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  • 99
    Millipore genome dna
    Genome Dna, supplied by Millipore, used in various techniques. Bioz Stars score: 99/100, based on 43 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/genome dna/product/Millipore
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    99
    Millipore genome assembly genomic dna
    CN profiles of unamplified (UA) and WGA samples. a CN profile of <t>MCC</t> sample MCT4, which is unamplified and untreated, with 100 ng input of <t>DNA.</t> b CN profile of the same sample, which is unamplified and untreated, down-sampled to the similar coverage as the matched WGA sample. c CN profile of the same sample, which is WGA and untreated. Each point represents the normalized read count ratio of a 50 kb sized bin. Separate chromosomes from 1 to 22 as well as X and Y are shown and a log 2 (copy number/2) equal to zero corresponds to a copy number of 2. Segments were removed from highly repetitive or problematic regions [ 8 ]
    Genome Assembly Genomic Dna, supplied by Millipore, used in various techniques. Bioz Stars score: 99/100, based on 54 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/genome assembly genomic dna/product/Millipore
    Average 99 stars, based on 54 article reviews
    Price from $9.99 to $1999.99
    genome assembly genomic dna - by Bioz Stars, 2020-08
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    96
    Millipore whole genome amplified dna
    CN profiles of unamplified (UA) and WGA samples. a CN profile of <t>MCC</t> sample MCT4, which is unamplified and untreated, with 100 ng input of <t>DNA.</t> b CN profile of the same sample, which is unamplified and untreated, down-sampled to the similar coverage as the matched WGA sample. c CN profile of the same sample, which is WGA and untreated. Each point represents the normalized read count ratio of a 50 kb sized bin. Separate chromosomes from 1 to 22 as well as X and Y are shown and a log 2 (copy number/2) equal to zero corresponds to a copy number of 2. Segments were removed from highly repetitive or problematic regions [ 8 ]
    Whole Genome Amplified Dna, supplied by Millipore, used in various techniques. Bioz Stars score: 96/100, based on 14 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/whole genome amplified dna/product/Millipore
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    92
    ATUM genomic deoxyribonucleic acid dna
    CN profiles of unamplified (UA) and WGA samples. a CN profile of <t>MCC</t> sample MCT4, which is unamplified and untreated, with 100 ng input of <t>DNA.</t> b CN profile of the same sample, which is unamplified and untreated, down-sampled to the similar coverage as the matched WGA sample. c CN profile of the same sample, which is WGA and untreated. Each point represents the normalized read count ratio of a 50 kb sized bin. Separate chromosomes from 1 to 22 as well as X and Y are shown and a log 2 (copy number/2) equal to zero corresponds to a copy number of 2. Segments were removed from highly repetitive or problematic regions [ 8 ]
    Genomic Deoxyribonucleic Acid Dna, supplied by ATUM, used in various techniques. Bioz Stars score: 92/100, based on 10 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    99
    Millipore genomic dna
    <t>PCR</t> of genomic <t>DNA</t> and RT-PCR of RNA extracted from larvae and juvenile and mature male and female M. rosenbergii individuals. Genomic-based PCR indicates maleness, where no female specific marker was amplified. RT-PCR was applied for detection of Mr-IAG expression by using Mr-IAG specific primers and β -actin as positive control. (a) For adult male and female individuals, there is a correlation between the absence of the female specific marker and Mr-IAG expression. On the basis of this result, larvae and juveniles were defined as males according to the absence of the genomic sex marker (marked by arrows in Figure 2(b) ). (b) None of the individuals sampled at larval stages (zoeae 3, 6, 9, and 11) expressed Mr-IAG regardless of the presence or absence of the genomic sex marker. At PL 20 and onwards, all individuals identified as males according to absence of the female specific marker also expressed Mr-IAG .
    Genomic Dna, supplied by Millipore, used in various techniques. Bioz Stars score: 99/100, based on 10867 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/genomic dna/product/Millipore
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    99
    Millipore bacterial genomic dna
    Dual fluorescence in situ hybridization staining of Tannerella forsythia and Campylobacter rectus for biofilms harboring ATCC 43037 wild‐type (A), UB 4 wild‐type (B), and ATCC 43037 ∆tfs AB (C). Red/yellow: T. forsythia , cyan: C. rectus; green: non‐hybridized cells ( <t>DNA</t> staining YoPro‐1+Sytox). Scale bars 20 μm (A, B) and 15 μm (C)
    Bacterial Genomic Dna, supplied by Millipore, used in various techniques. Bioz Stars score: 99/100, based on 103 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/bacterial genomic dna/product/Millipore
    Average 99 stars, based on 103 article reviews
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    bacterial genomic dna - by Bioz Stars, 2020-08
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    Image Search Results


