mluci  (New England Biolabs)


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    Name:
    MluCI
    Description:
    MluCI 5 000 units
    Catalog Number:
    r0538l
    Price:
    269
    Size:
    5 000 units
    Category:
    Restriction Enzymes
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    Structured Review

    New England Biolabs mluci
    MluCI
    MluCI 5 000 units
    https://www.bioz.com/result/mluci/product/New England Biolabs
    Average 99 stars, based on 16 article reviews
    Price from $9.99 to $1999.99
    mluci - by Bioz Stars, 2020-03
    99/100 stars

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    Related Articles

    Amplification:

    Article Title: Analysis of the association between CFH Y402H polymorphism and response to intravitreal ranibizumab in patients with neovascular age-related macular degeneration (nAMD)
    Article Snippet: .. The amplified product, a 179-bp fragment, was then digested with MluCI restriction enzyme (New England Biolabs, Beverly, MA, USA) at 65°C for 3 hours. .. The digested products were separated on agarose gel (2%) and visualized using a UV Alpha imager (Alpha Innotech, San Leandro, CA, USA).

    Article Title: RESTseq - Efficient Benchtop Population Genomics with RESTriction Fragment SEQuencing
    Article Snippet: A final PCR amplification of the library was not necessary, because we had a sufficient yield of DNA. .. After 45 min incubation at room temperature, 2 µl dNTPs (10 mM), 25 U Taq polymerase (PeqLab), 10 µl Taq polymerase buffer (10x) and 33 µl water were added and incubated at 70°C for 10 min. After pooling all reactions and a purification with AMpure, we added to 30 µl purified sample 50 U Mse I, 10 U of each Mlu CI, Hae III, Msp I and Hin P1I (all NEB), 4 µl NEB4 Buffer (10x), 0.4 µl BSA (100x) and 1.1 µ water.

    Article Title: Species associations and distributions of soil entomopathogenic fungi Metarhizium spp. in Japan
    Article Snippet: The conditions used for PCR amplification were 2 min at 94°C, followed by 38 cycles for 10 s at 98°C, 30 s at 52°C, and 30 s at 68°C. .. The PCR products of 5′-EF1-α were digested with Mlu CI or Tsp509I (NEB, Japan).

    Article Title: Population genomics of the Asian tiger mosquito, Aedes albopictus: insights into the recent worldwide invasion, et al. Population genomics of the Asian tiger mosquito, Aedes albopictus: insights into the recent worldwide invasion
    Article Snippet: Briefly, for the ddRAD library preparation, ~500–700 ng of high‐quality DNA was simultaneously doubled‐digested using NlaIII and MluCI (NEB) restriction enzymes (REs) following manufacturer's instructions. .. The individual bar coding was followed by polymerase chain reaction (PCR) amplification (eight cycles).

    Article Title: Analysis of the association between CFH Y402H polymorphism and response to intravitreal ranibizumab in patients with neovascular age-related macular degeneration (nAMD)
    Article Snippet: .. The CFH gene sequence was first amplified with PCR, the resulting 241-bp PCR product was then digested with MluCI restriction enzyme, and the following fragments for CFH Y402H were obtained: 119-bp fragment for TT wild-type genotype, 179-bp and 119-bp fragments for CT heterozygous genotype, and 179-bp fragment for CC homozygous mutant genotype. ..

    Lambda DNA Preparation:

    Article Title: The dynamics of DNA methylation fidelity during mouse embryonic stem cell self-renewal and differentiation
    Article Snippet: Ten-microgram mouse genomic DNA was spiked with 0.01% unmethylated cl857 Sam7 Lambda DNA (Promega) and sonicated to 200-bp fragments with Covaris S2 (AB). .. Adapter-ligated DNA was digested with MseI and MluCI (NEB) for 1 h at 37°C.

    Construct:

    Article Title: Degradation of Recalcitrant Polyurethane and Xenobiotic Additives by a Selected Landfill Microbial Community and Its Biodegradative Potential Revealed by Proximity Ligation-Based Metagenomic Analysis
    Article Snippet: DNA was digested with Sau 3AI and MluCI and biotinylated with DNA Polymerase I Klenow fragment (New England Biolabs) followed by ligation reactions incubated for 4 h and then overnight at 70°C to reverse crosslinking. .. The Hi-C DNA library was constructed by using the HyperPrep Kit (KAPA Biosystems, Wilmington, MA, United States).

    Electrophoresis:

    Article Title: Severe Hemophilia A in a Male Old English Sheep Dog with a C→T Transition that Created a Premature Stop Codon in Factor VIII
    Article Snippet: .. PCR products from genomic DNA were digested with Mlu CI (recognition sequence, 5′ AATT 3′) under conditions specified by the manufacturer (New England Biolabs, Beverly, MA) before electrophoresis on 1% or 5% NuSieve agarose gels (Lonza Rockland, Rockland, ME) prepared with TBE buffer (pH 8.2). .. Neutralizing antibodies to factor VIII activity were evaluated by using the Nijmegen modifications to the Bethesda inhibitor assay, in which subject sample plasma underwent serial 2-fold dilutions (beginning at 1:2) in factor-VIII–deficient plasma; samples then were mixed with pH-buffered normal pooled canine plasma and incubated for 2 h at 37 °C, after which residual factor VIII activity was assayed.

    Article Title: Species associations and distributions of soil entomopathogenic fungi Metarhizium spp. in Japan
    Article Snippet: The PCR products of 5′-EF1-α were digested with Mlu CI or Tsp509I (NEB, Japan). .. Reaction mixtures were incubated at 37°C for 12–16 h. Electrophoresis of 5–6 µl of each of the digested samples was performed on 2% Agarose 21 (Nippon Gene, Japan) with a 50-bp size marker at 100 V for 30–60 min in 1× Tris–borate EDTA buffer.

