r3140  (New England Biolabs)


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  • 97
    Name:
    PstI HF
    Description:
    PstI HF 50 000 units
    Catalog Number:
    R3140L
    Price:
    264
    Size:
    50 000 units
    Category:
    Restriction Enzymes
    Score:
    85
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    Structured Review

    New England Biolabs r3140
    PstI HF
    PstI HF 50 000 units
    https://www.bioz.com/result/r3140/product/New England Biolabs
    Average 97 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    r3140 - by Bioz Stars, 2019-10
    97/100 stars

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    Related Articles

    Clone Assay:

    Article Title: Mobius Assembly: A versatile Golden-Gate framework towards universal DNA assembly
    Article Snippet: All the standard parts were domesticated for Aar I and Bsa I when necessary and were cloned into mUAV. .. Subsequently the pSB1C3/pSB1K3 backbones and the Golden Gate cassettes were digested with EcoRI-HF and PstI-HF (NEB) for 20 min at 37°C followed by purification with PCR Clean-up kit (Macherey Nagel).

    Article Title: PsrA controls the synthesis of the Pseudomonas aeruginosa quinolone signal via repression of the FadE homolog, PA0506
    Article Snippet: Strain PAO1 chromosomal DNA was utilized as template for the PCR. .. The final PCR product was cloned into pEX18Ap using PstI-HF (psrA ) and HindIII-HF (PA0506-08) (New England Biolabs) restriction enzymes, respectively. .. Plasmids harboring ΔpsrA (pGW-1), ΔPA0506 (pGW-15), ΔPA0507 (pGW-16), ΔPA0508 (pGW-19) were sequenced to confirm in-frame deletions and transformed into strain PAO1 by electroporation [ , ].

    Amplification:

    Article Title: Mobius Assembly: A versatile Golden-Gate framework towards universal DNA assembly
    Article Snippet: They were then amplified using Q5 DNA polymerase (NEB) with primers bearing EcoRI , AarI , BsaI , and PstI restriction sites and 4 bp overhangs. .. Subsequently the pSB1C3/pSB1K3 backbones and the Golden Gate cassettes were digested with EcoRI-HF and PstI-HF (NEB) for 20 min at 37°C followed by purification with PCR Clean-up kit (Macherey Nagel).

    Article Title: The Pattern and Distribution of Induced Mutations in J. curcas Using Reduced Representation Sequencing
    Article Snippet: 200 ng of genomic DNA were digested with 10 U HF-PstI (High Fidelity) and 8 U MspI (New England Biolabs, NEB) in 20 μl reaction volume of 1 × NEB buffer 4 for 2 h at 37°C, followed by inactivation of the enzymes at 65°C for 20 min. .. 200 ng of genomic DNA were digested with 10 U HF-PstI (High Fidelity) and 8 U MspI (New England Biolabs, NEB) in 20 μl reaction volume of 1 × NEB buffer 4 for 2 h at 37°C, followed by inactivation of the enzymes at 65°C for 20 min.

    Article Title: Special features of RAD Sequencing data: implications for genotyping
    Article Snippet: PstI-digested RAD libraries were prepared following the study by Baird et al . , using 20 units of PstI-HF (New England BioLabs) to digest 1 μg gDNA per sample. .. To remove adapter dimers, libraries were purified with Agencourt AMPure XP (Beckman Coulter) magnetic beads after P2 adapter ligation with a volume DNA/beads ratio of 1:0.8.

    Article Title: Assessing genotype-phenotype associations in three dorsal colour morphs in the meadow spittlebug Philaenus spumarius (L.) (Hemiptera: Aphrophoridae) using genomic and transcriptomic resources
    Article Snippet: Three RAD libraries with twelve individuals each were prepared following a modified RAD sequencing protocol [ ], using PstI-HF (New England BioLabs) restriction enzyme to digest 300 ng of genomic DNA per sample. .. To remove adapter dimers, libraries were purified with Agencourt AMPure XP (Beckman Coulter) magnetic beads after P2 adapter ligation with a volume DNA/beads ratio of 1:0.8.

    Article Title: Multispecies Outcomes of Sympatric Speciation after Admixture with the Source Population in Two Radiations of Nicaraguan Crater Lake Cichlids
    Article Snippet: Briefly, for each individual 600 ng DNA template were digested with the restriction enzymes PstI-HF (NEB) and MspI (NEB). .. After ligation of individually-barcoded adaptors [provided in ref. 104] individuals were combined into pools of 50 samples.

    Article Title: The Pattern and Distribution of Induced Mutations in J. curcas Using Reduced Representation Sequencing
    Article Snippet: 200 ng of genomic DNA were digested with 10 U HF- PstI (High Fidelity) and 8 U MspI (New England Biolabs, NEB) in 20 μl reaction volume of 1 × NEB buffer 4 for 2 h at 37°C, followed by inactivation of the enzymes at 65°C for 20 min. .. 200 ng of genomic DNA were digested with 10 U HF- PstI (High Fidelity) and 8 U MspI (New England Biolabs, NEB) in 20 μl reaction volume of 1 × NEB buffer 4 for 2 h at 37°C, followed by inactivation of the enzymes at 65°C for 20 min.

    Article Title: Efficiency of multi-trait, indirect, and trait-assisted genomic selection for improvement of biomass sorghum
    Article Snippet: Illumina libraries were created using two pairs of restriction enzymes: PstI-HF/HinP1I and PstI-HF/BfaI (New England Biolabs, Ipswich, MA). .. Illumina libraries were created using two pairs of restriction enzymes: PstI-HF/HinP1I and PstI-HF/BfaI (New England Biolabs, Ipswich, MA).

    Construct:

    Article Title: Construction of a high-density linkage map and fine mapping of QTL for growth in Asian seabass
    Article Snippet: RAD libraries were constructed using the double digest RADseq method with some modifications . .. 200 ng of DNA from each sample was digested with 20 units of PstI-HF and MspI restriction enzymes (New England Biolabs, USA).

    Article Title: Mobius Assembly: A versatile Golden-Gate framework towards universal DNA assembly
    Article Snippet: Subsequently the pSB1C3/pSB1K3 backbones and the Golden Gate cassettes were digested with EcoRI-HF and PstI-HF (NEB) for 20 min at 37°C followed by purification with PCR Clean-up kit (Macherey Nagel). .. Ligation was mediated by T7 DNA ligase (NEB) to construct mUAV, Level 1 and Level 2 Acceptor Vectors.