    CN profiles of unamplified (UA) and WGA samples. a CN profile of MCC sample MCT4, which is unamplified and untreated, with 100 ng input of DNA. b CN profile of the same sample, which is unamplified and untreated, down-sampled to the similar coverage as the matched WGA sample. c CN profile of the same sample, which is WGA and untreated. Each point represents the normalized read count ratio of a 50 kb sized bin. Separate chromosomes from 1 to 22 as well as X and Y are shown and a log 2 (copy number/2) equal to zero corresponds to a copy number of 2. Segments were removed from highly repetitive or problematic regions [ 8 ]

    Journal: Genome Medicine

    Article Title: Copy number analysis by low coverage whole genome sequencing using ultra low-input DNA from formalin-fixed paraffin embedded tumor tissue

    doi: 10.1186/s13073-016-0375-z

    Figure Lengend Snippet: CN profiles of unamplified (UA) and WGA samples. a CN profile of MCC sample MCT4, which is unamplified and untreated, with 100 ng input of DNA. b CN profile of the same sample, which is unamplified and untreated, down-sampled to the similar coverage as the matched WGA sample. c CN profile of the same sample, which is WGA and untreated. Each point represents the normalized read count ratio of a 50 kb sized bin. Separate chromosomes from 1 to 22 as well as X and Y are shown and a log 2 (copy number/2) equal to zero corresponds to a copy number of 2. Segments were removed from highly repetitive or problematic regions [ 8 ]

    Article Snippet: Whole genome amplification Extracted DNA from FFPE MCC samples were amplified using GenomePlex® Complete Whole Genome Amplification (WGA) kit (Sigma-Aldrich), following the manufacturer’s instruction with several minor modifications.

    Techniques: Whole Genome Amplification

    Experimental design testing a low-input method (NEBNext Ultra II) on copy number detection of two FFPE MCC samples by LC WGS as well as the effect of WGA with or without NEB DNA repair treatment

    Journal: Genome Medicine

    Article Title: Copy number analysis by low coverage whole genome sequencing using ultra low-input DNA from formalin-fixed paraffin embedded tumor tissue

    doi: 10.1186/s13073-016-0375-z

    Figure Lengend Snippet: Experimental design testing a low-input method (NEBNext Ultra II) on copy number detection of two FFPE MCC samples by LC WGS as well as the effect of WGA with or without NEB DNA repair treatment

    Article Snippet: Whole genome amplification Extracted DNA from FFPE MCC samples were amplified using GenomePlex® Complete Whole Genome Amplification (WGA) kit (Sigma-Aldrich), following the manufacturer’s instruction with several minor modifications.

    Techniques: Formalin-fixed Paraffin-Embedded, Whole Genome Amplification

    Copy number profiles of MCC sample MCT4 with DNA input of ( a ) 100 ng, ( b ) 20 ng, and ( c ) 5 ng. Each point represents the normalized read count ratio of a 50 kb sized bin. Separate chromosomes from 1 to 22 as well as X and Y are shown and a log 2 (copy number/2) equal to zero corresponds to a copy number of 2. Segments were removed from highly repetitive or problematic regions [ 8 ]

    Journal: Genome Medicine

    Article Title: Copy number analysis by low coverage whole genome sequencing using ultra low-input DNA from formalin-fixed paraffin embedded tumor tissue

    doi: 10.1186/s13073-016-0375-z

    Figure Lengend Snippet: Copy number profiles of MCC sample MCT4 with DNA input of ( a ) 100 ng, ( b ) 20 ng, and ( c ) 5 ng. Each point represents the normalized read count ratio of a 50 kb sized bin. Separate chromosomes from 1 to 22 as well as X and Y are shown and a log 2 (copy number/2) equal to zero corresponds to a copy number of 2. Segments were removed from highly repetitive or problematic regions [ 8 ]

    Article Snippet: Whole genome amplification Extracted DNA from FFPE MCC samples were amplified using GenomePlex® Complete Whole Genome Amplification (WGA) kit (Sigma-Aldrich), following the manufacturer’s instruction with several minor modifications.