    Article Title: Population genomics of the Asian tiger mosquito, Aedes albopictus: insights into the recent worldwide invasion, et al. Population genomics of the Asian tiger mosquito, Aedes albopictus: insights into the recent worldwide invasion
    Article Snippet: Briefly, for the ddRAD library preparation, ~500–700 ng of high‐quality DNA was simultaneously doubled‐digested using NlaIII and MluCI (NEB) restriction enzymes (REs) following manufacturer's instructions. .. We then pooled 16 bar‐coded samples in each library and proceeded to size selection, using the Blue Pippin electrophoresis platform (Sage Science).

    Incubation:

    Article Title: Degradation of Recalcitrant Polyurethane and Xenobiotic Additives by a Selected Landfill Microbial Community and Its Biodegradative Potential Revealed by Proximity Ligation-Based Metagenomic Analysis
    Article Snippet: .. DNA was digested with Sau 3AI and MluCI and biotinylated with DNA Polymerase I Klenow fragment (New England Biolabs) followed by ligation reactions incubated for 4 h and then overnight at 70°C to reverse crosslinking. .. The Hi-C DNA library was constructed by using the HyperPrep Kit (KAPA Biosystems, Wilmington, MA, United States).

    Article Title: RESTseq - Efficient Benchtop Population Genomics with RESTriction Fragment SEQuencing
    Article Snippet: .. After 45 min incubation at room temperature, 2 µl dNTPs (10 mM), 25 U Taq polymerase (PeqLab), 10 µl Taq polymerase buffer (10x) and 33 µl water were added and incubated at 70°C for 10 min. After pooling all reactions and a purification with AMpure, we added to 30 µl purified sample 50 U Mse I, 10 U of each Mlu CI, Hae III, Msp I and Hin P1I (all NEB), 4 µl NEB4 Buffer (10x), 0.4 µl BSA (100x) and 1.1 µ water. .. Six hours incubation at 37°C was followed by AMpure purification, PCR (IonTorrent Xpress Fragment library kit, High Fidelity PCR mix and primer, 15 cycles) and size selection (265 bp “tight”, Pippin Prep) before quantification and sequencing.

    Article Title: Species associations and distributions of soil entomopathogenic fungi Metarhizium spp. in Japan
    Article Snippet: The PCR products of 5′-EF1-α were digested with Mlu CI or Tsp509I (NEB, Japan). .. Reaction mixtures were incubated at 37°C for 12–16 h. Electrophoresis of 5–6 µl of each of the digested samples was performed on 2% Agarose 21 (Nippon Gene, Japan) with a 50-bp size marker at 100 V for 30–60 min in 1× Tris–borate EDTA buffer.

    Article Title: Genome-wide survey of single-nucleotide polymorphisms reveals fine-scale population structure and signs of selection in the threatened Caribbean elkhorn coral, Acropora palmata
    Article Snippet: Time of incubation in the extraction buffer was increased to 16–20 h and two 100 µl elutions were performed, the second of which was kept for library production as this fraction contained the high molecular weight DNA. .. Extraction concentrations ranging from 500 ng to 6 µg were double-digested with 10 units of each of the restriction enzymes MluCI ( \documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{upgreek} \usepackage{mathrsfs} \setlength{\oddsidemargin}{-69pt} \begin{document} }{}$\hat {}$\end{document} ˆ AATT) and NlaIII (CATG \documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{upgreek} \usepackage{mathrsfs} \setlength{\oddsidemargin}{-69pt} \begin{document} }{}$\hat {}$\end{document} ˆ ) (New England Biolabs, Ipswich, MA) following the protocol described by .

    Article Title: Extensive Genetic Differentiation between Homomorphic Sex Chromosomes in the Mosquito Vector, Aedes aegypti
    Article Snippet: DNA was digested in with NlaIII and MluCI restriction enzymes (New England Biolabs, Herts, UK), for 3 h at 37 °C. .. Ligation reactions were incubated at 16 °C overnight and heat inactivated.

    HAT Assay:

    Article Title: Genome-wide survey of single-nucleotide polymorphisms reveals fine-scale population structure and signs of selection in the threatened Caribbean elkhorn coral, Acropora palmata
    Article Snippet: .. Extraction concentrations ranging from 500 ng to 6 µg were double-digested with 10 units of each of the restriction enzymes MluCI ( \documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{upgreek} \usepackage{mathrsfs} \setlength{\oddsidemargin}{-69pt} \begin{document} }{}$\hat {}$\end{document} ˆ AATT) and NlaIII (CATG \documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{upgreek} \usepackage{mathrsfs} \setlength{\oddsidemargin}{-69pt} \begin{document} }{}$\hat {}$\end{document} ˆ ) (New England Biolabs, Ipswich, MA) following the protocol described by . .. Digestions were purified using 1.5× Ampure beads (Beckman Coulter Inc, Brea, CA, USA) and quantified on a Qubit® fluorometer (Life Technologies, Carlsbad, CA, USA).

    Modification:

    Article Title: A simple bridging flocculation assay for rapid, sensitive and stringent detection of gene specific DNA methylation
    Article Snippet: Whole blood DNA from prostate cancer patients were purified using a modified SPRI protocol . .. To generate DNA fragment sizes compatible with MDB enrichment, MseI and MluCI restriction enzymes (NEB) were used.

