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polya selection module  (New England Biolabs)


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    Structured Review

    New England Biolabs polya selection module
    Polya Selection Module, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 95/100, based on 449 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/polya+selection+module/NEBNext+Ultra+Ligation+Module/pmc10141529-337-12-15
    Average 95 stars, based on 449 article reviews
    polya selection module - by Bioz Stars, 2026-09
    95/100 stars

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    Related Articles

    Chromatin Immunoprecipitation:

    Article Title: Mechanism insights into the regulation of the LuxS/AI-2 quorum sensing system on the formation of viable but nonculturable state in biofilm cells of beer-spoilage Lactiplantibacillus plantarum.
    Article Snippet: Bound DNA was eluted with 300 lL elution buffer (100 mM NaHCO3 (Macklin, #S837271), 1 % SDS) and treated sequentially with RNase A (8 lg/mL, ThermoFisher #EN0531, 65 °C, 6 h) and proteinase K (345 lg/mL, Macklin #39450–01-6, 45 °C, overnight). .. ChIP and input DNA were end-repaired/dA-tailed (NEB #E7442), ligated to adapters (NEB #E7445), amplified for 15 cycles, and sequenced on Illumina NovaSeq 6000 (PE150). ..

    Amplification:

    Article Title: Mechanism insights into the regulation of the LuxS/AI-2 quorum sensing system on the formation of viable but nonculturable state in biofilm cells of beer-spoilage Lactiplantibacillus plantarum.
    Article Snippet: Bound DNA was eluted with 300 lL elution buffer (100 mM NaHCO3 (Macklin, #S837271), 1 % SDS) and treated sequentially with RNase A (8 lg/mL, ThermoFisher #EN0531, 65 °C, 6 h) and proteinase K (345 lg/mL, Macklin #39450–01-6, 45 °C, overnight). .. ChIP and input DNA were end-repaired/dA-tailed (NEB #E7442), ligated to adapters (NEB #E7445), amplified for 15 cycles, and sequenced on Illumina NovaSeq 6000 (PE150). ..

    Sequencing:

    Article Title: Posttranscriptional 3′-Terminal Modifications of Escherichia coli RNA Fragments Evolved for Diversity Boosting
    Article Snippet: Amplicons were then purified using AMPure XP magnetic beads (Beckman Coulter, Brea, CA, USA). .. Sequencing libraries were prepared using the Native Barcoding Kit 96 V14 (SQK-NBD114.96) protocol, with modified incubation times for enzymatic reactions: the DNA repair step using NEBNext ® UltraTM II End Repair/dA-Tailing Module (New England Biolabs, Ipswich, MA, USA) was extended to 25 min, and the ligation step was run for 60 min. ..

    Article Title: Bryophytes hold a larger gene family space than vascular plants.
    Article Snippet: Transcriptome libraries were constructed with a TruSeq RNA Library Prep Kit v2 (Illumina) with an insert size of 200–400 bp, after polyA selection, and were sequenced for 150 bp paired-end reads on the MGI-SEQ or Illumina NovaSeq 6000 platform. .. For long-read sequencing, DNA fragments over 30 kb were selected for library construction, and the library was first end-repaired with NEBNext FFPE Repair Mix (New England Biolabs) and the NEBNext Ultra II End Repair/ dA-Tailing Module (NEB), and then prepared for sequencing using the SQK_LSK109 Ligation Sequencing Kit. ..

    Article Title: Bryophytes hold a larger gene family space than vascular plants
    Article Snippet: Transcriptome libraries were constructed with a TruSeq RNA Library Prep Kit v2 (Illumina) with an insert size of 200–400 bp, after polyA selection, and were sequenced for 150 bp paired-end reads on the MGI-SEQ or Illumina NovaSeq 6000 platform. .. For long-read sequencing, DNA fragments over 30 kb were selected for library construction, and the library was first end-repaired with NEBNext FFPE Repair Mix (New England Biolabs) and the NEBNext Ultra II End Repair/dA-Tailing Module (NEB), and then prepared for sequencing using the SQK_LSK109 Ligation Sequencing Kit. ..

