dna ladder 100 bp New England Biolabs Search Results


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  • 99
    New England Biolabs dna standard
    RT-PCR analysis of amtB-glnK transcription in ΔglnK and flag:amtB mutant strains. (A) RT-PCR analysis of amtB-glnK transcription in ΔglnK strains. First panel: nitrate RNA samples amplified with amtB1 primers; second panel: ammonium RNA samples amplified with amtB1 primers; third panel: nitrate RNA samples amplified with amtB2 primers; fourth panel: ammonium RNA samples amplified with amtB2 primers. Lanes correspond to the following PCR products: (1) PCR negative control (water instead of template cDNA), (2) RT negative control (cDNA obtained from RT reactions without template RNA), (3) PCR positive control (genomic <t>DNA</t> amplification), (M) Quick-Load 100 bp DNA Ladder from New England Biolabs , (4 and 5) HM26 RNA sample and corresponding negative control (cDNA obtained from RT reaction with RNA but without retrotranscriptase), (6 and 7) HM26-K1 RNA sample and corresponding negative control, (8 and 9) HM26-K2 RNA sample and corresponding negative control, (10 and 11) HM26-K1K2 RNA sample and corresponding negative control. (B) RT-PCR analysis of the amtB transcription in flag:amtB strains. The four Flag-tagged strains and HM26 as control were grown in complex medium (OD 600 of 1) and nitrogen starved for 48 h prior to RNA isolation. Lanes correspond to (1) negative control for the PCR reaction performed in the absence of cDNA, (2) positive control with genomic DNA as PCR template, (M) Quick-Load 100 bp DNA Ladder from New England Biolabs , (3 and 4) HM26 RT-PCR reaction and negative control in the absence of retrotranscriptase to check for DNA contamination, respectively, the same for (5 and 6) HM26-F1, (7 and 8) HM26-F2, (9 and 10) HM26-F3, (11 and 12) HM26-F4. (A) and (B) RT of the RNA samples was performed with random hexamers and PCR amplification of cDNA with amtB1 and amtB2 specific primers (RT-Amt1For/RT-Amt1Rev and RT-Amt2For/RT-Amt2Rev, respectively). PCR amplification products of the cDNA separated by 1.8% (w/v) agarose gel electrophoresis and stained with <t>ethidium</t> bromide are presented.
    Dna Standard, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 286 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    95
    New England Biolabs fast dna ladder
    RT-PCR analysis of amtB-glnK transcription in ΔglnK and flag:amtB mutant strains. (A) RT-PCR analysis of amtB-glnK transcription in ΔglnK strains. First panel: nitrate RNA samples amplified with amtB1 primers; second panel: ammonium RNA samples amplified with amtB1 primers; third panel: nitrate RNA samples amplified with amtB2 primers; fourth panel: ammonium RNA samples amplified with amtB2 primers. Lanes correspond to the following PCR products: (1) PCR negative control (water instead of template cDNA), (2) RT negative control (cDNA obtained from RT reactions without template RNA), (3) PCR positive control (genomic <t>DNA</t> amplification), (M) Quick-Load 100 bp DNA Ladder from New England Biolabs , (4 and 5) HM26 RNA sample and corresponding negative control (cDNA obtained from RT reaction with RNA but without retrotranscriptase), (6 and 7) HM26-K1 RNA sample and corresponding negative control, (8 and 9) HM26-K2 RNA sample and corresponding negative control, (10 and 11) HM26-K1K2 RNA sample and corresponding negative control. (B) RT-PCR analysis of the amtB transcription in flag:amtB strains. The four Flag-tagged strains and HM26 as control were grown in complex medium (OD 600 of 1) and nitrogen starved for 48 h prior to RNA isolation. Lanes correspond to (1) negative control for the PCR reaction performed in the absence of cDNA, (2) positive control with genomic DNA as PCR template, (M) Quick-Load 100 bp DNA Ladder from New England Biolabs , (3 and 4) HM26 RT-PCR reaction and negative control in the absence of retrotranscriptase to check for DNA contamination, respectively, the same for (5 and 6) HM26-F1, (7 and 8) HM26-F2, (9 and 10) HM26-F3, (11 and 12) HM26-F4. (A) and (B) RT of the RNA samples was performed with random hexamers and PCR amplification of cDNA with amtB1 and amtB2 specific primers (RT-Amt1For/RT-Amt1Rev and RT-Amt2For/RT-Amt2Rev, respectively). PCR amplification products of the cDNA separated by 1.8% (w/v) agarose gel electrophoresis and stained with <t>ethidium</t> bromide are presented.
    Fast Dna Ladder, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 95/100, based on 10 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    93
    New England Biolabs bp tridye dna ladder
    Transcription analysis of pedA . pedA -reverse transcription-PCR on cDNA from P. acidilactici bac- (1, 2, 3) or UVA1 (7, 8, 9) after 1 h 30, 2 h 30 and 3 h 30 of growth, respectively, and from P. acidilactici DSM 20284 T (4) or UL5 (6) and P. pentosaceus DSM 20336 T (5) after 2 h 30 of growth. 10: water instead of <t>DNA.</t> lm: low molecular weight DNA ladder (in bp). h: Tridye 100-bp DNA ladder (in bp). Expected product size: 100 bp.
    Bp Tridye Dna Ladder, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 93/100, based on 100 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    93
    New England Biolabs control dna
    Transcription analysis of pedA . pedA -reverse transcription-PCR on cDNA from P. acidilactici bac- (1, 2, 3) or UVA1 (7, 8, 9) after 1 h 30, 2 h 30 and 3 h 30 of growth, respectively, and from P. acidilactici DSM 20284 T (4) or UL5 (6) and P. pentosaceus DSM 20336 T (5) after 2 h 30 of growth. 10: water instead of <t>DNA.</t> lm: low molecular weight DNA ladder (in bp). h: Tridye 100-bp DNA ladder (in bp). Expected product size: 100 bp.
    Control Dna, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 93/100, based on 154 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    99
    New England Biolabs 1 kb dna ladder
    Transcription analysis of pedA . pedA -reverse transcription-PCR on cDNA from P. acidilactici bac- (1, 2, 3) or UVA1 (7, 8, 9) after 1 h 30, 2 h 30 and 3 h 30 of growth, respectively, and from P. acidilactici DSM 20284 T (4) or UL5 (6) and P. pentosaceus DSM 20336 T (5) after 2 h 30 of growth. 10: water instead of <t>DNA.</t> lm: low molecular weight DNA ladder (in bp). h: Tridye 100-bp DNA ladder (in bp). Expected product size: 100 bp.
    1 Kb Dna Ladder, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 433 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Image Search Results


