m220 focused ultrasonicator  (Covaris)


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    Name:
    M220 Focused ultrasonicator
    Description:
    designed for Next Gen Sequencing applications requiring fragment sizes between 150bp and 5kb Compact size and ease of use make the M220 Focused ultrasonicator the ideal DNA shearing solution for MiSeq and PGM users
    Catalog Number:
    500295pgd
    Price:
    None
    Size:
    33cm W 38 7cm D 27 3cm H
    Category:
    Instrument
    Quantity:
    1 0
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    Structured Review

    Covaris m220 focused ultrasonicator
    M220 Focused ultrasonicator
    designed for Next Gen Sequencing applications requiring fragment sizes between 150bp and 5kb Compact size and ease of use make the M220 Focused ultrasonicator the ideal DNA shearing solution for MiSeq and PGM users
    https://www.bioz.com/result/m220 focused ultrasonicator/product/Covaris
    Average 95 stars, based on 43 article reviews
    Price from $9.99 to $1999.99
    m220 focused ultrasonicator - by Bioz Stars, 2020-02
    95/100 stars

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    Related Articles

    Amplification:

    Article Title: A New Freshwater Cyanosiphovirus Harboring Integrase
    Article Snippet: To remove any free DNA, 200 μl of concentrated viruses was treated using DNase I (Amplification grade, Invitrogen) at room temperature for 15 min. .. Viral genomic DNA was extracted from the DNase I treated viral concentrate using PureLink® Viral RNA/DNA Mini Kit (Invitrogen), and then sheared to between 200 and 500 bp fragments (mean ∼300 bp) using a Covaris M220 ultrasonicator (Covaris, Woburn, MA, United States) and purified using Agencourt AMPure XP beads (Beckham Coulter).

    Article Title: Defiant: (DMRs: easy, fast, identification and ANnoTation) identifies differentially Methylated regions from iron-deficient rat hippocampus
    Article Snippet: Briefly, 1 μg of genomic DNA was fragmented into 300 bp size using M220 Covaris Ultrasonicator. .. Libraries were then amplified using PfuTurbo Cx Hotstart DNA polymerase (Agilent Technologies).

    Construct:

    Article Title: Genomic Analysis Reveals Novel Diversity among the 1976 Philadelphia Legionnaires’ Disease Outbreak Isolates and Additional ST36 Strains
    Article Snippet: In preparation for Illumina MiSeq sequencing, 2 μg of gDNA was sheared to an average fragment length of 600 bp using a Covaris M220 ultrasonicator (Woburn, MA), cleaned and concentrated with Agencourt AMPure XP magnetic beads (cat. no. A63880, Beckman Coulter, Indianapolis, IN) as per the manufacturer’s instructions with one minor modification (80% ethanol used for both washes), and eluted in Tris-HCl, pH 8.0. .. Illumina-compatible libraries were constructed with 1ug of sheared input DNA on a Zephyr Molecular Biology Workstation (Perkin Elmer, Waltham, MA) using custom scripts written to follow the manufacturer’s protocol for the NEBNext Ultra DNA Library Preparation Kit (cat. no. E7370, New England Biolabs, Ipswich, MA) combined with NEBNext Multiplex Oligo Index Primer Sets 1 and 2 (cat. no. E7335 and E7500).

    Article Title: Whole-Genome Sequences and Classification of Streptococcus agalactiae Strains Isolated from Laboratory-Reared Long-Evans Rats (Rattus norvegicus)
    Article Snippet: Nucleic acid concentration was quantified by an Invitrogen Qubit assay, and samples were sheared using a Covaris M220 ultrasonicator programmed to generate 500-bp fragments. .. Libraries were constructed using TruSeq DNA PCR-free high-throughput (HT) library preparation kit with 96 dual indexes and quantified by a Kapa quantitative PCR (qPCR) library quantification method.

    Electrophoresis:

    Article Title: Gene expression during zombie ant biting behavior reflects the complexity underlying fungal parasitic behavioral manipulation
    Article Snippet: For the second library 5 μg of genomic DNA were sheared in a Covaris M220 ultrasonicator with 50 μl screw caps to an approximate length of 800 bp. .. Both libraries were automatically size selected to a final length of 650–850 bp by separation on a 1.5 % agarose gel in a BluePippin electrophoresis unit (Sage Science).

    Quantitation Assay:

    Article Title: Genomic Analysis Reveals Novel Diversity among the 1976 Philadelphia Legionnaires’ Disease Outbreak Isolates and Additional ST36 Strains
    Article Snippet: DNA concentration was measured by the Qubit Fluorometric Quantitation system (Life Technologies, Carlsbad, CA) using either the dsDNA broad range (cat. no. Q32853) or high sensitivity (cat. no. Q32851) assay kit. .. In preparation for Illumina MiSeq sequencing, 2 μg of gDNA was sheared to an average fragment length of 600 bp using a Covaris M220 ultrasonicator (Woburn, MA), cleaned and concentrated with Agencourt AMPure XP magnetic beads (cat. no. A63880, Beckman Coulter, Indianapolis, IN) as per the manufacturer’s instructions with one minor modification (80% ethanol used for both washes), and eluted in Tris-HCl, pH 8.0.

