dna mini kit  (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
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    Structured Review

    Qiagen dna mini kit
    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/dna mini kit/product/Qiagen
    Average 99 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    dna mini kit - by Bioz Stars, 2021-03
    99/100 stars

    Images

    1) Product Images from "Resectable lung lesions malignancy assessment and cancer detection by ultra-deep sequencing of targeted gene mutations in plasma cell-free DNA"

    Article Title: Resectable lung lesions malignancy assessment and cancer detection by ultra-deep sequencing of targeted gene mutations in plasma cell-free DNA

    Journal: Journal of Medical Genetics

    doi: 10.1136/jmedgenet-2018-105825

    Driver mutation distribution in patients with lung cancer patients. (A) Plasma ctDNA. (B) FFPE gDNA. ctDNA, circulating tumour DNA; gDNA, genomic DNA.
    Figure Legend Snippet: Driver mutation distribution in patients with lung cancer patients. (A) Plasma ctDNA. (B) FFPE gDNA. ctDNA, circulating tumour DNA; gDNA, genomic DNA.

    Techniques Used: Mutagenesis, Formalin-fixed Paraffin-Embedded

    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: The effect of deoxyribonucleic acid extraction methods from lymphoid tissue on the purity, content, and amplifying ability
    Article Snippet: Farrugia et al . compared the efficiency of three DNA extraction and purification protocols from two various free flow electrophoresis tissue substrates, heart, and liver, by quantitative PCR and multiplex amplification. .. They showed that the method, using phenol-chloroform and the QIAamp DNA Mini Kit (Qiagen, Germany), was the most efficient DNA extraction and purification method and that the DNA quantity extracted from liver is statistically more important than that extracted from heart. ..

    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: Evaluating the Impact of DNA Extraction Method on the Representation of Human Oral Bacterial and Fungal Communities
    Article Snippet: DNA extraction Four extraction techniques were performed in triplicate on the 200 μL aliquots of both the pooled plaque and pooled saliva homogenates. .. Three commonly used commercial DNA extraction kits were used as per manufacturer’s instructions, namely the MoBio PowerSoil® DNA Isolation Kit (M), Qiagen QIAamp® DNA Mini Kit (Q) and the Zymo Bacterial/Fungal DNA Mini PrepTM (Z) ( ). .. Additionally, a previously described phenol:chloroform-based method for DNA isolation from saliva was used (P) [ ].

    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: 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: Quantification of Plasmid Copy Number with Single Colour Droplet Digital PCR
    Article Snippet: The total DNA samples of pBR322 from three independent cultures, at logarithmic growth phase, showed similar plasmid copy numbers of 6.6, 6.9 and 7.2. .. However, these numbers were significantly lower than those calculated for DNA templates isolated by the QIAamp DNA mini kit. ..

    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. ..

    Purification:

    Article Title: The effect of deoxyribonucleic acid extraction methods from lymphoid tissue on the purity, content, and amplifying ability
    Article Snippet: Farrugia et al . compared the efficiency of three DNA extraction and purification protocols from two various free flow electrophoresis tissue substrates, heart, and liver, by quantitative PCR and multiplex amplification. .. They showed that the method, using phenol-chloroform and the QIAamp DNA Mini Kit (Qiagen, Germany), was the most efficient DNA extraction and purification method and that the DNA quantity extracted from liver is statistically more important than that extracted from heart. ..

    Multiplex Assay:

    Article Title: Comparative Gene Expression Profiling of Tobacco-Associated HPV-Positive versus Negative Oral Squamous Carcinoma Cell Lines
    Article Snippet: Digital images were processed using the Nis Elements AR software. .. 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.

    DNA Methylation Assay:

    Article Title: DNA demethylation enhances myoblasts hypertrophy during the late phase of myogenesis activating the IGF-I pathway
    Article Snippet: Cell vitality was calculated by dividing the non-stained viable cell count by the total cell count. .. 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. ..

    Methylation:

    Article Title: Inhibition of LCMR1 and ATG12 by demethylation-activated miR-570-3p is involved in the anti-metastasis effects of metformin on human osteosarcoma
    Article Snippet: Results were expressed as the firefly luciferase activity normalized to Renilla luciferase activity. .. The methylation levels of miR-570-3p promoter was analyzed by BSP. miR-570-3p DNA was extracted using a DNA kit (Qiagen 51306, Germany), and 2 μg of DNA was subjected to bisulfite conversion using an EpiTect Bisulfite Kit (59104, Qiagen, Germany) according to the manufacturer’s instructions. .. The transformed DNA was then PCR-amplified using the TaKaRa rTaq Kit (R001B, TaKaRa, Dalian, China).

