takara taq polymerase  (Thermo Fisher)


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    Structured Review

    Thermo Fisher takara taq polymerase
    Takara Taq Polymerase, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 90/100, based on 3 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/takara taq polymerase/product/Thermo Fisher
    Average 90 stars, based on 3 article reviews
    Price from $9.99 to $1999.99
    takara taq polymerase - by Bioz Stars, 2020-04
    90/100 stars

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    Related Articles

    Amplification:

    Article Title: Detection and Identification of Leishmania DNA within Naturally Infected Sand Flies by Seminested PCR on Minicircle Kinetoplastic DNA
    Article Snippet: Paragraph title: Amplification of kinetoplastic minicircle DNA from sand flies. ... Standard PCR with primers LINR4 and LIN17 or LINR4 and LIN19 was carried out in a total of 100 μl containing 1× Taq polymerase buffer (GIBCO-BRL), 1.5 mM MgCl2 , 0.2 μM dNTPs, 1 μM LINR4, 1 μM LIN17 or LIN19, and 1.5 U of Taq polymerase (GIBCO-BRL).

    Article Title: An Integrated Microfluidic Processor for DNA-Encoded Combinatorial Library Functional Screening
    Article Snippet: PCR mixture contained Taq DNA polymerase (0.05 U/μL), oligonucleotide primer 5′-CCTCTCTATGGGCAGTCGGTGATGCCGCCCAGTCCTGCTCGCTTCGCTAC-3′ (0.3 μM), SYBR Green (0.2×, Life Technologies), DMSO (6%), betaine (1 M), MgCl2 (1 mM), and PCR buffer (1×). .. Each amplicon dilution was added (2 μL, 1 μL, 0.5 μL) with a corresponding NGS barcode (XXXXXXXXXX) oligonucleotide primer (5′-CCATCTCATCCCTGCGTGTCTCCGACTCAG XXXXXXXXXX GATGTGGCACAACAACTGGCGGGCAAAC-3′, 12 pmol) to separate amplification reactions (40 μL).

    Article Title: Absence of XMRV Retrovirus and Other Murine Leukemia Virus-Related Viruses in Patients with Chronic Fatigue Syndrome ▿Absence of XMRV Retrovirus and Other Murine Leukemia Virus-Related Viruses in Patients with Chronic Fatigue Syndrome ▿ ¶
    Article Snippet: Even though extraction and amplification controls (1 per 7 samples) were consistently negative, we suspected that contamination of a PCR reagent might cause the lack of reproducibility and the consistent positivity rate of 5%. .. We discovered that both recombinant Taq polymerase (Invitrogen) and the Platinum Taq polymerase (Invitrogen) tested positive for IAP sequences.

    Article Title: Novel thermostable Y-family polymerases: applications for the PCR amplification of damaged or ancient DNAs
    Article Snippet: Paragraph title: PCR amplification and detection of Alu sequences ... The 25 µl reaction contained 1× Reaction Buffer (40 mM Tris–HCl, pH 8.0, 10 mM DTT, 60 mM KCl and 2.5% glycerol), 2.5 µM dNTPs, 2.5 U Taq Gold DNA Polymerase (Applied Biosystems, Foster City, CA), 3 mM MgCl2 , 20 pmol each of the forward and reverse primers, and 100 nM Dpo4, if applicable.

    Article Title: rpoB Gene Analysis as a Novel Strategy for Identification of Spirochetes from the Genera Borrelia, Treponema, and Leptospira
    Article Snippet: .. Amplification of rpoB fragments was carried out by using the LTB primers listed in Table (3.2 pmol each) added to a 50-μl PCR mix containing 10 mM dNTP, 1 U of Taq polymerase (Gibco BRL), and 2 μl of DNA extract. ..

    Article Title: Activation of alternative Jdp2 promoters and functional protein isoforms in T-cell lymphomas by retroviral insertion mutagenesis
    Article Snippet: To look for alternative splicing between published exons 1a through 1d, PCR reactions were done with forward primers Exon1a-154 (5′-tgggcaccgcgcctgcagcag-3′), Exon1b-148 (5′-ggaggagcgcgagcat-3′), Exon1c-70 (5′-gctctggctgggttaggagggaac-3′) or Exon1d-150 (5′-cagctgcctctctccatctt-3′) and reverse primer Intron2-87 (5′-tccttcgctcttcttcctcgtctagctt-3′) using 1/500 of the cDNA (corresponding to 4 ng of total RNA) per PCR reaction (Taq polymerase, Invitrogen). .. Each PCR reaction consisted of an initial melting step at 95°C for 5 min followed by 35 cycles of amplification, each consisting of a 30 s melting step at 95°C, annealing at 55–60°C for 30 s and elongation at 72°C for 45 s. A final elongation step at 72°C was done for 10 min. Quantitative real-time PCR (QRT-PCR) was done using Platinum SYBR Green QRT-PCR SuperMix UDG (Invitrogen) following the manufacturer's recommendations.

    Article Title: A Simple Strain Typing Assay for Trypanosoma cruzi: Discrimination of Major Evolutionary Lineages from a Single Amplification Product
    Article Snippet: .. PCR amplification was performed using Taq polymerase (Invitrogen) in a Biometra T Professional Gradient 96 cycler. .. Amplification mixtures contained 10 pmol of each primer, PCR buffer (Invitrogen), 1.6 mM MgCl2 , 100 ng of genomic DNA, 200 µM dNTPs, 2.5 U Taq polymerase (Invitrogen), and water to a final volume of 25 µl.

