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Enzymatics t4 ligase
T4 Ligase, supplied by Enzymatics, used in various techniques. Bioz Stars score: 92/100, based on 7 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/t4 ligase/product/Enzymatics
Average 92 stars, based on 7 article reviews
Price from $9.99 to $1999.99
t4 ligase - by Bioz Stars, 2020-05
92/100 stars

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Related Articles

Clone Assay:

Article Title: Discovery and functional characterization of diverse Class 2 CRISPR-Cas systems
Article Snippet: .. Sequences corresponding to both PAMs and non-PAMs were cloned into digested pUC19 and ligated with T4 ligase (Enzymatics). .. Competent E. coli with either the AacC2c1 locus plasmid or pACYC184 control plasmid were transformed with 20ng of PAM plasmid and plated on LB agar plates supplemented with ampicillin and chloramphenicol.

Amplification:

Article Title: Random and targeted transgene insertion in C. elegans using a modified Mosl transposon
Article Snippet: .. The DNA was digested with restriction enzymes (New England Biolabs) for 3 hours to overnight, ligated with T4 ligase (Enzymatics) and PCR amplified twice with oligos that anneal in the miniMos transposon with Phusion DNA Polymerase. .. The PCR product was electrophoresed on an 1% agarose gel and single bands gel purified with the “Zymoclean Gel DNA Recovery Kit” (Zymo Research).

Ligation:

Article Title: 3′ Branch ligation: a novel method to ligate non-complementary DNA to recessed or internal 3′OH ends in DNA or RNA
Article Snippet: .. T4 ligase helps to join the 5 ′ PO4 of the donor strand to the sole ligatable 3 ′ OH of the acceptor strand to form a branch-shaped ligation product. .. To optimize the ligation efficiency, we extensively tested a number of factors that affect general ligation efficiency, including the adapter: DNA substrate ratio, T4 ligase quantity, final ATP concentration, Mg2+ concentration, pH, incubation time, and different additives, such as polyethyleneglycol-8000 (PEG-8000) and single-stranded binding protein (SSB) ( , data not shown).

Methylation:

Article Title: Genome-wide DNA methylation analysis reveals novel epigenetic changes in chronic lymphocytic leukemia
Article Snippet: .. The methylated Illumina adapters were ligated to the adenylated DNA fragments in a 20 μl reaction containing 2 μl concentrated T4 ligase (Enzymatics) at room temperature for 15 min. .. The ligation products were gel-selected for fragments with insertion sizes of 40 to 120 bp and 120 to 220 bp as previously suggested., Bisulfite treatment was conducted using the EZ DNA methylation kit (Zymo Research) according to manufacturer’s protocol.

Immunoprecipitation:

Article Title: Nucleosome-binding activities within JARID2 and EZH1 regulate the function of PRC2 on chromatin
Article Snippet: .. Briefly, immunoprecipitated DNA was end-repaired using End-It repair kit (Epicenter), A-tailed using Klenow exo (New England Biolabs), and ligated to custom barcode adapters with T4 ligase (Enzymatics). .. Fragments of 300 ± 50 base pairs (bp) were size-selected and subjected to ligation-mediated PCR amplification (LM-PCR) using Phusion DNA polymerase (New England Biolabs).

Article Title: SFMBT1 functions with LSD1 to regulate expression of canonical histone genes and chromatin-related factors
Article Snippet: .. Briefly, immunoprecipitated DNA was end-repaired, A-tailed, and ligated to custom adapters with T4 ligase (Enzymatics, 603-HC-L). .. After quantification, libraries were sequenced at a concentration of 7 pM on Illumina Genome Analyzier IIx or of 10 pM on Illumina HiSeq.

other:

Article Title: 3′ Branch ligation: a novel method to ligate non-complementary DNA to recessed or internal 3′OH ends in DNA or RNA
Article Snippet: Unexpectedly, blunt-ended dsDNA was efficiently ligated to the 3 ′ termini of RNA, but not DNA, suggesting that T4 ligase has a ternary complex formation preference.

Polymerase Chain Reaction:

Article Title: Random and targeted transgene insertion in C. elegans using a modified Mosl transposon
Article Snippet: .. The DNA was digested with restriction enzymes (New England Biolabs) for 3 hours to overnight, ligated with T4 ligase (Enzymatics) and PCR amplified twice with oligos that anneal in the miniMos transposon with Phusion DNA Polymerase. .. The PCR product was electrophoresed on an 1% agarose gel and single bands gel purified with the “Zymoclean Gel DNA Recovery Kit” (Zymo Research).

