alu i  (New England Biolabs)


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    Name:
    AluI
    Description:
    AluI 5 000 units
    Catalog Number:
    r0137l
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    282
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    5 000 units
    Category:
    Restriction Enzymes
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    Structured Review

    New England Biolabs alu i
    AluI
    AluI 5 000 units
    https://www.bioz.com/result/alu i/product/New England Biolabs
    Average 99 stars, based on 52 article reviews
    Price from $9.99 to $1999.99
    alu i - by Bioz Stars, 2020-08
    99/100 stars

    Images

    1) Product Images from "Molecular Characterization of Clinical Isolates of Aeromonas Species from Malaysia"

    Article Title: Molecular Characterization of Clinical Isolates of Aeromonas Species from Malaysia

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0030205

    Polyacrylamide gel showing 16S rDNA-RFLP patterns ( Alu I and Mbo I). L: pBR322 DNA/ BsuRI marker (Fermentas, USA), Lane 1: typical pattern of A. hydrophila (JN 686656), Lane 2: typical pattern of A. caviae (JN 686668), Lane 3: atypical pattern of A. trota (JN 686649), Lanes 4–6: atypical pattern of A. veronii (JN 686665, JN 686691, JN 686739), Lanes 7–10: A. aquariorum (JN 686662, JN 686731, JN 686725, JN 686700).
    Figure Legend Snippet: Polyacrylamide gel showing 16S rDNA-RFLP patterns ( Alu I and Mbo I). L: pBR322 DNA/ BsuRI marker (Fermentas, USA), Lane 1: typical pattern of A. hydrophila (JN 686656), Lane 2: typical pattern of A. caviae (JN 686668), Lane 3: atypical pattern of A. trota (JN 686649), Lanes 4–6: atypical pattern of A. veronii (JN 686665, JN 686691, JN 686739), Lanes 7–10: A. aquariorum (JN 686662, JN 686731, JN 686725, JN 686700).

    Techniques Used: Marker

    2) Product Images from "Molecular and epidemiological characterization of Plasmodium vivax recurrent infections in southern Mexico"

    Article Title: Molecular and epidemiological characterization of Plasmodium vivax recurrent infections in southern Mexico

    Journal: Parasites & Vectors

    doi: 10.1186/1756-3305-6-109

    Plasmodium vivax msp3α genotypes. PCR products were digested with Alu I, and the digested products are separated side-by-side with their undigested products on agarose gels. a) Shows different genotypes indicated by capital letters underneath. b) Lanes 1, 3, 5, 7, 9, and 11 are undigested products of ~2.0 kb, and lanes 2, 4, 6, 8, 10, and 12 were the same products digested with Alu I. Lane 2 presents genotype C; lane 4, 10, and 12 present genotype B; lane 6 and 8 are mixed genotypes of A+C; c) genotype G; d) genotype D; and e) genotype H. m, 100 bp DNA ladder.
    Figure Legend Snippet: Plasmodium vivax msp3α genotypes. PCR products were digested with Alu I, and the digested products are separated side-by-side with their undigested products on agarose gels. a) Shows different genotypes indicated by capital letters underneath. b) Lanes 1, 3, 5, 7, 9, and 11 are undigested products of ~2.0 kb, and lanes 2, 4, 6, 8, 10, and 12 were the same products digested with Alu I. Lane 2 presents genotype C; lane 4, 10, and 12 present genotype B; lane 6 and 8 are mixed genotypes of A+C; c) genotype G; d) genotype D; and e) genotype H. m, 100 bp DNA ladder.

    Techniques Used: Polymerase Chain Reaction

    3) Product Images from "PCR-Restriction Fragment Length Polymorphism Method for Detection of Cyclospora cayetanensis in Environmental Waters without Microscopic Confirmation"

    Article Title: PCR-Restriction Fragment Length Polymorphism Method for Detection of Cyclospora cayetanensis in Environmental Waters without Microscopic Confirmation

    Journal: Applied and Environmental Microbiology

    doi: 10.1128/AEM.69.8.4662-4669.2003

    RFLP analysis with Alu I of PCR (primers CYCAI2 and CYCAR1) amplicons from selected environmental samples. Lanes: M, DNA molecular weight marker VIII; +, C . cayetanensis oocysts with clear bands at 98, 88, and 50 bp and a faint band at 15 bp; 1, sample collected from the SDC on 21 April 1998; 2 to 5, individual water samples collected from the SARVB on 28 August 1998; 6 and 7, individual water samples collected from the SARYL on 28 September 1998. The term “Uncut” identifies amplicons that do not contain Alu I sites.
    Figure Legend Snippet: RFLP analysis with Alu I of PCR (primers CYCAI2 and CYCAR1) amplicons from selected environmental samples. Lanes: M, DNA molecular weight marker VIII; +, C . cayetanensis oocysts with clear bands at 98, 88, and 50 bp and a faint band at 15 bp; 1, sample collected from the SDC on 21 April 1998; 2 to 5, individual water samples collected from the SARVB on 28 August 1998; 6 and 7, individual water samples collected from the SARYL on 28 September 1998. The term “Uncut” identifies amplicons that do not contain Alu I sites.

    Techniques Used: Polymerase Chain Reaction, Environmental Sampling, Molecular Weight, Marker

    4) Product Images from "Evaluation of a PCR-RFLP- ITS2 assay for discrimination of Anopheles species in northern and western Colombia"

    Article Title: Evaluation of a PCR-RFLP- ITS2 assay for discrimination of Anopheles species in northern and western Colombia

    Journal: Acta tropica

    doi: 10.1016/j.actatropica.2011.02.004

    PCR-RFLP of ITS2 region following Alu I restriction of amplimers from An. aquasalis on 2.5% agarose gel. Lanes: M: Molecular weight marker; 1–3: An. aquasalis individuals collected in Los Achiotes; 4: positive control, clone of An. aquasalis ITS2
    Figure Legend Snippet: PCR-RFLP of ITS2 region following Alu I restriction of amplimers from An. aquasalis on 2.5% agarose gel. Lanes: M: Molecular weight marker; 1–3: An. aquasalis individuals collected in Los Achiotes; 4: positive control, clone of An. aquasalis ITS2

    Techniques Used: Polymerase Chain Reaction, Agarose Gel Electrophoresis, Molecular Weight, Marker, Positive Control

    Double digest ( Alu I/ Fsp I) of ITS2 region amplified from individuals identified by the PCR-RFLP with Alu I as An. nuneztovari s.l. Lanes: M: Molecular weight marker; 1: positive control, clone of An. nuneztovari s.l. ITS2 sequence; 2–12: specimens
    Figure Legend Snippet: Double digest ( Alu I/ Fsp I) of ITS2 region amplified from individuals identified by the PCR-RFLP with Alu I as An. nuneztovari s.l. Lanes: M: Molecular weight marker; 1: positive control, clone of An. nuneztovari s.l. ITS2 sequence; 2–12: specimens

    Techniques Used: Amplification, Polymerase Chain Reaction, Molecular Weight, Marker, Positive Control, Sequencing

    5) Product Images from "Winemaking and Bioprocesses Strongly Shaped the Genetic Diversity of the Ubiquitous Yeast Torulaspora delbrueckii"

    Article Title: Winemaking and Bioprocesses Strongly Shaped the Genetic Diversity of the Ubiquitous Yeast Torulaspora delbrueckii

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0094246

    Restriction patterns of D1/D2 amplicon generated by Alu I (A) or Pst I (B) for Torulaspora species. A: For Alu I restriction, four patterns were produced: 170 pb+160 pb+80 pb+70 pb+55 pb+40 pb+30 pb for T. delbrueckii and T. quercuum ; 170 pb+160 pb+120 pb+70 pb+55 pb+30 pb for T. maleeae and T. indica ; 170 pb+160 pb+95 pb+80 pb+70 pb+30 pb for T. franciscae , T. microellipsoides , T. pretoriensis ; and 330 pb+170 pb+75 pb+30 pb for T. globosa . B: For Pst I restriction, two patterns were produced: 600pb (no restriction) for T. maleeae , T. quercuum , T. indica , T. microellipsoides and T. globosa ; or 480 pb+120 pb for T. delbrueckii , T. franciscae and T. pretoriensis . Blue and pink bands represent internal upper and lower markers respectively.
    Figure Legend Snippet: Restriction patterns of D1/D2 amplicon generated by Alu I (A) or Pst I (B) for Torulaspora species. A: For Alu I restriction, four patterns were produced: 170 pb+160 pb+80 pb+70 pb+55 pb+40 pb+30 pb for T. delbrueckii and T. quercuum ; 170 pb+160 pb+120 pb+70 pb+55 pb+30 pb for T. maleeae and T. indica ; 170 pb+160 pb+95 pb+80 pb+70 pb+30 pb for T. franciscae , T. microellipsoides , T. pretoriensis ; and 330 pb+170 pb+75 pb+30 pb for T. globosa . B: For Pst I restriction, two patterns were produced: 600pb (no restriction) for T. maleeae , T. quercuum , T. indica , T. microellipsoides and T. globosa ; or 480 pb+120 pb for T. delbrueckii , T. franciscae and T. pretoriensis . Blue and pink bands represent internal upper and lower markers respectively.

