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on column dnase i treatment  (Zymo Research)


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    Structured Review

    Zymo Research on column dnase i treatment
    S. aureus JE2 biofilms were established after 24h incubation in LB 50mM NaB 0.5% w/v glucose. These biofilms were treated with Proteinase K (0.1mg/mL) or <t>DNase</t> <t>I</t> (140U/mL) for 16h. Following treatment, biofilm formation was quantified by measured crystal violet staining. Data represent the mean ± standard error of the mean of three independent biological replicates. P-values are from a 2-way ANOVA test with Tukey correction for multiple comparisons.
    On Column Dnase I Treatment, supplied by Zymo Research, used in various techniques. Bioz Stars score: 95/100, based on 179 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/on+column+dnase+i+treatment/DNA+Digestion+Buffer/bio_rxiv__64898__2026__04__07__717036-62-13-11
    Average 95 stars, based on 179 article reviews
    on column dnase i treatment - by Bioz Stars, 2026-10
    95/100 stars

    Images

    1) Product Images from "Butyrate synergizes with glucose to promote anaerobic growth of Staphylococcus aureus via anaplerotic metabolism and stress response pathways"

    Article Title: Butyrate synergizes with glucose to promote anaerobic growth of Staphylococcus aureus via anaplerotic metabolism and stress response pathways

    Journal: bioRxiv

    doi: 10.64898/2026.04.07.717036

    S. aureus JE2 biofilms were established after 24h incubation in LB 50mM NaB 0.5% w/v glucose. These biofilms were treated with Proteinase K (0.1mg/mL) or DNase I (140U/mL) for 16h. Following treatment, biofilm formation was quantified by measured crystal violet staining. Data represent the mean ± standard error of the mean of three independent biological replicates. P-values are from a 2-way ANOVA test with Tukey correction for multiple comparisons.
    Figure Legend Snippet: S. aureus JE2 biofilms were established after 24h incubation in LB 50mM NaB 0.5% w/v glucose. These biofilms were treated with Proteinase K (0.1mg/mL) or DNase I (140U/mL) for 16h. Following treatment, biofilm formation was quantified by measured crystal violet staining. Data represent the mean ± standard error of the mean of three independent biological replicates. P-values are from a 2-way ANOVA test with Tukey correction for multiple comparisons.

    Techniques Used: Incubation, Staining

    Related Articles

    Incubation:

    Article Title: Analysis of Pseudomonas aeruginosa transcription in an ex vivo cystic fibrosis sputum model identifies metal restriction as a gene expression stimulus
    Article Snippet: Ten μL of the cell suspension was added to 100 μl aliquots of 1) sputum, 2) sputum amended 10μL dH20 or metals solution (300 μM ammonium ferrous sulfate, 150μM zinc sulfate and 10μM manganese chloride), or 3) ASM, or 4) M63* in 1.5 mL Eppendorf tubes. .. Tubes were taped on their side with the lids open, placed in a humidity chamber, and incubated at 37°C with shaking at 250 RPM for 3 h. Total RNA was extracted using the Zymo Direct-zol RNA extraction kit with on-column DNase I treatment (cat# R2061) and small RNA fragments (including degraded mRNA) were separated into a separate fraction using the Zymo RNA Clean and Concentrator kit (cat# R1017). ..

    Article Title: Implications of stress-induced gene expression for hematopoietic stem cell aging studies
    Article Snippet: cKIT-enriched BM cells were isolated from young (2 months) and aging (20 months) C57BL/6 male mice and incubated at 37 °C for up to 16 h in DMEM High Glucose (Gibco) supplemented with 10% FCS, 0.1 mM 2-mercaptoethanol (Invitrogen), 1× penicillin-streptomycin-glutamine (Invitrogen), 50 ng ml −1 stem cell factor, 10 ng ml −1 TPO and 10 ng ml −1 Flt3L (all from PeproTech). .. After incubation, RNA was extracted using the Direct-zol RNA MicroPrep Kit with on-column DNase I treatment (Zymo Research). .. Reverse transcription was carried out using the qScript cDNA Supermix according to the manufacturer’s instruction (Quantabio).