    RT-PCR analysis of amtB-glnK transcription in ΔglnK and flag:amtB mutant strains. (A) RT-PCR analysis of amtB-glnK transcription in ΔglnK strains. First panel: nitrate RNA samples amplified with amtB1 primers; second panel: ammonium RNA samples amplified with amtB1 primers; third panel: nitrate RNA samples amplified with amtB2 primers; fourth panel: ammonium RNA samples amplified with amtB2 primers. Lanes correspond to the following PCR products: (1) PCR negative control (water instead of template cDNA), (2) RT negative control (cDNA obtained from RT reactions without template RNA), (3) PCR positive control (genomic DNA amplification), (M) Quick-Load 100 bp DNA Ladder from New England Biolabs , (4 and 5) HM26 RNA sample and corresponding negative control (cDNA obtained from RT reaction with RNA but without retrotranscriptase), (6 and 7) HM26-K1 RNA sample and corresponding negative control, (8 and 9) HM26-K2 RNA sample and corresponding negative control, (10 and 11) HM26-K1K2 RNA sample and corresponding negative control. (B) RT-PCR analysis of the amtB transcription in flag:amtB strains. The four Flag-tagged strains and HM26 as control were grown in complex medium (OD 600 of 1) and nitrogen starved for 48 h prior to RNA isolation. Lanes correspond to (1) negative control for the PCR reaction performed in the absence of cDNA, (2) positive control with genomic DNA as PCR template, (M) Quick-Load 100 bp DNA Ladder from New England Biolabs , (3 and 4) HM26 RT-PCR reaction and negative control in the absence of retrotranscriptase to check for DNA contamination, respectively, the same for (5 and 6) HM26-F1, (7 and 8) HM26-F2, (9 and 10) HM26-F3, (11 and 12) HM26-F4. (A) and (B) RT of the RNA samples was performed with random hexamers and PCR amplification of cDNA with amtB1 and amtB2 specific primers (RT-Amt1For/RT-Amt1Rev and RT-Amt2For/RT-Amt2Rev, respectively). PCR amplification products of the cDNA separated by 1.8% (w/v) agarose gel electrophoresis and stained with ethidium bromide are presented.

