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oligonucleotide pool  (Twist Bioscience)


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    Twist Bioscience oligonucleotide pool
    Oligonucleotide Pool, supplied by Twist Bioscience, used in various techniques. Bioz Stars score: 95/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/ssdna+oligo+pool/Oligo+pool+amplification+-+ssDNA+final+format/10__1038_slash_s41698___026___01726___1-281-18-21
    Average 95 stars, based on 1 article reviews
    oligonucleotide pool - by Bioz Stars, 2026-10
    95/100 stars

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    Related Articles

    Synthesized:

    Article Title: ecDNA hubs drive cooperative intermolecular oncogene expression
    Article Snippet: .. A ssDNA oligo pool was ordered and synthesized from Twist Bioscience (San Francisco, CA). .. 15mm #1.5 round glass coverslips (Electron Microscopy Sciences) were pre-rinsed with anhydrous ethanol for 5min, air dried, and coated with L-poly lysine solution (100ug/mL) for at least 2 hours.

    Article Title: Selective TnsC recruitment enhances the fidelity of RNA-guided transposition
    Article Snippet: .. A ssDNA oligo pool comprising 1,629 crRNA library members ( Supplementary Table 6 ) was synthesized (Twist Bioscience) and amplified in two parallel 15 μl PCR reactions, each containing 5 ng of oligo pool template, 400 μM dNTPs, 2 μM primers, 1× Q5 reaction buffer and 0.3 U of Q5 DNA polymerase (NEB). .. The PCR reactions were performed with 12 amplification cycles, and DNA was pooled and purified, digested with SalI and BamHI (NEB), and purified for ligation into pDonor.

    Article Title: EcDNA hubs drive cooperative intermolecular oncogene expression
    Article Snippet: .. A ssDNA oligo pool was ordered and synthesized from Twist Bioscience (San Francisco, CA). .. 15mm #1.5 round glass coverslips (Electron Microscopy Sciences) were pre-rinsed with anhydrous ethanol for 5min, air dried, and coated with L-poly lysine solution (100ug/mL) for at least 2 hours.

    Amplification:

    Article Title: Selective TnsC recruitment enhances the fidelity of RNA-guided transposition
    Article Snippet: .. A ssDNA oligo pool comprising 1,629 crRNA library members ( Supplementary Table 6 ) was synthesized (Twist Bioscience) and amplified in two parallel 15 μl PCR reactions, each containing 5 ng of oligo pool template, 400 μM dNTPs, 2 μM primers, 1× Q5 reaction buffer and 0.3 U of Q5 DNA polymerase (NEB). .. The PCR reactions were performed with 12 amplification cycles, and DNA was pooled and purified, digested with SalI and BamHI (NEB), and purified for ligation into pDonor.

    Article Title: MitoPerturb-Seq identifies gene-specific single-cell responses to mitochondrial DNA depletion and heteroplasmy.
    Article Snippet: .. For future experiments, we recommend using the CROPseq– mCherry plasmid that we cloned subsequently and can be requested by contacting the corresponding author. gRNA sequences for CROPseq (Supplementary Table 1) were designed as described previously22, ordered from Twist Biosciences as a ssDNA oligo pool and PCR amplified before cloning. .. Then, 200 fmol of the amplified oligo pool was cloned using the ClonExpress Ultra one-step cloning kit (Vazyme, C115) into 10 fmol of gel-purified CROPseq–mCherry plasmid digested by BsmBI overnight.

    Article Title: Synthetically designed anti-defense proteins overcome barriers to bacterial transformation and phage infection
    Article Snippet: .. Candidate DdmDE binders were ordered from Twist Bioscience as a ssDNA oligo pool with primer binder sites for PCR amplification and downstream Gibson assembly. ..

    Article Title: Synthetically designed anti-defense proteins overcome barriers to bacterial transformation and phage infection.
    Article Snippet: .. AR TI CL E IN P RE SS ARTICLE IN PRESS Pooled candidate plasmid approach for DdmDE binders Candidate DdmDE binders were ordered from Twist Bioscience as a ssDNA oligo pool with primer binder sites for PCR amplification and downstream Gibson assembly. ..

