qiaamp dna minikit  (Qiagen)

 
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    Name:
    QIAamp DNA Mini Kit
    Description:
    For isolation of genomic mitochondrial bacterial parasite or viral DNA Kit contents Qiagen QIAamp DNA Mini Kit 50 preps 200L Sample 50 to 200L Elution Volume Whole Blood Tissue Cells Sample Silica Technology Spin Column Format Manual Processing 20 min Time Run 4 to 12g Yield Rapid Purification of High quality Ready to use DNA Ideal for PCR Southern Blotting For Isolation of Genomic Mitochondrial Bacterial Parasite or Viral DNA Includes 50 QIAamp Mini Spin Columns Proteinase K Reagents Buffers 2mL Collection Tubes Benefits Rapid purification of high quality ready to use DNA Consistent high yields Complete removal of contaminants and inhibitors
    Catalog Number:
    51304
    Price:
    165
    Category:
    QIAamp DNA Mini Kit
    Buy from Supplier


    Structured Review

    Qiagen qiaamp dna minikit
    QIAamp DNA Mini Kit
    For isolation of genomic mitochondrial bacterial parasite or viral DNA Kit contents Qiagen QIAamp DNA Mini Kit 50 preps 200L Sample 50 to 200L Elution Volume Whole Blood Tissue Cells Sample Silica Technology Spin Column Format Manual Processing 20 min Time Run 4 to 12g Yield Rapid Purification of High quality Ready to use DNA Ideal for PCR Southern Blotting For Isolation of Genomic Mitochondrial Bacterial Parasite or Viral DNA Includes 50 QIAamp Mini Spin Columns Proteinase K Reagents Buffers 2mL Collection Tubes Benefits Rapid purification of high quality ready to use DNA Consistent high yields Complete removal of contaminants and inhibitors
    https://www.bioz.com/result/qiaamp dna minikit/product/Qiagen
    Average 99 stars, based on 464 article reviews
    Price from $9.99 to $1999.99
    qiaamp dna minikit - by Bioz Stars, 2020-08
    99/100 stars

    Images

    1) Product Images from "Development and Validation of a New Reliable Method for the Diagnosis of Avian Botulism"

    Article Title: Development and Validation of a New Reliable Method for the Diagnosis of Avian Botulism

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0169640

    Sample analysis workflow for suspected avian botulism cultures. Parameters evaluated during the study: test sample type (whole organ means that the whole liver or up to 25g of the liver was analyzed), enrichment culturing conditions, DNA extraction methods. The CFX96 thermocycler (Bio-Rad, Marne-la-Coquette, France) was used for Real-Time PCR. Analyses performed by ANSES are indicated in black, and performed by LABOCEA are in grey. Kit 1: QIAamp ® DNA Mini kit (Qiagen, Courtaboeuf, France), Kit2: InstaGene Matrix (Bio-Rad, Marne-la-Coquette, France), Kit3: Mericon Bacteria+ (Qiagen, Courtaboeuf, France). CII, CIII, DII, DIII, E are the primers and probe used to perform real-time PCR for the detection of type C, D, C/D, D/C and E BoNT genes [ 4 , 14 ]. L: Liver; L1 to L5: Liver N° 1 to Liver N° 5. M1 to M4: Method 1 to method 4.
    Figure Legend Snippet: Sample analysis workflow for suspected avian botulism cultures. Parameters evaluated during the study: test sample type (whole organ means that the whole liver or up to 25g of the liver was analyzed), enrichment culturing conditions, DNA extraction methods. The CFX96 thermocycler (Bio-Rad, Marne-la-Coquette, France) was used for Real-Time PCR. Analyses performed by ANSES are indicated in black, and performed by LABOCEA are in grey. Kit 1: QIAamp ® DNA Mini kit (Qiagen, Courtaboeuf, France), Kit2: InstaGene Matrix (Bio-Rad, Marne-la-Coquette, France), Kit3: Mericon Bacteria+ (Qiagen, Courtaboeuf, France). CII, CIII, DII, DIII, E are the primers and probe used to perform real-time PCR for the detection of type C, D, C/D, D/C and E BoNT genes [ 4 , 14 ]. L: Liver; L1 to L5: Liver N° 1 to Liver N° 5. M1 to M4: Method 1 to method 4.