    Article Title: Population genomics of the Asian tiger mosquito, Aedes albopictus: insights into the recent worldwide invasion, et al. Population genomics of the Asian tiger mosquito, Aedes albopictus: insights into the recent worldwide invasion
    Article Snippet: Double‐digest restriction site‐associated DNA (ddRAD) sequencing libraries were prepared according to Peterson , Weber, Kay, & Fisher , as modified by Gloria‐Soria et al. ( ). .. Briefly, for the ddRAD library preparation, ~500–700 ng of high‐quality DNA was simultaneously doubled‐digested using NlaIII and MluCI (NEB) restriction enzymes (REs) following manufacturer's instructions.

    Article Title: Extensive Genetic Differentiation between Homomorphic Sex Chromosomes in the Mosquito Vector, Aedes aegypti
    Article Snippet: DNA was digested in with NlaIII and MluCI restriction enzymes (New England Biolabs, Herts, UK), for 3 h at 37 °C. .. Cleaned digestions were ligated to the modified Illumina P1 and P2 adapters with overhangs complementary to NlaIII and MluCI cutting sites, respectively.

    Bisulfite Sequencing:

    Article Title: The dynamics of DNA methylation fidelity during mouse embryonic stem cell self-renewal and differentiation
    Article Snippet: Paragraph title: Hairpin bisulfite-seq library construction ... Adapter-ligated DNA was digested with MseI and MluCI (NEB) for 1 h at 37°C.

    Flow Cytometry:

    Article Title: Pollutants and Insecticides Drive Local Adaptation in African Malaria Mosquitoes
    Article Snippet: Briefly, approximately one-third of the DNA extracted from an individual mosquito (10 µl) was digested with Mlu CI and Nla III (New England Biolabs). .. Each library contained 288 individuals and was subjected to single-end, 100-bp sequencing across one or two flow cells lanes run on an Illumina HiSeq2500.

    Ligation:

    Article Title: Degradation of Recalcitrant Polyurethane and Xenobiotic Additives by a Selected Landfill Microbial Community and Its Biodegradative Potential Revealed by Proximity Ligation-Based Metagenomic Analysis
    Article Snippet: .. DNA was digested with Sau 3AI and MluCI and biotinylated with DNA Polymerase I Klenow fragment (New England Biolabs) followed by ligation reactions incubated for 4 h and then overnight at 70°C to reverse crosslinking. .. The Hi-C DNA library was constructed by using the HyperPrep Kit (KAPA Biosystems, Wilmington, MA, United States).

    Article Title: RESTseq - Efficient Benchtop Population Genomics with RESTriction Fragment SEQuencing
    Article Snippet: Ligation and nick repair was performed by adding 50 U T4 Ligase (Invitrogen), 0.1 µl ATP (100 mM), 0.5 T4 Ligase Buffer (10x), 0.3 µl (30 µM) of IonTorrent P1 and 0.3 µl (30 nM) IonTorrent A adapter, both with sticky ends compatible to the Taq I overhang. .. After 45 min incubation at room temperature, 2 µl dNTPs (10 mM), 25 U Taq polymerase (PeqLab), 10 µl Taq polymerase buffer (10x) and 33 µl water were added and incubated at 70°C for 10 min. After pooling all reactions and a purification with AMpure, we added to 30 µl purified sample 50 U Mse I, 10 U of each Mlu CI, Hae III, Msp I and Hin P1I (all NEB), 4 µl NEB4 Buffer (10x), 0.4 µl BSA (100x) and 1.1 µ water.

    Article Title: Genome-wide survey of single-nucleotide polymorphisms reveals fine-scale population structure and signs of selection in the threatened Caribbean elkhorn coral, Acropora palmata
    Article Snippet: Extraction concentrations ranging from 500 ng to 6 µg were double-digested with 10 units of each of the restriction enzymes MluCI ( \documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{upgreek} \usepackage{mathrsfs} \setlength{\oddsidemargin}{-69pt} \begin{document} }{}$\hat {}$\end{document} ˆ AATT) and NlaIII (CATG \documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{upgreek} \usepackage{mathrsfs} \setlength{\oddsidemargin}{-69pt} \begin{document} }{}$\hat {}$\end{document} ˆ ) (New England Biolabs, Ipswich, MA) following the protocol described by . .. Digested DNA was standardized to 100 ng for each sample before adaptor ligation.

    Article Title: Extensive Genetic Differentiation between Homomorphic Sex Chromosomes in the Mosquito Vector, Aedes aegypti
    Article Snippet: DNA was digested in with NlaIII and MluCI restriction enzymes (New England Biolabs, Herts, UK), for 3 h at 37 °C. .. Ligation reactions were incubated at 16 °C overnight and heat inactivated.

    Article Title: The dynamics of DNA methylation fidelity during mouse embryonic stem cell self-renewal and differentiation
    Article Snippet: Ligation to biotin-modified hairpin adapter (P-CGCCGGCGGCAAG/iBiodT/GAAGCCGCCGGCGT) and Illumina TruSeq adapters were performed using T4 DNA ligase (NEB) overnight. .. Adapter-ligated DNA was digested with MseI and MluCI (NEB) for 1 h at 37°C.

    Cell Culture:

    Article Title: Degradation of Recalcitrant Polyurethane and Xenobiotic Additives by a Selected Landfill Microbial Community and Its Biodegradative Potential Revealed by Proximity Ligation-Based Metagenomic Analysis
    Article Snippet: Hi-C Proximity Ligation-Based Metagenomic Analysis BP8 community cells cultured for 5 days in 50 ml of MM-PolyLack were harvested and washed three times with phosphate buffer. .. DNA was digested with Sau 3AI and MluCI and biotinylated with DNA Polymerase I Klenow fragment (New England Biolabs) followed by ligation reactions incubated for 4 h and then overnight at 70°C to reverse crosslinking.