    Techniques Used: Amplification, Generated, Produced

    6) Product Images from "Heterochromatic siRNAs and DDM1 Independently Silence Aberrant 5S rDNA Transcripts in Arabidopsis"

    Article Title: Heterochromatic siRNAs and DDM1 Independently Silence Aberrant 5S rDNA Transcripts in Arabidopsis

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0005932

    Effect of combined DDM1 and siRNA deficiency on 5S rDNA methylation and aberrant transcripts. A) 5S rDNA hypermethylation in ddm1 is siRNA-dependent: Southern blot comparison of Alu I and Hae III-digested genomic DNA isolated from inflorescences of wild type (WT), ddm1 , and double mutant lines nrpd1 ddm1 , rdr2 ddm1 , and dcl3 ddm1 (top panel). The probe is the same as in Figure 2E . Dilutions of the above digests were also assayed by PCR using 5S LT1 primers (bottom panel). Samples to which no restriction enzyme was added are controls (no digest). B) 5S LT1 is silenced by two overlapping processes: RNA samples from inflorescences of WT, ddm1 and the double mutant panel were analyzed by one-step RT-PCR, performed as described in Figure 1C . Control reactions were performed with ACT2 primers; reverse transcriptase was omitted from duplicate 5S LT1 and ACT2 reactions (no RT).
    Figure Legend Snippet: Effect of combined DDM1 and siRNA deficiency on 5S rDNA methylation and aberrant transcripts. A) 5S rDNA hypermethylation in ddm1 is siRNA-dependent: Southern blot comparison of Alu I and Hae III-digested genomic DNA isolated from inflorescences of wild type (WT), ddm1 , and double mutant lines nrpd1 ddm1 , rdr2 ddm1 , and dcl3 ddm1 (top panel). The probe is the same as in Figure 2E . Dilutions of the above digests were also assayed by PCR using 5S LT1 primers (bottom panel). Samples to which no restriction enzyme was added are controls (no digest). B) 5S LT1 is silenced by two overlapping processes: RNA samples from inflorescences of WT, ddm1 and the double mutant panel were analyzed by one-step RT-PCR, performed as described in Figure 1C . Control reactions were performed with ACT2 primers; reverse transcriptase was omitted from duplicate 5S LT1 and ACT2 reactions (no RT).

    Techniques Used: Methylation, Southern Blot, Isolation, Mutagenesis, Polymerase Chain Reaction, Reverse Transcription Polymerase Chain Reaction

    DDM1 limits IGS siRNA accumulation and asymmetric methylation. A) Detection of IGS siRNAs (siR1003) in dicer-like ( dcl ) mutant combinations. Blot analysis of small RNA isolated from leaves of wild type (WT); single mutants dcl2, dcl3, dcl4 ; double mutants dcl2 dcl3 ( dcl2/3 ), dcl2 dcl4 ( dcl2/4 ), dcl3 dcl4 ( dcl3/4 ); and the triple mutant dcl2 dcl3 dcl4 ( dcl2/3/4 ). B) Localization of IGS-related RNA in interphase nuclei by fluorescent in situ hybridization with an RNA probe for siR1003 (red). DNA was stained with DAPI (white). The size bar corresponds to 5 µm. C) Overaccumulation of IGS siRNAs in the ddm1 background. Blot analysis of small RNA from dcl3 and double mutant dcl3 ddm1 using probes for siR1003 and the larger 3′flanking region ( Figure 1A , diagram). WT and ddm1 signals from the same membrane are provided for comparison. D) IGS siRNA overaccumulation persists in out-crossed ddm1 . Blot analysis of small RNA isolated from WT, nrpd1 (−/−), ddm1 (−/−) and F1 heterozygotes (+/−) of each mutant crossed to the WT. E) Asymmetric cytosines in the IGS are hypermethylated in met1 and ddm1 . Southern blot analysis was performed on Alu I-digested genomic DNA isolated from WT, nrpd1 , rdr2 , two alleles of dcl3 , met1 and ddm1 . The probe corresponds to 5S LT1, shown aligned to a representative 5S rDNA repeat unit from Chromosome 5. Alu I and Hae III sites in the IGS region are indicated.
    Figure Legend Snippet: DDM1 limits IGS siRNA accumulation and asymmetric methylation. A) Detection of IGS siRNAs (siR1003) in dicer-like ( dcl ) mutant combinations. Blot analysis of small RNA isolated from leaves of wild type (WT); single mutants dcl2, dcl3, dcl4 ; double mutants dcl2 dcl3 ( dcl2/3 ), dcl2 dcl4 ( dcl2/4 ), dcl3 dcl4 ( dcl3/4 ); and the triple mutant dcl2 dcl3 dcl4 ( dcl2/3/4 ). B) Localization of IGS-related RNA in interphase nuclei by fluorescent in situ hybridization with an RNA probe for siR1003 (red). DNA was stained with DAPI (white). The size bar corresponds to 5 µm. C) Overaccumulation of IGS siRNAs in the ddm1 background. Blot analysis of small RNA from dcl3 and double mutant dcl3 ddm1 using probes for siR1003 and the larger 3′flanking region ( Figure 1A , diagram). WT and ddm1 signals from the same membrane are provided for comparison. D) IGS siRNA overaccumulation persists in out-crossed ddm1 . Blot analysis of small RNA isolated from WT, nrpd1 (−/−), ddm1 (−/−) and F1 heterozygotes (+/−) of each mutant crossed to the WT. E) Asymmetric cytosines in the IGS are hypermethylated in met1 and ddm1 . Southern blot analysis was performed on Alu I-digested genomic DNA isolated from WT, nrpd1 , rdr2 , two alleles of dcl3 , met1 and ddm1 . The probe corresponds to 5S LT1, shown aligned to a representative 5S rDNA repeat unit from Chromosome 5. Alu I and Hae III sites in the IGS region are indicated.

    Techniques Used: Methylation, Mutagenesis, Isolation, In Situ Hybridization, Staining, Southern Blot

    7) Product Images from "The Role of RNF213 4810G > A and 4950G > A Variants in Patients with Moyamoya Disease in Korea"

    Article Title: The Role of RNF213 4810G > A and 4950G > A Variants in Patients with Moyamoya Disease in Korea

    Journal: International Journal of Molecular Sciences

    doi: 10.3390/ijms18112477

    Polymorphism analysis of RNF213 4448, 4810, 4863, and 4950 in moyamoya disease patients. Polymorphisms analysis of RNF213 genes amplicon by agarose gel electrophoresis after restriction endonuclease digestion. ( a ) RNF213 4448 c.13195G > A site was digested by Alu I resulting in the appearance of the GG (wild type, 135/95 bp), GA (heterozygous type, 230/135/95 bp), and AA (mutant type, 230 bp) genotypes in moyamoya disease patients; ( b ) RNF213 4810 c.14429G > A site was digested by Hpy 188I resulting in the appearance of the GG (wild type, 104/42/5 bp), GA (heterozygous type, 146/104/42/5bp), and AA (mutant type, 146 bp) genotypes in moyamoya disease patients. DNA fragments that were 5 bp or less were too small to be seen on 3% agarose gel; ( c ) RNF4863 c.14587G > A site was digested by Hpy 188I resulting in the appearance of the GG (wild type, 867 bp) and GA (hetero type, 867/719/148 bp) genotypes in moyamoya disease patients. No mutant type (AA) was found in this study. ( d ) RNF4950 c.14850G > A site was digested by Bss SαI resulting in the appearance of the GG (wild type, 162/26 bp) and GA (heterozygous type, 188/162/26 bp) genotypes. The mutant type (AA) was not found in results of restriction fragment length polymorphism (RFLP). DNA fragments that were 26 bp or less were too small to be seen on 3% agarose gel.
    Figure Legend Snippet: Polymorphism analysis of RNF213 4448, 4810, 4863, and 4950 in moyamoya disease patients. Polymorphisms analysis of RNF213 genes amplicon by agarose gel electrophoresis after restriction endonuclease digestion. ( a ) RNF213 4448 c.13195G > A site was digested by Alu I resulting in the appearance of the GG (wild type, 135/95 bp), GA (heterozygous type, 230/135/95 bp), and AA (mutant type, 230 bp) genotypes in moyamoya disease patients; ( b ) RNF213 4810 c.14429G > A site was digested by Hpy 188I resulting in the appearance of the GG (wild type, 104/42/5 bp), GA (heterozygous type, 146/104/42/5bp), and AA (mutant type, 146 bp) genotypes in moyamoya disease patients. DNA fragments that were 5 bp or less were too small to be seen on 3% agarose gel; ( c ) RNF4863 c.14587G > A site was digested by Hpy 188I resulting in the appearance of the GG (wild type, 867 bp) and GA (hetero type, 867/719/148 bp) genotypes in moyamoya disease patients. No mutant type (AA) was found in this study. ( d ) RNF4950 c.14850G > A site was digested by Bss SαI resulting in the appearance of the GG (wild type, 162/26 bp) and GA (heterozygous type, 188/162/26 bp) genotypes. The mutant type (AA) was not found in results of restriction fragment length polymorphism (RFLP). DNA fragments that were 26 bp or less were too small to be seen on 3% agarose gel.

    Techniques Used: Amplification, Agarose Gel Electrophoresis, Mutagenesis

    8) Product Images from "Diversity of Bacteria Associated with Natural Aphid Populations"

    Article Title: Diversity of Bacteria Associated with Natural Aphid Populations

    Journal: Applied and Environmental Microbiology

    doi: 10.1128/AEM.69.12.7216-7223.2003

    Electropherograms of the T-RFs produced by Alu I- Bse RI (AB) digestion (A, C, E, G, I, and K) and Sma I- Cla I- Xba I (SCX) digestion (B, D, F, H, J, and L) of PCR amplicons from 16S rRNA genes from the reference lines of the pea aphid A. pisum LMB95/28 (A and B), R (C and D), IS (E and F), FH (G and H), and MD (I and J) and aphid 1330 from the natural population of A. pisum (K and L). The T-RFs are shown in black, and the internal standards (50, 75, 100, 139, 150, 160, 200, 250, 300, 340, 350, 400, 450, 490, and 500 bp) are shown in gray.
    Figure Legend Snippet: Electropherograms of the T-RFs produced by Alu I- Bse RI (AB) digestion (A, C, E, G, I, and K) and Sma I- Cla I- Xba I (SCX) digestion (B, D, F, H, J, and L) of PCR amplicons from 16S rRNA genes from the reference lines of the pea aphid A. pisum LMB95/28 (A and B), R (C and D), IS (E and F), FH (G and H), and MD (I and J) and aphid 1330 from the natural population of A. pisum (K and L). The T-RFs are shown in black, and the internal standards (50, 75, 100, 139, 150, 160, 200, 250, 300, 340, 350, 400, 450, 490, and 500 bp) are shown in gray.