    Article Title: PsrA controls the synthesis of the Pseudomonas aeruginosa quinolone signal via repression of the FadE homolog, PA0506
    Article Snippet: The alleles were constructed to harbor in-frame deletions in the DNA coding sequence corresponding to amino acids 18 to 226 for psrA (89% of protein sequence), 19 to 585 for PA0506 (94% of protein sequence), 36 to 553 for PA0507 (86% of protein sequence), and 38 to 535 for PA0508 (86% of protein sequence). .. The final PCR product was cloned into pEX18Ap using PstI-HF (psrA ) and HindIII-HF (PA0506-08) (New England Biolabs) restriction enzymes, respectively.

    Real-time Polymerase Chain Reaction:

    Article Title: Fine mapping QTL for resistance to VNN disease using a high-density linkage map in Asian seabass
    Article Snippet: In brief, 200 ng of each DNA was digested with 20 units of restriction enzyme of PstI-HF and MspI (New England Biolabs, Ipswich, MA, USA) at 37 °C for 2.5 hours. .. The total fragments were PCR amplified using Phusion® High-Fidelity DNA Polymerase (New England Biolabs, Ipswich, MA, USA), followed by a second clean up using QIAquick PCR Purification Kit (Qiagen, Hilden, Germany).

    Incubation:

    Article Title: The Pattern and Distribution of Induced Mutations in J. curcas Using Reduced Representation Sequencing
    Article Snippet: 200 ng of genomic DNA were digested with 10 U HF-PstI (High Fidelity) and 8 U MspI (New England Biolabs, NEB) in 20 μl reaction volume of 1 × NEB buffer 4 for 2 h at 37°C, followed by inactivation of the enzymes at 65°C for 20 min. .. The ligation reaction was carried out using 1 × NEB buffer 4, ATP, respective Adapter as described by , containing a mix of common Y shaped adapter and sample specific barcoded adapter and T4 DNA Ligase.

    Article Title: Downstream promoter interactions of TFIID TAFs facilitate transcription reinitiation
    Article Snippet: Transcription activator Gal4-vp16 (800 ng) was incubated with templates for 5 min at room temperature. .. Downstream DNA and bound proteins were released with 120 U of SspI-HF or PstI-HF digestion (New England Biolabs) in 160 µL of 1× transcription buffer for 30 min at room temperature.

    Article Title: The Pattern and Distribution of Induced Mutations in J. curcas Using Reduced Representation Sequencing
    Article Snippet: 200 ng of genomic DNA were digested with 10 U HF- PstI (High Fidelity) and 8 U MspI (New England Biolabs, NEB) in 20 μl reaction volume of 1 × NEB buffer 4 for 2 h at 37°C, followed by inactivation of the enzymes at 65°C for 20 min. .. The ligation reaction was carried out using 1 × NEB buffer 4, ATP, respective Adapter as described by , containing a mix of common Y shaped adapter and sample specific barcoded adapter and T4 DNA Ligase.

    Article Title: Analysis of genetic polymorphisms and tropism in East African Leishmania donovani by Amplified Fragment Length Polymorphism and kDNA minicircle sequencing
    Article Snippet: AFLP was carried out as previously described ( ) with some modifications. .. Following digestion with TaqI (10 U, New England Biolabs®), the mixture was cooled on ice, and then 10 U PstI HF (New England Biolabs®) was added and the reaction incubated for an additional 1 h at 37 °C. .. Subsequently, the pre-annealed specific adaptors (Syntezza Bioscience®) (Table S2) were ligated to the genomic DNA fragments using T4 DNA ligase (1 U, MBI Fermentas®).

    Mass Spectrometry:

    Article Title: Downstream promoter interactions of TFIID TAFs facilitate transcription reinitiation
    Article Snippet: Paragraph title: Immobilized template binding and quantitative mass spectrometry ... Downstream DNA and bound proteins were released with 120 U of SspI-HF or PstI-HF digestion (New England Biolabs) in 160 µL of 1× transcription buffer for 30 min at room temperature.

    Modification:

    Article Title: PsrA controls the synthesis of the Pseudomonas aeruginosa quinolone signal via repression of the FadE homolog, PA0506
    Article Snippet: Mutant P . aeruginosa strains were derived by a modified version of a previously published protocol [ ]. .. The final PCR product was cloned into pEX18Ap using PstI-HF (psrA ) and HindIII-HF (PA0506-08) (New England Biolabs) restriction enzymes, respectively.

    Article Title: Assessing genotype-phenotype associations in three dorsal colour morphs in the meadow spittlebug Philaenus spumarius (L.) (Hemiptera: Aphrophoridae) using genomic and transcriptomic resources
    Article Snippet: Genomic DNA was extracted using the DNeasy Blood & Tissue Kit (Qiagen). .. Three RAD libraries with twelve individuals each were prepared following a modified RAD sequencing protocol [ ], using PstI-HF (New England BioLabs) restriction enzyme to digest 300 ng of genomic DNA per sample. .. Digested DNA was ligated to P1 barcoded adapters using twelve different barcodes for each library.

    Article Title: Reassessment of QTLs for Late Blight Resistance in the Tomato Accession L3708 Using a Restriction Site Associated DNA (RAD) Linkage Map and Highly Aggressive Isolates of Phytophthora infestans
    Article Snippet: Total genomic DNA was isolated from young tomato leaves using a modified CTAB method , and further purified using the DNeasy Blood & Tissue Kit (QIAGEN, Venlo, Netherland) following manufacturer's instructions. .. For each sample, 1 µg gDNA was digested with 20 units of PstI -HF (New England BioLabs [NEB], Ipswish MA, USA) overnight in a 50 µL reaction volume.

    Transformation Assay:

    Article Title: PsrA controls the synthesis of the Pseudomonas aeruginosa quinolone signal via repression of the FadE homolog, PA0506
    Article Snippet: The final PCR product was cloned into pEX18Ap using PstI-HF (psrA ) and HindIII-HF (PA0506-08) (New England Biolabs) restriction enzymes, respectively. .. Potential mutant colonies containing a psrA deletion in strain PAO1 (PGW-ΔpsrA ) were screened by PCR utilizing appropriate flanking primers and confirmed by DNA sequencing of the PCR product.