    DNA Sequencing:

    Article Title: Extensive Genetic Differentiation between Homomorphic Sex Chromosomes in the Mosquito Vector, Aedes aegypti
    Article Snippet: Double-Digest RADseq Library Generation An adaptation of the original double-digest restriction-site associated DNA sequencing (ddRADseq) protocol ( ) was used as previously described ( ). .. DNA was digested in with NlaIII and MluCI restriction enzymes (New England Biolabs, Herts, UK), for 3 h at 37 °C.

    Polymerase Chain Reaction:

    Article Title: Mitochondrial 16S rRNA Is Methylated by tRNA Methyltransferase TRMT61B in All Vertebrates
    Article Snippet: Identification of Positive MAGE Colonies by RFLP Analyses and Sanger Sequencing To identify positive MAGE colonies (referred to as bacterial strains throughout the text), we PCR amplified two fragments encompassing the bacterial genomic regions (E . coli ) orthologous to position 2,617 in all seven large rRNA (23S) genes. .. Restriction fragment length polymorphism (RFLP) was conducted on fragment one using MlucI (New England Biolabs—#R0538S) to identify the G-to-A or G-to-T mutations (both changes created a MlucI restriction site).

    Article Title: Analysis of the association between CFH Y402H polymorphism and response to intravitreal ranibizumab in patients with neovascular age-related macular degeneration (nAMD)
    Article Snippet: The PCR amplification was performed in a thermocycler (Thermo Fisher Scientific, Waltham, MA USA) with the following conditions: 95°C for 5 minutes as initial denaturation, followed by 35 cycles (denaturation at 95°C for 15 seconds, annealing of forward primer [5’-TCATTGTTATGGTCCTTAGGAAA-3’] and reverse primer [5’-GGAGTAGGAGACCAGCCATT-3’] at 57°C for 15 seconds, and extension at 72°C for 45 seconds). .. The amplified product, a 179-bp fragment, was then digested with MluCI restriction enzyme (New England Biolabs, Beverly, MA, USA) at 65°C for 3 hours.

    Article Title: Pollutants and Insecticides Drive Local Adaptation in African Malaria Mosquitoes
    Article Snippet: A subset of individuals were assigned to sibling species using PCR-RFLP (restriction fragment length polymorphism) assays that type fixed SNP differences in the rDNA ( ; ). .. Briefly, approximately one-third of the DNA extracted from an individual mosquito (10 µl) was digested with Mlu CI and Nla III (New England Biolabs).

    Article Title: RESTseq - Efficient Benchtop Population Genomics with RESTriction Fragment SEQuencing
    Article Snippet: A final PCR amplification of the library was not necessary, because we had a sufficient yield of DNA. .. After 45 min incubation at room temperature, 2 µl dNTPs (10 mM), 25 U Taq polymerase (PeqLab), 10 µl Taq polymerase buffer (10x) and 33 µl water were added and incubated at 70°C for 10 min. After pooling all reactions and a purification with AMpure, we added to 30 µl purified sample 50 U Mse I, 10 U of each Mlu CI, Hae III, Msp I and Hin P1I (all NEB), 4 µl NEB4 Buffer (10x), 0.4 µl BSA (100x) and 1.1 µ water.

    Article Title: Contrasting genetic structure between mitochondrial and nuclear markers in the dengue fever mosquito from Rio de Janeiro: implications for vector control
    Article Snippet: Briefly, 100 ng of genomic DNA from each larva was digested with 100 units of restriction enzymes Nla III and Mlu CI (New England Biolabs, Beverly MA, USA). .. We used 12 PCR cycles with standard Illumina primers for the final library enrichment: 98°C for 30 s, 12 cycles of 98°C for 10 s, 60°C for 30 s, 72°C for 90 s, and the final elongation at 72°C for 5 min.

    Article Title: Severe Hemophilia A in a Male Old English Sheep Dog with a C→T Transition that Created a Premature Stop Codon in Factor VIII
    Article Snippet: .. PCR products from genomic DNA were digested with Mlu CI (recognition sequence, 5′ AATT 3′) under conditions specified by the manufacturer (New England Biolabs, Beverly, MA) before electrophoresis on 1% or 5% NuSieve agarose gels (Lonza Rockland, Rockland, ME) prepared with TBE buffer (pH 8.2). .. Neutralizing antibodies to factor VIII activity were evaluated by using the Nijmegen modifications to the Bethesda inhibitor assay, in which subject sample plasma underwent serial 2-fold dilutions (beginning at 1:2) in factor-VIII–deficient plasma; samples then were mixed with pH-buffered normal pooled canine plasma and incubated for 2 h at 37 °C, after which residual factor VIII activity was assayed.

    Article Title: Species associations and distributions of soil entomopathogenic fungi Metarhizium spp. in Japan
    Article Snippet: .. The PCR products of 5′-EF1-α were digested with Mlu CI or Tsp509I (NEB, Japan). .. The PCR products of rDNA IGS were digested with Hae III (NEB, Japan).

    Article Title: Population genomics of the Asian tiger mosquito, Aedes albopictus: insights into the recent worldwide invasion, et al. Population genomics of the Asian tiger mosquito, Aedes albopictus: insights into the recent worldwide invasion
    Article Snippet: Briefly, for the ddRAD library preparation, ~500–700 ng of high‐quality DNA was simultaneously doubled‐digested using NlaIII and MluCI (NEB) restriction enzymes (REs) following manufacturer's instructions. .. The individual bar coding was followed by polymerase chain reaction (PCR) amplification (eight cycles).

