restriction enzymes ecori  (New England Biolabs)


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    Name:
    EcoRI
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    EcoRI 50 000 units
    Catalog Number:
    r0101l
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    249
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    50 000 units
    Category:
    Restriction Enzymes
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    New England Biolabs restriction enzymes ecori
    EcoRI
    EcoRI 50 000 units
    https://www.bioz.com/result/restriction enzymes ecori/product/New England Biolabs
    Average 99 stars, based on 19 article reviews
    Price from $9.99 to $1999.99
    restriction enzymes ecori - by Bioz Stars, 2020-08
    99/100 stars

    Images

    1) Product Images from "Deletion of the Clostridium thermocellum recA gene reveals that it is required for thermophilic plasmid replication but not plasmid integration at homologous DNA sequences"

    Article Title: Deletion of the Clostridium thermocellum recA gene reveals that it is required for thermophilic plasmid replication but not plasmid integration at homologous DNA sequences

    Journal: Journal of industrial microbiology & biotechnology

    doi: 10.1007/s10295-018-2049-x

    The Δ recA strain is transformable when it is complemented. a recA complementation plasmid pJGW92. The hatched region was derived from C. bescii native plasmid pBAS2. apr R apramycin resistance casette, cat R thiamphenicol resistance casette, repA replication initiation protein for the E. coli pSC101 replication origin, par partitioning locus for E. coli . Restriction sites for structural verification are shown on the plasmid map. b Restriction digests with AvaI and EcoRI. The expected bands from AvaI are 5.1, 2.6, and 1.1 kb. The expected bands from EcoRI are 6.9 and 1.9 kb. + purified pJGW92 from E. coli . Lanes 1–3: plasmids isolated from E. coli transformed with DNA isolated from JWCT26 (Δ recA + pJGW92). c ∆ recA strains transformed with complementation plasmids retain the chromosomal deletion of recA . Primers indicated in the gene diagram were used to amplify DNA extracted from C. thermocellum strains. d JG161 and DC232 verified the replace-ment of recA by the C. bescii pyrF gene. Two different primer pairs (JG161/JG155 and JG162/ JG144) were used to ensure that the transformed strain retained the recA deletion. PCR was performed for both 30 cycles (30X) and 40 cycles (40X) using primer pair JG162/JG144. The molecular weight ladder in kilobases for all gels is shown
    Figure Legend Snippet: The Δ recA strain is transformable when it is complemented. a recA complementation plasmid pJGW92. The hatched region was derived from C. bescii native plasmid pBAS2. apr R apramycin resistance casette, cat R thiamphenicol resistance casette, repA replication initiation protein for the E. coli pSC101 replication origin, par partitioning locus for E. coli . Restriction sites for structural verification are shown on the plasmid map. b Restriction digests with AvaI and EcoRI. The expected bands from AvaI are 5.1, 2.6, and 1.1 kb. The expected bands from EcoRI are 6.9 and 1.9 kb. + purified pJGW92 from E. coli . Lanes 1–3: plasmids isolated from E. coli transformed with DNA isolated from JWCT26 (Δ recA + pJGW92). c ∆ recA strains transformed with complementation plasmids retain the chromosomal deletion of recA . Primers indicated in the gene diagram were used to amplify DNA extracted from C. thermocellum strains. d JG161 and DC232 verified the replace-ment of recA by the C. bescii pyrF gene. Two different primer pairs (JG161/JG155 and JG162/ JG144) were used to ensure that the transformed strain retained the recA deletion. PCR was performed for both 30 cycles (30X) and 40 cycles (40X) using primer pair JG162/JG144. The molecular weight ladder in kilobases for all gels is shown

    Techniques Used: Plasmid Preparation, Derivative Assay, Purification, Isolation, Transformation Assay, Polymerase Chain Reaction, Molecular Weight

    2) Product Images from "Prokaryotic expression of MLAA-34 and generation of a novel human ScFv against MLAA-34 by phage display technology"

    Article Title: Prokaryotic expression of MLAA-34 and generation of a novel human ScFv against MLAA-34 by phage display technology