    Techniques Used: DNA Extraction, Real-time Polymerase Chain Reaction

    2) Product Images from "Development of a Rapid, Simple Method for Detecting Naegleria fowleri Visually in Water Samples by Loop-Mediated Isothermal Amplification (LAMP)"

    Article Title: Development of a Rapid, Simple Method for Detecting Naegleria fowleri Visually in Water Samples by Loop-Mediated Isothermal Amplification (LAMP)

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0120997

    (A) The Lower limit detection of LAMP and PCR results in spiked water samples ( Table 2A ) was determined by making 10-fold dilutions from N . fowleri ranging from 10 4– 1 cells/250 ml of water, processed and extracted by QIAamp DNA minikit. Analytical sensitivity showed identical results in the LAMP (A1-A6) and PCR assays (B7-B12). (B) Electrophoresis results of the LAMP products from A1-A6 (B1-B6) and PCR products (110 bp) (B7-B12). M, 100 bp DNA Ladder; Neg, negative control.
    Figure Legend Snippet: (A) The Lower limit detection of LAMP and PCR results in spiked water samples ( Table 2A ) was determined by making 10-fold dilutions from N . fowleri ranging from 10 4– 1 cells/250 ml of water, processed and extracted by QIAamp DNA minikit. Analytical sensitivity showed identical results in the LAMP (A1-A6) and PCR assays (B7-B12). (B) Electrophoresis results of the LAMP products from A1-A6 (B1-B6) and PCR products (110 bp) (B7-B12). M, 100 bp DNA Ladder; Neg, negative control.

    Techniques Used: Polymerase Chain Reaction, Electrophoresis, Negative Control

    3) Product Images from "Development of a Rapid, Simple Method for Detecting Naegleria fowleri Visually in Water Samples by Loop-Mediated Isothermal Amplification (LAMP)"

    Article Title: Development of a Rapid, Simple Method for Detecting Naegleria fowleri Visually in Water Samples by Loop-Mediated Isothermal Amplification (LAMP)

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0120997

    (A) The Lower limit detection of LAMP and PCR results in spiked water samples ( Table 2A ) was determined by making 10-fold dilutions from N . fowleri ranging from 10 4– 1 cells/250 ml of water, processed and extracted by QIAamp DNA minikit. Analytical sensitivity showed identical results in the LAMP (A1-A6) and PCR assays (B7-B12). (B) Electrophoresis results of the LAMP products from A1-A6 (B1-B6) and PCR products (110 bp) (B7-B12). M, 100 bp DNA Ladder; Neg, negative control.
    Figure Legend Snippet: (A) The Lower limit detection of LAMP and PCR results in spiked water samples ( Table 2A ) was determined by making 10-fold dilutions from N . fowleri ranging from 10 4– 1 cells/250 ml of water, processed and extracted by QIAamp DNA minikit. Analytical sensitivity showed identical results in the LAMP (A1-A6) and PCR assays (B7-B12). (B) Electrophoresis results of the LAMP products from A1-A6 (B1-B6) and PCR products (110 bp) (B7-B12). M, 100 bp DNA Ladder; Neg, negative control.

    Techniques Used: Polymerase Chain Reaction, Electrophoresis, Negative Control

    4) Product Images from "Development of a Rapid, Simple Method for Detecting Naegleria fowleri Visually in Water Samples by Loop-Mediated Isothermal Amplification (LAMP)"

    Article Title: Development of a Rapid, Simple Method for Detecting Naegleria fowleri Visually in Water Samples by Loop-Mediated Isothermal Amplification (LAMP)

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0120997

    (A) The Lower limit detection of LAMP and PCR results in spiked water samples ( Table 2A ) was determined by making 10-fold dilutions from N . fowleri ranging from 10 4– 1 cells/250 ml of water, processed and extracted by QIAamp DNA minikit. Analytical sensitivity showed identical results in the LAMP (A1-A6) and PCR assays (B7-B12). (B) Electrophoresis results of the LAMP products from A1-A6 (B1-B6) and PCR products (110 bp) (B7-B12). M, 100 bp DNA Ladder; Neg, negative control.
    Figure Legend Snippet: (A) The Lower limit detection of LAMP and PCR results in spiked water samples ( Table 2A ) was determined by making 10-fold dilutions from N . fowleri ranging from 10 4– 1 cells/250 ml of water, processed and extracted by QIAamp DNA minikit. Analytical sensitivity showed identical results in the LAMP (A1-A6) and PCR assays (B7-B12). (B) Electrophoresis results of the LAMP products from A1-A6 (B1-B6) and PCR products (110 bp) (B7-B12). M, 100 bp DNA Ladder; Neg, negative control.

    Techniques Used: Polymerase Chain Reaction, Electrophoresis, Negative Control

    5) Product Images from "Optimized Protocol for Simple Extraction of High-Quality Genomic DNA from Clostridium difficile for Whole-Genome Sequencing"

    Article Title: Optimized Protocol for Simple Extraction of High-Quality Genomic DNA from Clostridium difficile for Whole-Genome Sequencing

    Journal: Journal of Clinical Microbiology

    doi: 10.1128/JCM.00956-15

    Gel electrophoresis results for genomic DNA (gDNA) extracted from Clostridium difficile using three different QIAamp protocols. Gram-positive protocol (A), lanes 1 to 4: gDNA extracts from isolates 38A2 (lane 1 and 2) and 69B1 (lane 3 and 4). Each lane
    Figure Legend Snippet: Gel electrophoresis results for genomic DNA (gDNA) extracted from Clostridium difficile using three different QIAamp protocols. Gram-positive protocol (A), lanes 1 to 4: gDNA extracts from isolates 38A2 (lane 1 and 2) and 69B1 (lane 3 and 4). Each lane

    Techniques Used: Nucleic Acid Electrophoresis

    6) Product Images from "Development of a Rapid, Simple Method for Detecting Naegleria fowleri Visually in Water Samples by Loop-Mediated Isothermal Amplification (LAMP)"

    Article Title: Development of a Rapid, Simple Method for Detecting Naegleria fowleri Visually in Water Samples by Loop-Mediated Isothermal Amplification (LAMP)

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0120997

    (A) The Lower limit detection of LAMP and PCR results in spiked water samples ( Table 2A ) was determined by making 10-fold dilutions from N . fowleri ranging from 10 4– 1 cells/250 ml of water, processed and extracted by QIAamp DNA minikit. Analytical sensitivity showed identical results in the LAMP (A1-A6) and PCR assays (B7-B12). (B) Electrophoresis results of the LAMP products from A1-A6 (B1-B6) and PCR products (110 bp) (B7-B12). M, 100 bp DNA Ladder; Neg, negative control.
    Figure Legend Snippet: (A) The Lower limit detection of LAMP and PCR results in spiked water samples ( Table 2A ) was determined by making 10-fold dilutions from N . fowleri ranging from 10 4– 1 cells/250 ml of water, processed and extracted by QIAamp DNA minikit. Analytical sensitivity showed identical results in the LAMP (A1-A6) and PCR assays (B7-B12). (B) Electrophoresis results of the LAMP products from A1-A6 (B1-B6) and PCR products (110 bp) (B7-B12). M, 100 bp DNA Ladder; Neg, negative control.

    Techniques Used: Polymerase Chain Reaction, Electrophoresis, Negative Control

    Related Articles

    DNA Extraction:

    Article Title: Maintaining Breast Cancer Specimen Integrity and Individual or Simultaneous Extraction of Quality DNA, RNA, and Proteins from Allprotect-Stabilized and Nonstabilized Tissue Samples
    Article Snippet: .. The aims of this study were (1) to ascertain the quality of a representative portion (10%) of samples biobanked at SJHB utilizing a combination of quality control approaches utilized by established international biobanks, – (2) to assess the capacity of AllPrep (Qiagen) to simultaneously isolate RNA, DNA, and protein from tumor and normal breast tissues, (3) to compare AllPrep with dedicated RNA and DNA extraction kits, that is, RNEasy® (Qiagen, RNA isolation) and QIAamp® (Qiagen, DNA isolation), (4) to evaluate the effectiveness of Allprotect, a new RNA, DNA, and protein stabilizer, and (5) to assess the impact (if any) of presampling measures taken to maintain the pathological specimen's diagnostic integrity on the ultimate quality of RNA, DNA, and protein isolates. ..

    Article Title: Genomics-Based Identification of Microorganisms in Human Ocular Body Fluid
    Article Snippet: .. Isolation of DNA from complex samples DNA was isolated from 200 μl vitreous fluid and balanced salt solution samples using two different DNA isolation procedures, i) the QIAamp DNA Mini Kit (51304, Qiagen) and ii) the QIAamp UCP Pathogen Mini Kit (50214, Qiagen). ..

    Article Title: Detection of Clostridium botulinum group III in environmental samples from farms by real-time PCR using four commercial DNA extraction kits
    Article Snippet: .. The following kits were evaluated: PowerSoil® DNA isolation kit (Mo Bio Laboratories Inc., Carlsbad, CA, USA), QIAamp® Fast DNA Stool Mini Kit and QIAamp® DNA Mini Kit (QIAGEN Inc., Valencia, CA, USA), and NucleoSpin® Soil (Macherey–Nagel, Duren, Germany). .. For NucleoSpin® Soil, sample lysis was performed with the optional enhancer SX solution and SL1 buffer.

    Article Title: Detection of the Agent of Heartwater, Cowdria ruminantium, in Amblyomma Ticks by PCR: Validation and Application of the Assay to Field Ticks
    Article Snippet: .. Briefly, DNA was extracted from the individual tick tissue samples using the QIA-amp PCR DNA extraction tissue kits (Qiagen, Hilden, Germany). ..

    Diagnostic Assay:

    Article Title: Maintaining Breast Cancer Specimen Integrity and Individual or Simultaneous Extraction of Quality DNA, RNA, and Proteins from Allprotect-Stabilized and Nonstabilized Tissue Samples
    Article Snippet: .. The aims of this study were (1) to ascertain the quality of a representative portion (10%) of samples biobanked at SJHB utilizing a combination of quality control approaches utilized by established international biobanks, – (2) to assess the capacity of AllPrep (Qiagen) to simultaneously isolate RNA, DNA, and protein from tumor and normal breast tissues, (3) to compare AllPrep with dedicated RNA and DNA extraction kits, that is, RNEasy® (Qiagen, RNA isolation) and QIAamp® (Qiagen, DNA isolation), (4) to evaluate the effectiveness of Allprotect, a new RNA, DNA, and protein stabilizer, and (5) to assess the impact (if any) of presampling measures taken to maintain the pathological specimen's diagnostic integrity on the ultimate quality of RNA, DNA, and protein isolates. ..

    Multiplex Assay:

    Article Title: Comparative Gene Expression Profiling of Tobacco-Associated HPV-Positive versus Negative Oral Squamous Carcinoma Cell Lines
    Article Snippet: .. Multiplex real-time PCRDNA was extracted by the DNA mini kit (Qiagen, Hilden, Germany) and HPV genotype evaluated by Anyplex II HPV28 assay, according to manufacturer's recommendations (Seegene, Seoul, South Korea). .. Data recording and interpretation were automated with the Seegene viewer software.

    Isolation:

    Article Title: Maintaining Breast Cancer Specimen Integrity and Individual or Simultaneous Extraction of Quality DNA, RNA, and Proteins from Allprotect-Stabilized and Nonstabilized Tissue Samples
    Article Snippet: .. The aims of this study were (1) to ascertain the quality of a representative portion (10%) of samples biobanked at SJHB utilizing a combination of quality control approaches utilized by established international biobanks, – (2) to assess the capacity of AllPrep (Qiagen) to simultaneously isolate RNA, DNA, and protein from tumor and normal breast tissues, (3) to compare AllPrep with dedicated RNA and DNA extraction kits, that is, RNEasy® (Qiagen, RNA isolation) and QIAamp® (Qiagen, DNA isolation), (4) to evaluate the effectiveness of Allprotect, a new RNA, DNA, and protein stabilizer, and (5) to assess the impact (if any) of presampling measures taken to maintain the pathological specimen's diagnostic integrity on the ultimate quality of RNA, DNA, and protein isolates. ..