    Polymerase Chain Reaction:

    Article Title: Selective TnsC recruitment enhances the fidelity of RNA-guided transposition
    Article Snippet: .. A ssDNA oligo pool comprising 1,629 crRNA library members ( Supplementary Table 6 ) was synthesized (Twist Bioscience) and amplified in two parallel 15 μl PCR reactions, each containing 5 ng of oligo pool template, 400 μM dNTPs, 2 μM primers, 1× Q5 reaction buffer and 0.3 U of Q5 DNA polymerase (NEB). .. The PCR reactions were performed with 12 amplification cycles, and DNA was pooled and purified, digested with SalI and BamHI (NEB), and purified for ligation into pDonor.

    Article Title: MitoPerturb-Seq identifies gene-specific single-cell responses to mitochondrial DNA depletion and heteroplasmy.
    Article Snippet: .. For future experiments, we recommend using the CROPseq– mCherry plasmid that we cloned subsequently and can be requested by contacting the corresponding author. gRNA sequences for CROPseq (Supplementary Table 1) were designed as described previously22, ordered from Twist Biosciences as a ssDNA oligo pool and PCR amplified before cloning. .. Then, 200 fmol of the amplified oligo pool was cloned using the ClonExpress Ultra one-step cloning kit (Vazyme, C115) into 10 fmol of gel-purified CROPseq–mCherry plasmid digested by BsmBI overnight.

    Article Title: Synthetically designed anti-defense proteins overcome barriers to bacterial transformation and phage infection
    Article Snippet: .. Candidate DdmDE binders were ordered from Twist Bioscience as a ssDNA oligo pool with primer binder sites for PCR amplification and downstream Gibson assembly. ..

    Article Title: Synthetically designed anti-defense proteins overcome barriers to bacterial transformation and phage infection.
    Article Snippet: .. AR TI CL E IN P RE SS ARTICLE IN PRESS Pooled candidate plasmid approach for DdmDE binders Candidate DdmDE binders were ordered from Twist Bioscience as a ssDNA oligo pool with primer binder sites for PCR amplification and downstream Gibson assembly. ..

    Plasmid Preparation:

    Article Title: MitoPerturb-Seq identifies gene-specific single-cell responses to mitochondrial DNA depletion and heteroplasmy.
    Article Snippet: .. For future experiments, we recommend using the CROPseq– mCherry plasmid that we cloned subsequently and can be requested by contacting the corresponding author. gRNA sequences for CROPseq (Supplementary Table 1) were designed as described previously22, ordered from Twist Biosciences as a ssDNA oligo pool and PCR amplified before cloning. .. Then, 200 fmol of the amplified oligo pool was cloned using the ClonExpress Ultra one-step cloning kit (Vazyme, C115) into 10 fmol of gel-purified CROPseq–mCherry plasmid digested by BsmBI overnight.

    Article Title: Synthetically designed anti-defense proteins overcome barriers to bacterial transformation and phage infection.
    Article Snippet: .. AR TI CL E IN P RE SS ARTICLE IN PRESS Pooled candidate plasmid approach for DdmDE binders Candidate DdmDE binders were ordered from Twist Bioscience as a ssDNA oligo pool with primer binder sites for PCR amplification and downstream Gibson assembly. ..

    Clone Assay:

    Article Title: MitoPerturb-Seq identifies gene-specific single-cell responses to mitochondrial DNA depletion and heteroplasmy.
    Article Snippet: .. For future experiments, we recommend using the CROPseq– mCherry plasmid that we cloned subsequently and can be requested by contacting the corresponding author. gRNA sequences for CROPseq (Supplementary Table 1) were designed as described previously22, ordered from Twist Biosciences as a ssDNA oligo pool and PCR amplified before cloning. .. Then, 200 fmol of the amplified oligo pool was cloned using the ClonExpress Ultra one-step cloning kit (Vazyme, C115) into 10 fmol of gel-purified CROPseq–mCherry plasmid digested by BsmBI overnight.

    Cloning:

    Article Title: MitoPerturb-Seq identifies gene-specific single-cell responses to mitochondrial DNA depletion and heteroplasmy.
    Article Snippet: .. For future experiments, we recommend using the CROPseq– mCherry plasmid that we cloned subsequently and can be requested by contacting the corresponding author. gRNA sequences for CROPseq (Supplementary Table 1) were designed as described previously22, ordered from Twist Biosciences as a ssDNA oligo pool and PCR amplified before cloning. .. Then, 200 fmol of the amplified oligo pool was cloned using the ClonExpress Ultra one-step cloning kit (Vazyme, C115) into 10 fmol of gel-purified CROPseq–mCherry plasmid digested by BsmBI overnight.