    Journal: MicrobiologyOpen

    Article Title: Nitrogen regulation of protein-protein interactions and transcript levels of GlnK PII regulator and AmtB ammonium transporter homologs in Archaea

    doi: 10.1002/mbo3.120

    Figure Lengend Snippet: RT-PCR analysis of amtB-glnK transcription in ΔglnK and flag:amtB mutant strains. (A) RT-PCR analysis of amtB-glnK transcription in ΔglnK strains. First panel: nitrate RNA samples amplified with amtB1 primers; second panel: ammonium RNA samples amplified with amtB1 primers; third panel: nitrate RNA samples amplified with amtB2 primers; fourth panel: ammonium RNA samples amplified with amtB2 primers. Lanes correspond to the following PCR products: (1) PCR negative control (water instead of template cDNA), (2) RT negative control (cDNA obtained from RT reactions without template RNA), (3) PCR positive control (genomic DNA amplification), (M) Quick-Load 100 bp DNA Ladder from New England Biolabs , (4 and 5) HM26 RNA sample and corresponding negative control (cDNA obtained from RT reaction with RNA but without retrotranscriptase), (6 and 7) HM26-K1 RNA sample and corresponding negative control, (8 and 9) HM26-K2 RNA sample and corresponding negative control, (10 and 11) HM26-K1K2 RNA sample and corresponding negative control. (B) RT-PCR analysis of the amtB transcription in flag:amtB strains. The four Flag-tagged strains and HM26 as control were grown in complex medium (OD 600 of 1) and nitrogen starved for 48 h prior to RNA isolation. Lanes correspond to (1) negative control for the PCR reaction performed in the absence of cDNA, (2) positive control with genomic DNA as PCR template, (M) Quick-Load 100 bp DNA Ladder from New England Biolabs , (3 and 4) HM26 RT-PCR reaction and negative control in the absence of retrotranscriptase to check for DNA contamination, respectively, the same for (5 and 6) HM26-F1, (7 and 8) HM26-F2, (9 and 10) HM26-F3, (11 and 12) HM26-F4. (A) and (B) RT of the RNA samples was performed with random hexamers and PCR amplification of cDNA with amtB1 and amtB2 specific primers (RT-Amt1For/RT-Amt1Rev and RT-Amt2For/RT-Amt2Rev, respectively). PCR amplification products of the cDNA separated by 1.8% (w/v) agarose gel electrophoresis and stained with ethidium bromide are presented.

    Article Snippet: PCR fragments were visualized in 1.8% (w/v) agarose gels stained with ethidium bromide and compared to the 100 bp DNA Ladder from New England Biolabs (Ipswich, MA).

    Techniques: Reverse Transcription Polymerase Chain Reaction, Mutagenesis, Amplification, Polymerase Chain Reaction, Negative Control, Positive Control, Isolation, Agarose Gel Electrophoresis, Staining

    PCR analysis of VDJ H and DJ H rearrangements in tumors of LANA transgenic mice. Total spleen genomic DNAs were used in the PCR reactions analyzing tumors. ( A – C ) PCR analysis of total spleen genomic DNAs from 4 LANA transgenic mice with tumors, 2 C57BL/6 mice older than 300 days (WT), and 2 different murine B cell lines resolved on a 1.5% Tris-acetate-EDTA–agarose gel, used as controls for the clonality. WT lanes demonstrate VDJ H 1, VDJ H 2, VDJ H 3, and VDJ H 4 rearrangements ( A and B ) using V H 7183 ( A ) or V H J558 primers ( B ) and DJ H 1, DJ H 2, DJ H 3, and DJ H 4 rearrangements ( C ) using Dq52 primers. The primers were designed to amplify all rearrangement products between J H 4 and V H 7183, V H J558, or Dq52; 4 different bands would be expected by the combination of each primer set. M, 100-bp DNA Ladder (New England Biolabs Inc.) ( D ) DNA samples used for the Ig rearrangement PCRs were quantified using real-time quantitative PCR to demonstrate equal total DNA concentrations.