    RNA Extraction:

    Article Title: Analysis of Pseudomonas aeruginosa transcription in an ex vivo cystic fibrosis sputum model identifies metal restriction as a gene expression stimulus
    Article Snippet: Ten μL of the cell suspension was added to 100 μl aliquots of 1) sputum, 2) sputum amended 10μL dH20 or metals solution (300 μM ammonium ferrous sulfate, 150μM zinc sulfate and 10μM manganese chloride), or 3) ASM, or 4) M63* in 1.5 mL Eppendorf tubes. .. Tubes were taped on their side with the lids open, placed in a humidity chamber, and incubated at 37°C with shaking at 250 RPM for 3 h. Total RNA was extracted using the Zymo Direct-zol RNA extraction kit with on-column DNase I treatment (cat# R2061) and small RNA fragments (including degraded mRNA) were separated into a separate fraction using the Zymo RNA Clean and Concentrator kit (cat# R1017). ..

    Article Title: Purification of mitochondria from skeletal muscle tissue for transcriptomic analyses reveals localization of nuclear‐encoded noncoding RNAs
    Article Snippet: Tri‐reagent (600 μL) was added and then RNA extracted (Zymo Direct‐zol RNA Miniprep #R2050). .. For RNA extraction from isolated mitochondria from the respective red portion of gastrocnemius muscle, frozen samples were thawed in the presence of 5 volumes of TRI‐reagent (Qiagen), pipette mixed thoroughly, and then centrifuged at 16 000 g for 1 min. RNA extraction was then performed with on‐column DNase I treatment (Zymo Research Direct‐zol RNA MicroPrep #2060). .. Extracted RNA was tested for purity on NanoDrop, and concentration with Qubit HS RNA assay (Thermo Fisher) and then RNA integrity number (RIN) were determined using a TapeStation (Agilent) with High Sensitivity RNA reagents.

    Article Title: Purification of mitochondria from skeletal muscle tissue for transcriptomic analyses reveals localization of nuclear‐encoded noncoding RNAs
    Article Snippet: .. For RNA extraction, frozen samples were thawed and then pipette mixed thoroughly to disrupt the pellets and then centrifuged at 13 000 g for 10 min. RNA extraction was then performed with on‐column DNase I treatment (Zymo Research Direct‐zol RNA MicroPrep #2060) and eluted in 12 μL nuclease free water. .. RNA yield was determined using a TapeStation (Agilent) with High Sensitivity RNA reagents.

    Isolation:

    Article Title: Purification of mitochondria from skeletal muscle tissue for transcriptomic analyses reveals localization of nuclear‐encoded noncoding RNAs
    Article Snippet: Tri‐reagent (600 μL) was added and then RNA extracted (Zymo Direct‐zol RNA Miniprep #R2050). .. For RNA extraction from isolated mitochondria from the respective red portion of gastrocnemius muscle, frozen samples were thawed in the presence of 5 volumes of TRI‐reagent (Qiagen), pipette mixed thoroughly, and then centrifuged at 16 000 g for 1 min. RNA extraction was then performed with on‐column DNase I treatment (Zymo Research Direct‐zol RNA MicroPrep #2060). .. Extracted RNA was tested for purity on NanoDrop, and concentration with Qubit HS RNA assay (Thermo Fisher) and then RNA integrity number (RIN) were determined using a TapeStation (Agilent) with High Sensitivity RNA reagents.

    Transferring:

    Article Title: Purification of mitochondria from skeletal muscle tissue for transcriptomic analyses reveals localization of nuclear‐encoded noncoding RNAs
    Article Snippet: Tri‐reagent (600 μL) was added and then RNA extracted (Zymo Direct‐zol RNA Miniprep #R2050). .. For RNA extraction from isolated mitochondria from the respective red portion of gastrocnemius muscle, frozen samples were thawed in the presence of 5 volumes of TRI‐reagent (Qiagen), pipette mixed thoroughly, and then centrifuged at 16 000 g for 1 min. RNA extraction was then performed with on‐column DNase I treatment (Zymo Research Direct‐zol RNA MicroPrep #2060). .. Extracted RNA was tested for purity on NanoDrop, and concentration with Qubit HS RNA assay (Thermo Fisher) and then RNA integrity number (RIN) were determined using a TapeStation (Agilent) with High Sensitivity RNA reagents.

    Article Title: Purification of mitochondria from skeletal muscle tissue for transcriptomic analyses reveals localization of nuclear‐encoded noncoding RNAs
    Article Snippet: .. For RNA extraction, frozen samples were thawed and then pipette mixed thoroughly to disrupt the pellets and then centrifuged at 13 000 g for 10 min. RNA extraction was then performed with on‐column DNase I treatment (Zymo Research Direct‐zol RNA MicroPrep #2060) and eluted in 12 μL nuclease free water. .. RNA yield was determined using a TapeStation (Agilent) with High Sensitivity RNA reagents.