    Modification:

    Article Title: Posttranscriptional 3′-Terminal Modifications of Escherichia coli RNA Fragments Evolved for Diversity Boosting
    Article Snippet: Amplicons were then purified using AMPure XP magnetic beads (Beckman Coulter, Brea, CA, USA). .. Sequencing libraries were prepared using the Native Barcoding Kit 96 V14 (SQK-NBD114.96) protocol, with modified incubation times for enzymatic reactions: the DNA repair step using NEBNext ® UltraTM II End Repair/dA-Tailing Module (New England Biolabs, Ipswich, MA, USA) was extended to 25 min, and the ligation step was run for 60 min. ..

    Incubation:

    Article Title: Posttranscriptional 3′-Terminal Modifications of Escherichia coli RNA Fragments Evolved for Diversity Boosting
    Article Snippet: Amplicons were then purified using AMPure XP magnetic beads (Beckman Coulter, Brea, CA, USA). .. Sequencing libraries were prepared using the Native Barcoding Kit 96 V14 (SQK-NBD114.96) protocol, with modified incubation times for enzymatic reactions: the DNA repair step using NEBNext ® UltraTM II End Repair/dA-Tailing Module (New England Biolabs, Ipswich, MA, USA) was extended to 25 min, and the ligation step was run for 60 min. ..

    Ligation:

    Article Title: Posttranscriptional 3′-Terminal Modifications of Escherichia coli RNA Fragments Evolved for Diversity Boosting
    Article Snippet: Amplicons were then purified using AMPure XP magnetic beads (Beckman Coulter, Brea, CA, USA). .. Sequencing libraries were prepared using the Native Barcoding Kit 96 V14 (SQK-NBD114.96) protocol, with modified incubation times for enzymatic reactions: the DNA repair step using NEBNext ® UltraTM II End Repair/dA-Tailing Module (New England Biolabs, Ipswich, MA, USA) was extended to 25 min, and the ligation step was run for 60 min. ..

    Article Title: Bryophytes hold a larger gene family space than vascular plants.
    Article Snippet: Transcriptome libraries were constructed with a TruSeq RNA Library Prep Kit v2 (Illumina) with an insert size of 200–400 bp, after polyA selection, and were sequenced for 150 bp paired-end reads on the MGI-SEQ or Illumina NovaSeq 6000 platform. .. For long-read sequencing, DNA fragments over 30 kb were selected for library construction, and the library was first end-repaired with NEBNext FFPE Repair Mix (New England Biolabs) and the NEBNext Ultra II End Repair/ dA-Tailing Module (NEB), and then prepared for sequencing using the SQK_LSK109 Ligation Sequencing Kit. ..

    Article Title: Bryophytes hold a larger gene family space than vascular plants
    Article Snippet: Transcriptome libraries were constructed with a TruSeq RNA Library Prep Kit v2 (Illumina) with an insert size of 200–400 bp, after polyA selection, and were sequenced for 150 bp paired-end reads on the MGI-SEQ or Illumina NovaSeq 6000 platform. .. For long-read sequencing, DNA fragments over 30 kb were selected for library construction, and the library was first end-repaired with NEBNext FFPE Repair Mix (New England Biolabs) and the NEBNext Ultra II End Repair/dA-Tailing Module (NEB), and then prepared for sequencing using the SQK_LSK109 Ligation Sequencing Kit. ..