    Journal: Journal of Clinical Investigation

    Article Title: The latency-associated nuclear antigen of Kaposi sarcoma-associated herpesvirus induces B cell hyperplasia and lymphoma

    doi: 10.1172/JCI26190

    Figure Lengend Snippet: PCR analysis of VDJ H and DJ H rearrangements in tumors of LANA transgenic mice. Total spleen genomic DNAs were used in the PCR reactions analyzing tumors. ( A – C ) PCR analysis of total spleen genomic DNAs from 4 LANA transgenic mice with tumors, 2 C57BL/6 mice older than 300 days (WT), and 2 different murine B cell lines resolved on a 1.5% Tris-acetate-EDTA–agarose gel, used as controls for the clonality. WT lanes demonstrate VDJ H 1, VDJ H 2, VDJ H 3, and VDJ H 4 rearrangements ( A and B ) using V H 7183 ( A ) or V H J558 primers ( B ) and DJ H 1, DJ H 2, DJ H 3, and DJ H 4 rearrangements ( C ) using Dq52 primers. The primers were designed to amplify all rearrangement products between J H 4 and V H 7183, V H J558, or Dq52; 4 different bands would be expected by the combination of each primer set. M, 100-bp DNA Ladder (New England Biolabs Inc.) ( D ) DNA samples used for the Ig rearrangement PCRs were quantified using real-time quantitative PCR to demonstrate equal total DNA concentrations.

    Article Snippet: DNA Ladder (100 bp; New England Biolabs Inc.) was used to determine the size of PCR products.

    Techniques: Polymerase Chain Reaction, Transgenic Assay, Mouse Assay, Agarose Gel Electrophoresis, Real-time Polymerase Chain Reaction

    Segregation of coupling phase RAPD markers IABTPPN7 983 and repulsion phase RAPD marker IABTPPN7 414 across F 2 plant DNA of the cross Gullyal white × BSMR 736 linked to PSMD. P1=PSMD susceptible parent Gullyal white, P2=PSMD resistant parent BSMR 736, Lane M=100 bp DNA ladder.

    Journal: The Plant Pathology Journal

    Article Title: Identification of Coupling and Repulsion Phase DNA Marker Associated With an Allele of a Gene Conferring Host Plant Resistance to Pigeonpea sterility mosaic virus (PPSMV) in Pigeonpea (Cajanus cajan L. Millsp.)

    doi: 10.5423/PPJ.OA.07.2014.0064

    Figure Lengend Snippet: Segregation of coupling phase RAPD markers IABTPPN7 983 and repulsion phase RAPD marker IABTPPN7 414 across F 2 plant DNA of the cross Gullyal white × BSMR 736 linked to PSMD. P1=PSMD susceptible parent Gullyal white, P2=PSMD resistant parent BSMR 736, Lane M=100 bp DNA ladder.

    Article Snippet: The molecular weights of the short decamer random DNA marker products were estimated with a 100-bp DNA ladder (New England BioLabs, MA, USA).

    Techniques: Marker

    Screening of the seven resistant and seven susceptible F 2 plant DNA of the cross Gullyal white × BSMR 736 with a coupling phase RAPD markers IABTPPN7 983 and repulsion phase RAPD marker IABTPPN7 414 , linked to PSMD. SP=PSMD susceptible parent Gullyal white, RP=PSMD resistant parent BSMR 736, Lane M=100 bp DNA ladder.

    Journal: The Plant Pathology Journal

    Article Title: Identification of Coupling and Repulsion Phase DNA Marker Associated With an Allele of a Gene Conferring Host Plant Resistance to Pigeonpea sterility mosaic virus (PPSMV) in Pigeonpea (Cajanus cajan L. Millsp.)

    doi: 10.5423/PPJ.OA.07.2014.0064

    Figure Lengend Snippet: Screening of the seven resistant and seven susceptible F 2 plant DNA of the cross Gullyal white × BSMR 736 with a coupling phase RAPD markers IABTPPN7 983 and repulsion phase RAPD marker IABTPPN7 414 , linked to PSMD. SP=PSMD susceptible parent Gullyal white, RP=PSMD resistant parent BSMR 736, Lane M=100 bp DNA ladder.