    Derivative Assay:

    Article Title: PsrA controls the synthesis of the Pseudomonas aeruginosa quinolone signal via repression of the FadE homolog, PA0506
    Article Snippet: Mutant P . aeruginosa strains were derived by a modified version of a previously published protocol [ ]. .. The final PCR product was cloned into pEX18Ap using PstI-HF (psrA ) and HindIII-HF (PA0506-08) (New England Biolabs) restriction enzymes, respectively.

    Ligation:

    Article Title: Construction of a high-density linkage map and fine mapping of QTL for growth in Asian seabass
    Article Snippet: 200 ng of DNA from each sample was digested with 20 units of PstI-HF and MspI restriction enzymes (New England Biolabs, USA). .. Digested DNA fragments were examined by electrophoresis and were then ligated with barcoded adaptors .

    Article Title: The Pattern and Distribution of Induced Mutations in J. curcas Using Reduced Representation Sequencing
    Article Snippet: 200 ng of genomic DNA were digested with 10 U HF-PstI (High Fidelity) and 8 U MspI (New England Biolabs, NEB) in 20 μl reaction volume of 1 × NEB buffer 4 for 2 h at 37°C, followed by inactivation of the enzymes at 65°C for 20 min. .. The ligation reaction was carried out using 1 × NEB buffer 4, ATP, respective Adapter as described by , containing a mix of common Y shaped adapter and sample specific barcoded adapter and T4 DNA Ligase.

    Article Title: Special features of RAD Sequencing data: implications for genotyping
    Article Snippet: PstI-digested RAD libraries were prepared following the study by Baird et al . , using 20 units of PstI-HF (New England BioLabs) to digest 1 μg gDNA per sample. .. PstI-digested RAD libraries were prepared following the study by Baird et al . , using 20 units of PstI-HF (New England BioLabs) to digest 1 μg gDNA per sample.

    Article Title: Assessing genotype-phenotype associations in three dorsal colour morphs in the meadow spittlebug Philaenus spumarius (L.) (Hemiptera: Aphrophoridae) using genomic and transcriptomic resources
    Article Snippet: Three RAD libraries with twelve individuals each were prepared following a modified RAD sequencing protocol [ ], using PstI-HF (New England BioLabs) restriction enzyme to digest 300 ng of genomic DNA per sample. .. Three RAD libraries with twelve individuals each were prepared following a modified RAD sequencing protocol [ ], using PstI-HF (New England BioLabs) restriction enzyme to digest 300 ng of genomic DNA per sample.

    Article Title: Multispecies Outcomes of Sympatric Speciation after Admixture with the Source Population in Two Radiations of Nicaraguan Crater Lake Cichlids
    Article Snippet: Briefly, for each individual 600 ng DNA template were digested with the restriction enzymes PstI-HF (NEB) and MspI (NEB). .. Briefly, for each individual 600 ng DNA template were digested with the restriction enzymes PstI-HF (NEB) and MspI (NEB).

    Article Title: Ancient genomic variation underlies repeated ecological adaptation in young stickleback populations
    Article Snippet: To identify sufficient sequence variation at a RAD locus, and to simplify downstream sequence processing and analysis, we took advantage of longer sequencing reads available on newer Illumina platforms and the phase information captured by paired‐end sequencing. .. We generated RAD libraries from these samples using the single‐digest sheared RAD protocol from Baird et al. (Baird et al. ) with the following specifications and adjustments: 1 μg of genomic DNA per fish was digested with the restriction enzyme PstI‐HF (New England Biolabs), followed by ligation to P1 Illumina adaptors with 6 bp inline barcodes. .. Ligated samples were multiplexed and sheared by sonication in a Bioruptor (Diagenode).

    Article Title: Mapping QTL for the traits associated with heat tolerance in wheat (Triticum aestivum L.)
    Article Snippet: Bin markers were developed using a genotype by sequencing (GBS) approach [ ]. .. DNA was isolated from F10 plants leaves and digested by HF-PstI (High- Fidelity) and MspI (New England BioLabs Inc., Ipswich, MA 01938) followed by ligation with a set of 96 adapters (adapter 1) combined with a common adapter (Y adapter) in every reaction. .. Ligated samples were pooled in a single tube followed by PCR amplification to produce a single library from 96 samples.

    Article Title: The Pattern and Distribution of Induced Mutations in J. curcas Using Reduced Representation Sequencing
    Article Snippet: 200 ng of genomic DNA were digested with 10 U HF- PstI (High Fidelity) and 8 U MspI (New England Biolabs, NEB) in 20 μl reaction volume of 1 × NEB buffer 4 for 2 h at 37°C, followed by inactivation of the enzymes at 65°C for 20 min. .. The ligation reaction was carried out using 1 × NEB buffer 4, ATP, respective Adapter as described by , containing a mix of common Y shaped adapter and sample specific barcoded adapter and T4 DNA Ligase.

    Article Title: Whole Genome Amplification and Reduced-Representation Genome Sequencing of Schistosoma japonicum Miracidia
    Article Snippet: Adult worm DNA or whole-genome-amplified miracidium DNA was digested with two restriction enzymes, PstI -HF (New England Biolabs (NEB) R3140), a 6-cutter, and Sau3AI (NEB R0169), a 4-cutter, for eight hours at 37°C. .. A universal adaptor corresponding to the Sau3AI cut site and another adaptor corresponding to the PstI -HF cut site were then ligated to digested and purified DNA fragments.

    Article Title: Analysis of genetic polymorphisms and tropism in East African Leishmania donovani by Amplified Fragment Length Polymorphism and kDNA minicircle sequencing
    Article Snippet: Paragraph title: 2.6.1. Restriction digestion and ligation of adaptors ... Following digestion with TaqI (10 U, New England Biolabs®), the mixture was cooled on ice, and then 10 U PstI HF (New England Biolabs®) was added and the reaction incubated for an additional 1 h at 37 °C.

    Article Title: Fine mapping QTL for resistance to VNN disease using a high-density linkage map in Asian seabass
    Article Snippet: In brief, 200 ng of each DNA was digested with 20 units of restriction enzyme of PstI-HF and MspI (New England Biolabs, Ipswich, MA, USA) at 37 °C for 2.5 hours. .. The DNA fragments were examined by electrophoresis on a 2% agarose gel before ligation with barcoded adaptors .