    Cell Culture:

    Article Title: Whole-Genome Sequences and Classification of Streptococcus agalactiae Strains Isolated from Laboratory-Reared Long-Evans Rats (Rattus norvegicus)
    Article Snippet: An additional three asymptomatic male rats’ GBS isolates were cultured from the nares. .. Nucleic acid concentration was quantified by an Invitrogen Qubit assay, and samples were sheared using a Covaris M220 ultrasonicator programmed to generate 500-bp fragments.

    Modification:

    Article Title: Genomic Analysis Reveals Novel Diversity among the 1976 Philadelphia Legionnaires’ Disease Outbreak Isolates and Additional ST36 Strains
    Article Snippet: .. In preparation for Illumina MiSeq sequencing, 2 μg of gDNA was sheared to an average fragment length of 600 bp using a Covaris M220 ultrasonicator (Woburn, MA), cleaned and concentrated with Agencourt AMPure XP magnetic beads (cat. no. A63880, Beckman Coulter, Indianapolis, IN) as per the manufacturer’s instructions with one minor modification (80% ethanol used for both washes), and eluted in Tris-HCl, pH 8.0. .. DNA quality (260:280 and 260:230) was measured on a Nanodrop ND-1000 spectrophotometer (Thermo Scientific, Wilmington, DE) and initial average fragment size was verified on the Agilent Tapestation 2200 (Santa Clara, CA) using the D1000 ScreenTape and reagents (cat. no. 5067–5582 and 5067–5583) with an external ladder.

    Article Title: Defiant: (DMRs: easy, fast, identification and ANnoTation) identifies differentially Methylated regions from iron-deficient rat hippocampus
    Article Snippet: Briefly, 1 μg of genomic DNA was fragmented into 300 bp size using M220 Covaris Ultrasonicator. .. Libraries were bisulfite-converted using Imprint DNA modification kit (Sigma), and the size of 300–600 bp was selected using Pippin Prep DNA size selection system (Sage Science).

    Article Title: Whole-Genome Sequences and Classification of Streptococcus agalactiae Strains Isolated from Laboratory-Reared Long-Evans Rats (Rattus norvegicus)
    Article Snippet: After receipt of isolates, genomic DNA for short-read whole-genome sequencing was extracted manually using a modified QIAamp DNA minikit protocol (Qiagen). .. Nucleic acid concentration was quantified by an Invitrogen Qubit assay, and samples were sheared using a Covaris M220 ultrasonicator programmed to generate 500-bp fragments.

    Protease Inhibitor:

    Article Title: Transcriptome-wide identification of transient RNA G-quadruplexes in human cells
    Article Snippet: Cells were scraped and resuspended in G4RP buffer (150 mM KCl, 25 mM Tris pH 7.4, 5 mM EDTA, 0.5 mM DTT, 0.5% NP40, RNase inhibitor (Roche), homebrew protease inhibitor cocktail). .. Cells were then sonicated using a Covaris m220 Ultrasonicator using default settings at 10% duty for 2 min.

    Genomic Sequencing:

    Article Title: Defiant: (DMRs: easy, fast, identification and ANnoTation) identifies differentially Methylated regions from iron-deficient rat hippocampus
    Article Snippet: Briefly, 1 μg of genomic DNA was fragmented into 300 bp size using M220 Covaris Ultrasonicator. .. Sequencing libraries were generated using NEBNext genomic sequencing kit (New England Biolabs) and ligated with Illumina methylated paired end adaptors.

    Magnetic Beads:

    Article Title: Out of the Reservoir: Phenotypic and Genotypic Characterization of a Novel Cowpox Virus Isolated from a Common Vole
    Article Snippet: Subsequently, 0.5 to 1 μg of DNA was fragmented to approximately 300 bp using a Covaris M220 ultrasonicator (Covaris, Brighton, United Kingdom). .. As the size selection step was skipped during automated library preparation, upper- and lower-size exclusion of the library was done manually with Ampure XP magnetic beads (Beckman Coulter).

    Article Title: Genomic Analysis Reveals Novel Diversity among the 1976 Philadelphia Legionnaires’ Disease Outbreak Isolates and Additional ST36 Strains
    Article Snippet: .. In preparation for Illumina MiSeq sequencing, 2 μg of gDNA was sheared to an average fragment length of 600 bp using a Covaris M220 ultrasonicator (Woburn, MA), cleaned and concentrated with Agencourt AMPure XP magnetic beads (cat. no. A63880, Beckman Coulter, Indianapolis, IN) as per the manufacturer’s instructions with one minor modification (80% ethanol used for both washes), and eluted in Tris-HCl, pH 8.0. .. DNA quality (260:280 and 260:230) was measured on a Nanodrop ND-1000 spectrophotometer (Thermo Scientific, Wilmington, DE) and initial average fragment size was verified on the Agilent Tapestation 2200 (Santa Clara, CA) using the D1000 ScreenTape and reagents (cat. no. 5067–5582 and 5067–5583) with an external ladder.

    Article Title: BET Bromodomain Inhibition as a Therapeutic Strategy in Ovarian Cancer by Downregulating FoxM1
    Article Snippet: Cell pellets were lysed and sonicated using Covaris M220 Ultrasonicator. .. Sonicated lysates were cleared and incubated overnight with magnetic beads bound with IgG, BRD4 (Abcam) or FoxM1 (Cell Signaling Technology) antibodies to enrich for DNA fragments associated with the indicated protein.

    Infection:

    Article Title: Whole-Genome Sequences and Classification of Streptococcus agalactiae Strains Isolated from Laboratory-Reared Long-Evans Rats (Rattus norvegicus)
    Article Snippet: In this report, we announce the whole-genome sequences of seven GBS isolates obtained from a colony of laboratory-reared Long-Evans rats that experienced two cases of polymicrobial sepsis associated with GBS infection in two gravid female rats; two isolates were obtained from resected cardiac tissue and blood in the first case, and two isolates were obtained from cardiac tissue and fetus from the second case. .. Nucleic acid concentration was quantified by an Invitrogen Qubit assay, and samples were sheared using a Covaris M220 ultrasonicator programmed to generate 500-bp fragments.

    Generated:

    Article Title: High incidence of multiple antibiotic resistant cells in cultures of in enterohemorrhagic Escherichia coli O157:H7
    Article Snippet: Ten µg of purified DNA was sheared with a Covaris M220 ultrasonicator to a median size range of 250 bp. .. Single read 36 bp sequences were generated for strains GM7275, GM9236, and GM9237 on Illumina GAII sequencer and 100 bp sequences were generated for strains GM7274, GM9241, GM9242, and GM9243 on Illumina HiSeq 2000 sequencer with a mean coverage of 42 times.

    Article Title: Defiant: (DMRs: easy, fast, identification and ANnoTation) identifies differentially Methylated regions from iron-deficient rat hippocampus
    Article Snippet: Briefly, 1 μg of genomic DNA was fragmented into 300 bp size using M220 Covaris Ultrasonicator. .. Sequencing libraries were generated using NEBNext genomic sequencing kit (New England Biolabs) and ligated with Illumina methylated paired end adaptors.

    Article Title: Contrasting effects of habitat discontinuity on three closely related fungivorous beetle species with diverging host‐use patterns and dispersal ability. Contrasting effects of habitat discontinuity on three closely related fungivorous beetle species with diverging host‐use patterns and dispersal ability
    Article Snippet: Genomic DNA was sheared in a volume of 50 µl using a Covaris M220 ultrasonicator (Covaris, Woburn, MA, USA). .. The generated library was validated using a Kapa Library Quantification kit (Kapabiosystem) and subsequently evaluated using the Agilent Technologies 2100 (Agilent Technologies, Santa Clara, CA, USA).

    Sequencing:

    Article Title: High incidence of multiple antibiotic resistant cells in cultures of in enterohemorrhagic Escherichia coli O157:H7
    Article Snippet: Paragraph title: 2.3 Deep sequencing of bacterial strains ... Ten µg of purified DNA was sheared with a Covaris M220 ultrasonicator to a median size range of 250 bp.

    Article Title: Novel STIL Compound Heterozygous Mutations Cause Severe Fetal Microcephaly and Centriolar Lengthening
    Article Snippet: Paragraph title: Library Preparation, Exome Enrichment and Massively Parallel Sequencing ... Genomic DNA was fragmented using a Covaris M220 ultrasonicator (Covaris, Woburn).

    Article Title: Gene expression during zombie ant biting behavior reflects the complexity underlying fungal parasitic behavioral manipulation
    Article Snippet: Paragraph title: Genome sequencing and assembly ... For the second library 5 μg of genomic DNA were sheared in a Covaris M220 ultrasonicator with 50 μl screw caps to an approximate length of 800 bp.

    Article Title: A New Freshwater Cyanosiphovirus Harboring Integrase
    Article Snippet: Paragraph title: Viral Genomic DNA Extraction, Purification, and Sequencing ... Viral genomic DNA was extracted from the DNase I treated viral concentrate using PureLink® Viral RNA/DNA Mini Kit (Invitrogen), and then sheared to between 200 and 500 bp fragments (mean ∼300 bp) using a Covaris M220 ultrasonicator (Covaris, Woburn, MA, United States) and purified using Agencourt AMPure XP beads (Beckham Coulter).

    Article Title: Genomic Analysis Reveals Novel Diversity among the 1976 Philadelphia Legionnaires’ Disease Outbreak Isolates and Additional ST36 Strains
    Article Snippet: .. In preparation for Illumina MiSeq sequencing, 2 μg of gDNA was sheared to an average fragment length of 600 bp using a Covaris M220 ultrasonicator (Woburn, MA), cleaned and concentrated with Agencourt AMPure XP magnetic beads (cat. no. A63880, Beckman Coulter, Indianapolis, IN) as per the manufacturer’s instructions with one minor modification (80% ethanol used for both washes), and eluted in Tris-HCl, pH 8.0. .. DNA quality (260:280 and 260:230) was measured on a Nanodrop ND-1000 spectrophotometer (Thermo Scientific, Wilmington, DE) and initial average fragment size was verified on the Agilent Tapestation 2200 (Santa Clara, CA) using the D1000 ScreenTape and reagents (cat. no. 5067–5582 and 5067–5583) with an external ladder.

    Article Title: Defiant: (DMRs: easy, fast, identification and ANnoTation) identifies differentially Methylated regions from iron-deficient rat hippocampus
    Article Snippet: Briefly, 1 μg of genomic DNA was fragmented into 300 bp size using M220 Covaris Ultrasonicator. .. Sequencing libraries were generated using NEBNext genomic sequencing kit (New England Biolabs) and ligated with Illumina methylated paired end adaptors.

    Article Title: Whole-Genome Sequences and Classification of Streptococcus agalactiae Strains Isolated from Laboratory-Reared Long-Evans Rats (Rattus norvegicus)
    Article Snippet: After receipt of isolates, genomic DNA for short-read whole-genome sequencing was extracted manually using a modified QIAamp DNA minikit protocol (Qiagen). .. Nucleic acid concentration was quantified by an Invitrogen Qubit assay, and samples were sheared using a Covaris M220 ultrasonicator programmed to generate 500-bp fragments.

    Article Title: Effects of Host, Sample, and in vitro Culture on Genomic Diversity of Pathogenic Mycobacteria
    Article Snippet: Paragraph title: Sample Preparation and Sequencing ... Samples were sheared using a Covaris M220 Ultrasonicator (Covaris Inc., Woburn, MA, United States), and were size selected for an average insert size of 550 bp using SPRI bead-based size exclusion.

    Article Title: Contrasting effects of habitat discontinuity on three closely related fungivorous beetle species with diverging host‐use patterns and dispersal ability. Contrasting effects of habitat discontinuity on three closely related fungivorous beetle species with diverging host‐use patterns and dispersal ability
    Article Snippet: Genomic DNA was sheared in a volume of 50 µl using a Covaris M220 ultrasonicator (Covaris, Woburn, MA, USA). .. Paired‐end sequencing was performed on the MiSeq Sequencer using a MiSeq reagent kit v3 (300 cycle).

    Sonication:

    Article Title: A stable phylogenomic classification of Travunioidea ( Arachnida, Opiliones, Laniatores) based on sequence capture of ultraconserved elements
    Article Snippet: .. Up to 500 ng of genomic DNA was used in sonication procedures, using a Bioruptor for 7 cycles at 30 seconds on and 90 seconds off, or a Covaris M220 Ultrasonicator for 60 seconds with a Peak Incidence Power of 50, Duty Factor of 10%, and 200 cycles per burst. .. Samples were run out on a gel to verify sonication success.), with some modifications.

    Article Title: Transcriptome-wide identification of transient RNA G-quadruplexes in human cells
    Article Snippet: .. Cells were then sonicated using a Covaris m220 Ultrasonicator using default settings at 10% duty for 2 min. .. The sonicated fractions were then incubated with 100 µM BioTASQ (or 100 µM biotin for negative controls) overnight at 4 °C.

    Article Title: BET Bromodomain Inhibition as a Therapeutic Strategy in Ovarian Cancer by Downregulating FoxM1
    Article Snippet: .. Cell pellets were lysed and sonicated using Covaris M220 Ultrasonicator. .. Sonicated lysates were cleared and incubated overnight with magnetic beads bound with IgG, BRD4 (Abcam) or FoxM1 (Cell Signaling Technology) antibodies to enrich for DNA fragments associated with the indicated protein.

    DNA Extraction:

    Article Title: A New Freshwater Cyanosiphovirus Harboring Integrase
    Article Snippet: Paragraph title: Viral Genomic DNA Extraction, Purification, and Sequencing ... Viral genomic DNA was extracted from the DNase I treated viral concentrate using PureLink® Viral RNA/DNA Mini Kit (Invitrogen), and then sheared to between 200 and 500 bp fragments (mean ∼300 bp) using a Covaris M220 ultrasonicator (Covaris, Woburn, MA, United States) and purified using Agencourt AMPure XP beads (Beckham Coulter).

    Article Title: Genomic Analysis Reveals Novel Diversity among the 1976 Philadelphia Legionnaires’ Disease Outbreak Isolates and Additional ST36 Strains
    Article Snippet: Paragraph title: Genomic DNA Extraction and NGS Library Preparation ... In preparation for Illumina MiSeq sequencing, 2 μg of gDNA was sheared to an average fragment length of 600 bp using a Covaris M220 ultrasonicator (Woburn, MA), cleaned and concentrated with Agencourt AMPure XP magnetic beads (cat. no. A63880, Beckman Coulter, Indianapolis, IN) as per the manufacturer’s instructions with one minor modification (80% ethanol used for both washes), and eluted in Tris-HCl, pH 8.0.

    Nucleic Acid Electrophoresis:

    Article Title: A stable phylogenomic classification of Travunioidea ( Arachnida, Opiliones, Laniatores) based on sequence capture of ultraconserved elements
    Article Snippet: Extractions were quantified using a Qubit Fluorometer (Life Technologies, Inc.) Broad Range kit, and quality was assessed via gel electrophoresis on a 0.8% agarose gel. .. Up to 500 ng of genomic DNA was used in sonication procedures, using a Bioruptor for 7 cycles at 30 seconds on and 90 seconds off, or a Covaris M220 Ultrasonicator for 60 seconds with a Peak Incidence Power of 50, Duty Factor of 10%, and 200 cycles per burst.

    Methylation:

    Article Title: Defiant: (DMRs: easy, fast, identification and ANnoTation) identifies differentially Methylated regions from iron-deficient rat hippocampus
    Article Snippet: Briefly, 1 μg of genomic DNA was fragmented into 300 bp size using M220 Covaris Ultrasonicator. .. Sequencing libraries were generated using NEBNext genomic sequencing kit (New England Biolabs) and ligated with Illumina methylated paired end adaptors.

    Isolation:

    Article Title: High incidence of multiple antibiotic resistant cells in cultures of in enterohemorrhagic Escherichia coli O157:H7
    Article Snippet: DNA was isolated from seven strains of E. coli by lysis in 1% SDS and 1mg/ml Proteinase K overnight at 55°C followed by 25:24:1 phenol:chloroform:isoamyl alcohol extraction and ethanol precipitation. .. Ten µg of purified DNA was sheared with a Covaris M220 ultrasonicator to a median size range of 250 bp.

    Purification:

    Article Title: High incidence of multiple antibiotic resistant cells in cultures of in enterohemorrhagic Escherichia coli O157:H7
    Article Snippet: .. Ten µg of purified DNA was sheared with a Covaris M220 ultrasonicator to a median size range of 250 bp. ..

    Article Title: A New Freshwater Cyanosiphovirus Harboring Integrase
    Article Snippet: .. Viral genomic DNA was extracted from the DNase I treated viral concentrate using PureLink® Viral RNA/DNA Mini Kit (Invitrogen), and then sheared to between 200 and 500 bp fragments (mean ∼300 bp) using a Covaris M220 ultrasonicator (Covaris, Woburn, MA, United States) and purified using Agencourt AMPure XP beads (Beckham Coulter). .. The sequencing library was built based on 100 ng of this purified DNA using NxSeq® AmpFREE Low DNA Library Kit (Lucigen, Middleton, WI, United States), and sequenced using Illumina HiSeq® 2500 with 2 × 100 bp pair-end reads at the Biodiversity Research Centre at The University of British Columbia.

    Article Title: Effects of Host, Sample, and in vitro Culture on Genomic Diversity of Pathogenic Mycobacteria
    Article Snippet: 1 ul of each resulting indexed library was then run through one cycle of PCR to remove heteroduplices and purified with MinElute columns. .. Samples were sheared using a Covaris M220 Ultrasonicator (Covaris Inc., Woburn, MA, United States), and were size selected for an average insert size of 550 bp using SPRI bead-based size exclusion.

    Polymerase Chain Reaction:

    Article Title: Out of the Reservoir: Phenotypic and Genotypic Characterization of a Novel Cowpox Virus Isolated from a Common Vole
    Article Snippet: For next-generation sequencing (NGS), viral DNA was extracted using a High Pure PCR template preparation kit (Roche, Mannheim, Germany) according to the manufacturer's instructions. .. Subsequently, 0.5 to 1 μg of DNA was fragmented to approximately 300 bp using a Covaris M220 ultrasonicator (Covaris, Brighton, United Kingdom).

    Article Title: Applications of Probe Capture Enrichment Next Generation Sequencing for Whole Mitochondrial Genome and 426 Nuclear SNPs for Forensically Challenging Samples
    Article Snippet: DNA Fragmentation and Library Preparation All DNA samples, except the samples in the nuclear DNA sensitivity and size selection study, were mechanically sheared to 250 bp following the manufacturer’s guideline for the Covaris® M220 Focused-ultrasonicatorTM for the 50 µL screw capped tube. .. DNA libraries were then prepared using KAPA Hyper Prep Kit for Illumina® platforms (KAPA Biosystems, Roche® , San Francisco, CA, USA) following the manufacturer’s protocol with optimized PCR cycle numbers ( ).

    Article Title: Genomic Analysis Reveals Novel Diversity among the 1976 Philadelphia Legionnaires’ Disease Outbreak Isolates and Additional ST36 Strains
    Article Snippet: In preparation for Illumina MiSeq sequencing, 2 μg of gDNA was sheared to an average fragment length of 600 bp using a Covaris M220 ultrasonicator (Woburn, MA), cleaned and concentrated with Agencourt AMPure XP magnetic beads (cat. no. A63880, Beckman Coulter, Indianapolis, IN) as per the manufacturer’s instructions with one minor modification (80% ethanol used for both washes), and eluted in Tris-HCl, pH 8.0. .. NEB USER enzyme was included during the PCR cycling step, with a subsequent AMPure magnetic bead cleanup (at 0.7X) and elution into Tris-HCl, pH 8.0.

    Article Title: Whole-Genome Sequences and Classification of Streptococcus agalactiae Strains Isolated from Laboratory-Reared Long-Evans Rats (Rattus norvegicus)
    Article Snippet: Nucleic acid concentration was quantified by an Invitrogen Qubit assay, and samples were sheared using a Covaris M220 ultrasonicator programmed to generate 500-bp fragments. .. Libraries were constructed using TruSeq DNA PCR-free high-throughput (HT) library preparation kit with 96 dual indexes and quantified by a Kapa quantitative PCR (qPCR) library quantification method.