    Article Snippet: The molecular weights of the short decamer random DNA marker products were estimated with a 100-bp DNA ladder (New England BioLabs, MA, USA).

    Techniques: Marker

    Amplification pattern of coupling phase RAPD markers IABTPPN7 983 and repulsion phase RAPD marker IABTPPN7 414 in parents and resistant and susceptible bulks. M, 100 bp ladder DNA; RP, Resistant parent - BSMR 736; RB, resistant bulk; SP, susceptible parent - Gullyal white; SB, susceptible bulk.

    Journal: The Plant Pathology Journal

    Article Title: Identification of Coupling and Repulsion Phase DNA Marker Associated With an Allele of a Gene Conferring Host Plant Resistance to Pigeonpea sterility mosaic virus (PPSMV) in Pigeonpea (Cajanus cajan L. Millsp.)

    doi: 10.5423/PPJ.OA.07.2014.0064

    Figure Lengend Snippet: Amplification pattern of coupling phase RAPD markers IABTPPN7 983 and repulsion phase RAPD marker IABTPPN7 414 in parents and resistant and susceptible bulks. M, 100 bp ladder DNA; RP, Resistant parent - BSMR 736; RB, resistant bulk; SP, susceptible parent - Gullyal white; SB, susceptible bulk.

    Article Snippet: The molecular weights of the short decamer random DNA marker products were estimated with a 100-bp DNA ladder (New England BioLabs, MA, USA).

    Techniques: Amplification, Marker

    For ADH1B Genotyping–Lane L, 100bp DNA Ladder; Lane 1–7, Undigested 155bp bands for ADH1B.

    Journal: Asian Pacific Journal of Cancer Prevention : APJCP

    Article Title: ADH1B, ALDH2, GSTM1 and GSTT1 Gene Polymorphic Frequencies among Alcoholics and Controls in the Arcadian Population of Central India

    doi: 10.22034/APJCP.2018.19.3.725

    Figure Lengend Snippet: For ADH1B Genotyping–Lane L, 100bp DNA Ladder; Lane 1–7, Undigested 155bp bands for ADH1B.

    Article Snippet: After PCR, amplicons size with the help of 100bp DNA ladder (NEB, US) were analyzed by gel electrophoresis using ethidium bromide (EtBr) stained (10mg/ml) 2% AG (Sigma).

    Techniques:

    For ALDH2 Genotyping–Lane L, 100bp DNA Ladder; Lane 1–2, Digested fragments of 90bp and 18bp bands; Lane 3–6, One uncut (119bp) with two digested fragments (90bp and 18bp); Lane 7, Undigested band (119bp).

    Journal: Asian Pacific Journal of Cancer Prevention : APJCP

    Article Title: ADH1B, ALDH2, GSTM1 and GSTT1 Gene Polymorphic Frequencies among Alcoholics and Controls in the Arcadian Population of Central India

    doi: 10.22034/APJCP.2018.19.3.725

    Figure Lengend Snippet: For ALDH2 Genotyping–Lane L, 100bp DNA Ladder; Lane 1–2, Digested fragments of 90bp and 18bp bands; Lane 3–6, One uncut (119bp) with two digested fragments (90bp and 18bp); Lane 7, Undigested band (119bp).

    Article Snippet: After PCR, amplicons size with the help of 100bp DNA ladder (NEB, US) were analyzed by gel electrophoresis using ethidium bromide (EtBr) stained (10mg/ml) 2% AG (Sigma).

    Techniques:

    GSTM1 Genotyping; Lane L, 100bp DNA Ladder; Lane 1, Null allele for GSTM1; Lane 2–6, Positive allele for GSTM1 (215bp).