    Generated:

    Article Title: PsrA controls the synthesis of the Pseudomonas aeruginosa quinolone signal via repression of the FadE homolog, PA0506
    Article Snippet: The mutant alleles were generated by using a splicing-by-overlapping PCR extension of primers [ ]. .. The final PCR product was cloned into pEX18Ap using PstI-HF (psrA ) and HindIII-HF (PA0506-08) (New England Biolabs) restriction enzymes, respectively.

    Article Title: Multispecies Outcomes of Sympatric Speciation after Admixture with the Source Population in Two Radiations of Nicaraguan Crater Lake Cichlids
    Article Snippet: Genomic data were generated using double-digest RAD sequencing [ ] following an in-house protocol [ ] with minor modifications. .. Briefly, for each individual 600 ng DNA template were digested with the restriction enzymes PstI-HF (NEB) and MspI (NEB).

    Article Title: Ancient genomic variation underlies repeated ecological adaptation in young stickleback populations
    Article Snippet: To identify sufficient sequence variation at a RAD locus, and to simplify downstream sequence processing and analysis, we took advantage of longer sequencing reads available on newer Illumina platforms and the phase information captured by paired‐end sequencing. .. We generated RAD libraries from these samples using the single‐digest sheared RAD protocol from Baird et al. (Baird et al. ) with the following specifications and adjustments: 1 μg of genomic DNA per fish was digested with the restriction enzyme PstI‐HF (New England Biolabs), followed by ligation to P1 Illumina adaptors with 6 bp inline barcodes. .. Ligated samples were multiplexed and sheared by sonication in a Bioruptor (Diagenode).

    DNA Sequencing:

    Article Title: PsrA controls the synthesis of the Pseudomonas aeruginosa quinolone signal via repression of the FadE homolog, PA0506
    Article Snippet: The final PCR product was cloned into pEX18Ap using PstI-HF (psrA ) and HindIII-HF (PA0506-08) (New England Biolabs) restriction enzymes, respectively. .. The final PCR product was cloned into pEX18Ap using PstI-HF (psrA ) and HindIII-HF (PA0506-08) (New England Biolabs) restriction enzymes, respectively.

    Sequencing:

    Article Title: Construction of a high-density linkage map and fine mapping of QTL for growth in Asian seabass
    Article Snippet: Paragraph title: RAD library preparation and sequencing ... 200 ng of DNA from each sample was digested with 20 units of PstI-HF and MspI restriction enzymes (New England Biolabs, USA).

    Article Title: Mobius Assembly: A versatile Golden-Gate framework towards universal DNA assembly
    Article Snippet: Subsequently the pSB1C3/pSB1K3 backbones and the Golden Gate cassettes were digested with EcoRI-HF and PstI-HF (NEB) for 20 min at 37°C followed by purification with PCR Clean-up kit (Macherey Nagel). .. Subsequently the pSB1C3/pSB1K3 backbones and the Golden Gate cassettes were digested with EcoRI-HF and PstI-HF (NEB) for 20 min at 37°C followed by purification with PCR Clean-up kit (Macherey Nagel).

    Article Title: PsrA controls the synthesis of the Pseudomonas aeruginosa quinolone signal via repression of the FadE homolog, PA0506
    Article Snippet: The alleles were constructed to harbor in-frame deletions in the DNA coding sequence corresponding to amino acids 18 to 226 for psrA (89% of protein sequence), 19 to 585 for PA0506 (94% of protein sequence), 36 to 553 for PA0507 (86% of protein sequence), and 38 to 535 for PA0508 (86% of protein sequence). .. The final PCR product was cloned into pEX18Ap using PstI-HF (psrA ) and HindIII-HF (PA0506-08) (New England Biolabs) restriction enzymes, respectively.

    Article Title: Assessing genotype-phenotype associations in three dorsal colour morphs in the meadow spittlebug Philaenus spumarius (L.) (Hemiptera: Aphrophoridae) using genomic and transcriptomic resources
    Article Snippet: Genomic DNA was extracted using the DNeasy Blood & Tissue Kit (Qiagen). .. Three RAD libraries with twelve individuals each were prepared following a modified RAD sequencing protocol [ ], using PstI-HF (New England BioLabs) restriction enzyme to digest 300 ng of genomic DNA per sample. .. Digested DNA was ligated to P1 barcoded adapters using twelve different barcodes for each library.

    Article Title: A high-density genetic map reveals variation in recombination rate across the genome of Daphnia magna
    Article Snippet: Paragraph title: RAD library preparation and sequencing ... Specifically, 1 μg of genomic DNA from each sample was digested with the PstI HF restriction enzyme (NEB) in 50 μl reaction volume, for 90 min. at 37 °C and then heat-inactivated following the manufacturer’s manual.

    Article Title: Multispecies Outcomes of Sympatric Speciation after Admixture with the Source Population in Two Radiations of Nicaraguan Crater Lake Cichlids
    Article Snippet: Paragraph title: Sampling and ddRAD sequencing ... Briefly, for each individual 600 ng DNA template were digested with the restriction enzymes PstI-HF (NEB) and MspI (NEB).

    Article Title: Genomic diversity in switchgrass (Panicum virgatum): from the continental scale to a dune landscape
    Article Snippet: The results from Sequencing Run 1 indicated that digestion with ApeKI (recognition site: G^CWGC) did not reduce representation of the switchgrass genome to the desired level, so subsequent samples were digested with PstI (recognition site: CTGCA^G), which has a longer recognition site. .. To produce the second set of RRLs (Sequencing run 2, ), genomic DNA (5.0 ug per sample) was digested with PstI-HF (NEB, Ipswich MA), then processed according to the Illumina protocol for preparing libraries for multiplexed paired-end sequencing without the DNA nebulization step. .. These libraries were sequenced with 100bp paired-end runs on an Illumina GA-II.

