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    New England Biolabs phusion high fidelity dna polymerase
    The median CEL intensities for each amplicon obtained by using Stoffel <t>DNA</t> polymerase and <t>Phusion</t> DNA polymerase in the gap-fill reaction are plotted against each other. The CEL intensities that were
    Phusion High Fidelity Dna Polymerase, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 42737 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/phusion high fidelity dna polymerase/product/New England Biolabs
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    Thermo Fisher phusion high fidelity dna polymerase
    Proportion of correct reads for the three genetic systems (simple: a single allele per individual, squares ; medium: two alleles, circles ; and complex: multiple alleles, triangles ) using standard PCR conditions ( open ) and modified PCR conditions to reduce chimera formation ( gray ). The size of the shape is indicative of the number of reads (see legend). All enzymes yielded at least 50% correct reads in the simplest system, mitochondrial <t>DNA</t> (Test 1; open squares). Some enzymes only worked for a given set of conditions (cycling conditions/genetic system). A group of enzymes consisting of <t>Phusion,</t> Gold and FastStart yielded a high proportion of correct reads cosistently accross all conditions. Others, such as Roche Taq, HotStar and Biotaq, yielded a low percent of correct reads for the more complex systems (MHC class I and MHC class II). Abbreviations as defined in Table 1 .
    Phusion High Fidelity Dna Polymerase, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 18978 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/phusion high fidelity dna polymerase/product/Thermo Fisher
    Average 99 stars, based on 18978 article reviews
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    99
    Thermo Fisher phusion hot start ii high fidelity dna polymerase
    Clustering of samples amplified with two different polymerases on a non-metric multidimensional scaling (NMDS) plot of the Bray-Curtis dissimilarities. Points are colored by applied extraction kit. The encircled pairs correspond to a single sample where each data point represents one 16 S rRNA amplification with <t>Phusion</t> Hot Start II High-Fidelity <t>DNA</t> Polymerase and the another with Platinum SuperFi DNA Polymerase. Sample pairs labeled with * were stored in PBS.
    Phusion Hot Start Ii High Fidelity Dna Polymerase, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 2108 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/phusion hot start ii high fidelity dna polymerase/product/Thermo Fisher
    Average 99 stars, based on 2108 article reviews
    Price from $9.99 to $1999.99
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    Thermo Fisher phusion hot start high fidelity dna polymerase