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    Image Search Results


    a Top, the DdmDE system of V. cholerae O1 El Tor used in this study. Bottom, surface representation of the DdmDE heterodimer (PDB ID 9EZY) . Domain locations are indicated. Guide DNA (red) and plasmid DNA (yellow) are shown. b Schematic representation of the experimental set up. The starting point is a library of E. coli bacteria with or without DdmDE, carrying the pool of plasmids, each expressing a single candidate inhibitor. Cultures of these bacteria were grown for 50 generations and plated on antibiotic-containing media. Colonies that grew were collected, and their plasmids were sequenced. c Enrichment was calculated by dividing reads per candidate gene in the initial library by the reads per candidate gene at the end point of the experiment. Read counts were normalized to total reads per sample. Top, no enrichment of candidate plasmids in control cells. Bottom, enrichment of candidate plasmids in DdmDE-expressing cells. Shown is a representative of three replicates. All replicates are shown in Fig. . d Plasmid retention in E. coli cells heterologously expressing the V. cholerae DdmDE system. Plasmid retention is calculated by dividing CFUs (colony forming units) obtained on antibiotic-containing media by CFUs on non-selective media after 50 generations of growth. Control is an RFP-expressing plasmid. Bar graphs represent the average of three biological repeats, with individual data points overlaid. e Surface representation of the DdmDE complex modeled with the verified inhibitors. Structures for DdmDE binders 1-4 were modelled via AF3. DdmDE binder 5 was modeled with a cropped section of DdmE and then aligned to the complex structure (Methods) ( f ) As in panel d , plasmid retention assays were performed in V. cholerae O1 El Tor, which naturally encodes the DdmDE system, using either an RFP-expressing control plasmid or plasmids expressing each of the top four binder candidates. Bar graphs represent the average of three biological repeats, with individual data points overlaid.

    Journal: Nature Communications

    Article Title: Synthetically designed anti-defense proteins overcome barriers to bacterial transformation and phage infection

    doi: 10.1038/s41467-026-74301-8

    Figure Lengend Snippet: a Top, the DdmDE system of V. cholerae O1 El Tor used in this study. Bottom, surface representation of the DdmDE heterodimer (PDB ID 9EZY) . Domain locations are indicated. Guide DNA (red) and plasmid DNA (yellow) are shown. b Schematic representation of the experimental set up. The starting point is a library of E. coli bacteria with or without DdmDE, carrying the pool of plasmids, each expressing a single candidate inhibitor. Cultures of these bacteria were grown for 50 generations and plated on antibiotic-containing media. Colonies that grew were collected, and their plasmids were sequenced. c Enrichment was calculated by dividing reads per candidate gene in the initial library by the reads per candidate gene at the end point of the experiment. Read counts were normalized to total reads per sample. Top, no enrichment of candidate plasmids in control cells. Bottom, enrichment of candidate plasmids in DdmDE-expressing cells. Shown is a representative of three replicates. All replicates are shown in Fig. . d Plasmid retention in E. coli cells heterologously expressing the V. cholerae DdmDE system. Plasmid retention is calculated by dividing CFUs (colony forming units) obtained on antibiotic-containing media by CFUs on non-selective media after 50 generations of growth. Control is an RFP-expressing plasmid. Bar graphs represent the average of three biological repeats, with individual data points overlaid. e Surface representation of the DdmDE complex modeled with the verified inhibitors. Structures for DdmDE binders 1-4 were modelled via AF3. DdmDE binder 5 was modeled with a cropped section of DdmE and then aligned to the complex structure (Methods) ( f ) As in panel d , plasmid retention assays were performed in V. cholerae O1 El Tor, which naturally encodes the DdmDE system, using either an RFP-expressing control plasmid or plasmids expressing each of the top four binder candidates. Bar graphs represent the average of three biological repeats, with individual data points overlaid.

    Article Snippet: Candidate DdmDE binders were ordered from Twist Bioscience as a ssDNA oligo pool with primer binder sites for PCR amplification and downstream Gibson assembly.

    Techniques: Plasmid Preparation, Bacteria, Expressing, Control