    Journal: Asian Pacific Journal of Cancer Prevention : APJCP

    Article Title: ADH1B, ALDH2, GSTM1 and GSTT1 Gene Polymorphic Frequencies among Alcoholics and Controls in the Arcadian Population of Central India

    doi: 10.22034/APJCP.2018.19.3.725

    Figure Lengend Snippet: GSTM1 Genotyping; Lane L, 100bp DNA Ladder; Lane 1, Null allele for GSTM1; Lane 2–6, Positive allele for GSTM1 (215bp).

    Article Snippet: After PCR, amplicons size with the help of 100bp DNA ladder (NEB, US) were analyzed by gel electrophoresis using ethidium bromide (EtBr) stained (10mg/ml) 2% AG (Sigma).

    Techniques:

    ( A ) ChIP analysis using anti-rLdACT antibodies showed the in vivo association of LdACT with chromatin and kDNA network. ( a ) and ( b ) are the agarose gels of PCR products after ChIP assay, showing the association of LdACT with nuclear DNA and kDNA, respectively. Lanes are marked on the top with their respective antibodies used in the ChIP assay and arrows indicated the genes amplified after pull down. An irrelevant, non-DNA associating antibody, GRP78, was used as a negative control, whereas, antibodies against DNA polβ, and UMSBP (universal minicircle sequence-binding protein), were used as positive controls for nuclear DNA and kDNA respectively. LdPFN, Leishmania profilin; NM12/17, specific minicircle primers. ( B ) Agarose gel shift assay of supercoiled and linearized pBR322 (400 ng each) in the presence of rLdACT (0.5 2.0 μM), and β- and γ-actins (0.5 2.0 μM) as indicated on the top of the gels. Lane M, shows 1 kb DNA ladder; FI: supercoiled form, FII: relaxed form, FIII: linearized form of DNA. ( C ) Autoradiogram of EMSA on polyacrylamide gel of 32 P end-labelled 30 bp DNA probe in the presence of increasing concentration of rLdACT (0.1–0.6 μM).

    Journal: Nucleic Acids Research

    Article Title: Leishmania actin binds and nicks kDNA as well as inhibits decatenation activity of type II topoisomerase

    doi: 10.1093/nar/gkq051

    Figure Lengend Snippet: ( A ) ChIP analysis using anti-rLdACT antibodies showed the in vivo association of LdACT with chromatin and kDNA network. ( a ) and ( b ) are the agarose gels of PCR products after ChIP assay, showing the association of LdACT with nuclear DNA and kDNA, respectively. Lanes are marked on the top with their respective antibodies used in the ChIP assay and arrows indicated the genes amplified after pull down. An irrelevant, non-DNA associating antibody, GRP78, was used as a negative control, whereas, antibodies against DNA polβ, and UMSBP (universal minicircle sequence-binding protein), were used as positive controls for nuclear DNA and kDNA respectively. LdPFN, Leishmania profilin; NM12/17, specific minicircle primers. ( B ) Agarose gel shift assay of supercoiled and linearized pBR322 (400 ng each) in the presence of rLdACT (0.5 2.0 μM), and β- and γ-actins (0.5 2.0 μM) as indicated on the top of the gels. Lane M, shows 1 kb DNA ladder; FI: supercoiled form, FII: relaxed form, FIII: linearized form of DNA. ( C ) Autoradiogram of EMSA on polyacrylamide gel of 32 P end-labelled 30 bp DNA probe in the presence of increasing concentration of rLdACT (0.1–0.6 μM).

    Article Snippet: For Electrophoretic mobility shift assay ( EMSA) on polyacrylamide gel, 100 ng of 30 bp DNA was 5′-end labeled with [γ-32 P] ATP using T4 polynucleotide kinase (NEB).

    Techniques: Chromatin Immunoprecipitation, In Vivo, Polymerase Chain Reaction, Amplification, Negative Control, Sequencing, Binding Assay, Agarose Gel Electrophoresis, Shift Assay, Concentration Assay