    Techniques Used: Produced, Polymerase Chain Reaction

    9) Product Images from "Spotted Fever Group and Typhus Group Rickettsioses in Humans, South Korea"

    Article Title: Spotted Fever Group and Typhus Group Rickettsioses in Humans, South Korea

    Journal: Emerging Infectious Diseases

    doi: 10.3201/eid1102.040603

    Restriction fragment length polymorphism analysis of H1 products amplified with multiplex-nested primer set from seropositive sera. Ethidium bromide–stained polyacrylamide gels of Alu I restriction endonuclease digestion of ≈420 bp rickettsial DNA amplified by using the nested primer H set WJ77/80 in the primary reactions and WJ79/83/78 in the nested reactions. Lanes: M, size marker DNA (25-bp DNA ladder); 1–18: H1–H18; 19–23: H20–24; C, Rickettsia conorii ; A, R. akari ; J, R. japonica ; F, R. felis . J–S; predicted fragments after digestion. The number on the left indicates the molecular size (in base pairs) of restriction fragments.
    Figure Legend Snippet: Restriction fragment length polymorphism analysis of H1 products amplified with multiplex-nested primer set from seropositive sera. Ethidium bromide–stained polyacrylamide gels of Alu I restriction endonuclease digestion of ≈420 bp rickettsial DNA amplified by using the nested primer H set WJ77/80 in the primary reactions and WJ79/83/78 in the nested reactions. Lanes: M, size marker DNA (25-bp DNA ladder); 1–18: H1–H18; 19–23: H20–24; C, Rickettsia conorii ; A, R. akari ; J, R. japonica ; F, R. felis . J–S; predicted fragments after digestion. The number on the left indicates the molecular size (in base pairs) of restriction fragments.

    Techniques Used: Amplification, Multiplex Assay, Staining, Marker

    Restriction fragment length polymorphism analysis of H2-products amplified with multiplex-nested primer set from seropositive sera. Ethidium bromide–stained polyacrylamide gels of Alu I restriction endonuclease digestion of ≈230-bp rickettsial DNA amplified by using the nested primer H set WJ77/80 in the primary reactions and WJ79/83/78 in the nested reactions. Lanes: M, size marker DNA (25-bp DNA ladder); 1, H3-2; 2, H7-2; 3, H8-2; 4, H13-2; 5, H14-2; 6, H15-2; 7, H18-2; 8, H19; P, Rickettsia prowazekii ; T, R. typhi . P and T; predicted fragments after digestion. The number on the left indicates the molecular size (in base pairs) of restriction fragments.
    Figure Legend Snippet: Restriction fragment length polymorphism analysis of H2-products amplified with multiplex-nested primer set from seropositive sera. Ethidium bromide–stained polyacrylamide gels of Alu I restriction endonuclease digestion of ≈230-bp rickettsial DNA amplified by using the nested primer H set WJ77/80 in the primary reactions and WJ79/83/78 in the nested reactions. Lanes: M, size marker DNA (25-bp DNA ladder); 1, H3-2; 2, H7-2; 3, H8-2; 4, H13-2; 5, H14-2; 6, H15-2; 7, H18-2; 8, H19; P, Rickettsia prowazekii ; T, R. typhi . P and T; predicted fragments after digestion. The number on the left indicates the molecular size (in base pairs) of restriction fragments.

    Techniques Used: Amplification, Multiplex Assay, Staining, Marker

    10) Product Images from "Buccal cells DNA extraction to obtain high quality human genomic DNA suitable for polymorphism genotyping by PCR-RFLP and Real-Time PCR"

    Article Title: Buccal cells DNA extraction to obtain high quality human genomic DNA suitable for polymorphism genotyping by PCR-RFLP and Real-Time PCR

    Journal: Journal of Applied Oral Science

    doi: 10.1590/S1678-77572012000400013

    Epidermal growth factor (EGF) polymorphism (rs 4444903) genotyped by polymerase chain reaction - restriction fragment length polymorphism (PCR-RFLP) using DNA extracted from different incubation times (T0, T4 and T8); A) PCR amplicons and B) digestion with Alu I
    Figure Legend Snippet: Epidermal growth factor (EGF) polymorphism (rs 4444903) genotyped by polymerase chain reaction - restriction fragment length polymorphism (PCR-RFLP) using DNA extracted from different incubation times (T0, T4 and T8); A) PCR amplicons and B) digestion with Alu I

    Techniques Used: Polymerase Chain Reaction, Incubation

    11) Product Images from "Comprehensive detection and identification of human coronaviruses, including the SARS-associated coronavirus, with a single RT-PCR assay"

    Article Title: Comprehensive detection and identification of human coronaviruses, including the SARS-associated coronavirus, with a single RT-PCR assay

    Journal: Journal of Virological Methods

    doi: 10.1016/j.jviromet.2004.07.008

    Alu I digestion of amplicons from SARS-HCoV, HCoV-229E and HCoV-OC43. Lanes 1, 3 and 5 (MW): molecular weight markers (Amplisize ladder 50–2000 bp, Bio-Rad Laboratories, Mississauga, Canada); Lane 2: SARS-HCoV (predicted fragments: 126 bp, 94 bp); Lane 4: HCoV-229E (predicted fragments: 101 bp, 86 bp, 33 bp); Lane 6: HCoV-OC43 (predicted fragment: 220 bp).
    Figure Legend Snippet: Alu I digestion of amplicons from SARS-HCoV, HCoV-229E and HCoV-OC43. Lanes 1, 3 and 5 (MW): molecular weight markers (Amplisize ladder 50–2000 bp, Bio-Rad Laboratories, Mississauga, Canada); Lane 2: SARS-HCoV (predicted fragments: 126 bp, 94 bp); Lane 4: HCoV-229E (predicted fragments: 101 bp, 86 bp, 33 bp); Lane 6: HCoV-OC43 (predicted fragment: 220 bp).

    Techniques Used: Molecular Weight

    12) Product Images from "Re-Evaluation of a Bacterial Antifreeze Protein as an Adhesin with Ice-Binding Activity"

    Article Title: Re-Evaluation of a Bacterial Antifreeze Protein as an Adhesin with Ice-Binding Activity

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0048805

    Estimation of 312-bp repeat copy number by Southern blotting. (A) Schematic diagram of the Mp AFP coding region illustrating the relative positions of restriction enzyme cut sites. Cross-hatched lines indicate the break between the two segments of Mp AFP coding region described in Fig. 3 . Four restriction enzymes, including Mse I, Ase I, Pst I and Alu I cut only outside the 312-bp repeats. Since the cut site of Mse I (T/TAA) is present within that of Ase I (AT/TAAT), Mse I is indicated in parentheses beside Ase I. Msp I is the only restriction enzyme in this set that cuts within the 312-bp repeats in RII, and it also cuts once in RI. (B) Southern blot of the digests using a 2×312-bp repeat from RII as the probe. Undigested DNA (lane 6) remained near the well, whereas the four restriction enzymes Alu I, Pst I, Ase I and Mse I (lane 1, 2, 4 and 5) that cut outside the repeats produced a fragment of approximately 37,500 bp in length. The Msp I (lane 3) partial digest produced a ladder of bands at 312-bp intervals and those containing between 2 (624 bp) and 13 (4056 bp) repeats are marked on this blot. DNA length markers (kb) are indicated on the left of the blot.
    Figure Legend Snippet: Estimation of 312-bp repeat copy number by Southern blotting. (A) Schematic diagram of the Mp AFP coding region illustrating the relative positions of restriction enzyme cut sites. Cross-hatched lines indicate the break between the two segments of Mp AFP coding region described in Fig. 3 . Four restriction enzymes, including Mse I, Ase I, Pst I and Alu I cut only outside the 312-bp repeats. Since the cut site of Mse I (T/TAA) is present within that of Ase I (AT/TAAT), Mse I is indicated in parentheses beside Ase I. Msp I is the only restriction enzyme in this set that cuts within the 312-bp repeats in RII, and it also cuts once in RI. (B) Southern blot of the digests using a 2×312-bp repeat from RII as the probe. Undigested DNA (lane 6) remained near the well, whereas the four restriction enzymes Alu I, Pst I, Ase I and Mse I (lane 1, 2, 4 and 5) that cut outside the repeats produced a fragment of approximately 37,500 bp in length. The Msp I (lane 3) partial digest produced a ladder of bands at 312-bp intervals and those containing between 2 (624 bp) and 13 (4056 bp) repeats are marked on this blot. DNA length markers (kb) are indicated on the left of the blot.