    Article Title: Effects of Host, Sample, and in vitro Culture on Genomic Diversity of Pathogenic Mycobacteria
    Article Snippet: 1 ul of each resulting indexed library was then run through one cycle of PCR to remove heteroduplices and purified with MinElute columns. .. Samples were sheared using a Covaris M220 Ultrasonicator (Covaris Inc., Woburn, MA, United States), and were size selected for an average insert size of 550 bp using SPRI bead-based size exclusion.

    IA:

    Article Title: Applications of Probe Capture Enrichment Next Generation Sequencing for Whole Mitochondrial Genome and 426 Nuclear SNPs for Forensically Challenging Samples
    Article Snippet: DNA Fragmentation and Library Preparation All DNA samples, except the samples in the nuclear DNA sensitivity and size selection study, were mechanically sheared to 250 bp following the manufacturer’s guideline for the Covaris® M220 Focused-ultrasonicatorTM for the 50 µL screw capped tube. .. For all samples, Matched Dual Index Adapters (Integrated DNA Technologies, Coralville, IA, USA) were used in DNA library preparations.

    Agarose Gel Electrophoresis:

    Article Title: A stable phylogenomic classification of Travunioidea ( Arachnida, Opiliones, Laniatores) based on sequence capture of ultraconserved elements
    Article Snippet: Extractions were quantified using a Qubit Fluorometer (Life Technologies, Inc.) Broad Range kit, and quality was assessed via gel electrophoresis on a 0.8% agarose gel. .. Up to 500 ng of genomic DNA was used in sonication procedures, using a Bioruptor for 7 cycles at 30 seconds on and 90 seconds off, or a Covaris M220 Ultrasonicator for 60 seconds with a Peak Incidence Power of 50, Duty Factor of 10%, and 200 cycles per burst.

    Article Title: Gene expression during zombie ant biting behavior reflects the complexity underlying fungal parasitic behavioral manipulation
    Article Snippet: For the second library 5 μg of genomic DNA were sheared in a Covaris M220 ultrasonicator with 50 μl screw caps to an approximate length of 800 bp. .. Both libraries were automatically size selected to a final length of 650–850 bp by separation on a 1.5 % agarose gel in a BluePippin electrophoresis unit (Sage Science).

    Nucleic Acid Concentration:

    Article Title: Whole-Genome Sequences and Classification of Streptococcus agalactiae Strains Isolated from Laboratory-Reared Long-Evans Rats (Rattus norvegicus)
    Article Snippet: .. Nucleic acid concentration was quantified by an Invitrogen Qubit assay, and samples were sheared using a Covaris M220 ultrasonicator programmed to generate 500-bp fragments. .. Libraries were constructed using TruSeq DNA PCR-free high-throughput (HT) library preparation kit with 96 dual indexes and quantified by a Kapa quantitative PCR (qPCR) library quantification method.

    Chromatin Immunoprecipitation:

    Article Title: Out of the Reservoir: Phenotypic and Genotypic Characterization of a Novel Cowpox Virus Isolated from a Common Vole
    Article Snippet: Subsequently, 0.5 to 1 μg of DNA was fragmented to approximately 300 bp using a Covaris M220 ultrasonicator (Covaris, Brighton, United Kingdom). .. The quality of the library was checked on a Bioanalyzer 2100 (Agilent Technologies, Böblingen, Germany) using a high-sensitivity DNA chip and corresponding reagents.

    Article Title: Effects of Host, Sample, and in vitro Culture on Genomic Diversity of Pathogenic Mycobacteria
    Article Snippet: This pool was quantified on a BioAnalyzer using a DNA 1000 chip and sequenced on 1 lane of a 2 × 125 bp run on a HiSeq 2500. .. Samples were sheared using a Covaris M220 Ultrasonicator (Covaris Inc., Woburn, MA, United States), and were size selected for an average insert size of 550 bp using SPRI bead-based size exclusion.

    Software:

    Article Title: High incidence of multiple antibiotic resistant cells in cultures of in enterohemorrhagic Escherichia coli O157:H7
    Article Snippet: Ten µg of purified DNA was sheared with a Covaris M220 ultrasonicator to a median size range of 250 bp. .. Perfectly matching reads were mapped to to E. coli O157:H7 EDL933 genome (Genebank ) using the Bowtie software package [ ].

    Real-time Polymerase Chain Reaction:

    Article Title: Whole-Genome Sequences and Classification of Streptococcus agalactiae Strains Isolated from Laboratory-Reared Long-Evans Rats (Rattus norvegicus)
    Article Snippet: Nucleic acid concentration was quantified by an Invitrogen Qubit assay, and samples were sheared using a Covaris M220 ultrasonicator programmed to generate 500-bp fragments. .. Libraries were constructed using TruSeq DNA PCR-free high-throughput (HT) library preparation kit with 96 dual indexes and quantified by a Kapa quantitative PCR (qPCR) library quantification method.

    Multiplex Assay:

    Article Title: Genomic Analysis Reveals Novel Diversity among the 1976 Philadelphia Legionnaires’ Disease Outbreak Isolates and Additional ST36 Strains
    Article Snippet: In preparation for Illumina MiSeq sequencing, 2 μg of gDNA was sheared to an average fragment length of 600 bp using a Covaris M220 ultrasonicator (Woburn, MA), cleaned and concentrated with Agencourt AMPure XP magnetic beads (cat. no. A63880, Beckman Coulter, Indianapolis, IN) as per the manufacturer’s instructions with one minor modification (80% ethanol used for both washes), and eluted in Tris-HCl, pH 8.0. .. Illumina-compatible libraries were constructed with 1ug of sheared input DNA on a Zephyr Molecular Biology Workstation (Perkin Elmer, Waltham, MA) using custom scripts written to follow the manufacturer’s protocol for the NEBNext Ultra DNA Library Preparation Kit (cat. no. E7370, New England Biolabs, Ipswich, MA) combined with NEBNext Multiplex Oligo Index Primer Sets 1 and 2 (cat. no. E7335 and E7500).

    Selection:

    Article Title: Out of the Reservoir: Phenotypic and Genotypic Characterization of a Novel Cowpox Virus Isolated from a Common Vole
    Article Snippet: Subsequently, 0.5 to 1 μg of DNA was fragmented to approximately 300 bp using a Covaris M220 ultrasonicator (Covaris, Brighton, United Kingdom). .. As the size selection step was skipped during automated library preparation, upper- and lower-size exclusion of the library was done manually with Ampure XP magnetic beads (Beckman Coulter).

    Article Title: Applications of Probe Capture Enrichment Next Generation Sequencing for Whole Mitochondrial Genome and 426 Nuclear SNPs for Forensically Challenging Samples
    Article Snippet: .. Nuclear DNA Sensitivity and Size Selection Study The single source male control DNA NA24129 (Coriell Institute for Medical Research, Camden, NJ, USA) was mechanically fragmented using the Covaris® M220 Focused-ultrasonicatorTM (Covaris, Woburn, MA, USA) to an average size of 175 bp with a range from 25 bp to 250 bp. .. To test short template sample analysis, size selection was carried out at ≤75 bp using the Pippin Prep® (Sage Science, Beverly, MA, USA).

    Article Title: Applications of Probe Capture Enrichment Next Generation Sequencing for Whole Mitochondrial Genome and 426 Nuclear SNPs for Forensically Challenging Samples
    Article Snippet: .. DNA Fragmentation and Library Preparation All DNA samples, except the samples in the nuclear DNA sensitivity and size selection study, were mechanically sheared to 250 bp following the manufacturer’s guideline for the Covaris® M220 Focused-ultrasonicatorTM for the 50 µL screw capped tube. .. DNA libraries were then prepared using KAPA Hyper Prep Kit for Illumina® platforms (KAPA Biosystems, Roche® , San Francisco, CA, USA) following the manufacturer’s protocol with optimized PCR cycle numbers ( ).

    Article Title: Defiant: (DMRs: easy, fast, identification and ANnoTation) identifies differentially Methylated regions from iron-deficient rat hippocampus
    Article Snippet: Briefly, 1 μg of genomic DNA was fragmented into 300 bp size using M220 Covaris Ultrasonicator. .. Libraries were bisulfite-converted using Imprint DNA modification kit (Sigma), and the size of 300–600 bp was selected using Pippin Prep DNA size selection system (Sage Science).

    Sample Prep:

    Article Title: Effects of Host, Sample, and in vitro Culture on Genomic Diversity of Pathogenic Mycobacteria
    Article Snippet: Paragraph title: Sample Preparation and Sequencing ... Samples were sheared using a Covaris M220 Ultrasonicator (Covaris Inc., Woburn, MA, United States), and were size selected for an average insert size of 550 bp using SPRI bead-based size exclusion.

    Ethanol Precipitation:

    Article Title: High incidence of multiple antibiotic resistant cells in cultures of in enterohemorrhagic Escherichia coli O157:H7
    Article Snippet: DNA was isolated from seven strains of E. coli by lysis in 1% SDS and 1mg/ml Proteinase K overnight at 55°C followed by 25:24:1 phenol:chloroform:isoamyl alcohol extraction and ethanol precipitation. .. Ten µg of purified DNA was sheared with a Covaris M220 ultrasonicator to a median size range of 250 bp.

    Next-Generation Sequencing:

    Article Title: Out of the Reservoir: Phenotypic and Genotypic Characterization of a Novel Cowpox Virus Isolated from a Common Vole
    Article Snippet: Paragraph title: NGS. ... Subsequently, 0.5 to 1 μg of DNA was fragmented to approximately 300 bp using a Covaris M220 ultrasonicator (Covaris, Brighton, United Kingdom).

    Article Title: Genomic Analysis Reveals Novel Diversity among the 1976 Philadelphia Legionnaires’ Disease Outbreak Isolates and Additional ST36 Strains
    Article Snippet: Paragraph title: Genomic DNA Extraction and NGS Library Preparation ... In preparation for Illumina MiSeq sequencing, 2 μg of gDNA was sheared to an average fragment length of 600 bp using a Covaris M220 ultrasonicator (Woburn, MA), cleaned and concentrated with Agencourt AMPure XP magnetic beads (cat. no. A63880, Beckman Coulter, Indianapolis, IN) as per the manufacturer’s instructions with one minor modification (80% ethanol used for both washes), and eluted in Tris-HCl, pH 8.0.