    Synthesized:

    Article Title: rpoB Gene Analysis as a Novel Strategy for Identification of Spirochetes from the Genera Borrelia, Treponema, and Leptospira
    Article Snippet: Oligonucleotide primers were synthesized in our laboratory (392 DNA/RNA Synthesizer; Perkin-Elmer). .. Amplification of rpoB fragments was carried out by using the LTB primers listed in Table (3.2 pmol each) added to a 50-μl PCR mix containing 10 mM dNTP, 1 U of Taq polymerase (Gibco BRL), and 2 μl of DNA extract.

    Quantitative RT-PCR:

    Article Title: Activation of alternative Jdp2 promoters and functional protein isoforms in T-cell lymphomas by retroviral insertion mutagenesis
    Article Snippet: To look for alternative splicing between published exons 1a through 1d, PCR reactions were done with forward primers Exon1a-154 (5′-tgggcaccgcgcctgcagcag-3′), Exon1b-148 (5′-ggaggagcgcgagcat-3′), Exon1c-70 (5′-gctctggctgggttaggagggaac-3′) or Exon1d-150 (5′-cagctgcctctctccatctt-3′) and reverse primer Intron2-87 (5′-tccttcgctcttcttcctcgtctagctt-3′) using 1/500 of the cDNA (corresponding to 4 ng of total RNA) per PCR reaction (Taq polymerase, Invitrogen). .. Each PCR reaction consisted of an initial melting step at 95°C for 5 min followed by 35 cycles of amplification, each consisting of a 30 s melting step at 95°C, annealing at 55–60°C for 30 s and elongation at 72°C for 45 s. A final elongation step at 72°C was done for 10 min. Quantitative real-time PCR (QRT-PCR) was done using Platinum SYBR Green QRT-PCR SuperMix UDG (Invitrogen) following the manufacturer's recommendations.

    Real-time Polymerase Chain Reaction:

    Article Title: An Integrated Microfluidic Processor for DNA-Encoded Combinatorial Library Functional Screening
    Article Snippet: PBS was added to bead-occupied wells and template standard wells to equalize sorting-buffer volume (10 μL total). qPCR mixture contained Taq S3). .. PCR mixture contained Taq DNA polymerase (0.05 U/μL), oligonucleotide primer 5′-CCTCTCTATGGGCAGTCGGTGATGCCGCCCAGTCCTGCTCGCTTCGCTAC-3′ (0.3 μM), SYBR Green (0.2×, Life Technologies), DMSO (6%), betaine (1 M), MgCl2 (1 mM), and PCR buffer (1×).

    Article Title: Absence of XMRV Retrovirus and Other Murine Leukemia Virus-Related Viruses in Patients with Chronic Fatigue Syndrome ▿Absence of XMRV Retrovirus and Other Murine Leukemia Virus-Related Viruses in Patients with Chronic Fatigue Syndrome ▿ ¶
    Article Snippet: We next tested each component of the nested PCR using the IAP qPCR assay in replicates of 8. .. We discovered that both recombinant Taq polymerase (Invitrogen) and the Platinum Taq polymerase (Invitrogen) tested positive for IAP sequences.

    Article Title: Activation of alternative Jdp2 promoters and functional protein isoforms in T-cell lymphomas by retroviral insertion mutagenesis
    Article Snippet: Paragraph title: RT-PCR and quantitative real-time PCR ... To look for alternative splicing between published exons 1a through 1d, PCR reactions were done with forward primers Exon1a-154 (5′-tgggcaccgcgcctgcagcag-3′), Exon1b-148 (5′-ggaggagcgcgagcat-3′), Exon1c-70 (5′-gctctggctgggttaggagggaac-3′) or Exon1d-150 (5′-cagctgcctctctccatctt-3′) and reverse primer Intron2-87 (5′-tccttcgctcttcttcctcgtctagctt-3′) using 1/500 of the cDNA (corresponding to 4 ng of total RNA) per PCR reaction (Taq polymerase, Invitrogen).

    Quantitation Assay:

    Article Title: An Integrated Microfluidic Processor for DNA-Encoded Combinatorial Library Functional Screening
    Article Snippet: PCR mixture contained Taq DNA polymerase (0.05 U/μL), oligonucleotide primer 5′-CCTCTCTATGGGCAGTCGGTGATGCCGCCCAGTCCTGCTCGCTTCGCTAC-3′ (0.3 μM), SYBR Green (0.2×, Life Technologies), DMSO (6%), betaine (1 M), MgCl2 (1 mM), and PCR buffer (1×). .. Aliquots of barcoded amplicons with similar quantitation ( C q = 12.8 ± 0.2) were pooled (0.1, 0.35, 1.0, 3.5, 10.5, 35, 16.8 μL; 3, 10, 30, 100, 300, 1000, 3000 bead samples, respectively) and purified by native PAGE (6%, 1 × TBE, 4 W, 30 min) with SYBR Gold staining (Life Technologies).

    Activity Assay:

    Article Title: Data of self-made Taq DNA polymerase prepared for screening purposes
    Article Snippet: .. It corresponded to about 5 activity units of the Evrogen׳s enzyme (#PK013S) or to about 1 activity unit of the Thermo Fisher Scientific enzyme (#EP0402) ( ). .. 2.3 PCR analyses A common master mix was prepared to analyze all samples.