    ( A ) Agarose gel (0.5%), showing the time dependent nicking of kDNA by rLdACT (4.0 μM) which revealed the existence of major nicked DNA and minor concatenated minicircle species. ( B ) Agarose gel, showing rLdACT mediated decatenation of the kDNA network in the presence or absence of anti-rLdACT antibodies. DM, decatenated kDNA marker (Topogen). ( C ) Agarose gel (1.0%), showing rLdACT mediated decatenation of kDNA network with rLdACT in the presence or absence of DNase-1 and its inhibitor EDTA, which completely rules out the possibility of DNA nicking by some contaminating nuclease. ( D ) Agarose gel (1.0%), showing requirement of rLdACT in its polymeric state for its kDNA decatenation activity. ( E ): ( a ), Agarose gel (1.0%), showing requirement of ATP in the rLdACT mediated kDNA decatenation process. ( b ), Graph, showing ATP dependence of rLdACT-mediated kDNA decatenation. ( F ) ( a ), Agarose gel (1.0%), showing rLdACT-mediated decatenation of kDNA in the presence of non-hydrolysable analogs of ATP. ( b ) Graph, showing relative inhibition of rLdACT mediated decatenation of kDNA network in the presence of non-hydrolysable ATP analogs when plotted with the increasing concentration of rLdACT.

    Journal: Nucleic Acids Research

    Article Title: Leishmania actin binds and nicks kDNA as well as inhibits decatenation activity of type II topoisomerase

    doi: 10.1093/nar/gkq051

    Figure Lengend Snippet: ( A ) Agarose gel (0.5%), showing the time dependent nicking of kDNA by rLdACT (4.0 μM) which revealed the existence of major nicked DNA and minor concatenated minicircle species. ( B ) Agarose gel, showing rLdACT mediated decatenation of the kDNA network in the presence or absence of anti-rLdACT antibodies. DM, decatenated kDNA marker (Topogen). ( C ) Agarose gel (1.0%), showing rLdACT mediated decatenation of kDNA network with rLdACT in the presence or absence of DNase-1 and its inhibitor EDTA, which completely rules out the possibility of DNA nicking by some contaminating nuclease. ( D ) Agarose gel (1.0%), showing requirement of rLdACT in its polymeric state for its kDNA decatenation activity. ( E ): ( a ), Agarose gel (1.0%), showing requirement of ATP in the rLdACT mediated kDNA decatenation process. ( b ), Graph, showing ATP dependence of rLdACT-mediated kDNA decatenation. ( F ) ( a ), Agarose gel (1.0%), showing rLdACT-mediated decatenation of kDNA in the presence of non-hydrolysable analogs of ATP. ( b ) Graph, showing relative inhibition of rLdACT mediated decatenation of kDNA network in the presence of non-hydrolysable ATP analogs when plotted with the increasing concentration of rLdACT.

    Article Snippet: For Electrophoretic mobility shift assay ( EMSA) on polyacrylamide gel, 100 ng of 30 bp DNA was 5′-end labeled with [γ-32 P] ATP using T4 polynucleotide kinase (NEB).

    Techniques: Agarose Gel Electrophoresis, Marker, Activity Assay, Inhibition, Concentration Assay

    ( A ) Agarose gel, showing supercoiled pBR322 DNA (400 ng) relaxation separately with rLdACT (0.5 1.0 μM) and E. coli Topo I. Image presented is the negative of original gel image. ( B ) Agarose gel electrophoresis of supercoiled pBR322 DNA (400 ng) with rLdACT in the presence or absence of anti-rLdACT antibodies, showing specificity of nicking activity associated with rLdACT. ( C ) Agarose gel electrophoresis of supercoiled pBR322 DNA (400 ng) with rLdACT (0.5 1.0 μM) in the presence or absence of DNase-1 and its inhibitor EDTA which further eliminates the possibility of DNA nicking by contaminating nuclease. ( D ): a and b, Agarose gel electrophoresis of supercoiled pBR322 DNA (400 ng) with rLdACT in the presence of ATP and its non-hydrolysable ATP analogs as indicated on the top of the gel. ( E ) Graph showing the requirement of ATP in its hydrolysable form during rLdACT mediated relaxation of supercoiled pBR322 DNA. ( F ) Agarose gel, showing requirement of rLdACT (0.5 2.0 μM) in its polymeric state for its scDNA-relaxation activity. ( G ) Graph, representing rLdACT (1.0 μM) mediated relaxation of supercoiled pBR322 DNA in the presence of increasing concentration of NaCl, inset shows the relative % inhibition of rLdACT mediated relaxation of supercoiled pBR322 DNA in presence of 50 mM salts having different ionization constant (Ksp) as indicated on the top of the bars. ( H ) Dynamic light scattering measurements of rLdACT (1.0 μM) showing insignificant effect of 0.2 M NaCl on the polymerized state of rLdACT after complete polymerization.