    Article Title: Ancient genomic variation underlies repeated ecological adaptation in young stickleback populations
    Article Snippet: To identify sufficient sequence variation at a RAD locus, and to simplify downstream sequence processing and analysis, we took advantage of longer sequencing reads available on newer Illumina platforms and the phase information captured by paired‐end sequencing. .. We generated RAD libraries from these samples using the single‐digest sheared RAD protocol from Baird et al. (Baird et al. ) with the following specifications and adjustments: 1 μg of genomic DNA per fish was digested with the restriction enzyme PstI‐HF (New England Biolabs), followed by ligation to P1 Illumina adaptors with 6 bp inline barcodes.

    Article Title: Mapping QTL for the traits associated with heat tolerance in wheat (Triticum aestivum L.)
    Article Snippet: Bin markers were developed using a genotype by sequencing (GBS) approach [ ]. .. DNA was isolated from F10 plants leaves and digested by HF-PstI (High- Fidelity) and MspI (New England BioLabs Inc., Ipswich, MA 01938) followed by ligation with a set of 96 adapters (adapter 1) combined with a common adapter (Y adapter) in every reaction.

    Article Title: Fine mapping QTL for resistance to VNN disease using a high-density linkage map in Asian seabass
    Article Snippet: Paragraph title: Sequencing library preparation and next generation sequencing ... In brief, 200 ng of each DNA was digested with 20 units of restriction enzyme of PstI-HF and MspI (New England Biolabs, Ipswich, MA, USA) at 37 °C for 2.5 hours.

    Article Title: Efficiency of multi-trait, indirect, and trait-assisted genomic selection for improvement of biomass sorghum
    Article Snippet: Illumina libraries were created using two pairs of restriction enzymes: PstI-HF/HinP1I and PstI-HF/BfaI (New England Biolabs, Ipswich, MA). .. 96 DNA samples per library were pooled into a single tube for all subsequent steps including size selection using AMPure beads (Beckman-Coulter, Pasadena, CA, USA), PCR amplification using Phusion polymerase (New England Biolabs), and a second round of a bead-based size selection.

    Binding Assay:

    Article Title: Downstream promoter interactions of TFIID TAFs facilitate transcription reinitiation
    Article Snippet: Paragraph title: Immobilized template binding and quantitative mass spectrometry ... Downstream DNA and bound proteins were released with 120 U of SspI-HF or PstI-HF digestion (New England Biolabs) in 160 µL of 1× transcription buffer for 30 min at room temperature.

    DNA Extraction:

    Article Title: The Chromosomal Association of the Smc5/6 Complex Depends on Cohesion and Predicts the Level of Sister Chromatid Entanglement
    Article Snippet: Genomic DNA isolation to study replication intermediates was performed according to . .. Digestion was performed using PstI-HF (New England Biolabs) for the loci UBP10-MRPL19 and MPP10-YJR003C , and EcoRI and HindIII (Roche) for ARS305 locus.

    Nucleic Acid Electrophoresis:

    Article Title: Multispecies Outcomes of Sympatric Speciation after Admixture with the Source Population in Two Radiations of Nicaraguan Crater Lake Cichlids
    Article Snippet: Briefly, for each individual 600 ng DNA template were digested with the restriction enzymes PstI-HF (NEB) and MspI (NEB). .. Fragments in a range of 320–500 bp were selected using Pippin Prep technology (Sage Science, Beverly, MA) and amplified in replicates of ten PCRs per pool, running for ten cycles, using a Phusion high-fidelity polymerase (NEB).

    Article Title: Evolved Populations of Shigella flexneri Phage Sf6 Acquire Large Deletions, Altered Genomic Architecture, and Faster Life Cycles
    Article Snippet: Primers were constructed with Primer3Plus within Sf6 genes 1 (5′-AAGACTTCGCGTTGATACCC-3′, 5′-GTGCTCATCGGTGATGTTTC-3′), 5 (5′-TGCAACAGCAGACCAAACAG-3′, 5′-AAAGCGTAACCGTCACATCG-3′), 44 (5′-GACGCTGATGACGGCTATCA-3′, 5′-GCGTGTCGTCGATGTAAAGC-3′), and 61 (5′-GTTTGCAATGGCGTACCTTC-3′, 5′-CACATCGTTGCGTCGATTAC-3′) and were used with an in-house SYBR Green master mix as described ( ). .. Single restriction enzyme digests used BamHI HF and PstI HF (New England Biolabs) at 37°C for 15 min. Gel electrophoresis used 0.7% agarose in TAE and was run for 90 min at a constant 80 V. The ladder used was 1 kb Plus (Invitrogen). .. We conducted a phage evolution experiment for 10 replicate populations in which the phage, but not the host, were serially passaged on ompA − C − null Shigella , a host to which Sf6 only slowly adsorbs ( ) ( ).

    Magnetic Beads:

    Article Title: Special features of RAD Sequencing data: implications for genotyping
    Article Snippet: PstI-digested RAD libraries were prepared following the study by Baird et al . , using 20 units of PstI-HF (New England BioLabs) to digest 1 μg gDNA per sample. .. PstI-digested RAD libraries were prepared following the study by Baird et al . , using 20 units of PstI-HF (New England BioLabs) to digest 1 μg gDNA per sample.

    Article Title: Assessing genotype-phenotype associations in three dorsal colour morphs in the meadow spittlebug Philaenus spumarius (L.) (Hemiptera: Aphrophoridae) using genomic and transcriptomic resources
    Article Snippet: Three RAD libraries with twelve individuals each were prepared following a modified RAD sequencing protocol [ ], using PstI-HF (New England BioLabs) restriction enzyme to digest 300 ng of genomic DNA per sample. .. Three RAD libraries with twelve individuals each were prepared following a modified RAD sequencing protocol [ ], using PstI-HF (New England BioLabs) restriction enzyme to digest 300 ng of genomic DNA per sample.

    Mutagenesis:

    Article Title: PsrA controls the synthesis of the Pseudomonas aeruginosa quinolone signal via repression of the FadE homolog, PA0506
    Article Snippet: Paragraph title: Generation of mutant strains and plasmids ... The final PCR product was cloned into pEX18Ap using PstI-HF (psrA ) and HindIII-HF (PA0506-08) (New England Biolabs) restriction enzymes, respectively.