    Article Title: DNA construct for sequencing and method for preparing the same
    Article Snippet: End Repair/dA-Tailing Follow the NEBNext® UltraTM End Repair/dA-Tailing Module (NEB #E7442) protocol: Mix the following components in a sterile, nuclease-free tube: (green) End Prep Enzyme Mix—3.0 μl; (green) End Repair Reaction Buffer (10×)—6.5 μl; PCR amplicons from previous step—55.5 μl; Mix by pipetting, followed by a quick spin to collect all liquid from the sides of the tube. .. Place in a thermocycler, with the heated lid on, and run the following program: 30 minutes @ 20° C.; 30 minutes @ 65° C.; Hold at 4° C. Proceed directly to NEBNext Ultra Ligation Module (NEB #E7445): If DNA input prior to End Repair is <100 ng, dilute the xGen® Dual Index UMI Adapters 1:10 in 10 mM Tris-HCl pH 7.5-8.0 or 10 mM Tris-HCl pH 7.5-8.0 with 10 mM NaCl to a final concentration of 1.5 μM. ..

    Formalin-fixed Paraffin-Embedded:

    Article Title: Bryophytes hold a larger gene family space than vascular plants.
    Article Snippet: Transcriptome libraries were constructed with a TruSeq RNA Library Prep Kit v2 (Illumina) with an insert size of 200–400 bp, after polyA selection, and were sequenced for 150 bp paired-end reads on the MGI-SEQ or Illumina NovaSeq 6000 platform. .. For long-read sequencing, DNA fragments over 30 kb were selected for library construction, and the library was first end-repaired with NEBNext FFPE Repair Mix (New England Biolabs) and the NEBNext Ultra II End Repair/ dA-Tailing Module (NEB), and then prepared for sequencing using the SQK_LSK109 Ligation Sequencing Kit. ..

    Article Title: Bryophytes hold a larger gene family space than vascular plants
    Article Snippet: Transcriptome libraries were constructed with a TruSeq RNA Library Prep Kit v2 (Illumina) with an insert size of 200–400 bp, after polyA selection, and were sequenced for 150 bp paired-end reads on the MGI-SEQ or Illumina NovaSeq 6000 platform. .. For long-read sequencing, DNA fragments over 30 kb were selected for library construction, and the library was first end-repaired with NEBNext FFPE Repair Mix (New England Biolabs) and the NEBNext Ultra II End Repair/dA-Tailing Module (NEB), and then prepared for sequencing using the SQK_LSK109 Ligation Sequencing Kit. ..

    Spectrophotometry:

    Article Title: Differences in microbial composition of litter and water line biofilm of broiler farms as influenced by water quality history.
    Article Snippet: The yield and quality of the PCR product were then assessed using 1 % w/v agarose gel electrophoresis and subsequently purified with AMPure XP beads (Beckman Coulter, Brea, CA, USA). .. The cleaned amplicons were quantified using a NanoDrop One spectrophotometer (Thermo Scientific, Wilmington, DE, USA), end-prepped using the NEBNext Ultra II End Repair/dA-Tailing Module (New England Biolabs, Ipswich, MA, USA), and then natively barcoded using the Native Barcoding Kit (EXP-NBD196; Oxford Nanopore Technologies, Oxford, UK) according to the manufacturer’s instructions. .. The barcoded samples were pooled together and ligated with a Nanopore sequencing adaptor (Adaptor Mix II) using the Ligation Sequencing Kit (SQK-LSK109; Oxford Nanopore Technologies, Oxford, UK), followed by sequencing on a Flongle flow cell using the Nanopore MinION sequencer (Oxford Nanopore Technologies, Oxford, UK) for 24 h.

    Article Title: Differences in microbial composition of litter and water line biofilm of broiler farms as influenced by water quality history
    Article Snippet: The yield and quality of the PCR product were then assessed using 1 % w/v agarose gel electrophoresis and subsequently purified with AMPure XP beads (Beckman Coulter, Brea, CA, USA). .. The cleaned amplicons were quantified using a NanoDrop One spectrophotometer (Thermo Scientific, Wilmington, DE, USA), end-prepped using the NEBNext Ultra II End Repair/dA-Tailing Module (New England Biolabs, Ipswich, MA, USA), and then natively barcoded using the Native Barcoding Kit (EXP-NBD196; