysis). ( B ) Influence of DNA concentration on ATPase activity. ATPase activity assay was measured in the presence of the indicated amount of φX174 ssDNA (○) or pUC19 dsDNA (●) and the mthMCM multimeric glycerol gradient peak fraction (80 ng). The activity observed with no DNA added (5 pmol) was set at a value of 1; ATP hydrolysis in the presence of DNA at various concentrations was calculated relative to this value.

    Article Snippet: Single-stranded (ss) and double-stranded (ds) phage φX174 DNA and plasmid pUC19 were from New England Biolabs.

    Techniques: Activity Assay, Concentration Assay