    Techniques:

    Alignment of vertebrate six6 genes reveals an evolutionary conserved region 3′ of the six6 coding region. PIP analysis was used to compare vertebrate genomic DNA sequences from mammalian (human, mouse), marsupial (tazmanian devil), aves (chicken), reptile (green sea turtle), lobe-finned fish (coelacanth) and fish (medaka). Golden boxes show evolutionarily conserved regions (R); purple boxes indicate exons; white box, intron; dark and light blue lines, 5′ and 3′ flanking genomic regions, respectively. The line at the bottom of the PIP analysis indicates distance in kilobases from the translation start site. The percent identity of X. tropicalis R3 to each species is included. Exon 1 contains 146 bp of 5′ untranslated region, while exon 2 contains 964 bp of 3′ untranslated region, both depicted in light purple.

    Journal: Developmental biology

    Article Title: Distinct cis-acting regions control six6 expression during eye field and optic cup stages of eye formation

    doi: 10.1016/j.ydbio.2017.04.003

    Figure Lengend Snippet: Alignment of vertebrate six6 genes reveals an evolutionary conserved region 3′ of the six6 coding region. PIP analysis was used to compare vertebrate genomic DNA sequences from mammalian (human, mouse), marsupial (tazmanian devil), aves (chicken), reptile (green sea turtle), lobe-finned fish (coelacanth) and fish (medaka). Golden boxes show evolutionarily conserved regions (R); purple boxes indicate exons; white box, intron; dark and light blue lines, 5′ and 3′ flanking genomic regions, respectively. The line at the bottom of the PIP analysis indicates distance in kilobases from the translation start site. The percent identity of X. tropicalis R3 to each species is included. Exon 1 contains 146 bp of 5′ untranslated region, while exon 2 contains 964 bp of 3′ untranslated region, both depicted in light purple.

    Article Snippet: Genomic DNA (gDNA) was isolated from tails by adding 250μl of lysis buffer [20μg/μl Proteinase K (cat# P2308; Sigma-Aldrich); 10 mM Tris, pH 8.0; 100 mM NaCl; 10 mM EDTA, pH 8.0; 0.5 % SDS] and incubating samples at 60 C overnight.

    Techniques: Fluorescence In Situ Hybridization

    Proposed model of the chronology of the acquisition of the mcr-3.12 gene into the IncA/C 2 plasmid. The genes eamA and dgkA encode a metabolite transporter and a diacylglycerol kinase, respectively. intA and intB represent putative integrases; α, β, and γ are ORFs encoding a reverse transcriptase, a transcriptional regulator, and a diguanylate cyclase, respectively; δ corresponds to the ORF encoding a DNA methyltransferase located on the IncA/C 2 plasmid backbone.

    Journal: Antimicrobial Agents and Chemotherapy

    Article Title: Genetic and Functional Characterization of an MCR-3-Like Enzyme-Producing Escherichia coli Isolate Recovered from Swine in Brazil

    doi: 10.1128/AAC.00278-18

    Figure Lengend Snippet: Proposed model of the chronology of the acquisition of the mcr-3.12 gene into the IncA/C 2 plasmid. The genes eamA and dgkA encode a metabolite transporter and a diacylglycerol kinase, respectively. intA and intB represent putative integrases; α, β, and γ are ORFs encoding a reverse transcriptase, a transcriptional regulator, and a diguanylate cyclase, respectively; δ corresponds to the ORF encoding a DNA methyltransferase located on the IncA/C 2 plasmid backbone.

    Article Snippet: Whole genomic DNA of the MCR-3-positive isolate was extracted by use of a Sigma-Aldrich GenElute bacterial genomic DNA kit.

    Techniques: Plasmid Preparation

    PCR of genomic DNA and RT-PCR of RNA extracted from larvae and juvenile and mature male and female M. rosenbergii individuals. Genomic-based PCR indicates maleness, where no female specific marker was amplified. RT-PCR was applied for detection of Mr-IAG expression by using Mr-IAG specific primers and β -actin as positive control. (a) For adult male and female individuals, there is a correlation between the absence of the female specific marker and Mr-IAG expression. On the basis of this result, larvae and juveniles were defined as males according to the absence of the genomic sex marker (marked by arrows in Figure 2(b) ). (b) None of the individuals sampled at larval stages (zoeae 3, 6, 9, and 11) expressed Mr-IAG regardless of the presence or absence of the genomic sex marker. At PL 20 and onwards, all individuals identified as males according to absence of the female specific marker also expressed Mr-IAG .