    Techniques Used: Southern Blot, Produced

    13) Product Images from "Association of the programmed cell death 1 (PDCD1) gene polymorphism with ankylosing spondylitis in the Korean population"

    Article Title: Association of the programmed cell death 1 (PDCD1) gene polymorphism with ankylosing spondylitis in the Korean population

    Journal: Arthritis Research & Therapy

    doi: 10.1186/ar2071

    Gel electrophoresis patterns of PD-1.5 and PD-1.9. (a) The amplified fragments of PD-1.5 were digested with Alu I: the polymerase chain reaction (PCR) product size was 333 base pairs (bp), which was digested to 264 and 69 bp. If the product was digested, the allele was identified as T; if not, it was identified as C. (b) The amplified fragments of PD-1.9 were digested with Bpu 10I: the PCR product size was 408 bp, which was digested to 260 and 145 bp. If the product was digested, the allele was identified as C; if not, it was identified as T.
    Figure Legend Snippet: Gel electrophoresis patterns of PD-1.5 and PD-1.9. (a) The amplified fragments of PD-1.5 were digested with Alu I: the polymerase chain reaction (PCR) product size was 333 base pairs (bp), which was digested to 264 and 69 bp. If the product was digested, the allele was identified as T; if not, it was identified as C. (b) The amplified fragments of PD-1.9 were digested with Bpu 10I: the PCR product size was 408 bp, which was digested to 260 and 145 bp. If the product was digested, the allele was identified as C; if not, it was identified as T.

    Techniques Used: Nucleic Acid Electrophoresis, Amplification, Polymerase Chain Reaction

    14) Product Images from "Development and validation of a T7 based linear amplification for genomic DNA"

    Article Title: Development and validation of a T7 based linear amplification for genomic DNA

    Journal: BMC Genomics

    doi: 10.1186/1471-2164-4-19

    Size distributions for starting material and IVT amplified product. Lanes 1–3 each contain 250 ng DNA run on a 2% non-denaturing agarose gel. Lanes 4–5 each contain 500 ng RNA run on a 2% denaturing agarose gel. The denaturing gel is necessary to eliminate RNA secondary structure. Lane 1: 100 bp ladder (NEB). Lane 2: starting material (yeast genomic DNA digested with Alu I and previously gel-purified to a size range of 100–700 bp). Lane 3: amplified product generated by R-PCR from 50 ng starting material. Lane 4: amplified RNA product generated by IVT from 50 ng starting material. Lane 5: 100 bp RNA Ladder (Ambion). The R-PCR amplified product appears to significantly under-represent low molecular weight species. The IVT amplified product may slightly under-represent high molecular weight species. For clarity, the denaturing gel image was rescaled to match the ladder of the non-denaturing gel.
    Figure Legend Snippet: Size distributions for starting material and IVT amplified product. Lanes 1–3 each contain 250 ng DNA run on a 2% non-denaturing agarose gel. Lanes 4–5 each contain 500 ng RNA run on a 2% denaturing agarose gel. The denaturing gel is necessary to eliminate RNA secondary structure. Lane 1: 100 bp ladder (NEB). Lane 2: starting material (yeast genomic DNA digested with Alu I and previously gel-purified to a size range of 100–700 bp). Lane 3: amplified product generated by R-PCR from 50 ng starting material. Lane 4: amplified RNA product generated by IVT from 50 ng starting material. Lane 5: 100 bp RNA Ladder (Ambion). The R-PCR amplified product appears to significantly under-represent low molecular weight species. The IVT amplified product may slightly under-represent high molecular weight species. For clarity, the denaturing gel image was rescaled to match the ladder of the non-denaturing gel.

    Techniques Used: Amplification, Agarose Gel Electrophoresis, Purification, Generated, Polymerase Chain Reaction, Molecular Weight

    Hierarchical clustering of replicate datasets generated by direct labeling, IVT and R-PCR. Each thin bar represents a single datapoint. Red bars correspond to enrichment in the Cy5-labeled Alu I probe, while green bars correspond to enrichment in the Cy3-labeled Rsa I probe. The dendrograms (top) indicate clustering relationships among the sample replicates. The lengths of the branches represent the degree of similarity between the samples (shorter indicates higher similarity). Purple stripes to the right of the diagram highlight discordant areas (log ratios with opposite signs) in the R-PCR replicates relative to the direct labeling and IVT samples.
    Figure Legend Snippet: Hierarchical clustering of replicate datasets generated by direct labeling, IVT and R-PCR. Each thin bar represents a single datapoint. Red bars correspond to enrichment in the Cy5-labeled Alu I probe, while green bars correspond to enrichment in the Cy3-labeled Rsa I probe. The dendrograms (top) indicate clustering relationships among the sample replicates. The lengths of the branches represent the degree of similarity between the samples (shorter indicates higher similarity). Purple stripes to the right of the diagram highlight discordant areas (log ratios with opposite signs) in the R-PCR replicates relative to the direct labeling and IVT samples.

    Techniques Used: Generated, Labeling, Polymerase Chain Reaction

    15) Product Images from "Helicobactermarmotae and novel Helicobacter and Campylobacter species isolated from the livers and intestines of prairie dogs"

    Article Title: Helicobactermarmotae and novel Helicobacter and Campylobacter species isolated from the livers and intestines of prairie dogs

    Journal: Journal of Medical Microbiology

    doi: 10.1099/jmm.0.032144-0

    PCR products of 1.2 kb produced using Helicobacter genus-specific primers were digested by Alu I (a) or Hha I (b) and analysed by electrophoresis on a 6 % Visigel matrix. Lanes 1–4, prairie dog isolates MIT 07-5168, MIT 07-5167, MIT 04-8588
    Figure Legend Snippet: PCR products of 1.2 kb produced using Helicobacter genus-specific primers were digested by Alu I (a) or Hha I (b) and analysed by electrophoresis on a 6 % Visigel matrix. Lanes 1–4, prairie dog isolates MIT 07-5168, MIT 07-5167, MIT 04-8588

    Techniques Used: Polymerase Chain Reaction, Produced, Electrophoresis

    16) Product Images from "Genome-Wide Identification of Ampicillin Resistance Determinants in Enterococcus faecium"

    Article Title: Genome-Wide Identification of Ampicillin Resistance Determinants in Enterococcus faecium

    Journal: PLoS Genetics

    doi: 10.1371/journal.pgen.1002804

    Schematic diagram and reproducibility of M-TraM. (A) Schematic overview of the M-TraM screening. In yellow: inverted terminal repeats (ITRs) of the himar1 transposon with outward-facing T7 promoters; in blue: the gentamicin resistance gene in the transposon. Genomic DNA is isolated from the E. faecium mutant library. DNA is digested with the restriction enzyme Alu I, and the DNA fragments are circularized by self-ligation. The transposon-chromosome junction together with an ITR and a T7 promoter is amplified by PCR with primers (blue arrow) that hybridize to the transposon. To eliminate foreign DNA fragments that ligated into the circularized DNA of transposon-chromosome junctions, the PCR products were re-digested with Alu I. The purified DNA fragments are used as template in the in vitro transcription reaction. The resulting RNA products are reverse transcribed into cDNA. After labelling, the cDNA is used for microarray hybridization. (B) Schematic overview of the screening strategy to identify conditionally essential genes by M-TraM. A chromosomal region encompassing three genes (A, B, and C) from three different mutants (1, 2, and 3) is shown. Each mutant carries a single transposon insertion (blue) that disrupts the function of the gene. Mutant libraries are grown in a control condition ( e.g. , BHI) and a test condition ( e.g. , in the presence of ampicillin). All the three genes are non-essential for growth in the control condition. Gene B is required only for the test condition, so mutant 2 exhibits attenuated growth or poorer survival only in the test condition, and will consequently be reduced or be entirely lost from this library (indicated by light shading). M-TraM samples are generated from the two conditions, labelled with different dyes, and hybridized to a microarray. The DNA probes of gene A and gene C on the microarray will hybridize to the samples generated from both conditions. However, the cDNA sample of gene B will be present at reduced levels only in the test condition. By comparing the signal intensity from the two conditions for each probe, genes involved in growth or survival of the test condition can be identified. (C) Reproducibility of M-TraM. Log-log plot of the microarray signal intensities from two independent experiments of mutant libraries grown under non-selective conditions in BHI broth.
    Figure Legend Snippet: Schematic diagram and reproducibility of M-TraM. (A) Schematic overview of the M-TraM screening. In yellow: inverted terminal repeats (ITRs) of the himar1 transposon with outward-facing T7 promoters; in blue: the gentamicin resistance gene in the transposon. Genomic DNA is isolated from the E. faecium mutant library. DNA is digested with the restriction enzyme Alu I, and the DNA fragments are circularized by self-ligation. The transposon-chromosome junction together with an ITR and a T7 promoter is amplified by PCR with primers (blue arrow) that hybridize to the transposon. To eliminate foreign DNA fragments that ligated into the circularized DNA of transposon-chromosome junctions, the PCR products were re-digested with Alu I. The purified DNA fragments are used as template in the in vitro transcription reaction. The resulting RNA products are reverse transcribed into cDNA. After labelling, the cDNA is used for microarray hybridization. (B) Schematic overview of the screening strategy to identify conditionally essential genes by M-TraM. A chromosomal region encompassing three genes (A, B, and C) from three different mutants (1, 2, and 3) is shown. Each mutant carries a single transposon insertion (blue) that disrupts the function of the gene. Mutant libraries are grown in a control condition ( e.g. , BHI) and a test condition ( e.g. , in the presence of ampicillin). All the three genes are non-essential for growth in the control condition. Gene B is required only for the test condition, so mutant 2 exhibits attenuated growth or poorer survival only in the test condition, and will consequently be reduced or be entirely lost from this library (indicated by light shading). M-TraM samples are generated from the two conditions, labelled with different dyes, and hybridized to a microarray. The DNA probes of gene A and gene C on the microarray will hybridize to the samples generated from both conditions. However, the cDNA sample of gene B will be present at reduced levels only in the test condition. By comparing the signal intensity from the two conditions for each probe, genes involved in growth or survival of the test condition can be identified. (C) Reproducibility of M-TraM. Log-log plot of the microarray signal intensities from two independent experiments of mutant libraries grown under non-selective conditions in BHI broth.