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    Enzymatics t4 dna ligase
    3′ Branch ligation by <t>T4</t> DNA ligase at non-conventional DNA ends formed by nicks, gaps, and overhangs. (a) Schematic representation of ligation assay with different DNA accepter types. The blunt-end DNA donor (blue) is a synthetic, partially dsDNA molecule with dideoxy 3 ′ -termini (filled circles) to prevent DNA donor self-ligation. The long arm of the donor is 5 ′- phosporylated. The DNA acceptors were assembled using 2 or 3 oligos (black, red, and orange lines) to form a nick (without phosphates), a gap (1 or 8 nt), or a 36-nt 3 ′ -recessive end. All strands of the substrates are unphosphorylated, and the scaffold strand is 3 ′ dideoxy protected. (b) Analysis of the size shift of ligated products of substrates 1, 2, 3, and 4, respectively, using a 6% denaturing polyacrylamide gel. Reactions were performed according to the optimized condition. The negative no-ligase controls (lanes 1, 3, 4, 6, 7, 9, 10, 12, and 13) were loaded at 1 or 0.5× volume of corresponding experimental assays. If ligation occurs, the substrate size is shifted up by 22 nt. Red arrowheads correspond to the substrate, and purple arrowheads correspond to donor-ligated substrates. Donor and substrate sequences in Supplementary Table S1 . (c) Expected sizes of substrate and ligation product and approximate ligation efficiency in each experimental group. The intensity of each band was estimated using ImageJ and normalized by its expected size. Ligation efficiency was estimated by dividing the normalized intensity of ligated products by the normalized total intensity of ligated and unligated products.
    T4 Dna Ligase, supplied by Enzymatics, used in various techniques. Bioz Stars score: 96/100, based on 70 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/t4 dna ligase/product/Enzymatics
    Average 96 stars, based on 70 article reviews
    Price from $9.99 to $1999.99
    t4 dna ligase - by Bioz Stars, 2020-05
    96/100 stars
      Buy from Supplier

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    3′ Branch ligation by T4 DNA ligase at non-conventional DNA ends formed by nicks, gaps, and overhangs. (a) Schematic representation of ligation assay with different DNA accepter types. The blunt-end DNA donor (blue) is a synthetic, partially dsDNA molecule with dideoxy 3 ′ -termini (filled circles) to prevent DNA donor self-ligation. The long arm of the donor is 5 ′- phosporylated. The DNA acceptors were assembled using 2 or 3 oligos (black, red, and orange lines) to form a nick (without phosphates), a gap (1 or 8 nt), or a 36-nt 3 ′ -recessive end. All strands of the substrates are unphosphorylated, and the scaffold strand is 3 ′ dideoxy protected. (b) Analysis of the size shift of ligated products of substrates 1, 2, 3, and 4, respectively, using a 6% denaturing polyacrylamide gel. Reactions were performed according to the optimized condition. The negative no-ligase controls (lanes 1, 3, 4, 6, 7, 9, 10, 12, and 13) were loaded at 1 or 0.5× volume of corresponding experimental assays. If ligation occurs, the substrate size is shifted up by 22 nt. Red arrowheads correspond to the substrate, and purple arrowheads correspond to donor-ligated substrates. Donor and substrate sequences in Supplementary Table S1 . (c) Expected sizes of substrate and ligation product and approximate ligation efficiency in each experimental group. The intensity of each band was estimated using ImageJ and normalized by its expected size. Ligation efficiency was estimated by dividing the normalized intensity of ligated products by the normalized total intensity of ligated and unligated products.

    Journal: DNA Research: An International Journal for Rapid Publication of Reports on Genes and Genomes

    Article Title: 3′ Branch ligation: a novel method to ligate non-complementary DNA to recessed or internal 3′OH ends in DNA or RNA