    Journal: Oncotarget

    doi: 10.18632/oncotarget.16590

    Construction of the MLAA-34 expression vector (A) PET 28a Vector information. Component sequence: T7 promoter-6His-MCS Clone sites: EcoRI / SalI. (B) The amplified MLAA-34 fragment was cloned into the PET-28a vector, and positive transformation was identified by PCR; the expected product size was 728 bp. Lane 1: negative control (ddH2O); lane 2: negative control (self-connected control group); lane 3: positive control (GAPDH); lane 4: marker 5 kb, 3 kb, 2 kb, 1.5 kb, 1 Kb, 750 bp, 500 bp, 250 bp, 100 bp; lanes 5-12: gene 1-8 transformation.
    Figure Legend Snippet: Construction of the MLAA-34 expression vector (A) PET 28a Vector information. Component sequence: T7 promoter-6His-MCS Clone sites: EcoRI / SalI. (B) The amplified MLAA-34 fragment was cloned into the PET-28a vector, and positive transformation was identified by PCR; the expected product size was 728 bp. Lane 1: negative control (ddH2O); lane 2: negative control (self-connected control group); lane 3: positive control (GAPDH); lane 4: marker 5 kb, 3 kb, 2 kb, 1.5 kb, 1 Kb, 750 bp, 500 bp, 250 bp, 100 bp; lanes 5-12: gene 1-8 transformation.

    Techniques Used: Expressing, Plasmid Preparation, Positron Emission Tomography, Sequencing, Amplification, Clone Assay, Transformation Assay, Polymerase Chain Reaction, Negative Control, Positive Control, Marker

    3) Product Images from "Significance of the Bacteriophage Treatment Schedule in Reducing Salmonella Colonization of Poultry"

    Article Title: Significance of the Bacteriophage Treatment Schedule in Reducing Salmonella Colonization of Poultry

    Journal: Applied and Environmental Microbiology

    doi: 10.1128/AEM.01257-12

    DNA restriction patterns of the bacteriophages UAB_Phi20 (lanes 3 to 5), UAB_Phi87 (lanes 6 to 8), and UAB_Phi78 (lanes 9 to 11) with the restriction enzymes EcoRI (lanes 3, 6, and 9), EcoRV (lanes 4, 7, and 10), and HindIII (lanes 5, 8, and 11). Lanes
    Figure Legend Snippet: DNA restriction patterns of the bacteriophages UAB_Phi20 (lanes 3 to 5), UAB_Phi87 (lanes 6 to 8), and UAB_Phi78 (lanes 9 to 11) with the restriction enzymes EcoRI (lanes 3, 6, and 9), EcoRV (lanes 4, 7, and 10), and HindIII (lanes 5, 8, and 11). Lanes

    Techniques Used:

    4) Product Images from "Enzymatic- and temperature-sensitive controlled release of ultrasmall superparamagnetic iron oxides (USPIOs)"

    Article Title: Enzymatic- and temperature-sensitive controlled release of ultrasmall superparamagnetic iron oxides (USPIOs)

    Journal: Journal of Nanobiotechnology

    doi: 10.1186/1477-3155-9-7

    Controlled release of USPIO micelles by environmental triggers . (A) Self-assembly of EcoRV-sensitive ssDNA-USPIO clusters, and subsequent enzymatic treatment results in measurable changes in R 2 relaxation coefficient relative to initial values. Following EcoRV treatment, R 2 values return to baseline, a phenomenon that is in significant contrast to the effects of EcoRI treatment of the same clusters (n = 6). * p
    Figure Legend Snippet: Controlled release of USPIO micelles by environmental triggers . (A) Self-assembly of EcoRV-sensitive ssDNA-USPIO clusters, and subsequent enzymatic treatment results in measurable changes in R 2 relaxation coefficient relative to initial values. Following EcoRV treatment, R 2 values return to baseline, a phenomenon that is in significant contrast to the effects of EcoRI treatment of the same clusters (n = 6). * p

    Techniques Used:

    5) Product Images from "Development and validation of a multiplex-PCR assay for X-linked intellectual disability"