    Purification:

    Article Title: Butyrate synergizes with glucose to promote anaerobic growth of Staphylococcus aureus via anaplerotic metabolism and stress response pathways
    Article Snippet: .. RNA was purified using the Zymo RNA Clean & Concentrator-5 kit (Zymo) with on-column DNase I treatment (5 μL DNase I and 35 μL DNA digestion buffer, 30 min, room temperature). ..

    Article Title: Methods and compositions for modulating gene expression
    Article Snippet: .. After treatment with the agents or agent mixtures, cells were harvested and total RNA was purified with the RNeasy Mini Kit (Qiagen, Valencia, Calif.), including on-column DNase I treatment (ZYMO Research, Catalog number E1010), according to manufacturer's directions. .. The optional drying step, according to the manufacturer's instructions, was performed prior to elution of the purified RNA, and the RNeasy spin column was placed in a new collection tube and centrifuged at full speed for 1 min to remove residual buffers. cDNA was synthesized from 250 ng purified RNA via the iScript cDNA synthesis kit according to manufacturer's instructions (Bio-Rad, Hercules, Calif.). qPCR was performed with iTaq Universal SYBR Green Supermix (Bio-Rad) on a CFX Connect 96 instrument (Bio-Rad). cDNA was analyzed with PCR parameters as follows: 1 cycle of 95° C. 2 min and 40 cycles of 95° C. 5 s, 54° C. 30 s. Primer pairs for TATA-box binding protein (TBP) and FXN were used.

    Extraction:

    Article Title: The Stickland Reaction Precursor trans -4-Hydroxy- l -Proline Differentially Impacts the Metabolism of Clostridioides difficile and Commensal Clostridia
    Article Snippet: For RNA to be used for RNA-seq, the cell pellet was resuspended in 1 mL of TRIzol (Thermofisher F) and incubated at room temperature for 15 min. Two hundred μL of chloroform (Sigma-Aldrich) was added, and the solution was inverted rapidly for 20 s, then incubated at room temperature for 15 min and centrifuged at 14,000 rpm for 15 min at 4°C. .. The aqueous phase was mixed with 96% ethanol and the extraction was performed using the Direct-zol RNA Miniprep Plus following the manufacturer’s instructions, including an on-column DNase I treatment (R2071, Zymo Research). ..



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    S. aureus JE2 biofilms were established after 24h incubation in LB 50mM NaB 0.5% w/v glucose. These biofilms were treated with Proteinase K (0.1mg/mL) or <t>DNase</t> <t>I</t> (140U/mL) for 16h. Following treatment, biofilm formation was quantified by measured crystal violet staining. Data represent the mean ± standard error of the mean of three independent biological replicates. P-values are from a 2-way ANOVA test with Tukey correction for multiple comparisons.
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    Image Search Results


    S. aureus JE2 biofilms were established after 24h incubation in LB 50mM NaB 0.5% w/v glucose. These biofilms were treated with Proteinase K (0.1mg/mL) or DNase I (140U/mL) for 16h. Following treatment, biofilm formation was quantified by measured crystal violet staining. Data represent the mean ± standard error of the mean of three independent biological replicates. P-values are from a 2-way ANOVA test with Tukey correction for multiple comparisons.

    Journal: bioRxiv

    Article Title: Butyrate synergizes with glucose to promote anaerobic growth of Staphylococcus aureus via anaplerotic metabolism and stress response pathways

    doi: 10.64898/2026.04.07.717036

    Figure Lengend Snippet: S. aureus JE2 biofilms were established after 24h incubation in LB 50mM NaB 0.5% w/v glucose. These biofilms were treated with Proteinase K (0.1mg/mL) or DNase I (140U/mL) for 16h. Following treatment, biofilm formation was quantified by measured crystal violet staining. Data represent the mean ± standard error of the mean of three independent biological replicates. P-values are from a 2-way ANOVA test with Tukey correction for multiple comparisons.

    Article Snippet: RNA was purified using the Zymo RNA Clean & Concentrator-5 kit (Zymo) with on-column DNase I treatment (5 μL DNase I and 35 μL DNA digestion buffer, 30 min, room temperature).

    Techniques: Incubation, Staining