    Isolation:

    Article Title: The Chromosomal Association of the Smc5/6 Complex Depends on Cohesion and Predicts the Level of Sister Chromatid Entanglement
    Article Snippet: Isolation of genomic DNA with CTAB extraction to preserve X-shape structures was performed according to . .. Digestion was performed using PstI-HF (New England Biolabs) for the loci UBP10-MRPL19 and MPP10-YJR003C , and EcoRI and HindIII (Roche) for ARS305 locus.

    Article Title: Special features of RAD Sequencing data: implications for genotyping
    Article Snippet: Genomic DNA (gDNA) was isolated from frozen worms using the DNeasy Blood and Tissue Kit (QIAGEN). .. PstI-digested RAD libraries were prepared following the study by Baird et al . , using 20 units of PstI-HF (New England BioLabs) to digest 1 μg gDNA per sample.

    Article Title: Reassessment of QTLs for Late Blight Resistance in the Tomato Accession L3708 Using a Restriction Site Associated DNA (RAD) Linkage Map and Highly Aggressive Isolates of Phytophthora infestans
    Article Snippet: Total genomic DNA was isolated from young tomato leaves using a modified CTAB method , and further purified using the DNeasy Blood & Tissue Kit (QIAGEN, Venlo, Netherland) following manufacturer's instructions. .. For each sample, 1 µg gDNA was digested with 20 units of PstI -HF (New England BioLabs [NEB], Ipswish MA, USA) overnight in a 50 µL reaction volume.

    Article Title: Mapping QTL for the traits associated with heat tolerance in wheat (Triticum aestivum L.)
    Article Snippet: Bin markers were developed using a genotype by sequencing (GBS) approach [ ]. .. DNA was isolated from F10 plants leaves and digested by HF-PstI (High- Fidelity) and MspI (New England BioLabs Inc., Ipswich, MA 01938) followed by ligation with a set of 96 adapters (adapter 1) combined with a common adapter (Y adapter) in every reaction. .. Ligated samples were pooled in a single tube followed by PCR amplification to produce a single library from 96 samples.

    Purification:

    Article Title: Construction of a high-density linkage map and fine mapping of QTL for growth in Asian seabass
    Article Snippet: 200 ng of DNA from each sample was digested with 20 units of PstI-HF and MspI restriction enzymes (New England Biolabs, USA). .. Digested DNA fragments were examined by electrophoresis and were then ligated with barcoded adaptors .

    Article Title: Mobius Assembly: A versatile Golden-Gate framework towards universal DNA assembly
    Article Snippet: They were then amplified using Q5 DNA polymerase (NEB) with primers bearing EcoRI , AarI , BsaI , and PstI restriction sites and 4 bp overhangs. .. Subsequently the pSB1C3/pSB1K3 backbones and the Golden Gate cassettes were digested with EcoRI-HF and PstI-HF (NEB) for 20 min at 37°C followed by purification with PCR Clean-up kit (Macherey Nagel). .. Ligation was mediated by T7 DNA ligase (NEB) to construct mUAV, Level 1 and Level 2 Acceptor Vectors.

    Article Title: Special features of RAD Sequencing data: implications for genotyping
    Article Snippet: PstI-digested RAD libraries were prepared following the study by Baird et al . , using 20 units of PstI-HF (New England BioLabs) to digest 1 μg gDNA per sample. .. PstI-digested RAD libraries were prepared following the study by Baird et al . , using 20 units of PstI-HF (New England BioLabs) to digest 1 μg gDNA per sample.

    Article Title: Assessing genotype-phenotype associations in three dorsal colour morphs in the meadow spittlebug Philaenus spumarius (L.) (Hemiptera: Aphrophoridae) using genomic and transcriptomic resources
    Article Snippet: Three RAD libraries with twelve individuals each were prepared following a modified RAD sequencing protocol [ ], using PstI-HF (New England BioLabs) restriction enzyme to digest 300 ng of genomic DNA per sample. .. Three RAD libraries with twelve individuals each were prepared following a modified RAD sequencing protocol [ ], using PstI-HF (New England BioLabs) restriction enzyme to digest 300 ng of genomic DNA per sample.

    Article Title: Reassessment of QTLs for Late Blight Resistance in the Tomato Accession L3708 Using a Restriction Site Associated DNA (RAD) Linkage Map and Highly Aggressive Isolates of Phytophthora infestans
    Article Snippet: Total genomic DNA was isolated from young tomato leaves using a modified CTAB method , and further purified using the DNeasy Blood & Tissue Kit (QIAGEN, Venlo, Netherland) following manufacturer's instructions. .. For each sample, 1 µg gDNA was digested with 20 units of PstI -HF (New England BioLabs [NEB], Ipswish MA, USA) overnight in a 50 µL reaction volume.

    Article Title: Whole Genome Amplification and Reduced-Representation Genome Sequencing of Schistosoma japonicum Miracidia
    Article Snippet: Adult worm DNA or whole-genome-amplified miracidium DNA was digested with two restriction enzymes, PstI -HF (New England Biolabs (NEB) R3140), a 6-cutter, and Sau3AI (NEB R0169), a 4-cutter, for eight hours at 37°C. .. Adult worm DNA or whole-genome-amplified miracidium DNA was digested with two restriction enzymes, PstI -HF (New England Biolabs (NEB) R3140), a 6-cutter, and Sau3AI (NEB R0169), a 4-cutter, for eight hours at 37°C.

    Article Title: Fine mapping QTL for resistance to VNN disease using a high-density linkage map in Asian seabass
    Article Snippet: In brief, 200 ng of each DNA was digested with 20 units of restriction enzyme of PstI-HF and MspI (New England Biolabs, Ipswich, MA, USA) at 37 °C for 2.5 hours. .. The DNA fragments were examined by electrophoresis on a 2% agarose gel before ligation with barcoded adaptors .

    Polymerase Chain Reaction:

    Article Title: Construction of a high-density linkage map and fine mapping of QTL for growth in Asian seabass
    Article Snippet: 200 ng of DNA from each sample was digested with 20 units of PstI-HF and MspI restriction enzymes (New England Biolabs, USA). .. Digested DNA fragments were examined by electrophoresis and were then ligated with barcoded adaptors .