    Techniques Used: Isolation, Mutagenesis, Ligation, Amplification, Polymerase Chain Reaction, Purification, In Vitro, Microarray, Hybridization, Generated

    17) Product Images from "Neorickettsia sennetsu as a Neglected Cause of Fever in South-East Asia"

    Article Title: Neorickettsia sennetsu as a Neglected Cause of Fever in South-East Asia

    Journal: PLoS Neglected Tropical Diseases

    doi: 10.1371/journal.pntd.0003908

    Schematic alignment of N . sennetsu and related organisms showing the restrictions sites used for the RFLP. The unique RFLP pattern of the 16 sRNA gene target, after incubation with Alu I (green), Bsm FI (yellow) or Sty I (red) allow the differentiation of N . sennetsu , E . chaffeensis and A . phagocytophium as well as other potentially amplified organisms. The resulting fragment sizes are as follows; N . sennetsu – Alu I: 345bp (uncut); Bsm F1: 180bp, 80bp, 60bp, 16bp; Sty I: 215bp, 127bp; E . chaffeensis–Alu I: 345bp (uncut); Bsm F1: 328bp, 16bp; Sty I: 215bp, 127bp; A . phagocytophium–Alu I: 199bp, 145bp Bsm F1: 328bp, 16bp; Sty I: 345bp (uncut).
    Figure Legend Snippet: Schematic alignment of N . sennetsu and related organisms showing the restrictions sites used for the RFLP. The unique RFLP pattern of the 16 sRNA gene target, after incubation with Alu I (green), Bsm FI (yellow) or Sty I (red) allow the differentiation of N . sennetsu , E . chaffeensis and A . phagocytophium as well as other potentially amplified organisms. The resulting fragment sizes are as follows; N . sennetsu – Alu I: 345bp (uncut); Bsm F1: 180bp, 80bp, 60bp, 16bp; Sty I: 215bp, 127bp; E . chaffeensis–Alu I: 345bp (uncut); Bsm F1: 328bp, 16bp; Sty I: 215bp, 127bp; A . phagocytophium–Alu I: 199bp, 145bp Bsm F1: 328bp, 16bp; Sty I: 345bp (uncut).

    Techniques Used: Incubation, Amplification

    18) Product Images from "Direct Quantitative Monitoring of Homology-Directed DNA Repair of Damaged Telomeres"

    Article Title: Direct Quantitative Monitoring of Homology-Directed DNA Repair of Damaged Telomeres

    Journal: Methods in enzymology

    doi: 10.1016/bs.mie.2017.11.010

    Overview of the SMARD assay to study break-induced telomere synthesis. (A) Induction of DSBs at the telomeres and labeling of nascent DNA by thymidine analogues: IdU and CIdU. (B) Cell lysis and digestion of genomic DNA by Alu I and Mbo I. The × sign represents multiple restriction sites for the two enzymes in nontelomeric DNA. However, due to the GC-rich nature of telomeric DNA, most of the telomeres remain uncut by these two frequent cutters. (C) Agarose gel electrophoresis to separate the digested nontelomeric genomic DNA from the telomeres. (D) The isolated DNA is YOYO-1 stained and stretched onto silanized cover glasses. (E) Immunofluorescence-FISH to detect nascent telomeres. (F) Image acquisition and analysis.
    Figure Legend Snippet: Overview of the SMARD assay to study break-induced telomere synthesis. (A) Induction of DSBs at the telomeres and labeling of nascent DNA by thymidine analogues: IdU and CIdU. (B) Cell lysis and digestion of genomic DNA by Alu I and Mbo I. The × sign represents multiple restriction sites for the two enzymes in nontelomeric DNA. However, due to the GC-rich nature of telomeric DNA, most of the telomeres remain uncut by these two frequent cutters. (C) Agarose gel electrophoresis to separate the digested nontelomeric genomic DNA from the telomeres. (D) The isolated DNA is YOYO-1 stained and stretched onto silanized cover glasses. (E) Immunofluorescence-FISH to detect nascent telomeres. (F) Image acquisition and analysis.

    Techniques Used: Labeling, Lysis, Agarose Gel Electrophoresis, Isolation, Staining, Immunofluorescence, Fluorescence In Situ Hybridization

    Autoradiogram of an agarose gel hybridized with a 32 P-telomeric probe. Lane 1: Undigested DNA from a U2OS cell line. Lane 2: DNA from U2OS cells digested with Alu I and Mbo I. Lane 3: DNA from U2OS cells labeled with 30μ M IdU and 30μ M CIdU and digested with Alu I and Mbo I. This lane shows that the incorporation of the thymidine analogue does not affect the digestion efficiency of the restriction enzymes.
    Figure Legend Snippet: Autoradiogram of an agarose gel hybridized with a 32 P-telomeric probe. Lane 1: Undigested DNA from a U2OS cell line. Lane 2: DNA from U2OS cells digested with Alu I and Mbo I. Lane 3: DNA from U2OS cells labeled with 30μ M IdU and 30μ M CIdU and digested with Alu I and Mbo I. This lane shows that the incorporation of the thymidine analogue does not affect the digestion efficiency of the restriction enzymes.

    Techniques Used: Agarose Gel Electrophoresis, Labeling

    19) Product Images from "Genetic Diversity of Plasmodium vivax in Clinical Isolates from Southern Thailand using PvMSP1, PvMSP3 (PvMSP3α, PvMSP3β) Genes and Eight Microsatellite Markers"

    Article Title: Genetic Diversity of Plasmodium vivax in Clinical Isolates from Southern Thailand using PvMSP1, PvMSP3 (PvMSP3α, PvMSP3β) Genes and Eight Microsatellite Markers

    Journal: The Korean Journal of Parasitology

    doi: 10.3347/kjp.2019.57.5.469

    Restriction fragment length polymorphism patterns of Plasmodium vivax . (A) PvMSP3α after PCR/RFLP using Hha I enzyme. (B) PvMSP3β after PCR/RFLP using Pst I enzyme. (C) PvMSP1 F2 after PCR/RFLP using Alu I enzyme. M represented 100-bp marker.
    Figure Legend Snippet: Restriction fragment length polymorphism patterns of Plasmodium vivax . (A) PvMSP3α after PCR/RFLP using Hha I enzyme. (B) PvMSP3β after PCR/RFLP using Pst I enzyme. (C) PvMSP1 F2 after PCR/RFLP using Alu I enzyme. M represented 100-bp marker.

    Techniques Used: Polymerase Chain Reaction, Marker

    20) Product Images from "Molecular and epidemiological characterization of Plasmodium vivax recurrent infections in southern Mexico"

    Article Title: Molecular and epidemiological characterization of Plasmodium vivax recurrent infections in southern Mexico

    Journal: Parasites & Vectors

    doi: 10.1186/1756-3305-6-109

    Plasmodium vivax msp3α genotypes. PCR products were digested with Alu I, and the digested products are separated side-by-side with their undigested products on agarose gels. a) Shows different genotypes indicated by capital letters underneath. b) Lanes 1, 3, 5, 7, 9, and 11 are undigested products of ~2.0 kb, and lanes 2, 4, 6, 8, 10, and 12 were the same products digested with Alu I. Lane 2 presents genotype C; lane 4, 10, and 12 present genotype B; lane 6 and 8 are mixed genotypes of A+C; c) genotype G; d) genotype D; and e) genotype H. m, 100 bp DNA ladder.
    Figure Legend Snippet: Plasmodium vivax msp3α genotypes. PCR products were digested with Alu I, and the digested products are separated side-by-side with their undigested products on agarose gels. a) Shows different genotypes indicated by capital letters underneath. b) Lanes 1, 3, 5, 7, 9, and 11 are undigested products of ~2.0 kb, and lanes 2, 4, 6, 8, 10, and 12 were the same products digested with Alu I. Lane 2 presents genotype C; lane 4, 10, and 12 present genotype B; lane 6 and 8 are mixed genotypes of A+C; c) genotype G; d) genotype D; and e) genotype H. m, 100 bp DNA ladder.

    Techniques Used: Polymerase Chain Reaction

    21) Product Images from "Genetic structure of Plasmodium vivax and Plasmodium falciparum in the Bannu district of Pakistan"

    Article Title: Genetic structure of Plasmodium vivax and Plasmodium falciparum in the Bannu district of Pakistan

    Journal: Malaria Journal

    doi: 10.1186/1475-2875-9-112

    Major merozoite surface protein-3α alleles identified by PCR and digestion with Alu I and Hha I restriction enzymes in the Plasmodium vivax population from Bannu district, Pakistan . Lane 1 = 50 bp, 2 = 1 Kb, and 3 = 100 bp DNA marker. A, B, C = Undigested PCR products. A1, A2 ... are allele types revealed by digestion of the respective PCR products with Alu I, while a1, a2 ... are the allele types obtained by digestion with Hha I, and M = mixed genotype. Frequencies of these alleles are presented in Table 2.
    Figure Legend Snippet: Major merozoite surface protein-3α alleles identified by PCR and digestion with Alu I and Hha I restriction enzymes in the Plasmodium vivax population from Bannu district, Pakistan . Lane 1 = 50 bp, 2 = 1 Kb, and 3 = 100 bp DNA marker. A, B, C = Undigested PCR products. A1, A2 ... are allele types revealed by digestion of the respective PCR products with Alu I, while a1, a2 ... are the allele types obtained by digestion with Hha I, and M = mixed genotype. Frequencies of these alleles are presented in Table 2.