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    • allprep dna rna kit  (Qiagen)
    99
    Qiagen allprep dna rna kit
    Workflow for distinguishing LRTI pathogens from commensal respiratory microbiota using an algorithmic approach. ( A ) Projection of microbial relative abundance in log reads per million reads sequenced (rpm) by <t>RNA</t> sequencing (RNA-seq) ( x axis) versus <t>DNA</t> sequencing (DNA-seq) ( y axis) for representative cases. In the LRTI +C+M group, pathogens identified by standard clinical microbiology (filled shapes) had higher overall relative abundance compared with other taxa detected by sequencing (open shapes). The largest score differential between ranked microbes (max Δrpm) was used as a threshold to identify high-scoring taxa, distinct from the other microbes based on abundance (line with arrows). Red indicates taxa represented in the reference list of established LRTI pathogens. ( B ) Receiver operating characteristic (ROC) curve demonstrating logistic regression model (LRM) performance for detecting pathogens versus commensal microbiota in both the derivation and validation cohorts. The gray ROC curve and shaded region indicate results from 1,000 rounds of training and testing on randomized sets the derivation cohort. The blue and green lines indicate predictions using leave-one-patient-out cross-validation (LOPO-CV) on the derivation and validation on the validation cohort, respectively. ( C ) Microbes predicted by the LRM to represent putative pathogens. The x axis represents combined RNA-seq and DNA-seq relative abundance, and the y axis indicates pathogen probability. The dashed line reflects the optimized probability threshold for pathogen assignment. Red filled circles: microbes predicted by LRM to represent putative LRTI pathogens that were also identified by conventional microbiologic tests. Blue filled circles: microbes predicted to represent putative LRTI pathogens by LRM only. Blue open circles: microbes identified by NGS but not predicted by the LRM to represent putative pathogens. Red open circles: microbes identified using NGS and by standard microbiologic testing but not predicted to be putative pathogens. Dark red outlined circles: microbes detected as part of a polymicrobial culture.
    Allprep Dna Rna Kit, supplied by Qiagen, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/allprep dna rna kit/product/Qiagen
    Average 99 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    allprep dna rna kit - by Bioz Stars, 2021-03
    99/100 stars
    		  Buy from Supplier
    qiaamp dna stool mini kit  (Qiagen)
    99
    Qiagen qiaamp dna stool mini kit
    Ct values dot plots of PCR-positive samples for the seven eukaryotic enteric pathogens: Blastocystis spp. (n = 9), Cryptosporidium parvum / hominis (n = 8), Cyclospora cayetanensis (n = 10), Dientamoeba fragilis (n = 9), Giardia intestinalis (n = 8), Cystoisospora belli (n = 10) and Enterocytozoon bieneusi (n = 7) obtained with the two extraction procedures evaluated in the present study: EZ1 ® (EZ1) and <t>QIAamp</t> ® <t>DNA</t> Stool Mini Kit ® (QA). Mean values and standard deviation ranges for each pathogen are represented by large and short horizontal bars, respectively. Statistical significance is represented as **(p
    Qiaamp Dna Stool Mini Kit, supplied by Qiagen, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/qiaamp dna stool mini kit/product/Qiagen
    Average 99 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    qiaamp dna stool mini kit - by Bioz Stars, 2021-03
    99/100 stars
    		  Buy from Supplier

    Image Search Results


    Workflow for distinguishing LRTI pathogens from commensal respiratory microbiota using an algorithmic approach. ( A ) Projection of microbial relative abundance in log reads per million reads sequenced (rpm) by RNA sequencing (RNA-seq) ( x axis) versus DNA sequencing (DNA-seq) ( y axis) for representative cases. In the LRTI +C+M group, pathogens identified by standard clinical microbiology (filled shapes) had higher overall relative abundance compared with other taxa detected by sequencing (open shapes). The largest score differential between ranked microbes (max Δrpm) was used as a threshold to identify high-scoring taxa, distinct from the other microbes based on abundance (line with arrows). Red indicates taxa represented in the reference list of established LRTI pathogens. ( B ) Receiver operating characteristic (ROC) curve demonstrating logistic regression model (LRM) performance for detecting pathogens versus commensal microbiota in both the derivation and validation cohorts. The gray ROC curve and shaded region indicate results from 1,000 rounds of training and testing on randomized sets the derivation cohort. The blue and green lines indicate predictions using leave-one-patient-out cross-validation (LOPO-CV) on the derivation and validation on the validation cohort, respectively. ( C ) Microbes predicted by the LRM to represent putative pathogens. The x axis represents combined RNA-seq and DNA-seq relative abundance, and the y axis indicates pathogen probability. The dashed line reflects the optimized probability threshold for pathogen assignment. Red filled circles: microbes predicted by LRM to represent putative LRTI pathogens that were also identified by conventional microbiologic tests. Blue filled circles: microbes predicted to represent putative LRTI pathogens by LRM only. Blue open circles: microbes identified by NGS but not predicted by the LRM to represent putative pathogens. Red open circles: microbes identified using NGS and by standard microbiologic testing but not predicted to be putative pathogens. Dark red outlined circles: microbes detected as part of a polymicrobial culture.