    Article Title: Whole-Genome Sequences and Classification of Streptococcus agalactiae Strains Isolated from Laboratory-Reared Long-Evans Rats (Rattus norvegicus)
    Article Snippet: Nucleic acid concentration was quantified by an Invitrogen Qubit assay, and samples were sheared using a Covaris M220 ultrasonicator programmed to generate 500-bp fragments. .. Genomes were sequenced by Illumina NGS technology using MiSeq version 2 500-cycle kit.

    Article Title: Contrasting effects of habitat discontinuity on three closely related fungivorous beetle species with diverging host‐use patterns and dispersal ability. Contrasting effects of habitat discontinuity on three closely related fungivorous beetle species with diverging host‐use patterns and dispersal ability
    Article Snippet: For Illumina MiSeq next‐generation sequencing, genomic DNA was collected from a pool of 29–45 individuals for each species (Supporting Information Table ). .. Genomic DNA was sheared in a volume of 50 µl using a Covaris M220 ultrasonicator (Covaris, Woburn, MA, USA).

    Incubation:

    Article Title: Transcriptome-wide identification of transient RNA G-quadruplexes in human cells
    Article Snippet: Cells were then sonicated using a Covaris m220 Ultrasonicator using default settings at 10% duty for 2 min. .. The sonicated fractions were then incubated with 100 µM BioTASQ (or 100 µM biotin for negative controls) overnight at 4 °C.

    Article Title: BET Bromodomain Inhibition as a Therapeutic Strategy in Ovarian Cancer by Downregulating FoxM1
    Article Snippet: Cell pellets were lysed and sonicated using Covaris M220 Ultrasonicator. .. Sonicated lysates were cleared and incubated overnight with magnetic beads bound with IgG, BRD4 (Abcam) or FoxM1 (Cell Signaling Technology) antibodies to enrich for DNA fragments associated with the indicated protein.

    Spectrophotometry:

    Article Title: Genomic Analysis Reveals Novel Diversity among the 1976 Philadelphia Legionnaires’ Disease Outbreak Isolates and Additional ST36 Strains
    Article Snippet: In preparation for Illumina MiSeq sequencing, 2 μg of gDNA was sheared to an average fragment length of 600 bp using a Covaris M220 ultrasonicator (Woburn, MA), cleaned and concentrated with Agencourt AMPure XP magnetic beads (cat. no. A63880, Beckman Coulter, Indianapolis, IN) as per the manufacturer’s instructions with one minor modification (80% ethanol used for both washes), and eluted in Tris-HCl, pH 8.0. .. DNA quality (260:280 and 260:230) was measured on a Nanodrop ND-1000 spectrophotometer (Thermo Scientific, Wilmington, DE) and initial average fragment size was verified on the Agilent Tapestation 2200 (Santa Clara, CA) using the D1000 ScreenTape and reagents (cat. no. 5067–5582 and 5067–5583) with an external ladder.

    Concentration Assay:

    Article Title: Genomic Analysis Reveals Novel Diversity among the 1976 Philadelphia Legionnaires’ Disease Outbreak Isolates and Additional ST36 Strains
    Article Snippet: DNA concentration was measured by the Qubit Fluorometric Quantitation system (Life Technologies, Carlsbad, CA) using either the dsDNA broad range (cat. no. Q32853) or high sensitivity (cat. no. Q32851) assay kit. .. In preparation for Illumina MiSeq sequencing, 2 μg of gDNA was sheared to an average fragment length of 600 bp using a Covaris M220 ultrasonicator (Woburn, MA), cleaned and concentrated with Agencourt AMPure XP magnetic beads (cat. no. A63880, Beckman Coulter, Indianapolis, IN) as per the manufacturer’s instructions with one minor modification (80% ethanol used for both washes), and eluted in Tris-HCl, pH 8.0.

    High Throughput Screening Assay:

    Article Title: Whole-Genome Sequences and Classification of Streptococcus agalactiae Strains Isolated from Laboratory-Reared Long-Evans Rats (Rattus norvegicus)
    Article Snippet: Nucleic acid concentration was quantified by an Invitrogen Qubit assay, and samples were sheared using a Covaris M220 ultrasonicator programmed to generate 500-bp fragments. .. Libraries were constructed using TruSeq DNA PCR-free high-throughput (HT) library preparation kit with 96 dual indexes and quantified by a Kapa quantitative PCR (qPCR) library quantification method.

    Lysis:

    Article Title: High incidence of multiple antibiotic resistant cells in cultures of in enterohemorrhagic Escherichia coli O157:H7
    Article Snippet: DNA was isolated from seven strains of E. coli by lysis in 1% SDS and 1mg/ml Proteinase K overnight at 55°C followed by 25:24:1 phenol:chloroform:isoamyl alcohol extraction and ethanol precipitation. .. Ten µg of purified DNA was sheared with a Covaris M220 ultrasonicator to a median size range of 250 bp.

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    Covaris m220 focused ultrasonicator
    M220 Focused Ultrasonicator, supplied by Covaris, used in various techniques. Bioz Stars score: 95/100, based on 43 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/m220 focused ultrasonicator/product/Covaris
    Average 95 stars, based on 43 article reviews
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    m220 focused ultrasonicator - by Bioz Stars, 2020-02
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