    Techniques Used: Polymerase Chain Reaction, Marker

    22) Product Images from "Intertidal marine sediment harbours Actinobacteria with promising bioactive and biosynthetic potential"

    Article Title: Intertidal marine sediment harbours Actinobacteria with promising bioactive and biosynthetic potential

    Journal: Scientific Reports

    doi: 10.1038/s41598-017-09672-6

    Diversity of NRPS studied by amplified fragment restriction fingerprinting method. UPGMA dendrogram ( a ) was inferred by restriction pattern of NRPS amplicons digested by Hae III ( b ) and Alu I ( c ). Lanes in the gels are in original order; irrespective of isolates appear in dendrogram. The gels were analyzed by densitometry and the bands whose areas were greater than 5% of the whole lane area were used for generating binary matrix. The similarities were calculated using the Jaccard’s coefficient, and the clustering was done by using the unweighted pair group method. Genus level affiliation of the isolates is also shown ( d ). Original gels are presented in supplementary Figure S5 .
    Figure Legend Snippet: Diversity of NRPS studied by amplified fragment restriction fingerprinting method. UPGMA dendrogram ( a ) was inferred by restriction pattern of NRPS amplicons digested by Hae III ( b ) and Alu I ( c ). Lanes in the gels are in original order; irrespective of isolates appear in dendrogram. The gels were analyzed by densitometry and the bands whose areas were greater than 5% of the whole lane area were used for generating binary matrix. The similarities were calculated using the Jaccard’s coefficient, and the clustering was done by using the unweighted pair group method. Genus level affiliation of the isolates is also shown ( d ). Original gels are presented in supplementary Figure S5 .

    Techniques Used: Amplification

    Diversity of PKS-II studied by amplified fragment restriction fingerprinting method. UPGMA dendrogram ( a ) was inferred by restriction pattern of PKS-II amplicons digested by Hae III ( b ) and Alu I ( c ). Lanes in the gels are in original order; irrespective of isolates appear in dendrogram. The gels were analyzed by densitometry and the bands whose areas were greater than 5% of the whole lane area were used for generating binary matrix. The similarities were calculated using the Jaccard’s coefficient, and the clustering was done by using the unweighted pair group method. Genus level affiliation of the isolates is also shown ( d ). Original gels are presented in supplementary Figure S6 .
    Figure Legend Snippet: Diversity of PKS-II studied by amplified fragment restriction fingerprinting method. UPGMA dendrogram ( a ) was inferred by restriction pattern of PKS-II amplicons digested by Hae III ( b ) and Alu I ( c ). Lanes in the gels are in original order; irrespective of isolates appear in dendrogram. The gels were analyzed by densitometry and the bands whose areas were greater than 5% of the whole lane area were used for generating binary matrix. The similarities were calculated using the Jaccard’s coefficient, and the clustering was done by using the unweighted pair group method. Genus level affiliation of the isolates is also shown ( d ). Original gels are presented in supplementary Figure S6 .

    Techniques Used: Amplification

    23) Product Images from "Identification of H. pylori strain specific DNA sequences between two clinical isolates from NUD and gastric ulcer by SSH"

    Article Title: Identification of H. pylori strain specific DNA sequences between two clinical isolates from NUD and gastric ulcer by SSH

    Journal: World Journal of Gastroenterology : WJG

    doi: 10.3748/wjg.v9.i8.1747

    Dot blotting to screen the tester strain specific inserts by using the Alu I digested tester DNA (A) and driver DNA (B) as probes. The arrowheads indicate the spots of positive controls.
    Figure Legend Snippet: Dot blotting to screen the tester strain specific inserts by using the Alu I digested tester DNA (A) and driver DNA (B) as probes. The arrowheads indicate the spots of positive controls.

    Techniques Used:

    24) Product Images from "Helicobacter cetorum sp. nov., a Urease-Positive Helicobacter Species Isolated from Dolphins and Whales"

    Article Title: Helicobacter cetorum sp. nov., a Urease-Positive Helicobacter Species Isolated from Dolphins and Whales

    Journal: Journal of Clinical Microbiology

    doi: 10.1128/JCM.40.12.4536-4543.2002

    PCR-RFLP patterns of the 1,200-bp species-specific Helicobacter PCR product from cultures. Lanes 1 through 5 show results for DNA digested by the restriction enzymes Hha I and Alu I as indicated. Lanes 1 and 2, MIT 99-5656 and MIT 99-5657 DNA from Atlantic white-sided dolphin stomach tissues; lanes 3 to 5, MIT 00-7128 (beluga whale), MIT 01-5903 (Pacific white-sided dolphin), and MIT 01-6201 (Atlantic bottlenose dolphin) DNA, respectively, obtained from fecal isolates.
    Figure Legend Snippet: PCR-RFLP patterns of the 1,200-bp species-specific Helicobacter PCR product from cultures. Lanes 1 through 5 show results for DNA digested by the restriction enzymes Hha I and Alu I as indicated. Lanes 1 and 2, MIT 99-5656 and MIT 99-5657 DNA from Atlantic white-sided dolphin stomach tissues; lanes 3 to 5, MIT 00-7128 (beluga whale), MIT 01-5903 (Pacific white-sided dolphin), and MIT 01-6201 (Atlantic bottlenose dolphin) DNA, respectively, obtained from fecal isolates.

    Techniques Used: Polymerase Chain Reaction

    25) Product Images from "Pathogenic properties of enterohepatic Helicobacter spp. isolated from rhesus macaques with intestinal adenocarcinoma"

    Article Title: Pathogenic properties of enterohepatic Helicobacter spp. isolated from rhesus macaques with intestinal adenocarcinoma

    Journal: Journal of Medical Microbiology

    doi: 10.1099/jmm.0.072462-0

    RFLP patterns of Helicobacter sp. monkey taxon 4, H. macacae and Helicobacter sp. monkey taxon 2 generated by Alu I and Hha I.
    Figure Legend Snippet: RFLP patterns of Helicobacter sp. monkey taxon 4, H. macacae and Helicobacter sp. monkey taxon 2 generated by Alu I and Hha I.

    Techniques Used: Generated

    26) Product Images from "An Improved Strategy to Recover Large Fragments of Functional Human Neutrophil Extracellular Traps"

    Article Title: An Improved Strategy to Recover Large Fragments of Functional Human Neutrophil Extracellular Traps

    Journal: Frontiers in Immunology

    doi: 10.3389/fimmu.2013.00166

    Alu-I-derived NETs retain microbicidal activity partially dependent on DNA integrity . S. aureus, E. coli C1845, S. flexneri , and S. enterica serovar Typhimurium SL1344 were incubated for 45 min in the presence of isolated NETs obtained after Alu I treatment of A23187- or PMA-activated PMN. In some experiments, NET samples were pretreated with DNase to dismantle NETs. Bacterial viability was measured by a colony count assay (CFU/mL). Results are expressed as percentage bacterial viability, calculated from CFU/mL values of bacteria exposed to NETs relative to bacteria not exposed to NETs (control tube = C). * p
    Figure Legend Snippet: Alu-I-derived NETs retain microbicidal activity partially dependent on DNA integrity . S. aureus, E. coli C1845, S. flexneri , and S. enterica serovar Typhimurium SL1344 were incubated for 45 min in the presence of isolated NETs obtained after Alu I treatment of A23187- or PMA-activated PMN. In some experiments, NET samples were pretreated with DNase to dismantle NETs. Bacterial viability was measured by a colony count assay (CFU/mL). Results are expressed as percentage bacterial viability, calculated from CFU/mL values of bacteria exposed to NETs relative to bacteria not exposed to NETs (control tube = C). * p

    Techniques Used: Derivative Assay, Activity Assay, Incubation, Isolation

    DNA nucleases induce NET digestion . (A) Migration profile of pure λDNA after digestion with 4 U/mL DNase, MNase, or Alu-I. (B) Alu-I, DNase, and MNase dose-effects on NET dsDNA obtained after A23187 stimulation of PMN. Incubation with the restriction enzymes lasted 20 min at 37°C. DNA migration took place in 0.8% agarose gel containing ethidium bromide.
    Figure Legend Snippet: DNA nucleases induce NET digestion . (A) Migration profile of pure λDNA after digestion with 4 U/mL DNase, MNase, or Alu-I. (B) Alu-I, DNase, and MNase dose-effects on NET dsDNA obtained after A23187 stimulation of PMN. Incubation with the restriction enzymes lasted 20 min at 37°C. DNA migration took place in 0.8% agarose gel containing ethidium bromide.

    Techniques Used: Migration, Incubation, Agarose Gel Electrophoresis

    NETs are recovered after AluI treatment of activated PMN . Unstimulated PMN and PMA- or A23187-stimulated PMN were treated with the restriction enzyme Alu-I. (A) NET samples migrated on agarose gel were stained with ethidium bromide: dsDNA fragments were revealed as a smearing pattern along the gel. (B) Visualization of NET protein content by silver staining. Few proteins were observed in the untreated sample, whereas numerous proteins were observed in PMA- and A23187-NET samples, with similar profiles. (C) Identification of three specific NET proteins (LF, H3, and cit-H3) by immunoblotting. Cit-H3 is a signature of netosis. These experiments were repeated at least six times with PMN from different healthy controls.
    Figure Legend Snippet: NETs are recovered after AluI treatment of activated PMN . Unstimulated PMN and PMA- or A23187-stimulated PMN were treated with the restriction enzyme Alu-I. (A) NET samples migrated on agarose gel were stained with ethidium bromide: dsDNA fragments were revealed as a smearing pattern along the gel. (B) Visualization of NET protein content by silver staining. Few proteins were observed in the untreated sample, whereas numerous proteins were observed in PMA- and A23187-NET samples, with similar profiles. (C) Identification of three specific NET proteins (LF, H3, and cit-H3) by immunoblotting. Cit-H3 is a signature of netosis. These experiments were repeated at least six times with PMN from different healthy controls.