    Article Title: The dynamics of DNA methylation fidelity during mouse embryonic stem cell self-renewal and differentiation
    Article Snippet: After purification (PureLink PCR Purification Kit, Invitrogen), DNA fragments were then subjected to end repair with the end repair enzyme mix (NEB), dA tailing using Klenow 3′–5′ exo- (NEB) with purification at each step. .. Adapter-ligated DNA was digested with MseI and MluCI (NEB) for 1 h at 37°C.

    Article Title: Analysis of the association between CFH Y402H polymorphism and response to intravitreal ranibizumab in patients with neovascular age-related macular degeneration (nAMD)
    Article Snippet: .. The CFH gene sequence was first amplified with PCR, the resulting 241-bp PCR product was then digested with MluCI restriction enzyme, and the following fragments for CFH Y402H were obtained: 119-bp fragment for TT wild-type genotype, 179-bp and 119-bp fragments for CT heterozygous genotype, and 179-bp fragment for CC homozygous mutant genotype. ..

    Sonication:

    Article Title: The dynamics of DNA methylation fidelity during mouse embryonic stem cell self-renewal and differentiation
    Article Snippet: Ten-microgram mouse genomic DNA was spiked with 0.01% unmethylated cl857 Sam7 Lambda DNA (Promega) and sonicated to 200-bp fragments with Covaris S2 (AB). .. Adapter-ligated DNA was digested with MseI and MluCI (NEB) for 1 h at 37°C.

    Binding Assay:

    Article Title: A simple bridging flocculation assay for rapid, sensitive and stringent detection of gene specific DNA methylation
    Article Snippet: 10 μL of carboxyl coated magnetic beads (Thermo Fisher) and 240 μL NaCl/PEG binding buffer (100 mM Tris-HCl, 2.5 M NaCl, 20% w/v PEG8000, pH 8.0) was then added to the lysed blood. .. To generate DNA fragment sizes compatible with MDB enrichment, MseI and MluCI restriction enzymes (NEB) were used.

    Hi-C:

    Article Title: Degradation of Recalcitrant Polyurethane and Xenobiotic Additives by a Selected Landfill Microbial Community and Its Biodegradative Potential Revealed by Proximity Ligation-Based Metagenomic Analysis
    Article Snippet: Paragraph title: Hi-C Proximity Ligation-Based Metagenomic Analysis ... DNA was digested with Sau 3AI and MluCI and biotinylated with DNA Polymerase I Klenow fragment (New England Biolabs) followed by ligation reactions incubated for 4 h and then overnight at 70°C to reverse crosslinking.

    Molecular Weight:

    Article Title: Genome-wide survey of single-nucleotide polymorphisms reveals fine-scale population structure and signs of selection in the threatened Caribbean elkhorn coral, Acropora palmata
    Article Snippet: Time of incubation in the extraction buffer was increased to 16–20 h and two 100 µl elutions were performed, the second of which was kept for library production as this fraction contained the high molecular weight DNA. .. Extraction concentrations ranging from 500 ng to 6 µg were double-digested with 10 units of each of the restriction enzymes MluCI ( \documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{upgreek} \usepackage{mathrsfs} \setlength{\oddsidemargin}{-69pt} \begin{document} }{}$\hat {}$\end{document} ˆ AATT) and NlaIII (CATG \documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{upgreek} \usepackage{mathrsfs} \setlength{\oddsidemargin}{-69pt} \begin{document} }{}$\hat {}$\end{document} ˆ ) (New England Biolabs, Ipswich, MA) following the protocol described by .

    DNA Extraction:

    Article Title: Degradation of Recalcitrant Polyurethane and Xenobiotic Additives by a Selected Landfill Microbial Community and Its Biodegradative Potential Revealed by Proximity Ligation-Based Metagenomic Analysis
    Article Snippet: For DNA extraction, cell pellets (100 μl of solid cellular material, equivalent to 109 – 1010 cells) were resuspended in 500 μl of TBS buffer containing 1% (v/v) Triton X-100 and protease inhibitors ( ). .. DNA was digested with Sau 3AI and MluCI and biotinylated with DNA Polymerase I Klenow fragment (New England Biolabs) followed by ligation reactions incubated for 4 h and then overnight at 70°C to reverse crosslinking.

    Article Title: Population genomics of the Asian tiger mosquito, Aedes albopictus: insights into the recent worldwide invasion, et al. Population genomics of the Asian tiger mosquito, Aedes albopictus: insights into the recent worldwide invasion
    Article Snippet: Paragraph title: Mosquito collections, DNA extraction, and ddRAD‐seq libraries preparation ... Briefly, for the ddRAD library preparation, ~500–700 ng of high‐quality DNA was simultaneously doubled‐digested using NlaIII and MluCI (NEB) restriction enzymes (REs) following manufacturer's instructions.

    Mutagenesis:

    Article Title: Lentiviral Gene Therapy Using Cellular Promoters Cures Type 1 Gaucher Disease in Mice
    Article Snippet: Vector copy number and insertional mutagenesis analysis. .. For LAM-PCR, samples were digested with MluCI, MseI, and HinP1I (all NEB) in separate reactions and joint for nested PCR steps.

    Article Title: Analysis of the association between CFH Y402H polymorphism and response to intravitreal ranibizumab in patients with neovascular age-related macular degeneration (nAMD)
    Article Snippet: .. The CFH gene sequence was first amplified with PCR, the resulting 241-bp PCR product was then digested with MluCI restriction enzyme, and the following fragments for CFH Y402H were obtained: 119-bp fragment for TT wild-type genotype, 179-bp and 119-bp fragments for CT heterozygous genotype, and 179-bp fragment for CC homozygous mutant genotype. ..