    LINE-1 insertion in intron 2 of AHR in Irish Wolfhounds. Southern blot analysis (A) with HindIII (lanes 1–4) and PstI (lanes 5–8) digested genomic <t>DNA.</t> Digestion with HindIII resulted in an increase in size of about 2000 bp in Irish wolfhounds (lanes 1 and 2) compared to healthy beagles (lanes 3 and 4). Using PstI as restriction enzyme results in a small increase in size of approximately 400 bp in Irish wolfhounds (lanes 5 and 6) compared to healthy beagles (lanes 7 and 8). The observed size differences are smaller than the actual rearrangement due to the presence of restriction enzyme sites in the rearranged DNA fragment. Gel electrophoresis of PCR products (B) with forward primer in exon 2 and reverse primer downstream intron 2. The use of <t>Phusion</t> ™ Hot Start High-Fidelity DNA Polymerase in combination with GC-buffer was required to amplify this fragment. An increase in intron size was detected in all used gDNA samples of Irish wolfhounds. Lane 1∶1 kb DNA ladder (Promega, Leiden, the Netherlands); 2: normal control; 3–5: genomic DNA of Irish wolfhounds; 6: negative control; 7∶100 bp DNA ladder (Promega). A 6298 bp long LINE-1 insertion named L1-Y_CF (C) is located 63 bp downstream of exon2. It contains a 13 bp long duplication site specific for LINE-1 insertions. In both open reading frames of this retrotransposon deletions were detected causing frame shifts and premature stop codons. Restriction sites were found for HindIII at 1908 bp and for PstI at 447 bp.
    Phusion Hot Start High Fidelity Dna Polymerase, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 1266 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/phusion hot start high fidelity dna polymerase/product/Thermo Fisher
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    Thermo Fisher high fidelity phusion dna polymerase
    <t>DNA</t> methylation profiles in the <t>CX3CR1</t> gene promoter are different in IL-7Rα low and high effector memory CD8 + T cells
    High Fidelity Phusion Dna Polymerase, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 941 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/high fidelity phusion dna polymerase/product/Thermo Fisher
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    high fidelity phusion dna polymerase - by Bioz Stars, 2020-09
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    New England Biolabs phusion hot start high fidelity dna polymerase
    <t>DNA</t> methylation profiles in the <t>CX3CR1</t> gene promoter are different in IL-7Rα low and high effector memory CD8 + T cells
    Phusion Hot Start High Fidelity Dna Polymerase, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 665 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/phusion hot start high fidelity dna polymerase/product/New England Biolabs
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    Fisher Scientific phusion high fidelity dna polymerase
    <t>DNA</t> methylation profiles in the <t>CX3CR1</t> gene promoter are different in IL-7Rα low and high effector memory CD8 + T cells
    Phusion High Fidelity Dna Polymerase, supplied by Fisher Scientific, used in various techniques. Bioz Stars score: 92/100, based on 180 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Image Search Results