    Article Title: Conditional mutagenesis by oligonucleotide-mediated integration of loxP sites in zebrafish
    Article Snippet: Paragraph title: Testing CRISPR activity in injected embryos ... All PCR reactions were performed using either NEB 2X Taq Master Mix (M0270L), Thermo Scientific Taq (EP0402 and 2x PCR Master Mix Cat# AB-0575/DC), or Kapa 2G Fast ReadyMix +dye (Kapa Biosystems-KM5101).

    Expressing:

    Article Title: Diverse fates of uracilated HIV-1 DNA during infection of myeloid lineage cells
    Article Snippet: On-bead PCR was performed for 22 cycles with short Illumina primers (GSE76091) and Maxima Taq DNA polymerase (Invitrogen). .. Data files from this study have been deposited to the NCBI Gene Expression Omnibus (GEO; [ ]) under accession GSE76091.

    Hybridization:

    Article Title: Diverse fates of uracilated HIV-1 DNA during infection of myeloid lineage cells
    Article Snippet: Probes were isolated on Streptavidin Dynabeads (M-270; Invitrogen) to capture HIV DNA using Nimblegen SeqCap EZ Hybridization and Wash kit as indicated in the XGen lockdown probe protocol. .. On-bead PCR was performed for 22 cycles with short Illumina primers (GSE76091) and Maxima Taq DNA polymerase (Invitrogen).

    Infection:

    Article Title: Diverse fates of uracilated HIV-1 DNA during infection of myeloid lineage cells
    Article Snippet: HIV enrichment was performed using lockdown probes designed against the forward and reverse strand of the HIV construct used for infection, HIVNL4.3 (GSE76091). .. On-bead PCR was performed for 22 cycles with short Illumina primers (GSE76091) and Maxima Taq DNA polymerase (Invitrogen).

    Reverse Transcription Polymerase Chain Reaction:

    Article Title: Activation of alternative Jdp2 promoters and functional protein isoforms in T-cell lymphomas by retroviral insertion mutagenesis
    Article Snippet: Paragraph title: RT-PCR and quantitative real-time PCR ... To look for alternative splicing between published exons 1a through 1d, PCR reactions were done with forward primers Exon1a-154 (5′-tgggcaccgcgcctgcagcag-3′), Exon1b-148 (5′-ggaggagcgcgagcat-3′), Exon1c-70 (5′-gctctggctgggttaggagggaac-3′) or Exon1d-150 (5′-cagctgcctctctccatctt-3′) and reverse primer Intron2-87 (5′-tccttcgctcttcttcctcgtctagctt-3′) using 1/500 of the cDNA (corresponding to 4 ng of total RNA) per PCR reaction (Taq polymerase, Invitrogen).

    other:

    Article Title: Nucleoside Triphosphate Pool Asymmetry in Mammalian Mitochondria
    Article Snippet: DNA polymerase Klenow fragment was purchased from U. S. Biochemicals, and Taq polymerase was purchased from Fermentas Life Sciences.

    Polymerase Chain Reaction:

    Article Title: Detection and Identification of Leishmania DNA within Naturally Infected Sand Flies by Seminested PCR on Minicircle Kinetoplastic DNA
    Article Snippet: .. Standard PCR with primers LINR4 and LIN17 or LINR4 and LIN19 was carried out in a total of 100 μl containing 1× Taq polymerase buffer (GIBCO-BRL), 1.5 mM MgCl2 , 0.2 μM dNTPs, 1 μM LINR4, 1 μM LIN17 or LIN19, and 1.5 U of Taq polymerase (GIBCO-BRL). .. The reaction mixtures were incubated at 94°C for 5 min, followed by 40 cycles, each consisting of 30 s at 94°C, 30 s at 52°C (for LINR4 and LIN17) or 58°C (for LINR4 and LIN19), and 1 min at 72°C, and a final extension at 72°C for 10 min. Products were resolved as described above.

    Article Title: An Integrated Microfluidic Processor for DNA-Encoded Combinatorial Library Functional Screening
    Article Snippet: .. PCR mixture contained Taq DNA polymerase (0.05 U/μL), oligonucleotide primer 5′-CCTCTCTATGGGCAGTCGGTGATGCCGCCCAGTCCTGCTCGCTTCGCTAC-3′ (0.3 μM), SYBR Green (0.2×, Life Technologies), DMSO (6%), betaine (1 M), MgCl2 (1 mM), and PCR buffer (1×). .. Each amplicon dilution was added (2 μL, 1 μL, 0.5 μL) with a corresponding NGS barcode (XXXXXXXXXX) oligonucleotide primer (5′-CCATCTCATCCCTGCGTGTCTCCGACTCAG XXXXXXXXXX GATGTGGCACAACAACTGGCGGGCAAAC-3′, 12 pmol) to separate amplification reactions (40 μL).

    Article Title: Absence of XMRV Retrovirus and Other Murine Leukemia Virus-Related Viruses in Patients with Chronic Fatigue Syndrome ▿Absence of XMRV Retrovirus and Other Murine Leukemia Virus-Related Viruses in Patients with Chronic Fatigue Syndrome ▿ ¶
    Article Snippet: Even though extraction and amplification controls (1 per 7 samples) were consistently negative, we suspected that contamination of a PCR reagent might cause the lack of reproducibility and the consistent positivity rate of 5%. .. We discovered that both recombinant Taq polymerase (Invitrogen) and the Platinum Taq polymerase (Invitrogen) tested positive for IAP sequences.