    Journal: ISRN Endocrinology

    Article Title: Expression of an Androgenic Gland-Specific Insulin-Like Peptide during the Course of Prawn Sexual and Morphotypic Differentiation

    doi: 10.5402/2011/476283

    Figure Lengend Snippet: PCR of genomic DNA and RT-PCR of RNA extracted from larvae and juvenile and mature male and female M. rosenbergii individuals. Genomic-based PCR indicates maleness, where no female specific marker was amplified. RT-PCR was applied for detection of Mr-IAG expression by using Mr-IAG specific primers and β -actin as positive control. (a) For adult male and female individuals, there is a correlation between the absence of the female specific marker and Mr-IAG expression. On the basis of this result, larvae and juveniles were defined as males according to the absence of the genomic sex marker (marked by arrows in Figure 2(b) ). (b) None of the individuals sampled at larval stages (zoeae 3, 6, 9, and 11) expressed Mr-IAG regardless of the presence or absence of the genomic sex marker. At PL 20 and onwards, all individuals identified as males according to absence of the female specific marker also expressed Mr-IAG .

    Article Snippet: PCR of Female Specific and Positive Control Sequences PCR was performed with 100 ng genomic DNA, 1 μ M forward primer and 1 μ M reverse primer (primer sequences are available upon request), 12.5 μ L Ready Mix REDTaq (Sigma) and water to a final volume of 25 μ L. The PCR conditions were: 35 cycles of 30 s at 94°C, 30 s at 56°C, and 60 s at 72°C.

    Techniques: Polymerase Chain Reaction, Reverse Transcription Polymerase Chain Reaction, Marker, Amplification, Expressing, Positive Control

    Generation of a stable klf2a sh317 mutant line. (A) Schematic structure of wildtype klf2a gene with genomic sequence at the TALEN mutagenesis site. XcmI restriction site is indicated by the green line and the 19bp spacer for the TALEN structure of choice is indicated by the black line. The 14bp deletion identified in the klf2a sh317 allele is indicated by the sequence in red. (B) Schematic structure of Klf2a wildtype and Klf2a sh317 mutant proteins with amino acid (AA) lengths and predicted molecular weights in kilodaltons (kDa) Klf2a transactivation domain is in purple and transrepression domain is in yellow colour. (C) Substantial reduction of the 43kDa band representing the full-length Klf2a protein can be seen in a western blot of whole-embryo protein samples extracted from the F3 generation of klf2a sh317 mutant embryos at 5dpf, compared to wildtype embryos and heterozygous klf2a sh317 carriers. Additionally, two bands running at approximately 33kDa can be seen in the klf2a sh317 mutant, possibly representing truncated Klf2a. Asterixes indicate bands of approx. molecular weights of 38kDa and 47kDa consistent with expression of Klf4a and Biklf/Klf4b/Klf17 respectively, present in all three lanes in equal intensity. β actin was used as a loading control. (D) klf2a coding sequence was amplified from the control cDNA originating from 48hpf wildtype embryos giving an expected 1155bp PCR product. No band was detected in the sample with cDNA from unfertilised embryos (unf. cDNA) indicating the absence of maternal klf2a mRNA in unfertilised embryos. No 1674bp band was detected in unfertilised cDNA or control cDNA confirming absence of genomic DNA contamination. gapdh was used as a positive control. A band of expected size was detected in both the unfertilised eggs cDNA and control cDNA lanes indicating maternal gapdh mRNA in unfertilised zebrafish eggs. Abbreviations: -E: negative control with no reverse transcriptase added during reverse transcription (RT). -RNA: negative control with no RNA added during RT. B: blank, no template added to the PCR reaction. Abbreviations: L: Hyperladder II (NEB).