    The median CEL intensities for each amplicon obtained by using Stoffel DNA polymerase and Phusion DNA polymerase in the gap-fill reaction are plotted against each other. The CEL intensities that were

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

    Article Title: A comprehensive assay for targeted multiplex amplification of human DNA sequences

    doi: 10.1073/pnas.0803240105

    Figure Lengend Snippet: The median CEL intensities for each amplicon obtained by using Stoffel DNA polymerase and Phusion DNA polymerase in the gap-fill reaction are plotted against each other. The CEL intensities that were

    Article Snippet: The extension was performed by addition of 0.4 units of Phusion High-Fidelity DNA Polymerase (New England Biolabs), 3 μl 1.0 mM dNTP, 5 units Ampligase (Epicenter Biotechnologies) in a 15-μl volume at 60°C for 15 min followed by 72°C for 15 min.

    Techniques: Amplification

    Polyacrylamide gel electrophoresis (PAGE) electrophoresis of the polymerase–endonuclease amplification reaction (PEAR) products. Lowercase letters (agct) represents unmodified dNTPs; uppercase letters (AGCT) represent modified dNTPs (2′-F-dNTPs or dNTPαSs). (A) PEAR by Phusion DNA polymerase using unmodified dNTPs, 2′-F-modified dATP and dGTP, respectively. Lane 1: 10-bp DNA ladder; lane 2: normal dNTPs; lane 3: 2′-F-dATP modified PEAR products; lane 4: control without PspGI; lane 5: control without Phusion DNA polymerase; lane 6: control without dATP; lane 7: 10-bp DNA ladder; lane 8: 2′-F-dGTP modified PEAR products; lane 9: control without PspGI; lane 10 : control without Phusion DNA polymerase; lane 11: control without dGTP. (B) PEAR by Phusion DNA polymerase using 2′-F-dCTP and 2′-F-dUTP. Lane 1: 2′-F-dCTP modified PEAR products; lane 2: control without PspGI; lane 3: control without Phusion DNA polymerase; lane 4: control without dCTP; lane 5: 10-bp DNA ladder; lane 6: 2′-F-dUTP modified PEAR products; lane 7: control without PspGI; lane 8: control without Phusion DNA polymerase; lane 9: control without dUTP; lane 10: 10-bp DNA ladder. (C) 2′-F-dATP and 2′-F-dGTP modified PEAR products as “seeds” for PEAR. Lane 1: 10-bp DNA ladder; lane 2: control without PspGI; lane 3: using 2′-F-dATP modified PEAR products as “seeds” for PEAR; lane 4: control without PspGI; lane 5: using 2′-F-dGTP modified PEAR products as seeds for PEAR. (D) 2′-F-dATP and 2′-F-dGTP modified PEAR products using KOD DNA polymerase. Lane 1: 2′-F-dATP modified PEAR products; lane 2: control without PspGI; lane 3: control without KOD DNA polymerase; lane 4: control without 2′-F-dATP; lane 5: 10-bp DNA ladder; lane 6: 2′-F-dGTP modified PEAR products; lane 7: control without PspGI; lane 8: control without KOD DNA polymerase ; lane 9: control without 2′-F-dGTP; lane 10: 10-bp DNA ladder. (E) PEAR amplification of 2′-F-dCTP and 2′-F-dUTP modified products using KOD DNA polymerase. Lane 1: 2′-F-dCTP modified PEAR products; lane 2: control without PspGI; lane 3: control without KOD DNA polymerase; lane 4: control without dCTP; lane 5: 10-bp DNA ladder; lane 6: 2′-F-dUTP modified PEAR products; lane 7: control without PspGI; lane 8: control without KOD DNA polymerase; lane 9: control without dUTP; lane 10: 10-bp DNA ladder. (F) PEAR amplification of dTTPαS modified and 2′-F-dATP+dGTPαS double modified PEAR products using KOD DNA polymerase. Lane 1: dTTPαS modified PEAR products; lane 2: control without PspGI; lane 3: control without KOD DNA polymerase; lane 4: control without dTTPαS; lane 5: 20 bp DNA ladder; lane 6: 2′-F-dATP and dGTPαS double modified PEAR amplified products; lane 7: control without PspGI; lane 8: control without KOD DNA polymerase; lane 9: control without 2′-F-dATP and dGTPαS; lane 10: 20-bp DNA ladder. (G) PEAR amplification of 2′-F-dATP+dCTPαS double modified and 2′-F-dATP+dTTPαS double modified PEAR products using KOD DNA polymerase. Lane 1: 2′-F-dATP+dCTPαS double modified PEAR products; lane 2: control without PspGI; lane 3: control without KOD DNA polymerase; lane 4: control without 2′-F-dATP and dCTPαS; lane 5: 20-bp DNA ladder; lane 6: 2′-F-dATP+dTTPαS double modified PEAR amplified products; lane 7: control without PspGI; lane 8: control without KOD DNA polymerase; lane 9: control without 2′-F-dGTP and dTTPαS; lane 10: 20-bp DNA ladder.

    Journal: Nucleic Acid Therapeutics

    Article Title: Enzymatic Synthesis of Modified Oligonucleotides by PEAR Using Phusion and KOD DNA Polymerases