    Article Title: Development and validation of a multiplex-PCR assay for X-linked intellectual disability

    Journal: BMC Medical Genetics

    doi: 10.1186/1471-2350-14-80

    Examples of Southern blot results. Genotyping using FMR1 probe: After EcoRI /EagI double digestion, normal females exhibit two fragments, a ~2.8 kb (active X) and a ~5.2 kb (inactive X), while in normal males only a ~2.8 kb fragment is seen: (a) FXS male mosaic for a 51 CGG allele and a full mutation; (b) Premutated FMR1 male (110 CGGs); (c) Klinefelter with two FMR1 normal sized-alleles, showing the active and the inactive X-chromosome; (d) Normal FMR1 male (19 CGGs); (e) Premutated FMR1 male (58 CGGs). Genotyping using AFF2 probe: Following AflIII /NotI double digestion, normal females present two fragments, a ~2.2 kb (active X) and a ~4.8 kb (inactive X), whereas normal males exhibit only a ~2.2 kb fragment: (f) Intermediate AFF2 male (47 CCGs); (g) Premutated AFF2 male (68 CCGs); (h) Homoallelic female [(CCG) 14 /(CCG) 14 ].
    Figure Legend Snippet: Examples of Southern blot results. Genotyping using FMR1 probe: After EcoRI /EagI double digestion, normal females exhibit two fragments, a ~2.8 kb (active X) and a ~5.2 kb (inactive X), while in normal males only a ~2.8 kb fragment is seen: (a) FXS male mosaic for a 51 CGG allele and a full mutation; (b) Premutated FMR1 male (110 CGGs); (c) Klinefelter with two FMR1 normal sized-alleles, showing the active and the inactive X-chromosome; (d) Normal FMR1 male (19 CGGs); (e) Premutated FMR1 male (58 CGGs). Genotyping using AFF2 probe: Following AflIII /NotI double digestion, normal females present two fragments, a ~2.2 kb (active X) and a ~4.8 kb (inactive X), whereas normal males exhibit only a ~2.2 kb fragment: (f) Intermediate AFF2 male (47 CCGs); (g) Premutated AFF2 male (68 CCGs); (h) Homoallelic female [(CCG) 14 /(CCG) 14 ].

    Techniques Used: Southern Blot, Mutagenesis

    Related Articles

    Clone Assay:

    Article Title: Generation of recombinant Orf virus using an enhanced green fluorescent protein reporter gene as a selectable marker
    Article Snippet: .. The products were then cloned into vector pZIPPY-neo/gus [ ], which had been linearized with EcoRI and NotI (New England Biolabs, Ipswich, MA, USA) to generate the novel transfer vector pSPV-EGFP (Figure ). .. The plasmid was propagated in Escherichia coli strain Top10 (Invitrogen, Carlsbad, CA, USA).

    Amplification:

    Article Title: Morphological, Genome and Gene Expression Changes in Newly Induced Autopolyploid Chrysanthemum lavandulifolium (Fisch. ex Trautv.) Makino
    Article Snippet: .. Mthylation Sensitive Amplified Polymorphism Analysis The MSAP technique was applied to the DNA pools from three diploid lines and three tetraploid lines C. lavandulifolium They were digested with either EcoR I and Hpa II or EcoR I and Msp I (NEB) at 37 °C for 12 h. The digested fragments were ligated to 5 pmol EcoR I adaptor and 50 pmol Hpa II/Msp I adaptor by incubation with 4 U T4 DNA polymerase (NEB) at 16 °C for 4 has described for the AFLP method. ..

    Modification:

    Article Title: Increased retention of functional fusions to toxic genes in new two-hybrid libraries of the E. coli strain MG1655 and B. subtilis strain 168 genomes, prepared without passaging through E. coli
    Article Snippet: .. Construction of modified pB42 vectors, and preparation for ligation to insert DNA Plasmid pB42 was digested with XhoI and EcoRI to completion, and precipitated and digested with CIP (NEB). .. This vector was then split into three reactions, where three pairs of oligos were added to form the new multiple cloning sites.