    Article Title: Mobius Assembly: A versatile Golden-Gate framework towards universal DNA assembly
    Article Snippet: They were then amplified using Q5 DNA polymerase (NEB) with primers bearing EcoRI , AarI , BsaI , and PstI restriction sites and 4 bp overhangs. .. Subsequently the pSB1C3/pSB1K3 backbones and the Golden Gate cassettes were digested with EcoRI-HF and PstI-HF (NEB) for 20 min at 37°C followed by purification with PCR Clean-up kit (Macherey Nagel). .. Ligation was mediated by T7 DNA ligase (NEB) to construct mUAV, Level 1 and Level 2 Acceptor Vectors.

    Article Title: PsrA controls the synthesis of the Pseudomonas aeruginosa quinolone signal via repression of the FadE homolog, PA0506
    Article Snippet: Strain PAO1 chromosomal DNA was utilized as template for the PCR. .. The final PCR product was cloned into pEX18Ap using PstI-HF (psrA ) and HindIII-HF (PA0506-08) (New England Biolabs) restriction enzymes, respectively. .. Plasmids harboring ΔpsrA (pGW-1), ΔPA0506 (pGW-15), ΔPA0507 (pGW-16), ΔPA0508 (pGW-19) were sequenced to confirm in-frame deletions and transformed into strain PAO1 by electroporation [ , ].

    Article Title: The Pattern and Distribution of Induced Mutations in J. curcas Using Reduced Representation Sequencing
    Article Snippet: 200 ng of genomic DNA were digested with 10 U HF-PstI (High Fidelity) and 8 U MspI (New England Biolabs, NEB) in 20 μl reaction volume of 1 × NEB buffer 4 for 2 h at 37°C, followed by inactivation of the enzymes at 65°C for 20 min. .. 200 ng of genomic DNA were digested with 10 U HF-PstI (High Fidelity) and 8 U MspI (New England Biolabs, NEB) in 20 μl reaction volume of 1 × NEB buffer 4 for 2 h at 37°C, followed by inactivation of the enzymes at 65°C for 20 min.

    Article Title: Special features of RAD Sequencing data: implications for genotyping
    Article Snippet: PstI-digested RAD libraries were prepared following the study by Baird et al . , using 20 units of PstI-HF (New England BioLabs) to digest 1 μg gDNA per sample. .. PstI-digested RAD libraries were prepared following the study by Baird et al . , using 20 units of PstI-HF (New England BioLabs) to digest 1 μg gDNA per sample.

    Article Title: Assessing genotype-phenotype associations in three dorsal colour morphs in the meadow spittlebug Philaenus spumarius (L.) (Hemiptera: Aphrophoridae) using genomic and transcriptomic resources
    Article Snippet: Three RAD libraries with twelve individuals each were prepared following a modified RAD sequencing protocol [ ], using PstI-HF (New England BioLabs) restriction enzyme to digest 300 ng of genomic DNA per sample. .. Three RAD libraries with twelve individuals each were prepared following a modified RAD sequencing protocol [ ], using PstI-HF (New England BioLabs) restriction enzyme to digest 300 ng of genomic DNA per sample.

    Article Title: Reassessment of QTLs for Late Blight Resistance in the Tomato Accession L3708 Using a Restriction Site Associated DNA (RAD) Linkage Map and Highly Aggressive Isolates of Phytophthora infestans
    Article Snippet: For each sample, 1 µg gDNA was digested with 20 units of PstI -HF (New England BioLabs [NEB], Ipswish MA, USA) overnight in a 50 µL reaction volume. .. Digested DNAs were ligated to 2 µL 100 nM P1 bar-coded adapters, a modified Solexa adapter , along with 1 µL 10× NEBuffer4 (NEB, Ipswish MA, USA), 0.5 µL 2000 unit µL−1 T4 DNA ligase (NEB, Ipswish MA, USA), and 0.6 µL 100 mM riboATP (Promega, Madison WI, USA) in a 60 µL reaction volume for 1 h. Samples were heat-inactivated for 20 min at 65°C.

    Article Title: The Pattern and Distribution of Induced Mutations in J. curcas Using Reduced Representation Sequencing
    Article Snippet: 200 ng of genomic DNA were digested with 10 U HF- PstI (High Fidelity) and 8 U MspI (New England Biolabs, NEB) in 20 μl reaction volume of 1 × NEB buffer 4 for 2 h at 37°C, followed by inactivation of the enzymes at 65°C for 20 min. .. 200 ng of genomic DNA were digested with 10 U HF- PstI (High Fidelity) and 8 U MspI (New England Biolabs, NEB) in 20 μl reaction volume of 1 × NEB buffer 4 for 2 h at 37°C, followed by inactivation of the enzymes at 65°C for 20 min.

    Article Title: Whole Genome Amplification and Reduced-Representation Genome Sequencing of Schistosoma japonicum Miracidia
    Article Snippet: Adult worm DNA or whole-genome-amplified miracidium DNA was digested with two restriction enzymes, PstI -HF (New England Biolabs (NEB) R3140), a 6-cutter, and Sau3AI (NEB R0169), a 4-cutter, for eight hours at 37°C. .. A universal adaptor corresponding to the Sau3AI cut site and another adaptor corresponding to the PstI -HF cut site were then ligated to digested and purified DNA fragments.

    Article Title: Analysis of genetic polymorphisms and tropism in East African Leishmania donovani by Amplified Fragment Length Polymorphism and kDNA minicircle sequencing
    Article Snippet: Following digestion with TaqI (10 U, New England Biolabs®), the mixture was cooled on ice, and then 10 U PstI HF (New England Biolabs®) was added and the reaction incubated for an additional 1 h at 37 °C. .. Following digestion with TaqI (10 U, New England Biolabs®), the mixture was cooled on ice, and then 10 U PstI HF (New England Biolabs®) was added and the reaction incubated for an additional 1 h at 37 °C.

    Article Title: Fine mapping QTL for resistance to VNN disease using a high-density linkage map in Asian seabass
    Article Snippet: In brief, 200 ng of each DNA was digested with 20 units of restriction enzyme of PstI-HF and MspI (New England Biolabs, Ipswich, MA, USA) at 37 °C for 2.5 hours. .. The DNA fragments were examined by electrophoresis on a 2% agarose gel before ligation with barcoded adaptors .

    Article Title: Efficiency of multi-trait, indirect, and trait-assisted genomic selection for improvement of biomass sorghum
    Article Snippet: Illumina libraries were created using two pairs of restriction enzymes: PstI-HF/HinP1I and PstI-HF/BfaI (New England Biolabs, Ipswich, MA). .. Illumina libraries were created using two pairs of restriction enzymes: PstI-HF/HinP1I and PstI-HF/BfaI (New England Biolabs, Ipswich, MA).

    Plasmid Preparation:

    Article Title: Mobius Assembly: A versatile Golden-Gate framework towards universal DNA assembly
    Article Snippet: Paragraph title: Part and vector generation ... Subsequently the pSB1C3/pSB1K3 backbones and the Golden Gate cassettes were digested with EcoRI-HF and PstI-HF (NEB) for 20 min at 37°C followed by purification with PCR Clean-up kit (Macherey Nagel).

    Selection:

    Article Title: Construction of a high-density linkage map and fine mapping of QTL for growth in Asian seabass
    Article Snippet: 200 ng of DNA from each sample was digested with 20 units of PstI-HF and MspI restriction enzymes (New England Biolabs, USA). .. Digested DNA fragments were examined by electrophoresis and were then ligated with barcoded adaptors .

    Article Title: Fine mapping QTL for resistance to VNN disease using a high-density linkage map in Asian seabass
    Article Snippet: In brief, 200 ng of each DNA was digested with 20 units of restriction enzyme of PstI-HF and MspI (New England Biolabs, Ipswich, MA, USA) at 37 °C for 2.5 hours. .. The DNA fragments were examined by electrophoresis on a 2% agarose gel before ligation with barcoded adaptors .

    Article Title: Efficiency of multi-trait, indirect, and trait-assisted genomic selection for improvement of biomass sorghum
    Article Snippet: Illumina libraries were created using two pairs of restriction enzymes: PstI-HF/HinP1I and PstI-HF/BfaI (New England Biolabs, Ipswich, MA). .. Illumina libraries were created using two pairs of restriction enzymes: PstI-HF/HinP1I and PstI-HF/BfaI (New England Biolabs, Ipswich, MA).

    Next-Generation Sequencing:

    Article Title: Fine mapping QTL for resistance to VNN disease using a high-density linkage map in Asian seabass
    Article Snippet: Paragraph title: Sequencing library preparation and next generation sequencing ... In brief, 200 ng of each DNA was digested with 20 units of restriction enzyme of PstI-HF and MspI (New England Biolabs, Ipswich, MA, USA) at 37 °C for 2.5 hours.

    Quantitation Assay:

    Article Title: Downstream promoter interactions of TFIID TAFs facilitate transcription reinitiation
    Article Snippet: Downstream DNA and bound proteins were released with 120 U of SspI-HF or PstI-HF digestion (New England Biolabs) in 160 µL of 1× transcription buffer for 30 min at room temperature. .. Downstream DNA and bound proteins were released with 120 U of SspI-HF or PstI-HF digestion (New England Biolabs) in 160 µL of 1× transcription buffer for 30 min at room temperature.

    Sampling:

    Article Title: Multispecies Outcomes of Sympatric Speciation after Admixture with the Source Population in Two Radiations of Nicaraguan Crater Lake Cichlids
    Article Snippet: Paragraph title: Sampling and ddRAD sequencing ... Briefly, for each individual 600 ng DNA template were digested with the restriction enzymes PstI-HF (NEB) and MspI (NEB).

    Produced:

    Article Title: Construction of a high-density linkage map and fine mapping of QTL for growth in Asian seabass
    Article Snippet: 200 ng of DNA from each sample was digested with 20 units of PstI-HF and MspI restriction enzymes (New England Biolabs, USA). .. Selected libraries were then enriched by PCR with Phusion® High-Fidelity DNA Polymerase (New England Biolabs, USA).

    Concentration Assay:

    Article Title: Construction of a high-density linkage map and fine mapping of QTL for growth in Asian seabass
    Article Snippet: Genomic DNA concentration was measured using Qubit® assays (Life Technologies, USA). .. 200 ng of DNA from each sample was digested with 20 units of PstI-HF and MspI restriction enzymes (New England Biolabs, USA).

    Two-Dimensional Gel Electrophoresis:

    Article Title: The Chromosomal Association of the Smc5/6 Complex Depends on Cohesion and Predicts the Level of Sister Chromatid Entanglement
    Article Snippet: Paragraph title: Two-dimensional gel electrophoresis ... Digestion was performed using PstI-HF (New England Biolabs) for the loci UBP10-MRPL19 and MPP10-YJR003C , and EcoRI and HindIII (Roche) for ARS305 locus.

    High Throughput Screening Assay:

    Article Title: Genomic diversity in switchgrass (Panicum virgatum): from the continental scale to a dune landscape
    Article Snippet: Paragraph title: Library preparation and high-throughput sequencing ... To produce the second set of RRLs (Sequencing run 2, ), genomic DNA (5.0 ug per sample) was digested with PstI-HF (NEB, Ipswich MA), then processed according to the Illumina protocol for preparing libraries for multiplexed paired-end sequencing without the DNA nebulization step.

    Fluorescence In Situ Hybridization:

    Article Title: Multispecies Outcomes of Sympatric Speciation after Admixture with the Source Population in Two Radiations of Nicaraguan Crater Lake Cichlids
    Article Snippet: Briefly, for each individual 600 ng DNA template were digested with the restriction enzymes PstI-HF (NEB) and MspI (NEB). .. Briefly, for each individual 600 ng DNA template were digested with the restriction enzymes PstI-HF (NEB) and MspI (NEB).

    Article Title: Ancient genomic variation underlies repeated ecological adaptation in young stickleback populations
    Article Snippet: To identify sufficient sequence variation at a RAD locus, and to simplify downstream sequence processing and analysis, we took advantage of longer sequencing reads available on newer Illumina platforms and the phase information captured by paired‐end sequencing. .. We generated RAD libraries from these samples using the single‐digest sheared RAD protocol from Baird et al. (Baird et al. ) with the following specifications and adjustments: 1 μg of genomic DNA per fish was digested with the restriction enzyme PstI‐HF (New England Biolabs), followed by ligation to P1 Illumina adaptors with 6 bp inline barcodes. .. Ligated samples were multiplexed and sheared by sonication in a Bioruptor (Diagenode).

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    New England Biolabs r3140
    R3140, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 97/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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