    doi: 10.1089/nat.2014.0513

    Figure Lengend Snippet: Polyacrylamide gel electrophoresis (PAGE) electrophoresis of the polymerase–endonuclease amplification reaction (PEAR) products. Lowercase letters (agct) represents unmodified dNTPs; uppercase letters (AGCT) represent modified dNTPs (2′-F-dNTPs or dNTPαSs). (A) PEAR by Phusion DNA polymerase using unmodified dNTPs, 2′-F-modified dATP and dGTP, respectively. Lane 1: 10-bp DNA ladder; lane 2: normal dNTPs; lane 3: 2′-F-dATP modified PEAR products; lane 4: control without PspGI; lane 5: control without Phusion DNA polymerase; lane 6: control without dATP; lane 7: 10-bp DNA ladder; lane 8: 2′-F-dGTP modified PEAR products; lane 9: control without PspGI; lane 10 : control without Phusion DNA polymerase; lane 11: control without dGTP. (B) PEAR by Phusion DNA polymerase using 2′-F-dCTP and 2′-F-dUTP. Lane 1: 2′-F-dCTP modified PEAR products; lane 2: control without PspGI; lane 3: control without Phusion DNA polymerase; lane 4: control without dCTP; lane 5: 10-bp DNA ladder; lane 6: 2′-F-dUTP modified PEAR products; lane 7: control without PspGI; lane 8: control without Phusion DNA polymerase; lane 9: control without dUTP; lane 10: 10-bp DNA ladder. (C) 2′-F-dATP and 2′-F-dGTP modified PEAR products as “seeds” for PEAR. Lane 1: 10-bp DNA ladder; lane 2: control without PspGI; lane 3: using 2′-F-dATP modified PEAR products as “seeds” for PEAR; lane 4: control without PspGI; lane 5: using 2′-F-dGTP modified PEAR products as seeds for PEAR. (D) 2′-F-dATP and 2′-F-dGTP modified PEAR products using KOD DNA polymerase. Lane 1: 2′-F-dATP modified PEAR products; lane 2: control without PspGI; lane 3: control without KOD DNA polymerase; lane 4: control without 2′-F-dATP; lane 5: 10-bp DNA ladder; lane 6: 2′-F-dGTP modified PEAR products; lane 7: control without PspGI; lane 8: control without KOD DNA polymerase ; lane 9: control without 2′-F-dGTP; lane 10: 10-bp DNA ladder. (E) PEAR amplification of 2′-F-dCTP and 2′-F-dUTP modified products using KOD DNA polymerase. Lane 1: 2′-F-dCTP modified PEAR products; lane 2: control without PspGI; lane 3: control without KOD DNA polymerase; lane 4: control without dCTP; lane 5: 10-bp DNA ladder; lane 6: 2′-F-dUTP modified PEAR products; lane 7: control without PspGI; lane 8: control without KOD DNA polymerase; lane 9: control without dUTP; lane 10: 10-bp DNA ladder. (F) PEAR amplification of dTTPαS modified and 2′-F-dATP+dGTPαS double modified PEAR products using KOD DNA polymerase. Lane 1: dTTPαS modified PEAR products; lane 2: control without PspGI; lane 3: control without KOD DNA polymerase; lane 4: control without dTTPαS; lane 5: 20 bp DNA ladder; lane 6: 2′-F-dATP and dGTPαS double modified PEAR amplified products; lane 7: control without PspGI; lane 8: control without KOD DNA polymerase; lane 9: control without 2′-F-dATP and dGTPαS; lane 10: 20-bp DNA ladder. (G) PEAR amplification of 2′-F-dATP+dCTPαS double modified and 2′-F-dATP+dTTPαS double modified PEAR products using KOD DNA polymerase. Lane 1: 2′-F-dATP+dCTPαS double modified PEAR products; lane 2: control without PspGI; lane 3: control without KOD DNA polymerase; lane 4: control without 2′-F-dATP and dCTPαS; lane 5: 20-bp DNA ladder; lane 6: 2′-F-dATP+dTTPαS double modified PEAR amplified products; lane 7: control without PspGI; lane 8: control without KOD DNA polymerase; lane 9: control without 2′-F-dGTP and dTTPαS; lane 10: 20-bp DNA ladder.

    Article Snippet: Four 2′-fluoro-2′-deoxyribinucleoside-5′-triphosphates (2′-F-dNTPs), including 2′-F-dATP, 2′-F-dCTP, 2′-F-dGTP, 2′-F-dUTP and four 2′-deoxyribonucleotides-5′-O-(1-thiotriphosphate) (dNTPαSs), including dATPαS, dGTPαS, dCTPαS, and dTTPαS, whose structural formula are shown in , were purchased from Trilink BioTechnologies, Inc. KOD DNA polymerase was purchased from TOYOBO (Shanghai) Biotech Co., Ltd. Phusion DNA polymerase, highly thermostable restriction enzyme PspGI, and dNTPs were purchased from New England Biolabs, Inc. UNIQ-10 Spin Column Oligo DNA Purification Kit was purchased from Sangon Biotech (Shanghai) Co., Ltd.

    Techniques: Polyacrylamide Gel Electrophoresis, Electrophoresis, Amplification, Modification

    mRNA of traA gene analysis. (A) Northern hybridization for traA mRNA and 16S rRNA using the total RNA of LKG/pASK-IBA3plus; left, Anc(C)/pASK-IBA3plus; middle, M54(C)/pASK-IBA3plus; right. The upper and lower figures are X-ray films of traA mRNA and 16S rRNA, respectively. The asterisks (*) indicate the three signals (one weak and two strong). (B) RT-PCR for Anc(C)/pASK-IBA3plus to determine the 5′- and 3′-terminal sequences of traA mRNA. Lambda DNA digested with Sty I was used as a molecular size marker; lane M. RT-PCR products for determination of the 5′-terminus. The three bands were designated as (i), (ii), and (iii), respectively; lane 1. RT-PCR products for determination of the 3′-terminus. The two bands were designated as (iv) and (v), respectively; lane 2. (C) Schematic representations of the start and end positions of traA mRNA. The vertical lines represent the positions of 5′- and 3′-terminal sequences of (i)–(v) shown in (B) . The gray and black boxes represent the positions of traA_r2 and traA_f primer annealing sites in RT-PCR. The arrow represents the position of the traA1 probe annealing site for Northern hybridization.

    Journal: Frontiers in Microbiology

    Article Title: Characterization of a single mutation in TraQ in a strain of Escherichia coli partially resistant to Qβ infection

    doi: 10.3389/fmicb.2015.00124

    Figure Lengend Snippet: mRNA of traA gene analysis. (A) Northern hybridization for traA mRNA and 16S rRNA using the total RNA of LKG/pASK-IBA3plus; left, Anc(C)/pASK-IBA3plus; middle, M54(C)/pASK-IBA3plus; right. The upper and lower figures are X-ray films of traA mRNA and 16S rRNA, respectively. The asterisks (*) indicate the three signals (one weak and two strong). (B) RT-PCR for Anc(C)/pASK-IBA3plus to determine the 5′- and 3′-terminal sequences of traA mRNA. Lambda DNA digested with Sty I was used as a molecular size marker; lane M. RT-PCR products for determination of the 5′-terminus. The three bands were designated as (i), (ii), and (iii), respectively; lane 1. RT-PCR products for determination of the 3′-terminus. The two bands were designated as (iv) and (v), respectively; lane 2. (C) Schematic representations of the start and end positions of traA mRNA. The vertical lines represent the positions of 5′- and 3′-terminal sequences of (i)–(v) shown in (B) . The gray and black boxes represent the positions of traA_r2 and traA_f primer annealing sites in RT-PCR. The arrow represents the position of the traA1 probe annealing site for Northern hybridization.

    Article Snippet: DNA SEQUENCING OF THE traQ GENE OF ANCESTRAL AND PARTIALLY RESISTANT E. coli To determine the traQ gene sequneces of Anc(C) and M54(C), the traQ region in 10 colonies each of Anc(C) and M54(C) was amplified by PCR with the primers F_4f_2 and F_4r_2 and Phusion®; High-Fidelity DNA polymerase (New England BioLabs), and PCR products were directly sequenced by the dideoxynucleotide chain termination sequencing method ( ).

    Techniques: Northern Blot, Hybridization, Reverse Transcription Polymerase Chain Reaction, Lambda DNA Preparation, Marker

    Proportion of correct reads for the three genetic systems (simple: a single allele per individual, squares ; medium: two alleles, circles ; and complex: multiple alleles, triangles ) using standard PCR conditions ( open ) and modified PCR conditions to reduce chimera formation ( gray ). The size of the shape is indicative of the number of reads (see legend). All enzymes yielded at least 50% correct reads in the simplest system, mitochondrial DNA (Test 1; open squares). Some enzymes only worked for a given set of conditions (cycling conditions/genetic system). A group of enzymes consisting of Phusion, Gold and FastStart yielded a high proportion of correct reads cosistently accross all conditions. Others, such as Roche Taq, HotStar and Biotaq, yielded a low percent of correct reads for the more complex systems (MHC class I and MHC class II). Abbreviations as defined in Table 1 .