    Journal: PLoS ONE

    Article Title: klf2ash317 Mutant Zebrafish Do Not Recapitulate Morpholino-Induced Vascular and Haematopoietic Phenotypes

    doi: 10.1371/journal.pone.0141611

    Figure Lengend Snippet: Generation of a stable klf2a sh317 mutant line. (A) Schematic structure of wildtype klf2a gene with genomic sequence at the TALEN mutagenesis site. XcmI restriction site is indicated by the green line and the 19bp spacer for the TALEN structure of choice is indicated by the black line. The 14bp deletion identified in the klf2a sh317 allele is indicated by the sequence in red. (B) Schematic structure of Klf2a wildtype and Klf2a sh317 mutant proteins with amino acid (AA) lengths and predicted molecular weights in kilodaltons (kDa) Klf2a transactivation domain is in purple and transrepression domain is in yellow colour. (C) Substantial reduction of the 43kDa band representing the full-length Klf2a protein can be seen in a western blot of whole-embryo protein samples extracted from the F3 generation of klf2a sh317 mutant embryos at 5dpf, compared to wildtype embryos and heterozygous klf2a sh317 carriers. Additionally, two bands running at approximately 33kDa can be seen in the klf2a sh317 mutant, possibly representing truncated Klf2a. Asterixes indicate bands of approx. molecular weights of 38kDa and 47kDa consistent with expression of Klf4a and Biklf/Klf4b/Klf17 respectively, present in all three lanes in equal intensity. β actin was used as a loading control. (D) klf2a coding sequence was amplified from the control cDNA originating from 48hpf wildtype embryos giving an expected 1155bp PCR product. No band was detected in the sample with cDNA from unfertilised embryos (unf. cDNA) indicating the absence of maternal klf2a mRNA in unfertilised embryos. No 1674bp band was detected in unfertilised cDNA or control cDNA confirming absence of genomic DNA contamination. gapdh was used as a positive control. A band of expected size was detected in both the unfertilised eggs cDNA and control cDNA lanes indicating maternal gapdh mRNA in unfertilised zebrafish eggs. Abbreviations: -E: negative control with no reverse transcriptase added during reverse transcription (RT). -RNA: negative control with no RNA added during RT. B: blank, no template added to the PCR reaction. Abbreviations: L: Hyperladder II (NEB).

    Article Snippet: Genomic DNA extraction was performed using REDExtract-N-Amp™ Tissue PCR Kit (SIGMA-ALDRICH).

    Techniques: Mutagenesis, Sequencing, Western Blot, Expressing, Amplification, Polymerase Chain Reaction, Positive Control, Negative Control

    Integration of gene expression and methylome data. a Scatterplot showing mean gene expression and boxplot showing mean DNA methylation in differentially methylated regions (DMRs) in treated group for DMRs in promoters ( a ) and DMRs in gene bodies ( b ), with lines representing a linear trend. Bars in the box plot correspond to the median. The lower and upper hinges correspond to the first and third quartiles (the 25th and 75th percentiles). The lower/upper whisker extends from the hinge to the smallest/largest value no further than 1.5 * IQR (inter quartile range) from the hinges. c – d Scatterplots displaying the effect of lipopolysaccharide (LPS) on the transcriptome and the methylome when compared to the control group; change in gene expression (log 2 Fold Change) is plotted against change in DNA methylation for c promoters of 12,115 genes and ( d ) gene bodies of 13,263 genes. Highlighted points denote genes with |ΔMethylation| > 5% and | Δexpression log 2 FC| > 1; hypermethylated/increased expression (yellow), hypermethylated/lower expression (blue), hypomethylated/increased expression (green) and hypomethylated/lower expression (red)

    Journal: BMC Genomics

    Article Title: LPS-treatment of bovine endometrial epithelial cells causes differential DNA methylation of genes associated with inflammation and endometrial function

    doi: 10.1186/s12864-020-06777-7

    Figure Lengend Snippet: Integration of gene expression and methylome data. a Scatterplot showing mean gene expression and boxplot showing mean DNA methylation in differentially methylated regions (DMRs) in treated group for DMRs in promoters ( a ) and DMRs in gene bodies ( b ), with lines representing a linear trend. Bars in the box plot correspond to the median. The lower and upper hinges correspond to the first and third quartiles (the 25th and 75th percentiles). The lower/upper whisker extends from the hinge to the smallest/largest value no further than 1.5 * IQR (inter quartile range) from the hinges. c – d Scatterplots displaying the effect of lipopolysaccharide (LPS) on the transcriptome and the methylome when compared to the control group; change in gene expression (log 2 Fold Change) is plotted against change in DNA methylation for c promoters of 12,115 genes and ( d ) gene bodies of 13,263 genes. Highlighted points denote genes with |ΔMethylation| > 5% and | Δexpression log 2 FC| > 1; hypermethylated/increased expression (yellow), hypermethylated/lower expression (blue), hypomethylated/increased expression (green) and hypomethylated/lower expression (red)

    Article Snippet: LPS challenge and genomic DNA isolation According to the guide from Sigma, LPS (L2630-10MG O111:B4, Sigma-Aldrich) was reconstituted by 2 mL LAL reagent water (W50–640, Lonza, Walkersville, MD, USA) to a stock concentration of 5 mg/mL.