    Ligation:

    Article Title: Increased retention of functional fusions to toxic genes in new two-hybrid libraries of the E. coli strain MG1655 and B. subtilis strain 168 genomes, prepared without passaging through E. coli
    Article Snippet: .. Construction of modified pB42 vectors, and preparation for ligation to insert DNA Plasmid pB42 was digested with XhoI and EcoRI to completion, and precipitated and digested with CIP (NEB). .. This vector was then split into three reactions, where three pairs of oligos were added to form the new multiple cloning sites.

    Polymerase Chain Reaction:

    Article Title: Restriction site detection in repetitive nuclear DNA sequences of Trypanosoma evansi for strain differentiation among different isolates
    Article Snippet: .. EcoRI, Eco91l, HindIII and PstI, for complete digestion with the recommended RE buffers in separate PCR tubes in the following reaction volume: 7 µl nuclease-free water, 10 µl DNA, 2 µl 10× RE buffer, 1 µl (10 U) EcoRI (New England Biolabs)/1 µl (10 U) Eco91l (Fermentas) / 1 µl (10 U) HindIII (Fermentas) / 1 µl (10 U) PstI (Fermentas). ..

    Incubation:

    Article Title: Morphological, Genome and Gene Expression Changes in Newly Induced Autopolyploid Chrysanthemum lavandulifolium (Fisch. ex Trautv.) Makino
    Article Snippet: .. Mthylation Sensitive Amplified Polymorphism Analysis The MSAP technique was applied to the DNA pools from three diploid lines and three tetraploid lines C. lavandulifolium They were digested with either EcoR I and Hpa II or EcoR I and Msp I (NEB) at 37 °C for 12 h. The digested fragments were ligated to 5 pmol EcoR I adaptor and 50 pmol Hpa II/Msp I adaptor by incubation with 4 U T4 DNA polymerase (NEB) at 16 °C for 4 has described for the AFLP method. ..

    Sequencing:

    Article Title: Characterization of untranslated regions of the salmonid alphavirus 3 (SAV3) genome and construction of a SAV3 based replicon
    Article Snippet: .. The authenticity of the plasmid construction was verified by EcoRI, AgeI and AscI (New England Biolabs) digestion (Fig. ) and by sequencing as previously described [ ]. .. This information indicated that eight substitutions were present in the RC coding region compared to the nucleotide sequence of passage 20 of the parental strain SAVH20/03 (Table ).

    Plasmid Preparation:

    Article Title: Deletion of the Clostridium thermocellum recA gene reveals that it is required for thermophilic plasmid replication but not plasmid integration at homologous DNA sequences
    Article Snippet: .. The colonies were picked into 10 mL LB with 50 μg/mL apramycin, and the plasmid DNA was extracted using a Miniprep kit (Qiagen, Valencia, CA, USA) and screened with restriction enzymes EcoRI and AvaI for pJGW92 and NcoI and AvaI for pJGW93 (NEB). .. The National Center for Biotechnology Information (NCBI) and the Kyoto Encyclopedia of Genes and Genomes (KEGG) were used to search for homologous proteins to known RecA, LexA, and DNA Pol V in the Clostridium thermocellum DSM 1313 genome.

    Article Title: Increased retention of functional fusions to toxic genes in new two-hybrid libraries of the E. coli strain MG1655 and B. subtilis strain 168 genomes, prepared without passaging through E. coli
    Article Snippet: .. Construction of modified pB42 vectors, and preparation for ligation to insert DNA Plasmid pB42 was digested with XhoI and EcoRI to completion, and precipitated and digested with CIP (NEB). .. This vector was then split into three reactions, where three pairs of oligos were added to form the new multiple cloning sites.

    Article Title: Generation of recombinant Orf virus using an enhanced green fluorescent protein reporter gene as a selectable marker
    Article Snippet: .. The products were then cloned into vector pZIPPY-neo/gus [ ], which had been linearized with EcoRI and NotI (New England Biolabs, Ipswich, MA, USA) to generate the novel transfer vector pSPV-EGFP (Figure ). .. The plasmid was propagated in Escherichia coli strain Top10 (Invitrogen, Carlsbad, CA, USA).