    Journal: Scientific Reports

    Article Title: Effect of the enzyme and PCR conditions on the quality of high-throughput DNA sequencing results

    doi: 10.1038/srep08056

    Figure Lengend Snippet: Proportion of correct reads for the three genetic systems (simple: a single allele per individual, squares ; medium: two alleles, circles ; and complex: multiple alleles, triangles ) using standard PCR conditions ( open ) and modified PCR conditions to reduce chimera formation ( gray ). The size of the shape is indicative of the number of reads (see legend). All enzymes yielded at least 50% correct reads in the simplest system, mitochondrial DNA (Test 1; open squares). Some enzymes only worked for a given set of conditions (cycling conditions/genetic system). A group of enzymes consisting of Phusion, Gold and FastStart yielded a high proportion of correct reads cosistently accross all conditions. Others, such as Roche Taq, HotStar and Biotaq, yielded a low percent of correct reads for the more complex systems (MHC class I and MHC class II). Abbreviations as defined in Table 1 .

    Article Snippet: Taq polymerase A range of 13 high fidelity, regular, economy and premium Taq polymerase enzymes were selected: Biotaq® (Bioline, London, UK), FastStart® High Fidelity PCR System (Roche, Mannheim, Germany), AmpliTaq Gold® (Applied Biosystems, Warrington, UK), HotStarTaq® DNA Polymerase (Qiagen, Hilden, Gernamy), Phusion® High Fidelity DNA Polymerase (Finnzymes, Espoo, Finland), Taq DNA Polymerase (Roche, Maylan, France), i-MaxTM II DNA Polymerase (iNtRON Biotechnology, Seongnam, Korea), KAPA HiFi™ (Kapa Biosystems, Boston, USA), OneTaq ™ DNA Polymerase (New England Biolabs, Hitchin, UK), Vent® DNA Polymerase (New England Biolabs, Hitchin, UK), Deep Vent® DNA Polymerase (New England Biolabs, Hitchin, UK), Pwo® DNA Polymerase (Roche, Maylan, France) and Velocity DNA Polymerase (Bioline, London, UK) (abbreviated names in ).

    Techniques: Polymerase Chain Reaction, Modification

    ( A ) Template hybridization, extension, and denaturation on the flowcell surface. Templates are prepared so as to possess tails that are complementary to primers on the flowcell surface. This allows one end of a template strand to hybridize to a flowcell primer. Flowcell primers are extended by Phusion DNA polymerase (Thermo Scientific), resulting in a reverse complementary copy of the original template strand, which is covalently attached to the flowcell surface. The original template strand is then removed by flushing 0.1 M NaOH though the flowcell. ( B ) Cluster amplification. The free end of the tethered reverse complementary copy of the original template strand can anneal to the other type of flowcell primer, forming a bridge. The flowcell primer is extended by Bst polymerase, in an isothermal reaction, which generates a double-stranded product. Formamide is used to denature these strands, which can then anneal to other primers on the flowcell surface, which extend in the next cycle. In this way, repeated cycles of extension and denaturation result in a cluster of strands, all of which are derived from a single template strand.

    Journal: Current protocols in human genetics / editorial board, Jonathan L. Haines ... [et al.]

    Article Title: Improved Protocols for Illumina Sequencing

    doi: 10.1002/0471142905.hg1802s62

    Figure Lengend Snippet: ( A ) Template hybridization, extension, and denaturation on the flowcell surface. Templates are prepared so as to possess tails that are complementary to primers on the flowcell surface. This allows one end of a template strand to hybridize to a flowcell primer. Flowcell primers are extended by Phusion DNA polymerase (Thermo Scientific), resulting in a reverse complementary copy of the original template strand, which is covalently attached to the flowcell surface. The original template strand is then removed by flushing 0.1 M NaOH though the flowcell. ( B ) Cluster amplification. The free end of the tethered reverse complementary copy of the original template strand can anneal to the other type of flowcell primer, forming a bridge. The flowcell primer is extended by Bst polymerase, in an isothermal reaction, which generates a double-stranded product. Formamide is used to denature these strands, which can then anneal to other primers on the flowcell surface, which extend in the next cycle. In this way, repeated cycles of extension and denaturation result in a cluster of strands, all of which are derived from a single template strand.

    Article Snippet: Flowcell primers are extended, by Phusion DNA polymerase (Thermo Scientific), generating a reverse complementary copy of the original template strand that is tethered to the flowcell surface.

    Techniques: Hybridization, Amplification, Derivative Assay

    Clustering of samples amplified with two different polymerases on a non-metric multidimensional scaling (NMDS) plot of the Bray-Curtis dissimilarities. Points are colored by applied extraction kit. The encircled pairs correspond to a single sample where each data point represents one 16 S rRNA amplification with Phusion Hot Start II High-Fidelity DNA Polymerase and the another with Platinum SuperFi DNA Polymerase. Sample pairs labeled with * were stored in PBS.

    Journal: Scientific Reports

    Article Title: The impact of storage buffer, DNA extraction method, and polymerase on microbial analysis

    doi: 10.1038/s41598-018-24573-y

    Figure Lengend Snippet: Clustering of samples amplified with two different polymerases on a non-metric multidimensional scaling (NMDS) plot of the Bray-Curtis dissimilarities. Points are colored by applied extraction kit. The encircled pairs correspond to a single sample where each data point represents one 16 S rRNA amplification with Phusion Hot Start II High-Fidelity DNA Polymerase and the another with Platinum SuperFi DNA Polymerase. Sample pairs labeled with * were stored in PBS.

    Article Snippet: Platinum SuperFi DNA Polymerase (Thermo Fisher Scientific) and the Phusion Hot Start II High-Fidelity DNA Polymerase (Thermo Fisher Scientific) were both tested for amplification.

    Techniques: Amplification, Labeling

    LINE-1 insertion in intron 2 of AHR in Irish Wolfhounds. Southern blot analysis (A) with HindIII (lanes 1–4) and PstI (lanes 5–8) digested genomic DNA. Digestion with HindIII resulted in an increase in size of about 2000 bp in Irish wolfhounds (lanes 1 and 2) compared to healthy beagles (lanes 3 and 4). Using PstI as restriction enzyme results in a small increase in size of approximately 400 bp in Irish wolfhounds (lanes 5 and 6) compared to healthy beagles (lanes 7 and 8). The observed size differences are smaller than the actual rearrangement due to the presence of restriction enzyme sites in the rearranged DNA fragment. Gel electrophoresis of PCR products (B) with forward primer in exon 2 and reverse primer downstream intron 2. The use of Phusion ™ Hot Start High-Fidelity DNA Polymerase in combination with GC-buffer was required to amplify this fragment. An increase in intron size was detected in all used gDNA samples of Irish wolfhounds. Lane 1∶1 kb DNA ladder (Promega, Leiden, the Netherlands); 2: normal control; 3–5: genomic DNA of Irish wolfhounds; 6: negative control; 7∶100 bp DNA ladder (Promega). A 6298 bp long LINE-1 insertion named L1-Y_CF (C) is located 63 bp downstream of exon2. It contains a 13 bp long duplication site specific for LINE-1 insertions. In both open reading frames of this retrotransposon deletions were detected causing frame shifts and premature stop codons. Restriction sites were found for HindIII at 1908 bp and for PstI at 447 bp.