    Techniques Used: Agarose Gel Electrophoresis, Staining, Silver Staining

    27) Product Images from "A missense mutation (Q279R) in the Fumarylacetoacetate Hydrolase gene, responsible for hereditary tyrosinemia, acts as a splicing mutation"

    Article Title: A missense mutation (Q279R) in the Fumarylacetoacetate Hydrolase gene, responsible for hereditary tyrosinemia, acts as a splicing mutation

    Journal: BMC Genetics

    doi: 10.1186/1471-2156-2-9

    Mutation analysis in different liver regions. DNA was extracted from different liver regions and amplified by PCR. PCR products were digested with either Alu I to detect IVS6-1g- > t or with Msp I to detect Q279R. For IVS6-1 g- > t, the same heterozygous pattern is seen in both the reverted nodule (NT), tumor section (T) and fibroblast DNA (F), showing 3 bands, one at 156-, another at 104- and the last at 75-bp. The control (wt/wt) shows two bands, one at 156- and the other at 75-bp, indicating the absence of IVS6-1g- > t (M: molecular weight marker, 100- and 200-bp). For Q279R both the 78- and 58-bp bands are seen in the tumor section (T) and fibroblast DNA (F) indicating an heterozygous genotype while only the 78-bp wild-type band is seen in the control (wt/wt). In the region suspected of reversion (NT), a strong 78-bp wild-type band is seen with a weak 58-bp mutated band (M: molecular weight marker, 100-bp).
    Figure Legend Snippet: Mutation analysis in different liver regions. DNA was extracted from different liver regions and amplified by PCR. PCR products were digested with either Alu I to detect IVS6-1g- > t or with Msp I to detect Q279R. For IVS6-1 g- > t, the same heterozygous pattern is seen in both the reverted nodule (NT), tumor section (T) and fibroblast DNA (F), showing 3 bands, one at 156-, another at 104- and the last at 75-bp. The control (wt/wt) shows two bands, one at 156- and the other at 75-bp, indicating the absence of IVS6-1g- > t (M: molecular weight marker, 100- and 200-bp). For Q279R both the 78- and 58-bp bands are seen in the tumor section (T) and fibroblast DNA (F) indicating an heterozygous genotype while only the 78-bp wild-type band is seen in the control (wt/wt). In the region suspected of reversion (NT), a strong 78-bp wild-type band is seen with a weak 58-bp mutated band (M: molecular weight marker, 100-bp).

    Techniques Used: Mutagenesis, Amplification, Polymerase Chain Reaction, Molecular Weight, Marker

    28) Product Images from "DNA methylome profiling at single-base resolution through bisulfite sequencing of 5mC-immunoprecipitated DNA"

    Article Title: DNA methylome profiling at single-base resolution through bisulfite sequencing of 5mC-immunoprecipitated DNA

    Journal: BMC Biotechnology

    doi: 10.1186/s12896-017-0409-7

    Schematic outline of the MB-seq and MRB-seq experiment. a Schematic drawing of MB-seq approach. Genomic DNA was randomly fragmented to 100–300 bp and ligated to Alu I-linkers with a methylated Alu I recognition site close to the T-overhang. The ligated-fragments were captured using methylcytosine antibody, then treated with sodium bisulfite and converted to double stranded DNA by amplification using biotin labelled Alu I primers. The Alu I-linker was digested and removed by streptavidin coupled beads. The linker-removed sequence was added 3’end A-tailing, then ligated to Illumina multiplexing adaptors following PCR amplification using Illumina paired-end PCR primers. The PCR products of 230–250 bases in length were size-selected on a gel and sequenced on the Illumina platform. b Schematic drawing of MRB-seq approach. Repetitive DNA elements were removed using Cot-1 DNA after MeDIP (based on the MB-seq approach). Cot-1 DNA was labelled with biotin and coupled with streptavidin, and the streptavidin-biotin-Cot-1 DNA was hybridized to enriched methylated DNA fragments via MeDIP to remove repeat fragments. The methylated fragments obtained (single/low copy DNA fragments) were then subjected to sodium bisulfite treatment, PCR amplification, Alu I digestion and sequencing library preparation, as per MB-seq
    Figure Legend Snippet: Schematic outline of the MB-seq and MRB-seq experiment. a Schematic drawing of MB-seq approach. Genomic DNA was randomly fragmented to 100–300 bp and ligated to Alu I-linkers with a methylated Alu I recognition site close to the T-overhang. The ligated-fragments were captured using methylcytosine antibody, then treated with sodium bisulfite and converted to double stranded DNA by amplification using biotin labelled Alu I primers. The Alu I-linker was digested and removed by streptavidin coupled beads. The linker-removed sequence was added 3’end A-tailing, then ligated to Illumina multiplexing adaptors following PCR amplification using Illumina paired-end PCR primers. The PCR products of 230–250 bases in length were size-selected on a gel and sequenced on the Illumina platform. b Schematic drawing of MRB-seq approach. Repetitive DNA elements were removed using Cot-1 DNA after MeDIP (based on the MB-seq approach). Cot-1 DNA was labelled with biotin and coupled with streptavidin, and the streptavidin-biotin-Cot-1 DNA was hybridized to enriched methylated DNA fragments via MeDIP to remove repeat fragments. The methylated fragments obtained (single/low copy DNA fragments) were then subjected to sodium bisulfite treatment, PCR amplification, Alu I digestion and sequencing library preparation, as per MB-seq

    Techniques Used: Methylation, Amplification, Sequencing, Multiplexing, Polymerase Chain Reaction, Methylated DNA Immunoprecipitation

    29) Product Images from "Q Fever in the Greek Island of Crete: Detection, Isolation, and Molecular Identification of Eight Strains of Coxiella burnetii from Clinical Samples"

    Article Title: Q Fever in the Greek Island of Crete: Detection, Isolation, and Molecular Identification of Eight Strains of Coxiella burnetii from Clinical Samples

    Journal: Journal of Clinical Microbiology

    doi:

    Restriction endonuclease profile analysis of the 257-bp amplification products of eight C. burnetii isolates digested with Alu I. Lanes: A, strain Nine Mile; B, reagent control; C to F, four C. burnetii isolates; G, molecular size markers (ΦX174 cleaved with Hin fI); H to K, four C. burnetii isolates.
    Figure Legend Snippet: Restriction endonuclease profile analysis of the 257-bp amplification products of eight C. burnetii isolates digested with Alu I. Lanes: A, strain Nine Mile; B, reagent control; C to F, four C. burnetii isolates; G, molecular size markers (ΦX174 cleaved with Hin fI); H to K, four C. burnetii isolates.

    Techniques Used: Amplification

    Related Articles

    Amplification:

    Article Title: Molecular Characterization of Clinical Isolates of Aeromonas Species from Malaysia
    Article Snippet: .. Digestion of the amplified 16S rDNA product was carried out for 3 hours at 37°C using 2 U of Alu I (New Englands Biolabs, USA) and Mbo I (New England Biolabs, USA). .. These digested products were electrophoretically separated on 18% v/v PAGE at 160V for 5 hours.

    Agarose Gel Electrophoresis:

    Article Title: Trypanosoma brucei UMSBP2 is a single-stranded telomeric DNA binding protein essential for chromosome end protection
    Article Snippet: .. Genomic DNA samples (1–1.5 μg) were digested with restriction endonucleases HinfI or HinfI and AluI (NEB Inc.) and separated on a 0.7% agarose gel. .. The samples were run in duplicates for hybridization with C-rich and G-rich telomeric probes in parallel.

    Concentration Assay:

    Article Title: Limited reverse transcriptase activity of phi29 DNA polymerase
    Article Snippet: .. Next, RCA products were digested with AluI restriction enzyme in a reaction mixture containing 1 × phi29 DNA polymerase buffer, 0.2 μg/μl BSA, 100 nM restriction oligonucleotide , 120 mU/μl AluI (NEB) and RCA products at a final concentration of 10 pM during 10 min incubation at 37°C. .. Subsequently, the enzyme was heat inactivated at 65°C for 2 min. After complete digestion of the 10 pM RCA products, the RCA monomer concentration is approximately 10 nM (1 h RCA of an 80 base circle yields ∼1000× amplification).

    Incubation:

    Article Title: Limited reverse transcriptase activity of phi29 DNA polymerase
    Article Snippet: .. Next, RCA products were digested with AluI restriction enzyme in a reaction mixture containing 1 × phi29 DNA polymerase buffer, 0.2 μg/μl BSA, 100 nM restriction oligonucleotide , 120 mU/μl AluI (NEB) and RCA products at a final concentration of 10 pM during 10 min incubation at 37°C. .. Subsequently, the enzyme was heat inactivated at 65°C for 2 min. After complete digestion of the 10 pM RCA products, the RCA monomer concentration is approximately 10 nM (1 h RCA of an 80 base circle yields ∼1000× amplification).

    Article Title: Evaluation of a PCR-RFLP- ITS2 assay for discrimination of Anopheles species in northern and western Colombia
    Article Snippet: .. These double digests were performed in a 20 μl reaction containing 20 mM Tris-acetate, 50 mM potassium acetate, 10 mM magnesium acetate, 1 mM dithiothreitol, 1 unit Fsp I and 1 unit Alu I (New England Biolabs, Ipswich, MA, USA), and incubated at 37°C for 4 hours or overnight. ..

    other:

    Article Title: The Catalytic Subunit of DNA-Dependent Protein Kinase Regulates Proliferation, Telomere Length, and Genomic Stability in Human Somatic Cells ▿The Catalytic Subunit of DNA-Dependent Protein Kinase Regulates Proliferation, Telomere Length, and Genomic Stability in Human Somatic Cells ▿ †
    Article Snippet: Terminal restriction fragment (TRF) analysis was performed as described previously ( , ), utilizing the restriction enzymes AluI and MboI (New England Biolabs).