    Article Title: Directed targeting of chromatin to the nuclear lamina is mediated by chromatin state and A-type lamins
    Article Snippet: .. In brief, DNA was isolated from cells expressing Dam or Dam-LMNB1 using DNA Mini kit (QIAGEN), precipitated, and resuspended to 1 µg/µl. .. 2 µg of this genomic DNA was digested overnight with the restriction enzyme DpnI (R0176L; New England Biolabs, Inc.), which cuts at methylated GAme TC.

    Article Title: Genomics-Based Identification of Microorganisms in Human Ocular Body Fluid
    Article Snippet: .. Isolation of DNA from complex samples DNA was isolated from 200 μl vitreous fluid and balanced salt solution samples using two different DNA isolation procedures, i) the QIAamp DNA Mini Kit (51304, Qiagen) and ii) the QIAamp UCP Pathogen Mini Kit (50214, Qiagen). ..

    DNA Methylation Assay:

    Article Title: DNA demethylation enhances myoblasts hypertrophy during the late phase of myogenesis activating the IGF-I pathway
    Article Snippet: .. Global DNA methylation assay The total genomic DNA was extracted from the cells (treated with GM, DM, GMAZA or DMAZA) using the Qiagen DNA Mini Kit (Qiagen Sciences, Maryland, MD) following the manufacturer’s instructions. ..

    other:

    Article Title: Leukocyte telomere length variation due to DNA extraction method
    Article Snippet: The Lahiri-extracted telomeres, however, were significantly shorter than those extracted using the QiaAmp DNA Mini Kit (mean T/S ratio: 2.71, range: 2.32 – 3.02; P = 0.003).

    Expressing:

    Article Title: Directed targeting of chromatin to the nuclear lamina is mediated by chromatin state and A-type lamins
    Article Snippet: .. In brief, DNA was isolated from cells expressing Dam or Dam-LMNB1 using DNA Mini kit (QIAGEN), precipitated, and resuspended to 1 µg/µl. .. 2 µg of this genomic DNA was digested overnight with the restriction enzyme DpnI (R0176L; New England Biolabs, Inc.), which cuts at methylated GAme TC.

    Polymerase Chain Reaction:

    Article Title: Detection of the Agent of Heartwater, Cowdria ruminantium, in Amblyomma Ticks by PCR: Validation and Application of the Assay to Field Ticks
    Article Snippet: .. Briefly, DNA was extracted from the individual tick tissue samples using the QIA-amp PCR DNA extraction tissue kits (Qiagen, Hilden, Germany). ..

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  • 99
    Qiagen qiaamp dna stool minikit plus bead beating
    Effect of protocol modifications. (A) Pig feces was extracted using standard as well as modified protocols based on the <t>QIAamp</t> <t>DNA</t> stool <t>minikit</t> and QIAamp Fast DNA stool minikit. The modifications included bead beating, pretreatment of the sample, and transfer of the double amount of volume after cell lysis. In the bead beating step, different bead types were examined (for details, see Materials and Methods; Table 1 ). The alpha diversity (Chao 1 and Shannon index) was determined at OTU level, and the microbial community composition was examined at family level based on 16S rRNA gene profiling. (B) Selected standard and modified DNA extraction protocols were employed to extract DNA from human feces, pig feces, and sewage, and their DNA concentration was displayed in a star plot. The values indicate the averages from duplicate extractions.
    Qiaamp Dna Stool Minikit Plus Bead Beating, supplied by Qiagen, used in various techniques. Bioz Stars score: 99/100, based on 64 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/qiaamp dna stool minikit plus bead beating/product/Qiagen
    Average 99 stars, based on 64 article reviews
    Price from $9.99 to $1999.99
    qiaamp dna stool minikit plus bead beating - by Bioz Stars, 2020-08
    99/100 stars
      Buy from Supplier