    Article Title: Characterization of untranslated regions of the salmonid alphavirus 3 (SAV3) genome and construction of a SAV3 based replicon
    Article Snippet: .. The authenticity of the plasmid construction was verified by EcoRI, AgeI and AscI (New England Biolabs) digestion (Fig. ) and by sequencing as previously described [ ]. .. This information indicated that eight substitutions were present in the RC coding region compared to the nucleotide sequence of passage 20 of the parental strain SAVH20/03 (Table ).

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    New England Biolabs restriction enzymes ecori
    The Δ recA strain is transformable when it is complemented. a recA complementation plasmid pJGW92. The hatched region was derived from C. bescii native plasmid pBAS2. apr R apramycin resistance casette, cat R thiamphenicol resistance casette, repA replication initiation protein for the E. coli pSC101 replication origin, par partitioning locus for E. coli . Restriction sites for structural verification are shown on the plasmid map. b Restriction digests with <t>AvaI</t> and <t>EcoRI.</t> The expected bands from AvaI are 5.1, 2.6, and 1.1 kb. The expected bands from EcoRI are 6.9 and 1.9 kb. + purified pJGW92 from E. coli . Lanes 1–3: plasmids isolated from E. coli transformed with DNA isolated from JWCT26 (Δ recA + pJGW92). c ∆ recA strains transformed with complementation plasmids retain the chromosomal deletion of recA . Primers indicated in the gene diagram were used to amplify DNA extracted from C. thermocellum strains. d JG161 and DC232 verified the replace-ment of recA by the C. bescii pyrF gene. Two different primer pairs (JG161/JG155 and JG162/ JG144) were used to ensure that the transformed strain retained the recA deletion. PCR was performed for both 30 cycles (30X) and 40 cycles (40X) using primer pair JG162/JG144. The molecular weight ladder in kilobases for all gels is shown
    Restriction Enzymes Ecori, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 93 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/restriction enzymes ecori/product/New England Biolabs
    Average 99 stars, based on 93 article reviews
    Price from $9.99 to $1999.99
    restriction enzymes ecori - by Bioz Stars, 2020-08
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    The Δ recA strain is transformable when it is complemented. a recA complementation plasmid pJGW92. The hatched region was derived from C. bescii native plasmid pBAS2. apr R apramycin resistance casette, cat R thiamphenicol resistance casette, repA replication initiation protein for the E. coli pSC101 replication origin, par partitioning locus for E. coli . Restriction sites for structural verification are shown on the plasmid map. b Restriction digests with AvaI and EcoRI. The expected bands from AvaI are 5.1, 2.6, and 1.1 kb. The expected bands from EcoRI are 6.9 and 1.9 kb. + purified pJGW92 from E. coli . Lanes 1–3: plasmids isolated from E. coli transformed with DNA isolated from JWCT26 (Δ recA + pJGW92). c ∆ recA strains transformed with complementation plasmids retain the chromosomal deletion of recA . Primers indicated in the gene diagram were used to amplify DNA extracted from C. thermocellum strains. d JG161 and DC232 verified the replace-ment of recA by the C. bescii pyrF gene. Two different primer pairs (JG161/JG155 and JG162/ JG144) were used to ensure that the transformed strain retained the recA deletion. PCR was performed for both 30 cycles (30X) and 40 cycles (40X) using primer pair JG162/JG144. The molecular weight ladder in kilobases for all gels is shown