    Article Title: Novel thermostable Y-family polymerases: applications for the PCR amplification of damaged or ancient DNAs
    Article Snippet: Paragraph title: PCR amplification and detection of Alu sequences ... The 25 µl reaction contained 1× Reaction Buffer (40 mM Tris–HCl, pH 8.0, 10 mM DTT, 60 mM KCl and 2.5% glycerol), 2.5 µM dNTPs, 2.5 U Taq Gold DNA Polymerase (Applied Biosystems, Foster City, CA), 3 mM MgCl2 , 20 pmol each of the forward and reverse primers, and 100 nM Dpo4, if applicable.

    Article Title: Data of self-made Taq DNA polymerase prepared for screening purposes
    Article Snippet: Usually one microliter of the working enzyme solution was sufficient for any PCR analysis. .. It corresponded to about 5 activity units of the Evrogen׳s enzyme (#PK013S) or to about 1 activity unit of the Thermo Fisher Scientific enzyme (#EP0402) ( ).

    Article Title: rpoB Gene Analysis as a Novel Strategy for Identification of Spirochetes from the Genera Borrelia, Treponema, and Leptospira
    Article Snippet: .. Amplification of rpoB fragments was carried out by using the LTB primers listed in Table (3.2 pmol each) added to a 50-μl PCR mix containing 10 mM dNTP, 1 U of Taq polymerase (Gibco BRL), and 2 μl of DNA extract. ..

    Article Title: Conditional mutagenesis by oligonucleotide-mediated integration of loxP sites in zebrafish
    Article Snippet: .. All PCR reactions were performed using either NEB 2X Taq Master Mix (M0270L), Thermo Scientific Taq (EP0402 and 2x PCR Master Mix Cat# AB-0575/DC), or Kapa 2G Fast ReadyMix +dye (Kapa Biosystems-KM5101). .. CRISPR activity was assessed by either direct sequencing of PCR amplicons, T7 assay (NEB M0302S), Surveyor assay (IDT 706025), or RFLP.

    Article Title: Hot Start PCR with heat-activatable primers: a novel approach for improved PCR performance
    Article Snippet: Primer extension with Taq DNA polymerase Primer extension experiments using recombinant Taq DNA polymerase (Invitrogen) were performed at 25°C using the OXP-modified forward primer and control PDE forward primer (5′-GAATTGGGTGTCAACATAGCAGAAT-3′). .. For each primer, a 30 μl mixture was prepared, which contained the primer at 5 μM and 1× PCR buffer [50 mM KCl, 2.5 mM MgCl2 , 10 mM Tris (pH 8.4 at 25°C)].

    Article Title: Activation of alternative Jdp2 promoters and functional protein isoforms in T-cell lymphomas by retroviral insertion mutagenesis
    Article Snippet: .. To look for alternative splicing between published exons 1a through 1d, PCR reactions were done with forward primers Exon1a-154 (5′-tgggcaccgcgcctgcagcag-3′), Exon1b-148 (5′-ggaggagcgcgagcat-3′), Exon1c-70 (5′-gctctggctgggttaggagggaac-3′) or Exon1d-150 (5′-cagctgcctctctccatctt-3′) and reverse primer Intron2-87 (5′-tccttcgctcttcttcctcgtctagctt-3′) using 1/500 of the cDNA (corresponding to 4 ng of total RNA) per PCR reaction (Taq polymerase, Invitrogen). .. Each PCR reaction consisted of an initial melting step at 95°C for 5 min followed by 35 cycles of amplification, each consisting of a 30 s melting step at 95°C, annealing at 55–60°C for 30 s and elongation at 72°C for 45 s. A final elongation step at 72°C was done for 10 min. Quantitative real-time PCR (QRT-PCR) was done using Platinum SYBR Green QRT-PCR SuperMix UDG (Invitrogen) following the manufacturer's recommendations.

    Article Title: Diverse fates of uracilated HIV-1 DNA during infection of myeloid lineage cells
    Article Snippet: .. On-bead PCR was performed for 22 cycles with short Illumina primers (GSE76091) and Maxima Taq DNA polymerase (Invitrogen). .. PCR products were purified with 1.9 × volumes of Ampure XP beads (Beckman Coulter, Brea, CA) and quantified with a Qubit fluorometer.

    Article Title: A Simple Strain Typing Assay for Trypanosoma cruzi: Discrimination of Major Evolutionary Lineages from a Single Amplification Product
    Article Snippet: .. PCR amplification was performed using Taq polymerase (Invitrogen) in a Biometra T Professional Gradient 96 cycler. .. Amplification mixtures contained 10 pmol of each primer, PCR buffer (Invitrogen), 1.6 mM MgCl2 , 100 ng of genomic DNA, 200 µM dNTPs, 2.5 U Taq polymerase (Invitrogen), and water to a final volume of 25 µl.

    Injection:

    Article Title: Conditional mutagenesis by oligonucleotide-mediated integration of loxP sites in zebrafish
    Article Snippet: Paragraph title: Testing CRISPR activity in injected embryos ... All PCR reactions were performed using either NEB 2X Taq Master Mix (M0270L), Thermo Scientific Taq (EP0402 and 2x PCR Master Mix Cat# AB-0575/DC), or Kapa 2G Fast ReadyMix +dye (Kapa Biosystems-KM5101).

    Recombinant:

    Article Title: Absence of XMRV Retrovirus and Other Murine Leukemia Virus-Related Viruses in Patients with Chronic Fatigue Syndrome ▿Absence of XMRV Retrovirus and Other Murine Leukemia Virus-Related Viruses in Patients with Chronic Fatigue Syndrome ▿ ¶
    Article Snippet: .. We discovered that both recombinant Taq polymerase (Invitrogen) and the Platinum Taq polymerase (Invitrogen) tested positive for IAP sequences. ..

    Article Title: Hot Start PCR with heat-activatable primers: a novel approach for improved PCR performance
    Article Snippet: .. Primer extension with Taq DNA polymerase Primer extension experiments using recombinant Taq DNA polymerase (Invitrogen) were performed at 25°C using the OXP-modified forward primer and control PDE forward primer (5′-GAATTGGGTGTCAACATAGCAGAAT-3′). .. For each primer, a 30 μl mixture was prepared, which contained the primer at 5 μM and 1× PCR buffer [50 mM KCl, 2.5 mM MgCl2 , 10 mM Tris (pH 8.4 at 25°C)].

    Staining:

    Article Title: An Integrated Microfluidic Processor for DNA-Encoded Combinatorial Library Functional Screening
    Article Snippet: PCR mixture contained Taq DNA polymerase (0.05 U/μL), oligonucleotide primer 5′-CCTCTCTATGGGCAGTCGGTGATGCCGCCCAGTCCTGCTCGCTTCGCTAC-3′ (0.3 μM), SYBR Green (0.2×, Life Technologies), DMSO (6%), betaine (1 M), MgCl2 (1 mM), and PCR buffer (1×). .. Aliquots of barcoded amplicons with similar quantitation ( C q = 12.8 ± 0.2) were pooled (0.1, 0.35, 1.0, 3.5, 10.5, 35, 16.8 μL; 3, 10, 30, 100, 300, 1000, 3000 bead samples, respectively) and purified by native PAGE (6%, 1 × TBE, 4 W, 30 min) with SYBR Gold staining (Life Technologies).

    Article Title: A Simple Strain Typing Assay for Trypanosoma cruzi: Discrimination of Major Evolutionary Lineages from a Single Amplification Product
    Article Snippet: PCR amplification was performed using Taq polymerase (Invitrogen) in a Biometra T Professional Gradient 96 cycler. .. Amplification products were checked in 1.2% agarose gels stained with ethidium bromide.

    DNA Extraction:

    Article Title: rpoB Gene Analysis as a Novel Strategy for Identification of Spirochetes from the Genera Borrelia, Treponema, and Leptospira
    Article Snippet: Amplification of rpoB fragments was carried out by using the LTB primers listed in Table (3.2 pmol each) added to a 50-μl PCR mix containing 10 mM dNTP, 1 U of Taq polymerase (Gibco BRL), and 2 μl of DNA extract. .. In addition, for each bacterial DNA extract, a 16S rRNA PCR was performed in order to ensure the quality of the DNA extraction.

    Isolation:

    Article Title: Activation of alternative Jdp2 promoters and functional protein isoforms in T-cell lymphomas by retroviral insertion mutagenesis
    Article Snippet: The integrity of the isolated RNA was assessed by visual inspection of the intensity of the 28S and 18S ribosomal bands on a non-denaturating ethidium-bromide-stained agarose gel. .. To look for alternative splicing between published exons 1a through 1d, PCR reactions were done with forward primers Exon1a-154 (5′-tgggcaccgcgcctgcagcag-3′), Exon1b-148 (5′-ggaggagcgcgagcat-3′), Exon1c-70 (5′-gctctggctgggttaggagggaac-3′) or Exon1d-150 (5′-cagctgcctctctccatctt-3′) and reverse primer Intron2-87 (5′-tccttcgctcttcttcctcgtctagctt-3′) using 1/500 of the cDNA (corresponding to 4 ng of total RNA) per PCR reaction (Taq polymerase, Invitrogen).

    Article Title: Diverse fates of uracilated HIV-1 DNA during infection of myeloid lineage cells
    Article Snippet: Probes were isolated on Streptavidin Dynabeads (M-270; Invitrogen) to capture HIV DNA using Nimblegen SeqCap EZ Hybridization and Wash kit as indicated in the XGen lockdown probe protocol. .. On-bead PCR was performed for 22 cycles with short Illumina primers (GSE76091) and Maxima Taq DNA polymerase (Invitrogen).

    Labeling:

    Article Title: Novel thermostable Y-family polymerases: applications for the PCR amplification of damaged or ancient DNAs
    Article Snippet: The 25 µl reaction contained 1× Reaction Buffer (40 mM Tris–HCl, pH 8.0, 10 mM DTT, 60 mM KCl and 2.5% glycerol), 2.5 µM dNTPs, 2.5 U Taq Gold DNA Polymerase (Applied Biosystems, Foster City, CA), 3 mM MgCl2 , 20 pmol each of the forward and reverse primers, and 100 nM Dpo4, if applicable. .. The forward primer was labeled at its 5′ end with the reactive fluorescent dye 6-carboxyfluorescein (6-FAM).