    Polymerase Chain Reaction:

    Article Title: PCR-Restriction Fragment Length Polymorphism Method for Detection of Cyclospora cayetanensis in Environmental Waters without Microscopic Confirmation
    Article Snippet: .. The positive PCR products from the second reaction (10 μl) were digested with 1 U of Alu I (New England Biolabs) at 37°C for 2 h. Fragments were separated, visualized, and photographed as described above. .. During our initial SAR monitoring study, we detected five samples that were PCR-RFLP positive for C . cayetanensis as described by Relman et al. ( ) and Jinneman et al. ( ).

    Article Title: Molecular and epidemiological characterization of Plasmodium vivax recurrent infections in southern Mexico
    Article Snippet: .. The PCR products were digested with Alu I ( New England Biolabs, Beverly, MA) and BstI (Promega, Madison WI) which have restriction sites in the cspr encoding Vk247 and Vk210 regions, respectively [ ]. .. DNA fragments were resolved in a 1.5% gel, visualized under a UV-transilluminator and photographed using the BioDoc-it™ digital photo-documentation system (UVP Inc, Upland , California). b) PCR-RFLP genotyping of the msp3α gene.

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    New England Biolabs alu i
    Polyacrylamide gel showing 16S rDNA-RFLP patterns ( <t>Alu</t> I and Mbo I). L: pBR322 DNA/ BsuRI marker (Fermentas, USA), Lane 1: typical pattern of A. hydrophila (JN 686656), Lane 2: typical pattern of A. caviae (JN 686668), Lane 3: atypical pattern of A. trota (JN 686649), Lanes 4–6: atypical pattern of A. veronii (JN 686665, JN 686691, JN 686739), Lanes 7–10: A. aquariorum (JN 686662, JN 686731, JN 686725, JN 686700).
    Alu I, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 52 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/alu i/product/New England Biolabs
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    New England Biolabs restriction enzyme alu i
    TRF profile generated by mixed bacterial culture with <t>Alu</t> I and forward labeled hsp60 primers. The X axis indicates the size of the TRFs, and the Y axis indicates the percentage of peaks height compared to the tallest peak. The original concentrations
    Restriction Enzyme Alu I, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 89/100, based on 6 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/restriction enzyme alu i/product/New England Biolabs
    Average 89 stars, based on 6 article reviews
    Price from $9.99 to $1999.99
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    Image Search Results


    Polyacrylamide gel showing 16S rDNA-RFLP patterns ( Alu I and Mbo I). L: pBR322 DNA/ BsuRI marker (Fermentas, USA), Lane 1: typical pattern of A. hydrophila (JN 686656), Lane 2: typical pattern of A. caviae (JN 686668), Lane 3: atypical pattern of A. trota (JN 686649), Lanes 4–6: atypical pattern of A. veronii (JN 686665, JN 686691, JN 686739), Lanes 7–10: A. aquariorum (JN 686662, JN 686731, JN 686725, JN 686700).

    Journal: PLoS ONE

    Article Title: Molecular Characterization of Clinical Isolates of Aeromonas Species from Malaysia

    doi: 10.1371/journal.pone.0030205

    Figure Lengend Snippet: Polyacrylamide gel showing 16S rDNA-RFLP patterns ( Alu I and Mbo I). L: pBR322 DNA/ BsuRI marker (Fermentas, USA), Lane 1: typical pattern of A. hydrophila (JN 686656), Lane 2: typical pattern of A. caviae (JN 686668), Lane 3: atypical pattern of A. trota (JN 686649), Lanes 4–6: atypical pattern of A. veronii (JN 686665, JN 686691, JN 686739), Lanes 7–10: A. aquariorum (JN 686662, JN 686731, JN 686725, JN 686700).

    Article Snippet: Digestion of the amplified 16S rDNA product was carried out for 3 hours at 37°C using 2 U of Alu I (New Englands Biolabs, USA) and Mbo I (New England Biolabs, USA).

    Techniques: Marker

    Plasmodium vivax msp3α genotypes. PCR products were digested with Alu I, and the digested products are separated side-by-side with their undigested products on agarose gels. a) Shows different genotypes indicated by capital letters underneath. b) Lanes 1, 3, 5, 7, 9, and 11 are undigested products of ~2.0 kb, and lanes 2, 4, 6, 8, 10, and 12 were the same products digested with Alu I. Lane 2 presents genotype C; lane 4, 10, and 12 present genotype B; lane 6 and 8 are mixed genotypes of A+C; c) genotype G; d) genotype D; and e) genotype H. m, 100 bp DNA ladder.

    Journal: Parasites & Vectors

    Article Title: Molecular and epidemiological characterization of Plasmodium vivax recurrent infections in southern Mexico

    doi: 10.1186/1756-3305-6-109

    Figure Lengend Snippet: Plasmodium vivax msp3α genotypes. PCR products were digested with Alu I, and the digested products are separated side-by-side with their undigested products on agarose gels. a) Shows different genotypes indicated by capital letters underneath. b) Lanes 1, 3, 5, 7, 9, and 11 are undigested products of ~2.0 kb, and lanes 2, 4, 6, 8, 10, and 12 were the same products digested with Alu I. Lane 2 presents genotype C; lane 4, 10, and 12 present genotype B; lane 6 and 8 are mixed genotypes of A+C; c) genotype G; d) genotype D; and e) genotype H. m, 100 bp DNA ladder.

    Article Snippet: The PCR products were digested with Alu I ( New England Biolabs, Beverly, MA) and BstI (Promega, Madison WI) which have restriction sites in the cspr encoding Vk247 and Vk210 regions, respectively [ ].

    Techniques: Polymerase Chain Reaction

    RFLP analysis with Alu I of PCR (primers CYCAI2 and CYCAR1) amplicons from selected environmental samples. Lanes: M, DNA molecular weight marker VIII; +, C . cayetanensis oocysts with clear bands at 98, 88, and 50 bp and a faint band at 15 bp; 1, sample collected from the SDC on 21 April 1998; 2 to 5, individual water samples collected from the SARVB on 28 August 1998; 6 and 7, individual water samples collected from the SARYL on 28 September 1998. The term “Uncut” identifies amplicons that do not contain Alu I sites.

    Journal: Applied and Environmental Microbiology

    Article Title: PCR-Restriction Fragment Length Polymorphism Method for Detection of Cyclospora cayetanensis in Environmental Waters without Microscopic Confirmation

    doi: 10.1128/AEM.69.8.4662-4669.2003

    Figure Lengend Snippet: RFLP analysis with Alu I of PCR (primers CYCAI2 and CYCAR1) amplicons from selected environmental samples. Lanes: M, DNA molecular weight marker VIII; +, C . cayetanensis oocysts with clear bands at 98, 88, and 50 bp and a faint band at 15 bp; 1, sample collected from the SDC on 21 April 1998; 2 to 5, individual water samples collected from the SARVB on 28 August 1998; 6 and 7, individual water samples collected from the SARYL on 28 September 1998. The term “Uncut” identifies amplicons that do not contain Alu I sites.

    Article Snippet: The positive PCR products from the second reaction (10 μl) were digested with 1 U of Alu I (New England Biolabs) at 37°C for 2 h. Fragments were separated, visualized, and photographed as described above.

    Techniques: Polymerase Chain Reaction, Environmental Sampling, Molecular Weight, Marker

    TRF profile generated by mixed bacterial culture with Alu I and forward labeled hsp60 primers. The X axis indicates the size of the TRFs, and the Y axis indicates the percentage of peaks height compared to the tallest peak. The original concentrations

    Journal: Journal of microbiological methods

    Article Title: Development of a Lactobacillus Specific T-RFLP Method to Determine Lactobacilli Diversity in Complex Samples

    doi: 10.1016/j.mimet.2012.08.005

    Figure Lengend Snippet: TRF profile generated by mixed bacterial culture with Alu I and forward labeled hsp60 primers. The X axis indicates the size of the TRFs, and the Y axis indicates the percentage of peaks height compared to the tallest peak. The original concentrations

    Article Snippet: Restriction enzyme digests were performed by digesting 200 ng of a gel-purified PCR product with 20 U of either restriction enzyme Alu I (New England Biolabs, Ipswich, MA) at 37°C for 2 h or Tac I (Promega Corporation, Madison, WI) at 65°C for 1.5 h. Following the restriction digestion, the DNA was analyzed with an ABI 3730xl capillary systems (Applied Biosystems Inc, Foster City, CA) according to the manufacturer's instructions.

    Techniques: Generated, Labeling

    T-RFLP raw data from the software Applied Biosystems Peak Scanner. Each panel represents a fecal extraction from a different mouse and only Alu I with labeled forward primer for Group 7 and 8 is depicted here. The X axis indicated the size of the TRFs,

    Journal: Journal of microbiological methods

    Article Title: Development of a Lactobacillus Specific T-RFLP Method to Determine Lactobacilli Diversity in Complex Samples

    doi: 10.1016/j.mimet.2012.08.005

    Figure Lengend Snippet: T-RFLP raw data from the software Applied Biosystems Peak Scanner. Each panel represents a fecal extraction from a different mouse and only Alu I with labeled forward primer for Group 7 and 8 is depicted here. The X axis indicated the size of the TRFs,

    Article Snippet: Restriction enzyme digests were performed by digesting 200 ng of a gel-purified PCR product with 20 U of either restriction enzyme Alu I (New England Biolabs, Ipswich, MA) at 37°C for 2 h or Tac I (Promega Corporation, Madison, WI) at 65°C for 1.5 h. Following the restriction digestion, the DNA was analyzed with an ABI 3730xl capillary systems (Applied Biosystems Inc, Foster City, CA) according to the manufacturer's instructions.

    Techniques: Software, Labeling