    Journal: Journal of industrial microbiology & biotechnology

    Article Title: Deletion of the Clostridium thermocellum recA gene reveals that it is required for thermophilic plasmid replication but not plasmid integration at homologous DNA sequences

    doi: 10.1007/s10295-018-2049-x

    Figure Lengend Snippet: The Δ recA strain is transformable when it is complemented. a recA complementation plasmid pJGW92. The hatched region was derived from C. bescii native plasmid pBAS2. apr R apramycin resistance casette, cat R thiamphenicol resistance casette, repA replication initiation protein for the E. coli pSC101 replication origin, par partitioning locus for E. coli . Restriction sites for structural verification are shown on the plasmid map. b Restriction digests with AvaI and EcoRI. The expected bands from AvaI are 5.1, 2.6, and 1.1 kb. The expected bands from EcoRI are 6.9 and 1.9 kb. + purified pJGW92 from E. coli . Lanes 1–3: plasmids isolated from E. coli transformed with DNA isolated from JWCT26 (Δ recA + pJGW92). c ∆ recA strains transformed with complementation plasmids retain the chromosomal deletion of recA . Primers indicated in the gene diagram were used to amplify DNA extracted from C. thermocellum strains. d JG161 and DC232 verified the replace-ment of recA by the C. bescii pyrF gene. Two different primer pairs (JG161/JG155 and JG162/ JG144) were used to ensure that the transformed strain retained the recA deletion. PCR was performed for both 30 cycles (30X) and 40 cycles (40X) using primer pair JG162/JG144. The molecular weight ladder in kilobases for all gels is shown

    Article Snippet: The colonies were picked into 10 mL LB with 50 μg/mL apramycin, and the plasmid DNA was extracted using a Miniprep kit (Qiagen, Valencia, CA, USA) and screened with restriction enzymes EcoRI and AvaI for pJGW92 and NcoI and AvaI for pJGW93 (NEB).

    Techniques: Plasmid Preparation, Derivative Assay, Purification, Isolation, Transformation Assay, Polymerase Chain Reaction, Molecular Weight

    Sequencing depth for single copy ddRAD loci in relation to the corresponding sequence in the zebra finch reference genome. Categories from top to bottom include: loci mapping as expected to predicted SbfI-EcoRI restriction fragments≤328 bp in length; all loci beginning at a genomic location similar but not identical to the canonical SbfI recognition sequence (1–4 mismatches); subset of loci with one mismatch in position 1 or 8 of the SbfI recognition sequence; subset of loci with one mismatch in positions 2 through 7 of the SbfI recognition sequence; loci mapping to a genomic SbfI site without an EcoRI site within 328 bp; and loci mapping to a predicted SbfI-SbfI restriction fragment less than 328 bp in length.

    Journal: PLoS ONE

    Article Title: Amplification Biases and Consistent Recovery of Loci in a Double-Digest RAD-seq Protocol

    doi: 10.1371/journal.pone.0106713

    Figure Lengend Snippet: Sequencing depth for single copy ddRAD loci in relation to the corresponding sequence in the zebra finch reference genome. Categories from top to bottom include: loci mapping as expected to predicted SbfI-EcoRI restriction fragments≤328 bp in length; all loci beginning at a genomic location similar but not identical to the canonical SbfI recognition sequence (1–4 mismatches); subset of loci with one mismatch in position 1 or 8 of the SbfI recognition sequence; subset of loci with one mismatch in positions 2 through 7 of the SbfI recognition sequence; loci mapping to a genomic SbfI site without an EcoRI site within 328 bp; and loci mapping to a predicted SbfI-SbfI restriction fragment less than 328 bp in length.

    Article Snippet: We then double-digest ∼1.0 µg of DNA with high fidelity versions of the SbfI and EcoRI restriction enzymes (New England Biolabs); when less DNA is available, we have had good success starting with as little as 0.17 µg of genomic DNA.

    Techniques: Sequencing

    Recovery and sequencing depth for predicted, single-copy ddRAD loci in the empirical zebra finch data. (A) Proportion of predicted loci recovered at three different minimum depth thresholds as a function of predicted fragment length. Each data point represents the proportion of ∼140–220 predicted loci recovered in a given 10 bp size range. Dashed vertical lines represent the upper and lower bounds of the size range isolated from the agarose gel. (B) Sequencing depth for recovered (depth ≥1), single-copy loci in the 32–500 bp size range (includes 5,232 of 5,783 predicted loci in the 38–328 bp size range). (C) The relationship between GC content and sequencing depth for zebra finch ddRAD loci. Data are shown for predicted, single-copy loci recovered at a depth ≥1 in three selected subsets of the overall size range ( n = 502, 466, and 445 loci in the 100–125, 200–225, and 300–325 bp size ranges, respectively). The predicted length and GC content of each locus are based on the full-length fragment in the reference genome, inclusive of the SbfI and EcoRI restriction sites on either end. Note that the y-axis is on a logarithmic scale in (B) and (C).