    Isolation:

    Article Title: The dynamics of DNA methylation fidelity during mouse embryonic stem cell self-renewal and differentiation
    Article Snippet: Mouse ES cell genomic DNA was isolated using DNeasy Blood and Tissue kit (Qiagen). .. Adapter-ligated DNA was digested with MseI and MluCI (NEB) for 1 h at 37°C.

    Labeling:

    Article Title: Extensive Genetic Differentiation between Homomorphic Sex Chromosomes in the Mosquito Vector, Aedes aegypti
    Article Snippet: DNA was digested in with NlaIII and MluCI restriction enzymes (New England Biolabs, Herts, UK), for 3 h at 37 °C. .. Each mosquito was uniquely labeled with a combination of P1 and P2 barcodes.

    Purification:

    Article Title: Mitochondrial 16S rRNA Is Methylated by tRNA Methyltransferase TRMT61B in All Vertebrates
    Article Snippet: Restriction fragment length polymorphism (RFLP) was conducted on fragment one using MlucI (New England Biolabs—#R0538S) to identify the G-to-A or G-to-T mutations (both changes created a MlucI restriction site). .. We then purified and sequenced those samples using primer 3 ( and ).

    Article Title: A simple bridging flocculation assay for rapid, sensitive and stringent detection of gene specific DNA methylation
    Article Snippet: Whole blood DNA from prostate cancer patients were purified using a modified SPRI protocol . .. To generate DNA fragment sizes compatible with MDB enrichment, MseI and MluCI restriction enzymes (NEB) were used.

    Article Title: RESTseq - Efficient Benchtop Population Genomics with RESTriction Fragment SEQuencing
    Article Snippet: .. After 45 min incubation at room temperature, 2 µl dNTPs (10 mM), 25 U Taq polymerase (PeqLab), 10 µl Taq polymerase buffer (10x) and 33 µl water were added and incubated at 70°C for 10 min. After pooling all reactions and a purification with AMpure, we added to 30 µl purified sample 50 U Mse I, 10 U of each Mlu CI, Hae III, Msp I and Hin P1I (all NEB), 4 µl NEB4 Buffer (10x), 0.4 µl BSA (100x) and 1.1 µ water. .. Six hours incubation at 37°C was followed by AMpure purification, PCR (IonTorrent Xpress Fragment library kit, High Fidelity PCR mix and primer, 15 cycles) and size selection (265 bp “tight”, Pippin Prep) before quantification and sequencing.

    Article Title: Contrasting genetic structure between mitochondrial and nuclear markers in the dengue fever mosquito from Rio de Janeiro: implications for vector control
    Article Snippet: Briefly, 100 ng of genomic DNA from each larva was digested with 100 units of restriction enzymes Nla III and Mlu CI (New England Biolabs, Beverly MA, USA). .. Following the sample pooling and purification, size selection of fragments 300–450 bp in length was completed with the Pippin Prep protocol (Sage Sciences, Beverly, MA, USA).

    Article Title: Genome-wide survey of single-nucleotide polymorphisms reveals fine-scale population structure and signs of selection in the threatened Caribbean elkhorn coral, Acropora palmata
    Article Snippet: Extraction concentrations ranging from 500 ng to 6 µg were double-digested with 10 units of each of the restriction enzymes MluCI ( \documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{upgreek} \usepackage{mathrsfs} \setlength{\oddsidemargin}{-69pt} \begin{document} }{}$\hat {}$\end{document} ˆ AATT) and NlaIII (CATG \documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{upgreek} \usepackage{mathrsfs} \setlength{\oddsidemargin}{-69pt} \begin{document} }{}$\hat {}$\end{document} ˆ ) (New England Biolabs, Ipswich, MA) following the protocol described by . .. Digestions were purified using 1.5× Ampure beads (Beckman Coulter Inc, Brea, CA, USA) and quantified on a Qubit® fluorometer (Life Technologies, Carlsbad, CA, USA).

    Article Title: The dynamics of DNA methylation fidelity during mouse embryonic stem cell self-renewal and differentiation
    Article Snippet: After purification (PureLink PCR Purification Kit, Invitrogen), DNA fragments were then subjected to end repair with the end repair enzyme mix (NEB), dA tailing using Klenow 3′–5′ exo- (NEB) with purification at each step. .. Adapter-ligated DNA was digested with MseI and MluCI (NEB) for 1 h at 37°C.

    Sequencing:

    Article Title: Mitochondrial 16S rRNA Is Methylated by tRNA Methyltransferase TRMT61B in All Vertebrates
    Article Snippet: Paragraph title: Identification of Positive MAGE Colonies by RFLP Analyses and Sanger Sequencing ... Restriction fragment length polymorphism (RFLP) was conducted on fragment one using MlucI (New England Biolabs—#R0538S) to identify the G-to-A or G-to-T mutations (both changes created a MlucI restriction site).

    Article Title: Pollutants and Insecticides Drive Local Adaptation in African Malaria Mosquitoes
    Article Snippet: Briefly, approximately one-third of the DNA extracted from an individual mosquito (10 µl) was digested with Mlu CI and Nla III (New England Biolabs). .. Each library contained 288 individuals and was subjected to single-end, 100-bp sequencing across one or two flow cells lanes run on an Illumina HiSeq2500.