    Journal: PLoS ONE

    Article Title: Altered Subcellular Localization of Heat Shock Protein 90 Is Associated with Impaired Expression of the Aryl Hydrocarbon Receptor Pathway in Dogs

    doi: 10.1371/journal.pone.0057973

    Figure Lengend Snippet: LINE-1 insertion in intron 2 of AHR in Irish Wolfhounds. Southern blot analysis (A) with HindIII (lanes 1–4) and PstI (lanes 5–8) digested genomic DNA. Digestion with HindIII resulted in an increase in size of about 2000 bp in Irish wolfhounds (lanes 1 and 2) compared to healthy beagles (lanes 3 and 4). Using PstI as restriction enzyme results in a small increase in size of approximately 400 bp in Irish wolfhounds (lanes 5 and 6) compared to healthy beagles (lanes 7 and 8). The observed size differences are smaller than the actual rearrangement due to the presence of restriction enzyme sites in the rearranged DNA fragment. Gel electrophoresis of PCR products (B) with forward primer in exon 2 and reverse primer downstream intron 2. The use of Phusion ™ Hot Start High-Fidelity DNA Polymerase in combination with GC-buffer was required to amplify this fragment. An increase in intron size was detected in all used gDNA samples of Irish wolfhounds. Lane 1∶1 kb DNA ladder (Promega, Leiden, the Netherlands); 2: normal control; 3–5: genomic DNA of Irish wolfhounds; 6: negative control; 7∶100 bp DNA ladder (Promega). A 6298 bp long LINE-1 insertion named L1-Y_CF (C) is located 63 bp downstream of exon2. It contains a 13 bp long duplication site specific for LINE-1 insertions. In both open reading frames of this retrotransposon deletions were detected causing frame shifts and premature stop codons. Restriction sites were found for HindIII at 1908 bp and for PstI at 447 bp.

    Article Snippet: The thermal cycling protocol consisted of a 5-min denaturation step at 95°C, 35 cycles of 30 s at 95°C, 30 s at annealing temperature, 30 s at 72°C, and a final elongation step at 72°C for 10 min. For amplification of fragments exceeding 2000 bp, Phusion ™ Hot Start High-Fidelity DNA Polymerase (Thermo Scientific, Lafayette, US) was used.

    Techniques: Southern Blot, Nucleic Acid Electrophoresis, Polymerase Chain Reaction, Negative Control

    DNA methylation profiles in the CX3CR1 gene promoter are different in IL-7Rα low and high effector memory CD8 + T cells

    Journal: Journal of immunology (Baltimore, Md. : 1950)

    Article Title: DNA methylation regulates the differential expression of CX3CR1 on human IL-7Rαlow and high effector memory CD8+ T cells with distinct migratory capacities to fractalkine

    doi: 10.4049/jimmunol.1500877

    Figure Lengend Snippet: DNA methylation profiles in the CX3CR1 gene promoter are different in IL-7Rα low and high effector memory CD8 + T cells

    Article Snippet: To generate the CX3CR1 gene promoter construct (pGL3-CX3CR1), the CX3CR1 gene promoter region was amplified from genomic DNA using high-fidelity DNA polymerase (Invitrogen Life Technologies), cloned into pGL3-basic vector (Promega, Madison, WI) and verified by sequencing.

    Techniques: DNA Methylation Assay

    CX3CR1 gene promoter activity is affected by DNA methylation

    Journal: Journal of immunology (Baltimore, Md. : 1950)

    Article Title: DNA methylation regulates the differential expression of CX3CR1 on human IL-7Rαlow and high effector memory CD8+ T cells with distinct migratory capacities to fractalkine

    doi: 10.4049/jimmunol.1500877

    Figure Lengend Snippet: CX3CR1 gene promoter activity is affected by DNA methylation

    Article Snippet: To generate the CX3CR1 gene promoter construct (pGL3-CX3CR1), the CX3CR1 gene promoter region was amplified from genomic DNA using high-fidelity DNA polymerase (Invitrogen Life Technologies), cloned into pGL3-basic vector (Promega, Madison, WI) and verified by sequencing.

    Techniques: Activity Assay, DNA Methylation Assay