    Journal: Proceedings of the National Academy of Sciences of the United States of America

    Article Title: Integrating host response and unbiased microbe detection for lower respiratory tract infection diagnosis in critically ill adults

    doi: 10.1073/pnas.1809700115

    Figure Lengend Snippet: Workflow for distinguishing LRTI pathogens from commensal respiratory microbiota using an algorithmic approach. ( A ) Projection of microbial relative abundance in log reads per million reads sequenced (rpm) by RNA sequencing (RNA-seq) ( x axis) versus DNA sequencing (DNA-seq) ( y axis) for representative cases. In the LRTI +C+M group, pathogens identified by standard clinical microbiology (filled shapes) had higher overall relative abundance compared with other taxa detected by sequencing (open shapes). The largest score differential between ranked microbes (max Δrpm) was used as a threshold to identify high-scoring taxa, distinct from the other microbes based on abundance (line with arrows). Red indicates taxa represented in the reference list of established LRTI pathogens. ( B ) Receiver operating characteristic (ROC) curve demonstrating logistic regression model (LRM) performance for detecting pathogens versus commensal microbiota in both the derivation and validation cohorts. The gray ROC curve and shaded region indicate results from 1,000 rounds of training and testing on randomized sets the derivation cohort. The blue and green lines indicate predictions using leave-one-patient-out cross-validation (LOPO-CV) on the derivation and validation on the validation cohort, respectively. ( C ) Microbes predicted by the LRM to represent putative pathogens. The x axis represents combined RNA-seq and DNA-seq relative abundance, and the y axis indicates pathogen probability. The dashed line reflects the optimized probability threshold for pathogen assignment. Red filled circles: microbes predicted by LRM to represent putative LRTI pathogens that were also identified by conventional microbiologic tests. Blue filled circles: microbes predicted to represent putative LRTI pathogens by LRM only. Blue open circles: microbes identified by NGS but not predicted by the LRM to represent putative pathogens. Red open circles: microbes identified using NGS and by standard microbiologic testing but not predicted to be putative pathogens. Dark red outlined circles: microbes detected as part of a polymicrobial culture.

    Article Snippet: RNA and DNA were extracted from 300 µL of patient TA using bead-based lysis and the Allprep DNA/RNA kit (Qiagen).

    Techniques: RNA Sequencing Assay, DNA Sequencing, Sequencing, Next-Generation Sequencing

    Study overview and analysis workflow. Patients with acute respiratory failure were enrolled within 72 h of ICU admission, and TA samples were collected and underwent both RNA sequencing (RNA-seq) and shotgun DNA sequencing (DNA-seq). Post hoc clinical adjudication blinded to mNGS results identified patients with LRTI defined by clinical and microbiologic criteria (LRTI +C+M ); LRTI defined by clinical criteria only (LRTI +C ); patients with noninfectious reasons for acute respiratory failure (no-LRTI); and respiratory failure due to unknown cause (unk-LRTI). The LRTI +C+M and no-LRTI groups were divided into derivation and validation cohorts. To detect pathogens and differentiate them from a background of commensal microbiota, we developed two models: a rules-based model (RBM) and a logistic regression model (LRM). LRTI probability was next evaluated with ( i ) a pathogen metric, ( ii ) a lung microbiome diversity metric, and ( iii ) a 12-gene host transcriptional classifier. Models were then combined and optimized for LRTI rule out.