    Purification:

    Article Title: An Integrated Microfluidic Processor for DNA-Encoded Combinatorial Library Functional Screening
    Article Snippet: PCR mixture contained Taq DNA polymerase (0.05 U/μL), oligonucleotide primer 5′-CCTCTCTATGGGCAGTCGGTGATGCCGCCCAGTCCTGCTCGCTTCGCTAC-3′ (0.3 μM), SYBR Green (0.2×, Life Technologies), DMSO (6%), betaine (1 M), MgCl2 (1 mM), and PCR buffer (1×). .. Aliquots of barcoded amplicons with similar quantitation ( C q = 12.8 ± 0.2) were pooled (0.1, 0.35, 1.0, 3.5, 10.5, 35, 16.8 μL; 3, 10, 30, 100, 300, 1000, 3000 bead samples, respectively) and purified by native PAGE (6%, 1 × TBE, 4 W, 30 min) with SYBR Gold staining (Life Technologies).

    Article Title: rpoB Gene Analysis as a Novel Strategy for Identification of Spirochetes from the Genera Borrelia, Treponema, and Leptospira
    Article Snippet: Bacterial DNA was purified with a QIAamp tissue kit (Qiagen). .. Amplification of rpoB fragments was carried out by using the LTB primers listed in Table (3.2 pmol each) added to a 50-μl PCR mix containing 10 mM dNTP, 1 U of Taq polymerase (Gibco BRL), and 2 μl of DNA extract.

    Article Title: Diverse fates of uracilated HIV-1 DNA during infection of myeloid lineage cells
    Article Snippet: On-bead PCR was performed for 22 cycles with short Illumina primers (GSE76091) and Maxima Taq DNA polymerase (Invitrogen). .. PCR products were purified with 1.9 × volumes of Ampure XP beads (Beckman Coulter, Brea, CA) and quantified with a Qubit fluorometer.

    Sequencing:

    Article Title: An Integrated Microfluidic Processor for DNA-Encoded Combinatorial Library Functional Screening
    Article Snippet: Paragraph title: FACS-Based Bead Lot Preparation and Sequencing ... PCR mixture contained Taq DNA polymerase (0.05 U/μL), oligonucleotide primer 5′-CCTCTCTATGGGCAGTCGGTGATGCCGCCCAGTCCTGCTCGCTTCGCTAC-3′ (0.3 μM), SYBR Green (0.2×, Life Technologies), DMSO (6%), betaine (1 M), MgCl2 (1 mM), and PCR buffer (1×).

    Article Title: Absence of XMRV Retrovirus and Other Murine Leukemia Virus-Related Viruses in Patients with Chronic Fatigue Syndrome ▿Absence of XMRV Retrovirus and Other Murine Leukemia Virus-Related Viruses in Patients with Chronic Fatigue Syndrome ▿ ¶
    Article Snippet: Sequencing these products revealed MLV-related sequences with 95 to 100% similarity to sequences published previously ( ; data not shown). .. We discovered that both recombinant Taq polymerase (Invitrogen) and the Platinum Taq polymerase (Invitrogen) tested positive for IAP sequences.

    Article Title: Conditional mutagenesis by oligonucleotide-mediated integration of loxP sites in zebrafish
    Article Snippet: All PCR reactions were performed using either NEB 2X Taq Master Mix (M0270L), Thermo Scientific Taq (EP0402 and 2x PCR Master Mix Cat# AB-0575/DC), or Kapa 2G Fast ReadyMix +dye (Kapa Biosystems-KM5101). .. CRISPR activity was assessed by either direct sequencing of PCR amplicons, T7 assay (NEB M0302S), Surveyor assay (IDT 706025), or RFLP.

    Article Title: Diverse fates of uracilated HIV-1 DNA during infection of myeloid lineage cells
    Article Snippet: Paragraph title: Excision sequencing (Ex-seq) library preparation ... On-bead PCR was performed for 22 cycles with short Illumina primers (GSE76091) and Maxima Taq DNA polymerase (Invitrogen).

    Article Title: A Simple Strain Typing Assay for Trypanosoma cruzi: Discrimination of Major Evolutionary Lineages from a Single Amplification Product
    Article Snippet: Paragraph title: Oligonucleotides, PCR amplification, and sequencing ... PCR amplification was performed using Taq polymerase (Invitrogen) in a Biometra T Professional Gradient 96 cycler.

    Blocking Assay:

    Article Title: Diverse fates of uracilated HIV-1 DNA during infection of myeloid lineage cells
    Article Snippet: Briefly, libraries were mixed with 5 μg Cot-1 and XGen Blocking oligos and hybridized with the lockdown probes at 3 pmol total for 4 hr at 65°C. .. On-bead PCR was performed for 22 cycles with short Illumina primers (GSE76091) and Maxima Taq DNA polymerase (Invitrogen).

    CRISPR:

    Article Title: Conditional mutagenesis by oligonucleotide-mediated integration of loxP sites in zebrafish
    Article Snippet: Paragraph title: Testing CRISPR activity in injected embryos ... All PCR reactions were performed using either NEB 2X Taq Master Mix (M0270L), Thermo Scientific Taq (EP0402 and 2x PCR Master Mix Cat# AB-0575/DC), or Kapa 2G Fast ReadyMix +dye (Kapa Biosystems-KM5101).

    Nested PCR:

    Article Title: Absence of XMRV Retrovirus and Other Murine Leukemia Virus-Related Viruses in Patients with Chronic Fatigue Syndrome ▿Absence of XMRV Retrovirus and Other Murine Leukemia Virus-Related Viruses in Patients with Chronic Fatigue Syndrome ▿ ¶
    Article Snippet: Paragraph title: Mouse DNA is present in a reagent used in previously published nested-PCR assay. ... We discovered that both recombinant Taq polymerase (Invitrogen) and the Platinum Taq polymerase (Invitrogen) tested positive for IAP sequences.