    99
    Qiagen qiaamp dna minikit
    Sample analysis workflow for suspected avian botulism cultures. Parameters evaluated during the study: test sample type (whole organ means that the whole liver or up to 25g of the liver was analyzed), enrichment culturing conditions, <t>DNA</t> extraction methods. The CFX96 thermocycler (Bio-Rad, Marne-la-Coquette, France) was used for Real-Time PCR. Analyses performed by ANSES are indicated in black, and performed by LABOCEA are in grey. Kit 1: <t>QIAamp</t> ® DNA Mini kit (Qiagen, Courtaboeuf, France), Kit2: InstaGene Matrix (Bio-Rad, Marne-la-Coquette, France), Kit3: Mericon Bacteria+ (Qiagen, Courtaboeuf, France). CII, CIII, DII, DIII, E are the primers and probe used to perform real-time PCR for the detection of type C, D, C/D, D/C and E BoNT genes [ 4 , 14 ]. L: Liver; L1 to L5: Liver N° 1 to Liver N° 5. M1 to M4: Method 1 to method 4.
    Qiaamp Dna Minikit, supplied by Qiagen, used in various techniques. Bioz Stars score: 99/100, based on 464 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/qiaamp dna minikit/product/Qiagen
    Average 99 stars, based on 464 article reviews
    Price from $9.99 to $1999.99
    qiaamp dna minikit - by Bioz Stars, 2020-08
    99/100 stars
      Buy from Supplier

    Image Search Results


    Effect of protocol modifications. (A) Pig feces was extracted using standard as well as modified protocols based on the QIAamp DNA stool minikit and QIAamp Fast DNA stool minikit. The modifications included bead beating, pretreatment of the sample, and transfer of the double amount of volume after cell lysis. In the bead beating step, different bead types were examined (for details, see Materials and Methods; Table 1 ). The alpha diversity (Chao 1 and Shannon index) was determined at OTU level, and the microbial community composition was examined at family level based on 16S rRNA gene profiling. (B) Selected standard and modified DNA extraction protocols were employed to extract DNA from human feces, pig feces, and sewage, and their DNA concentration was displayed in a star plot. The values indicate the averages from duplicate extractions.

    Journal: mSystems

    Article Title: Impact of Sample Type and DNA Isolation Procedure on Genomic Inference of Microbiome Composition

    doi: 10.1128/mSystems.00095-16

    Figure Lengend Snippet: Effect of protocol modifications. (A) Pig feces was extracted using standard as well as modified protocols based on the QIAamp DNA stool minikit and QIAamp Fast DNA stool minikit. The modifications included bead beating, pretreatment of the sample, and transfer of the double amount of volume after cell lysis. In the bead beating step, different bead types were examined (for details, see Materials and Methods; Table 1 ). The alpha diversity (Chao 1 and Shannon index) was determined at OTU level, and the microbial community composition was examined at family level based on 16S rRNA gene profiling. (B) Selected standard and modified DNA extraction protocols were employed to extract DNA from human feces, pig feces, and sewage, and their DNA concentration was displayed in a star plot. The values indicate the averages from duplicate extractions.

    Article Snippet: In a first step, seven DNA isolation procedures were examined, namely, InnuPure C16 from Analytic Jena AG (InnuPure), MagNA Pure LC DNA isolation kit III from Roche (MagNA Pure), Easy-DNA genomic DNA (gDNA) purification kit from Invitrogen (Easy-DNA), MP FastDNA Spin kit from MP Biomedicals (FastDNA), PowerSoil DNA isolation kit from MoBio (PowerSoil.HMP), QIAamp DNA stool minikit from Qiagen (QIAStool), and QIAamp DNA stool minikit plus bead beating from Qiagen (QIAStool+BB) ( and details below).