    doi: 10.1093/dnares/dsy037

    Figure Lengend Snippet: 3′ Branch ligation by T4 DNA ligase at non-conventional DNA ends formed by nicks, gaps, and overhangs. (a) Schematic representation of ligation assay with different DNA accepter types. The blunt-end DNA donor (blue) is a synthetic, partially dsDNA molecule with dideoxy 3 ′ -termini (filled circles) to prevent DNA donor self-ligation. The long arm of the donor is 5 ′- phosporylated. The DNA acceptors were assembled using 2 or 3 oligos (black, red, and orange lines) to form a nick (without phosphates), a gap (1 or 8 nt), or a 36-nt 3 ′ -recessive end. All strands of the substrates are unphosphorylated, and the scaffold strand is 3 ′ dideoxy protected. (b) Analysis of the size shift of ligated products of substrates 1, 2, 3, and 4, respectively, using a 6% denaturing polyacrylamide gel. Reactions were performed according to the optimized condition. The negative no-ligase controls (lanes 1, 3, 4, 6, 7, 9, 10, 12, and 13) were loaded at 1 or 0.5× volume of corresponding experimental assays. If ligation occurs, the substrate size is shifted up by 22 nt. Red arrowheads correspond to the substrate, and purple arrowheads correspond to donor-ligated substrates. Donor and substrate sequences in Supplementary Table S1 . (c) Expected sizes of substrate and ligation product and approximate ligation efficiency in each experimental group. The intensity of each band was estimated using ImageJ and normalized by its expected size. Ligation efficiency was estimated by dividing the normalized intensity of ligated products by the normalized total intensity of ligated and unligated products.

    Article Snippet: A previous study reported that for sealing nicks in DNA/RNA hybrids, T4 DNA ligase, and T4 RNA ligase 2, but not T4 RNA ligase 1, can effectively join a 5 ′ PO4 DNA end to a juxtaposed 3 ′ OH DNA or RNA end when the complimentary strand is RNA but not DNA.

    Techniques: Ligation

    3′ Branch ligation at the 3′ end of RNA in DNA/RNA hybrid. Schematic representation of 3′-branch ligation on a DNA/RNA hybrid with a 20‐bp complimentary region. We tested whether blunt-end DNA donors would ligate to the 3 ′ -recessive end of DNA and/or to the 3 ′ -recessive end of RNA. DNA(ON-21) hybridizes with the RNA strand (a), whereas DNA(ON-23) cannot hybridize with the RNA strand (b). (c, d) Gel analysis of size shift of ligated products using 6% denaturing polyacrylamide gel. The red arrowheads correspond to the RNA substrate (29 nt), and the green arrowhead corresponds to DNA substrate (80 nt). The purple arrowhead corresponds to donor-ligated RNA substrates. If ligation occurs, the substrate size would shift up by 20 nt. (c) Lanes 1 and 2, experimental duplicates; lanes 7–10, no-ligase controls; 10% PEG was added with T4 DNA ligase. (d) Lane 1, no-ligase control; lanes 2, 3, and 8, T4 DNA ligase with 10% PEG; lanes 4, 5, and 9, T4 RNA ligase 1 with 20% DMSO; lanes 6, 7, and 10, T4 RNA ligase 2 with 20% DMSO.

    Journal: DNA Research: An International Journal for Rapid Publication of Reports on Genes and Genomes

    Article Title: 3′ Branch ligation: a novel method to ligate non-complementary DNA to recessed or internal 3′OH ends in DNA or RNA

    doi: 10.1093/dnares/dsy037

    Figure Lengend Snippet: 3′ Branch ligation at the 3′ end of RNA in DNA/RNA hybrid. Schematic representation of 3′-branch ligation on a DNA/RNA hybrid with a 20‐bp complimentary region. We tested whether blunt-end DNA donors would ligate to the 3 ′ -recessive end of DNA and/or to the 3 ′ -recessive end of RNA. DNA(ON-21) hybridizes with the RNA strand (a), whereas DNA(ON-23) cannot hybridize with the RNA strand (b). (c, d) Gel analysis of size shift of ligated products using 6% denaturing polyacrylamide gel. The red arrowheads correspond to the RNA substrate (29 nt), and the green arrowhead corresponds to DNA substrate (80 nt). The purple arrowhead corresponds to donor-ligated RNA substrates. If ligation occurs, the substrate size would shift up by 20 nt. (c) Lanes 1 and 2, experimental duplicates; lanes 7–10, no-ligase controls; 10% PEG was added with T4 DNA ligase. (d) Lane 1, no-ligase control; lanes 2, 3, and 8, T4 DNA ligase with 10% PEG; lanes 4, 5, and 9, T4 RNA ligase 1 with 20% DMSO; lanes 6, 7, and 10, T4 RNA ligase 2 with 20% DMSO.

    Article Snippet: A previous study reported that for sealing nicks in DNA/RNA hybrids, T4 DNA ligase, and T4 RNA ligase 2, but not T4 RNA ligase 1, can effectively join a 5 ′ PO4 DNA end to a juxtaposed 3 ′ OH DNA or RNA end when the complimentary strand is RNA but not DNA.

    Techniques: Ligation