    Journal: PLoS ONE

    Article Title: Amplification Biases and Consistent Recovery of Loci in a Double-Digest RAD-seq Protocol

    doi: 10.1371/journal.pone.0106713

    Figure Lengend Snippet: Recovery and sequencing depth for predicted, single-copy ddRAD loci in the empirical zebra finch data. (A) Proportion of predicted loci recovered at three different minimum depth thresholds as a function of predicted fragment length. Each data point represents the proportion of ∼140–220 predicted loci recovered in a given 10 bp size range. Dashed vertical lines represent the upper and lower bounds of the size range isolated from the agarose gel. (B) Sequencing depth for recovered (depth ≥1), single-copy loci in the 32–500 bp size range (includes 5,232 of 5,783 predicted loci in the 38–328 bp size range). (C) The relationship between GC content and sequencing depth for zebra finch ddRAD loci. Data are shown for predicted, single-copy loci recovered at a depth ≥1 in three selected subsets of the overall size range ( n = 502, 466, and 445 loci in the 100–125, 200–225, and 300–325 bp size ranges, respectively). The predicted length and GC content of each locus are based on the full-length fragment in the reference genome, inclusive of the SbfI and EcoRI restriction sites on either end. Note that the y-axis is on a logarithmic scale in (B) and (C).

    Article Snippet: We then double-digest ∼1.0 µg of DNA with high fidelity versions of the SbfI and EcoRI restriction enzymes (New England Biolabs); when less DNA is available, we have had good success starting with as little as 0.17 µg of genomic DNA.

    Techniques: Sequencing, Isolation, Agarose Gel Electrophoresis

    Bari3 distribution in the genome of Drosophila mojavensis . A) Schematic representation of the Bari3 transposon. The EcoRI site used for the genomic analyses and the position of the probe (black bar) are showed. Dashed bars represent the transposon fragments tested in this work. B) Southern blot hybridization of DNA samples extracted from ten D. mojavensis populations MWM, 1Kb DNA molecular weight marker (Promega). C) Fluorescence In Situ Hybridization (FISH) on polytene chromosomes prepared from five D. mojavensis strains. Merged images (DAPI and Cy3) are shown. Hybridization signals are pseudo-colored in red. The subspecies color code legend reported in the bottom of the figure refers to the hybridization experiments.

    Journal: Mobile DNA

    Article Title: The Drosophila mojavensis Bari3 transposon: distribution and functional characterization

    doi: 10.1186/1759-8753-5-21

    Figure Lengend Snippet: Bari3 distribution in the genome of Drosophila mojavensis . A) Schematic representation of the Bari3 transposon. The EcoRI site used for the genomic analyses and the position of the probe (black bar) are showed. Dashed bars represent the transposon fragments tested in this work. B) Southern blot hybridization of DNA samples extracted from ten D. mojavensis populations MWM, 1Kb DNA molecular weight marker (Promega). C) Fluorescence In Situ Hybridization (FISH) on polytene chromosomes prepared from five D. mojavensis strains. Merged images (DAPI and Cy3) are shown. Hybridization signals are pseudo-colored in red. The subspecies color code legend reported in the bottom of the figure refers to the hybridization experiments.

    Article Snippet: DNA samples were digested with the EcoRI restriction enzyme (New England Biolabs Inc, Ipswich, MA, USA), which cuts once in the reference sequence of Bari3 (see Figure A), electrophoresed, blotted onto Hybond N filters and hybridized under high stringency hybridization conditions [ ].

    Techniques: Southern Blot, Hybridization, Molecular Weight, Marker, Fluorescence, In Situ Hybridization, Fluorescence In Situ Hybridization