    Techniques: Modification, Lysis, DNA Extraction, Concentration Assay

    Comparison of DNA extraction methods. (A) Experimental design. Human feces, pig feces, and hospital sewage were extracted using seven different DNA extraction methods ( Table 1 ): InnuPure C16, MagNA Pure LC DNA isolation kit III, Easy-DNA gDNA purification kit, MP FastDNA Spin kit, PowerSoil DNA isolation kit, QIAamp DNA stool minikit, and QIAamp DNA stool minikit plus bead beating (for details, see Materials and Methods). DNA concentration, purity, and stability were examined, and microbial community composition was determined using 16S rRNA gene profiling and metagenomics (selected samples). (B) DNA from each method was dissolved in 100 µl solution, and DNA concentrations were determined using Qubit dsDNA BR assay kit measurements. Values represent averages from duplicate or triplicate DNA extractions (see also Table S1A in the supplemental material). (C) Ecological richness (Chao 1) and diversity (Shannon index) were determined based on contingency tables from 16S rRNA gene profiling and metagenomic sequencing data at OTU and species levels, respectively (see also Table S1B ).

    Journal: mSystems

    Article Title: Impact of Sample Type and DNA Isolation Procedure on Genomic Inference of Microbiome Composition

    doi: 10.1128/mSystems.00095-16

    Figure Lengend Snippet: Comparison of DNA extraction methods. (A) Experimental design. Human feces, pig feces, and hospital sewage were extracted using seven different DNA extraction methods ( Table 1 ): InnuPure C16, MagNA Pure LC DNA isolation kit III, Easy-DNA gDNA purification kit, MP FastDNA Spin kit, PowerSoil DNA isolation kit, QIAamp DNA stool minikit, and QIAamp DNA stool minikit plus bead beating (for details, see Materials and Methods). DNA concentration, purity, and stability were examined, and microbial community composition was determined using 16S rRNA gene profiling and metagenomics (selected samples). (B) DNA from each method was dissolved in 100 µl solution, and DNA concentrations were determined using Qubit dsDNA BR assay kit measurements. Values represent averages from duplicate or triplicate DNA extractions (see also Table S1A in the supplemental material). (C) Ecological richness (Chao 1) and diversity (Shannon index) were determined based on contingency tables from 16S rRNA gene profiling and metagenomic sequencing data at OTU and species levels, respectively (see also Table S1B ).

    Article Snippet: In a first step, seven DNA isolation procedures were examined, namely, InnuPure C16 from Analytic Jena AG (InnuPure), MagNA Pure LC DNA isolation kit III from Roche (MagNA Pure), Easy-DNA genomic DNA (gDNA) purification kit from Invitrogen (Easy-DNA), MP FastDNA Spin kit from MP Biomedicals (FastDNA), PowerSoil DNA isolation kit from MoBio (PowerSoil.HMP), QIAamp DNA stool minikit from Qiagen (QIAStool), and QIAamp DNA stool minikit plus bead beating from Qiagen (QIAStool+BB) ( and details below).

    Techniques: DNA Extraction, Purification, Concentration Assay, Sequencing

    DGGE on DNA extracted by three different treatment methods from faecal samples. Example of DGGE runs of PCR products from five stool samples by different DNA extractions. DGGE profiles (30-65% denaturant) from faecal samples on DNA extracted by three different treatment methods and treatment times. ( B ) pre-treatment by Mini BeadBeater 8 ( T ) pre-treatment by TissueLyser, ( Q ) no pretreatment. All subsequent DNA extractions were performed by the QIAamp DNA stool MiniKit. The agitation time was 4 minutes for the Mini BeadBeater 8, and 6 minutes and 8 minutes for the TissueLyser. (The picture is compiled from two gel images, aligned according to the reference lane comprising an internal standard (not shown)).

    Journal: The Open Microbiology Journal

    Article Title: Optimising Bacterial DNA Extraction from Faecal Samples: Comparison of Three Methods

    doi: 10.2174/1874285801105010014

    Figure Lengend Snippet: DGGE on DNA extracted by three different treatment methods from faecal samples. Example of DGGE runs of PCR products from five stool samples by different DNA extractions. DGGE profiles (30-65% denaturant) from faecal samples on DNA extracted by three different treatment methods and treatment times. ( B ) pre-treatment by Mini BeadBeater 8 ( T ) pre-treatment by TissueLyser, ( Q ) no pretreatment. All subsequent DNA extractions were performed by the QIAamp DNA stool MiniKit. The agitation time was 4 minutes for the Mini BeadBeater 8, and 6 minutes and 8 minutes for the TissueLyser. (The picture is compiled from two gel images, aligned according to the reference lane comprising an internal standard (not shown)).