    Journal: Nucleic Acids Research

    Article Title: Leishmania actin binds and nicks kDNA as well as inhibits decatenation activity of type II topoisomerase

    doi: 10.1093/nar/gkq051

    Figure Lengend Snippet: ( A ) Agarose gel, showing supercoiled pBR322 DNA (400 ng) relaxation separately with rLdACT (0.5 1.0 μM) and E. coli Topo I. Image presented is the negative of original gel image. ( B ) Agarose gel electrophoresis of supercoiled pBR322 DNA (400 ng) with rLdACT in the presence or absence of anti-rLdACT antibodies, showing specificity of nicking activity associated with rLdACT. ( C ) Agarose gel electrophoresis of supercoiled pBR322 DNA (400 ng) with rLdACT (0.5 1.0 μM) in the presence or absence of DNase-1 and its inhibitor EDTA which further eliminates the possibility of DNA nicking by contaminating nuclease. ( D ): a and b, Agarose gel electrophoresis of supercoiled pBR322 DNA (400 ng) with rLdACT in the presence of ATP and its non-hydrolysable ATP analogs as indicated on the top of the gel. ( E ) Graph showing the requirement of ATP in its hydrolysable form during rLdACT mediated relaxation of supercoiled pBR322 DNA. ( F ) Agarose gel, showing requirement of rLdACT (0.5 2.0 μM) in its polymeric state for its scDNA-relaxation activity. ( G ) Graph, representing rLdACT (1.0 μM) mediated relaxation of supercoiled pBR322 DNA in the presence of increasing concentration of NaCl, inset shows the relative % inhibition of rLdACT mediated relaxation of supercoiled pBR322 DNA in presence of 50 mM salts having different ionization constant (Ksp) as indicated on the top of the bars. ( H ) Dynamic light scattering measurements of rLdACT (1.0 μM) showing insignificant effect of 0.2 M NaCl on the polymerized state of rLdACT after complete polymerization.

    Article Snippet: For Electrophoretic mobility shift assay ( EMSA) on polyacrylamide gel, 100 ng of 30 bp DNA was 5′-end labeled with [γ-32 P] ATP using T4 polynucleotide kinase (NEB).

    Techniques: Agarose Gel Electrophoresis, Activity Assay, Concentration Assay, Inhibition

    Transcription analysis of pedA . pedA -reverse transcription-PCR on cDNA from P. acidilactici bac- (1, 2, 3) or UVA1 (7, 8, 9) after 1 h 30, 2 h 30 and 3 h 30 of growth, respectively, and from P. acidilactici DSM 20284 T (4) or UL5 (6) and P. pentosaceus DSM 20336 T (5) after 2 h 30 of growth. 10: water instead of DNA. lm: low molecular weight DNA ladder (in bp). h: Tridye 100-bp DNA ladder (in bp). Expected product size: 100 bp.

    Journal: BMC Biotechnology

    Article Title: Detection of the pediocin gene pedA in strains from human faeces by real-time PCR and characterization of Pediococcus acidilactici UVA1

    doi: 10.1186/1472-6750-7-55

    Figure Lengend Snippet: Transcription analysis of pedA . pedA -reverse transcription-PCR on cDNA from P. acidilactici bac- (1, 2, 3) or UVA1 (7, 8, 9) after 1 h 30, 2 h 30 and 3 h 30 of growth, respectively, and from P. acidilactici DSM 20284 T (4) or UL5 (6) and P. pentosaceus DSM 20336 T (5) after 2 h 30 of growth. 10: water instead of DNA. lm: low molecular weight DNA ladder (in bp). h: Tridye 100-bp DNA ladder (in bp). Expected product size: 100 bp.

    Article Snippet: The low molecular weight DNA ladder and Tridye 100 bp DNA-ladder (New England BioLabs, Ipswich, MA, USA) were used as size standards.

    Techniques: Polymerase Chain Reaction, BAC Assay, Molecular Weight