    Article Title: RESTseq - Efficient Benchtop Population Genomics with RESTriction Fragment SEQuencing
    Article Snippet: Paragraph title: Library Preparation and Sequencing ... After 45 min incubation at room temperature, 2 µl dNTPs (10 mM), 25 U Taq polymerase (PeqLab), 10 µl Taq polymerase buffer (10x) and 33 µl water were added and incubated at 70°C for 10 min. After pooling all reactions and a purification with AMpure, we added to 30 µl purified sample 50 U Mse I, 10 U of each Mlu CI, Hae III, Msp I and Hin P1I (all NEB), 4 µl NEB4 Buffer (10x), 0.4 µl BSA (100x) and 1.1 µ water.

    Article Title: Severe Hemophilia A in a Male Old English Sheep Dog with a C→T Transition that Created a Premature Stop Codon in Factor VIII
    Article Snippet: .. PCR products from genomic DNA were digested with Mlu CI (recognition sequence, 5′ AATT 3′) under conditions specified by the manufacturer (New England Biolabs, Beverly, MA) before electrophoresis on 1% or 5% NuSieve agarose gels (Lonza Rockland, Rockland, ME) prepared with TBE buffer (pH 8.2). .. Neutralizing antibodies to factor VIII activity were evaluated by using the Nijmegen modifications to the Bethesda inhibitor assay, in which subject sample plasma underwent serial 2-fold dilutions (beginning at 1:2) in factor-VIII–deficient plasma; samples then were mixed with pH-buffered normal pooled canine plasma and incubated for 2 h at 37 °C, after which residual factor VIII activity was assayed.

    Article Title: Lentiviral Gene Therapy Using Cellular Promoters Cures Type 1 Gaucher Disease in Mice
    Article Snippet: For LAM-PCR, samples were digested with MluCI, MseI, and HinP1I (all NEB) in separate reactions and joint for nested PCR steps. .. Barcoding, sequencing, and bioinformatic analysis using custom Perl scripts, HISAP, and MAVRIC were performed as previously described.

    Article Title: Population genomics of the Asian tiger mosquito, Aedes albopictus: insights into the recent worldwide invasion, et al. Population genomics of the Asian tiger mosquito, Aedes albopictus: insights into the recent worldwide invasion
    Article Snippet: Double‐digest restriction site‐associated DNA (ddRAD) sequencing libraries were prepared according to Peterson , Weber, Kay, & Fisher , as modified by Gloria‐Soria et al. ( ). .. Briefly, for the ddRAD library preparation, ~500–700 ng of high‐quality DNA was simultaneously doubled‐digested using NlaIII and MluCI (NEB) restriction enzymes (REs) following manufacturer's instructions.

    Article Title: The dynamics of DNA methylation fidelity during mouse embryonic stem cell self-renewal and differentiation
    Article Snippet: Adapter-ligated DNA was digested with MseI and MluCI (NEB) for 1 h at 37°C. .. After bisulfite conversion, the single-stranded uracil-containing DNA was subjected to 12 cycles of PCR reaction with Illumina TruSeq PCR primers (with specific index) and 2.5 U Pfu TurboCx Hotstart DNA polymerase (Agilent) to recover enough DNA for sequencing.

    Article Title: Analysis of the association between CFH Y402H polymorphism and response to intravitreal ranibizumab in patients with neovascular age-related macular degeneration (nAMD)
    Article Snippet: .. The CFH gene sequence was first amplified with PCR, the resulting 241-bp PCR product was then digested with MluCI restriction enzyme, and the following fragments for CFH Y402H were obtained: 119-bp fragment for TT wild-type genotype, 179-bp and 119-bp fragments for CT heterozygous genotype, and 179-bp fragment for CC homozygous mutant genotype. ..

    Blocking Assay:

    Article Title: Lentiviral Gene Therapy Using Cellular Promoters Cures Type 1 Gaucher Disease in Mice
    Article Snippet: For LAM-PCR, samples were digested with MluCI, MseI, and HinP1I (all NEB) in separate reactions and joint for nested PCR steps. .. During Re-free LAM-PCR, we did not use a blocking oligo but digested the internal control amplicons with SacI (NEB) like in the conventional LAM-PCR protocol.

    Nested PCR:

    Article Title: Lentiviral Gene Therapy Using Cellular Promoters Cures Type 1 Gaucher Disease in Mice
    Article Snippet: .. For LAM-PCR, samples were digested with MluCI, MseI, and HinP1I (all NEB) in separate reactions and joint for nested PCR steps. .. During Re-free LAM-PCR, we did not use a blocking oligo but digested the internal control amplicons with SacI (NEB) like in the conventional LAM-PCR protocol.

    Agarose Gel Electrophoresis:

    Article Title: Analysis of the association between CFH Y402H polymorphism and response to intravitreal ranibizumab in patients with neovascular age-related macular degeneration (nAMD)
    Article Snippet: The amplified product, a 179-bp fragment, was then digested with MluCI restriction enzyme (New England Biolabs, Beverly, MA, USA) at 65°C for 3 hours. .. The digested products were separated on agarose gel (2%) and visualized using a UV Alpha imager (Alpha Innotech, San Leandro, CA, USA).

    Plasmid Preparation:

    Article Title: Lentiviral Gene Therapy Using Cellular Promoters Cures Type 1 Gaucher Disease in Mice
    Article Snippet: LAM-PCR and restriction enzyme-free LAM-PCR (Re-free LAM-PCR) were performed on whole BM genomic DNA from samples of all vector-treated groups , with slight modifications to the published protocol. .. For LAM-PCR, samples were digested with MluCI, MseI, and HinP1I (all NEB) in separate reactions and joint for nested PCR steps.