    Article Snippet: Both procedures were followed by DNA extraction using QIAamp DNA stool MiniKit, (QIAGEN, Hilden, Germany).

    Techniques: Denaturing Gradient Gel Electrophoresis, Polymerase Chain Reaction

    Concentrations of phage 933W evaluated by measurement of numbers of stx 2 GC/μl from phage DNA extracted using conventional phage DNA extraction (Phage Ext) methods and commercial DNA extraction kits (QIAamp DNA Blood minikit, QIAamp DNA Stool

    Journal: Applied and Environmental Microbiology

    Article Title: Improving Detection of Shiga Toxin-Producing Escherichia coli by Molecular Methods by Reducing the Interference of Free Shiga Toxin-Encoding Bacteriophages

    doi: 10.1128/AEM.02941-14

    Figure Lengend Snippet: Concentrations of phage 933W evaluated by measurement of numbers of stx 2 GC/μl from phage DNA extracted using conventional phage DNA extraction (Phage Ext) methods and commercial DNA extraction kits (QIAamp DNA Blood minikit, QIAamp DNA Stool

    Article Snippet: In addition, phage 933W DNA was extracted using three commercial DNA extraction methods applied for bacterial or total DNA extraction, according to the manufacturers' instructions, as follows: QIAamp DNA Blood minikit (Qiagen GmbH, Hilden, Germany), QIAamp DNA Stool minikit (Qiagen), and NucliSENS miniMAG (bioMérieux España, Madrid, Spain).

    Techniques: DNA Extraction

    Sample analysis workflow for suspected avian botulism cultures. Parameters evaluated during the study: test sample type (whole organ means that the whole liver or up to 25g of the liver was analyzed), enrichment culturing conditions, DNA extraction methods. The CFX96 thermocycler (Bio-Rad, Marne-la-Coquette, France) was used for Real-Time PCR. Analyses performed by ANSES are indicated in black, and performed by LABOCEA are in grey. Kit 1: QIAamp ® DNA Mini kit (Qiagen, Courtaboeuf, France), Kit2: InstaGene Matrix (Bio-Rad, Marne-la-Coquette, France), Kit3: Mericon Bacteria+ (Qiagen, Courtaboeuf, France). CII, CIII, DII, DIII, E are the primers and probe used to perform real-time PCR for the detection of type C, D, C/D, D/C and E BoNT genes [ 4 , 14 ]. L: Liver; L1 to L5: Liver N° 1 to Liver N° 5. M1 to M4: Method 1 to method 4.

    Journal: PLoS ONE

    Article Title: Development and Validation of a New Reliable Method for the Diagnosis of Avian Botulism

    doi: 10.1371/journal.pone.0169640

    Figure Lengend Snippet: Sample analysis workflow for suspected avian botulism cultures. Parameters evaluated during the study: test sample type (whole organ means that the whole liver or up to 25g of the liver was analyzed), enrichment culturing conditions, DNA extraction methods. The CFX96 thermocycler (Bio-Rad, Marne-la-Coquette, France) was used for Real-Time PCR. Analyses performed by ANSES are indicated in black, and performed by LABOCEA are in grey. Kit 1: QIAamp ® DNA Mini kit (Qiagen, Courtaboeuf, France), Kit2: InstaGene Matrix (Bio-Rad, Marne-la-Coquette, France), Kit3: Mericon Bacteria+ (Qiagen, Courtaboeuf, France). CII, CIII, DII, DIII, E are the primers and probe used to perform real-time PCR for the detection of type C, D, C/D, D/C and E BoNT genes [ 4 , 14 ]. L: Liver; L1 to L5: Liver N° 1 to Liver N° 5. M1 to M4: Method 1 to method 4.

    Article Snippet: A volume of 1 ml was then used to carry out DNA extraction using the QiaAmp® DNA Minikit (Qiagen, Courtaboeuf, France).

    Techniques: DNA Extraction, Real-time Polymerase Chain Reaction