    Software:

    Article Title: Activation of alternative Jdp2 promoters and functional protein isoforms in T-cell lymphomas by retroviral insertion mutagenesis
    Article Snippet: To look for alternative splicing between published exons 1a through 1d, PCR reactions were done with forward primers Exon1a-154 (5′-tgggcaccgcgcctgcagcag-3′), Exon1b-148 (5′-ggaggagcgcgagcat-3′), Exon1c-70 (5′-gctctggctgggttaggagggaac-3′) or Exon1d-150 (5′-cagctgcctctctccatctt-3′) and reverse primer Intron2-87 (5′-tccttcgctcttcttcctcgtctagctt-3′) using 1/500 of the cDNA (corresponding to 4 ng of total RNA) per PCR reaction (Taq polymerase, Invitrogen). .. Relative quantification was done with the Window-of-Linearity-based method applying LinReqPCR software (version 11) using an averaged amplification efficiency per amplicon per run ( ).

    SYBR Green Assay:

    Article Title: An Integrated Microfluidic Processor for DNA-Encoded Combinatorial Library Functional Screening
    Article Snippet: .. PCR mixture contained Taq DNA polymerase (0.05 U/μL), oligonucleotide primer 5′-CCTCTCTATGGGCAGTCGGTGATGCCGCCCAGTCCTGCTCGCTTCGCTAC-3′ (0.3 μM), SYBR Green (0.2×, Life Technologies), DMSO (6%), betaine (1 M), MgCl2 (1 mM), and PCR buffer (1×). .. Each amplicon dilution was added (2 μL, 1 μL, 0.5 μL) with a corresponding NGS barcode (XXXXXXXXXX) oligonucleotide primer (5′-CCATCTCATCCCTGCGTGTCTCCGACTCAG XXXXXXXXXX GATGTGGCACAACAACTGGCGGGCAAAC-3′, 12 pmol) to separate amplification reactions (40 μL).

    Article Title: Activation of alternative Jdp2 promoters and functional protein isoforms in T-cell lymphomas by retroviral insertion mutagenesis
    Article Snippet: To look for alternative splicing between published exons 1a through 1d, PCR reactions were done with forward primers Exon1a-154 (5′-tgggcaccgcgcctgcagcag-3′), Exon1b-148 (5′-ggaggagcgcgagcat-3′), Exon1c-70 (5′-gctctggctgggttaggagggaac-3′) or Exon1d-150 (5′-cagctgcctctctccatctt-3′) and reverse primer Intron2-87 (5′-tccttcgctcttcttcctcgtctagctt-3′) using 1/500 of the cDNA (corresponding to 4 ng of total RNA) per PCR reaction (Taq polymerase, Invitrogen). .. Each PCR reaction consisted of an initial melting step at 95°C for 5 min followed by 35 cycles of amplification, each consisting of a 30 s melting step at 95°C, annealing at 55–60°C for 30 s and elongation at 72°C for 45 s. A final elongation step at 72°C was done for 10 min. Quantitative real-time PCR (QRT-PCR) was done using Platinum SYBR Green QRT-PCR SuperMix UDG (Invitrogen) following the manufacturer's recommendations.

    Agarose Gel Electrophoresis:

    Article Title: Detection and Identification of Leishmania DNA within Naturally Infected Sand Flies by Seminested PCR on Minicircle Kinetoplastic DNA
    Article Snippet: Twenty microliters of the amplification reaction product was resolved in a 1.5% agarose gel and visualized under UV transillumination. .. Standard PCR with primers LINR4 and LIN17 or LINR4 and LIN19 was carried out in a total of 100 μl containing 1× Taq polymerase buffer (GIBCO-BRL), 1.5 mM MgCl2 , 0.2 μM dNTPs, 1 μM LINR4, 1 μM LIN17 or LIN19, and 1.5 U of Taq polymerase (GIBCO-BRL).

    Article Title: Activation of alternative Jdp2 promoters and functional protein isoforms in T-cell lymphomas by retroviral insertion mutagenesis
    Article Snippet: The integrity of the isolated RNA was assessed by visual inspection of the intensity of the 28S and 18S ribosomal bands on a non-denaturating ethidium-bromide-stained agarose gel. .. To look for alternative splicing between published exons 1a through 1d, PCR reactions were done with forward primers Exon1a-154 (5′-tgggcaccgcgcctgcagcag-3′), Exon1b-148 (5′-ggaggagcgcgagcat-3′), Exon1c-70 (5′-gctctggctgggttaggagggaac-3′) or Exon1d-150 (5′-cagctgcctctctccatctt-3′) and reverse primer Intron2-87 (5′-tccttcgctcttcttcctcgtctagctt-3′) using 1/500 of the cDNA (corresponding to 4 ng of total RNA) per PCR reaction (Taq polymerase, Invitrogen).