    Techniques: Expressing, DNA Methylation Assay, Methylation, Whisker Assay

    LPS effects on DNA methylation in bovine endometrial epithelial cells (bEECs). a Principal component analysis displaying overall methylation profiles across all samples. The first dimension explained 21% variation and separated Cow1 from Cow2 and Cow3. The second dimension explained 16% variation, separated both Cow2 versus Cow3. b Venn diagram displaying overlapping differentially methylated regions (DMRs) from 24 h sample groups: 0 μg vs. 2 μg (pink), 0 μg vs. 8 μg (blue), and 0 μg vs. 2 μg + 8 μg (green). c Heatmap of significant DMRs (1291) showing similar methylation trend for the analyses performed in ( b ). The scale shows hypermethylated (red) and hypomethylated (blue) levels for each DMR. d Bar plot showing distribution of the percent of hyper and hypomethylated DMRs when comparing time 0 h and 24 h in controls, and 24 h control with 2 μg or 8 μg, and 2 μg + 8 μg combined LPS groups. Top bar shows a similar pattern for total DMRs identified in 2 μg, 8 μg, and 2 μg + 8 μg analysis

    Journal: BMC Genomics

    Article Title: LPS-treatment of bovine endometrial epithelial cells causes differential DNA methylation of genes associated with inflammation and endometrial function

    doi: 10.1186/s12864-020-06777-7

    Figure Lengend Snippet: LPS effects on DNA methylation in bovine endometrial epithelial cells (bEECs). a Principal component analysis displaying overall methylation profiles across all samples. The first dimension explained 21% variation and separated Cow1 from Cow2 and Cow3. The second dimension explained 16% variation, separated both Cow2 versus Cow3. b Venn diagram displaying overlapping differentially methylated regions (DMRs) from 24 h sample groups: 0 μg vs. 2 μg (pink), 0 μg vs. 8 μg (blue), and 0 μg vs. 2 μg + 8 μg (green). c Heatmap of significant DMRs (1291) showing similar methylation trend for the analyses performed in ( b ). The scale shows hypermethylated (red) and hypomethylated (blue) levels for each DMR. d Bar plot showing distribution of the percent of hyper and hypomethylated DMRs when comparing time 0 h and 24 h in controls, and 24 h control with 2 μg or 8 μg, and 2 μg + 8 μg combined LPS groups. Top bar shows a similar pattern for total DMRs identified in 2 μg, 8 μg, and 2 μg + 8 μg analysis

    Article Snippet: LPS challenge and genomic DNA isolation According to the guide from Sigma, LPS (L2630-10MG O111:B4, Sigma-Aldrich) was reconstituted by 2 mL LAL reagent water (W50–640, Lonza, Walkersville, MD, USA) to a stock concentration of 5 mg/mL.

    Techniques: DNA Methylation Assay, Methylation

    Dual fluorescence in situ hybridization staining of Tannerella forsythia and Campylobacter rectus for biofilms harboring ATCC 43037 wild‐type (A), UB 4 wild‐type (B), and ATCC 43037 ∆tfs AB (C). Red/yellow: T. forsythia , cyan: C. rectus; green: non‐hybridized cells ( DNA staining YoPro‐1+Sytox). Scale bars 20 μm (A, B) and 15 μm (C)

    Journal: Molecular Oral Microbiology

    Article Title: Behavior of two Tannerella forsythia strains and their cell surface mutants in multispecies oral biofilms. Behavior of two Tannerella forsythia strains and their cell surface mutants in multispecies oral biofilms

    doi: 10.1111/omi.12182

    Figure Lengend Snippet: Dual fluorescence in situ hybridization staining of Tannerella forsythia and Campylobacter rectus for biofilms harboring ATCC 43037 wild‐type (A), UB 4 wild‐type (B), and ATCC 43037 ∆tfs AB (C). Red/yellow: T. forsythia , cyan: C. rectus; green: non‐hybridized cells ( DNA staining YoPro‐1+Sytox). Scale bars 20 μm (A, B) and 15 μm (C)

    Article Snippet: For qPCR, bacterial genomic DNA was extracted from 500 μl of biofilm suspension using the GenEluteTM Bacterial Genomic DNA Kit (Sigma) and qPCR was performed on an ABI Prism SDS 7000 device (Applied Biosystems, Foster City, CA) according to Ammann et al .