    Real-time Polymerase Chain Reaction:

    Article Title: RESTseq - Efficient Benchtop Population Genomics with RESTriction Fragment SEQuencing
    Article Snippet: After 45 min incubation at room temperature, 2 µl dNTPs (10 mM), 25 U Taq polymerase (PeqLab), 10 µl Taq polymerase buffer (10x) and 33 µl water were added and incubated at 70°C for 10 min. After pooling all reactions and a purification with AMpure, we added to 30 µl purified sample 50 U Mse I, 10 U of each Mlu CI, Hae III, Msp I and Hin P1I (all NEB), 4 µl NEB4 Buffer (10x), 0.4 µl BSA (100x) and 1.1 µ water. .. After 45 min incubation at room temperature, 2 µl dNTPs (10 mM), 25 U Taq polymerase (PeqLab), 10 µl Taq polymerase buffer (10x) and 33 µl water were added and incubated at 70°C for 10 min. After pooling all reactions and a purification with AMpure, we added to 30 µl purified sample 50 U Mse I, 10 U of each Mlu CI, Hae III, Msp I and Hin P1I (all NEB), 4 µl NEB4 Buffer (10x), 0.4 µl BSA (100x) and 1.1 µ water.

    Selection:

    Article Title: RESTseq - Efficient Benchtop Population Genomics with RESTriction Fragment SEQuencing
    Article Snippet: After 45 min incubation at room temperature, 2 µl dNTPs (10 mM), 25 U Taq polymerase (PeqLab), 10 µl Taq polymerase buffer (10x) and 33 µl water were added and incubated at 70°C for 10 min. After pooling all reactions and a purification with AMpure, we added to 30 µl purified sample 50 U Mse I, 10 U of each Mlu CI, Hae III, Msp I and Hin P1I (all NEB), 4 µl NEB4 Buffer (10x), 0.4 µl BSA (100x) and 1.1 µ water. .. Six hours incubation at 37°C was followed by AMpure purification, PCR (IonTorrent Xpress Fragment library kit, High Fidelity PCR mix and primer, 15 cycles) and size selection (265 bp “tight”, Pippin Prep) before quantification and sequencing.

    Article Title: Contrasting genetic structure between mitochondrial and nuclear markers in the dengue fever mosquito from Rio de Janeiro: implications for vector control
    Article Snippet: Briefly, 100 ng of genomic DNA from each larva was digested with 100 units of restriction enzymes Nla III and Mlu CI (New England Biolabs, Beverly MA, USA). .. Following the sample pooling and purification, size selection of fragments 300–450 bp in length was completed with the Pippin Prep protocol (Sage Sciences, Beverly, MA, USA).

    Article Title: Population genomics of the Asian tiger mosquito, Aedes albopictus: insights into the recent worldwide invasion, et al. Population genomics of the Asian tiger mosquito, Aedes albopictus: insights into the recent worldwide invasion
    Article Snippet: Briefly, for the ddRAD library preparation, ~500–700 ng of high‐quality DNA was simultaneously doubled‐digested using NlaIII and MluCI (NEB) restriction enzymes (REs) following manufacturer's instructions. .. We then pooled 16 bar‐coded samples in each library and proceeded to size selection, using the Blue Pippin electrophoresis platform (Sage Science).

    Sample Prep:

    Article Title: A simple bridging flocculation assay for rapid, sensitive and stringent detection of gene specific DNA methylation
    Article Snippet: Paragraph title: DNA sample preparation ... To generate DNA fragment sizes compatible with MDB enrichment, MseI and MluCI restriction enzymes (NEB) were used.

    Article Title: Degradation of Recalcitrant Polyurethane and Xenobiotic Additives by a Selected Landfill Microbial Community and Its Biodegradative Potential Revealed by Proximity Ligation-Based Metagenomic Analysis
    Article Snippet: DNA was digested with Sau 3AI and MluCI and biotinylated with DNA Polymerase I Klenow fragment (New England Biolabs) followed by ligation reactions incubated for 4 h and then overnight at 70°C to reverse crosslinking. .. A shotgun library was also prepared from DNA extracted from non-crosslinked cells using Nextera DNA Sample Preparation Kit (Illumina).

    Laser Capture Microdissection:

    Article Title: Lentiviral Gene Therapy Using Cellular Promoters Cures Type 1 Gaucher Disease in Mice
    Article Snippet: .. For LAM-PCR, samples were digested with MluCI, MseI, and HinP1I (all NEB) in separate reactions and joint for nested PCR steps. .. During Re-free LAM-PCR, we did not use a blocking oligo but digested the internal control amplicons with SacI (NEB) like in the conventional LAM-PCR protocol.

    Marker:

    Article Title: Species associations and distributions of soil entomopathogenic fungi Metarhizium spp. in Japan
    Article Snippet: The PCR products of 5′-EF1-α were digested with Mlu CI or Tsp509I (NEB, Japan). .. Reaction mixtures were incubated at 37°C for 12–16 h. Electrophoresis of 5–6 µl of each of the digested samples was performed on 2% Agarose 21 (Nippon Gene, Japan) with a 50-bp size marker at 100 V for 30–60 min in 1× Tris–borate EDTA buffer.

    Lysis:

    Article Title: A simple bridging flocculation assay for rapid, sensitive and stringent detection of gene specific DNA methylation
    Article Snippet: Briefly, 60 μL of whole blood preserved with EDTA was incubated with 10 μL of proteinase K solution (New England Biolabs, NEB), 60 μL of lysis buffer (3 M Guanidine HCl, 2% Triton X) and 2 μL of RNase A solution (4mg/mL) for 10 minutes at room temperature. .. To generate DNA fragment sizes compatible with MDB enrichment, MseI and MluCI restriction enzymes (NEB) were used.

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    New England Biolabs mluci
    Mluci, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 16 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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