    Journal: Proceedings of the National Academy of Sciences of the United States of America

    Article Title: Integrating host response and unbiased microbe detection for lower respiratory tract infection diagnosis in critically ill adults

    doi: 10.1073/pnas.1809700115

    Figure Lengend Snippet: Study overview and analysis workflow. Patients with acute respiratory failure were enrolled within 72 h of ICU admission, and TA samples were collected and underwent both RNA sequencing (RNA-seq) and shotgun DNA sequencing (DNA-seq). Post hoc clinical adjudication blinded to mNGS results identified patients with LRTI defined by clinical and microbiologic criteria (LRTI +C+M ); LRTI defined by clinical criteria only (LRTI +C ); patients with noninfectious reasons for acute respiratory failure (no-LRTI); and respiratory failure due to unknown cause (unk-LRTI). The LRTI +C+M and no-LRTI groups were divided into derivation and validation cohorts. To detect pathogens and differentiate them from a background of commensal microbiota, we developed two models: a rules-based model (RBM) and a logistic regression model (LRM). LRTI probability was next evaluated with ( i ) a pathogen metric, ( ii ) a lung microbiome diversity metric, and ( iii ) a 12-gene host transcriptional classifier. Models were then combined and optimized for LRTI rule out.

    Article Snippet: RNA and DNA were extracted from 300 µL of patient TA using bead-based lysis and the Allprep DNA/RNA kit (Qiagen).

    Techniques: RNA Sequencing Assay, DNA Sequencing

    Ct values dot plots of PCR-positive samples for the seven eukaryotic enteric pathogens: Blastocystis spp. (n = 9), Cryptosporidium parvum / hominis (n = 8), Cyclospora cayetanensis (n = 10), Dientamoeba fragilis (n = 9), Giardia intestinalis (n = 8), Cystoisospora belli (n = 10) and Enterocytozoon bieneusi (n = 7) obtained with the two extraction procedures evaluated in the present study: EZ1 ® (EZ1) and QIAamp ® DNA Stool Mini Kit ® (QA). Mean values and standard deviation ranges for each pathogen are represented by large and short horizontal bars, respectively. Statistical significance is represented as **(p

    Journal: BMC Research Notes

    Article Title: Evaluation of two DNA extraction methods for the PCR-based detection of eukaryotic enteric pathogens in fecal samples

    doi: 10.1186/s13104-018-3300-2

    Figure Lengend Snippet: Ct values dot plots of PCR-positive samples for the seven eukaryotic enteric pathogens: Blastocystis spp. (n = 9), Cryptosporidium parvum / hominis (n = 8), Cyclospora cayetanensis (n = 10), Dientamoeba fragilis (n = 9), Giardia intestinalis (n = 8), Cystoisospora belli (n = 10) and Enterocytozoon bieneusi (n = 7) obtained with the two extraction procedures evaluated in the present study: EZ1 ® (EZ1) and QIAamp ® DNA Stool Mini Kit ® (QA). Mean values and standard deviation ranges for each pathogen are represented by large and short horizontal bars, respectively. Statistical significance is represented as **(p

    Article Snippet: We considered the EZ1® (Qiagen) procedure to be superior because of its higher throughput, shorter hands-on time, and lower contamination risk, associated with fewer manual preparation steps, than with the QIAamp® DNA Stool Mini Kit (Qiagen).

    Techniques: Polymerase Chain Reaction, Standard Deviation

    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

    Comparison of two DNA extraction kits to extract DNA from Taenia pisiformis eggs suspended in negative produce wash. Quantification cycle (Cq) values for each PCR are depicted as individual dots and a regression line is shown for each extraction kit. Cq values for the FastDNA™ SPIN Kit for Soil were significantly lower than for the QIAamp® DNA Stool Mini Kit ( P

    Journal: Parasites & Vectors

    Article Title: A novel protocol to isolate, detect and differentiate taeniid eggs in leafy greens and berries using real-time PCR with melting curve analysis

    doi: 10.1186/s13071-019-3834-8

    Figure Lengend Snippet: Comparison of two DNA extraction kits to extract DNA from Taenia pisiformis eggs suspended in negative produce wash. Quantification cycle (Cq) values for each PCR are depicted as individual dots and a regression line is shown for each extraction kit. Cq values for the FastDNA™ SPIN Kit for Soil were significantly lower than for the QIAamp® DNA Stool Mini Kit ( P

    Article Snippet: In our study, the FastDNA™ SPIN Kit for Soil outperformed the QIAamp® DNA Stool Mini Kit for the detection of Taenia sp. DNA from eggs in produce wash.

    Techniques: DNA Extraction, Polymerase Chain Reaction