    Techniques: Fluorescence, In Situ Hybridization, Staining

    Fluorescence in situ hybridization staining of biofilms harboring Tannerella forsythia ATCC 43037 mutants (A) ∆pseC , (B) ∆wecC , and (C) ∆tfs AB . Red: T. forsythia , cyan: Porphyromonas gingivalis , green: non‐hybridized cells ( DNA staining YoPro‐1+Sytox). Scale bars 20 μm (A) and 10 μm (B, C)

    Journal: Molecular Oral Microbiology

    Article Title: Behavior of two Tannerella forsythia strains and their cell surface mutants in multispecies oral biofilms. Behavior of two Tannerella forsythia strains and their cell surface mutants in multispecies oral biofilms

    doi: 10.1111/omi.12182

    Figure Lengend Snippet: Fluorescence in situ hybridization staining of biofilms harboring Tannerella forsythia ATCC 43037 mutants (A) ∆pseC , (B) ∆wecC , and (C) ∆tfs AB . Red: T. forsythia , cyan: Porphyromonas gingivalis , green: non‐hybridized cells ( DNA staining YoPro‐1+Sytox). Scale bars 20 μm (A) and 10 μm (B, C)

    Article Snippet: For qPCR, bacterial genomic DNA was extracted from 500 μl of biofilm suspension using the GenEluteTM Bacterial Genomic DNA Kit (Sigma) and qPCR was performed on an ABI Prism SDS 7000 device (Applied Biosystems, Foster City, CA) according to Ammann et al .

    Techniques: Fluorescence, In Situ Hybridization, Staining

    Comparison of 10‐species biofilms with two Tannerella forsythia wild‐type strains. (A) Whiskers boxplots (5th to 95th centile) show bacterial numbers determined by quantitative real‐time PCR from three independent experiments. Asterisk (*) indicates a statistically significant difference ( P ≤.05) between groups. The two groups represent biofilms with either T. forsythia ATCC 43037 wild‐type or T. forsythia UB 4 wild‐type. (B, C) Fluorescence in situ hybridization stainings of fixed biofilms showing the localization of ATCC 43037 wild‐type (B) and UB 4 wild‐type (C). Red/yellow: T. forsythia; cyan: Porphyromonas gingivalis , green: non‐hybridized cells ( DNA staining YoPro‐1+Sytox). Here a representative area for one disk each is shown with a top view in the left panel and a side view with the biofilm–disk interface directed towards the top view; scale bars 5 μm (B) and 10 μm (C)

    Journal: Molecular Oral Microbiology

    Article Title: Behavior of two Tannerella forsythia strains and their cell surface mutants in multispecies oral biofilms. Behavior of two Tannerella forsythia strains and their cell surface mutants in multispecies oral biofilms

    doi: 10.1111/omi.12182

    Figure Lengend Snippet: Comparison of 10‐species biofilms with two Tannerella forsythia wild‐type strains. (A) Whiskers boxplots (5th to 95th centile) show bacterial numbers determined by quantitative real‐time PCR from three independent experiments. Asterisk (*) indicates a statistically significant difference ( P ≤.05) between groups. The two groups represent biofilms with either T. forsythia ATCC 43037 wild‐type or T. forsythia UB 4 wild‐type. (B, C) Fluorescence in situ hybridization stainings of fixed biofilms showing the localization of ATCC 43037 wild‐type (B) and UB 4 wild‐type (C). Red/yellow: T. forsythia; cyan: Porphyromonas gingivalis , green: non‐hybridized cells ( DNA staining YoPro‐1+Sytox). Here a representative area for one disk each is shown with a top view in the left panel and a side view with the biofilm–disk interface directed towards the top view; scale bars 5 μm (B) and 10 μm (C)

    Article Snippet: For qPCR, bacterial genomic DNA was extracted from 500 μl of biofilm suspension using the GenEluteTM Bacterial Genomic DNA Kit (Sigma) and qPCR was performed on an ABI Prism SDS 7000 device (Applied Biosystems, Foster City, CA) according to Ammann et al .

    Techniques: Real-time Polymerase Chain Reaction, Fluorescence, In Situ Hybridization, Staining