    Next-Generation Sequencing:

    Article Title: An Integrated Microfluidic Processor for DNA-Encoded Combinatorial Library Functional Screening
    Article Snippet: PCR mixture contained Taq DNA polymerase (0.05 U/μL), oligonucleotide primer 5′-CCTCTCTATGGGCAGTCGGTGATGCCGCCCAGTCCTGCTCGCTTCGCTAC-3′ (0.3 μM), SYBR Green (0.2×, Life Technologies), DMSO (6%), betaine (1 M), MgCl2 (1 mM), and PCR buffer (1×). .. Each amplicon dilution was added (2 μL, 1 μL, 0.5 μL) with a corresponding NGS barcode (XXXXXXXXXX) oligonucleotide primer (5′-CCATCTCATCCCTGCGTGTCTCCGACTCAG XXXXXXXXXX GATGTGGCACAACAACTGGCGGGCAAAC-3′, 12 pmol) to separate amplification reactions (40 μL).

    Incubation:

    Article Title: Detection and Identification of Leishmania DNA within Naturally Infected Sand Flies by Seminested PCR on Minicircle Kinetoplastic DNA
    Article Snippet: The mixture was incubated in a Perkin-Elmer thermocycler (GeneAmp PCR System 9600) at 94°C for 5 min followed by 17 cycles, each consisting of 30 s at 94°C, 30 s at 52°C, and 30 s at 72°C. .. Standard PCR with primers LINR4 and LIN17 or LINR4 and LIN19 was carried out in a total of 100 μl containing 1× Taq polymerase buffer (GIBCO-BRL), 1.5 mM MgCl2 , 0.2 μM dNTPs, 1 μM LINR4, 1 μM LIN17 or LIN19, and 1.5 U of Taq polymerase (GIBCO-BRL).

    Article Title: A Simple Strain Typing Assay for Trypanosoma cruzi: Discrimination of Major Evolutionary Lineages from a Single Amplification Product
    Article Snippet: PCR amplification was performed using Taq polymerase (Invitrogen) in a Biometra T Professional Gradient 96 cycler. .. After denaturing at 94 for 4.5 min, thermal cycling was performed for 35 cycles at 94 for 30 s, followed by 30 s at 58, followed by 72 for 30 s. Reactions were finished by a 5 min incubation at 72.

    Produced:

    Article Title: Absence of XMRV Retrovirus and Other Murine Leukemia Virus-Related Viruses in Patients with Chronic Fatigue Syndrome ▿Absence of XMRV Retrovirus and Other Murine Leukemia Virus-Related Viruses in Patients with Chronic Fatigue Syndrome ▿ ¶
    Article Snippet: We tested 36 replicates of genomic DNA from uninfected LNCaP cells with the nested PCR and found that 2 produced a positive result ( C, a subset of the data). .. We discovered that both recombinant Taq polymerase (Invitrogen) and the Platinum Taq polymerase (Invitrogen) tested positive for IAP sequences.

    Concentration Assay:

    Article Title: Detection and Identification of Leishmania DNA within Naturally Infected Sand Flies by Seminested PCR on Minicircle Kinetoplastic DNA
    Article Snippet: The seminested amplification was carried out, with the addition of a 90-μl solution containing buffer, MgCl2 , dNTPs, and Taq polymerase as described above for the first round, and LIN19 to a final concentration of 1 μM, for 33 cycles (94°C for 30 s, 58°C for 30 s, and 72°C for 1 min). .. Standard PCR with primers LINR4 and LIN17 or LINR4 and LIN19 was carried out in a total of 100 μl containing 1× Taq polymerase buffer (GIBCO-BRL), 1.5 mM MgCl2 , 0.2 μM dNTPs, 1 μM LINR4, 1 μM LIN17 or LIN19, and 1.5 U of Taq polymerase (GIBCO-BRL).

    Construct:

    Article Title: Diverse fates of uracilated HIV-1 DNA during infection of myeloid lineage cells
    Article Snippet: HIV enrichment was performed using lockdown probes designed against the forward and reverse strand of the HIV construct used for infection, HIVNL4.3 (GSE76091). .. On-bead PCR was performed for 22 cycles with short Illumina primers (GSE76091) and Maxima Taq DNA polymerase (Invitrogen).

    FACS:

    Article Title: An Integrated Microfluidic Processor for DNA-Encoded Combinatorial Library Functional Screening
    Article Snippet: Paragraph title: FACS-Based Bead Lot Preparation and Sequencing ... PCR mixture contained Taq DNA polymerase (0.05 U/μL), oligonucleotide primer 5′-CCTCTCTATGGGCAGTCGGTGATGCCGCCCAGTCCTGCTCGCTTCGCTAC-3′ (0.3 μM), SYBR Green (0.2×, Life Technologies), DMSO (6%), betaine (1 M), MgCl2 (1 mM), and PCR buffer (1×).

    Clear Native PAGE:

    Article Title: An Integrated Microfluidic Processor for DNA-Encoded Combinatorial Library Functional Screening
    Article Snippet: PCR mixture contained Taq DNA polymerase (0.05 U/μL), oligonucleotide primer 5′-CCTCTCTATGGGCAGTCGGTGATGCCGCCCAGTCCTGCTCGCTTCGCTAC-3′ (0.3 μM), SYBR Green (0.2×, Life Technologies), DMSO (6%), betaine (1 M), MgCl2 (1 mM), and PCR buffer (1×). .. Aliquots of barcoded amplicons with similar quantitation ( C q = 12.8 ± 0.2) were pooled (0.1, 0.35, 1.0, 3.5, 10.5, 35, 16.8 μL; 3, 10, 30, 100, 300, 1000, 3000 bead samples, respectively) and purified by native PAGE (6%, 1 × TBE, 4 W, 30 min) with SYBR Gold staining (Life Technologies).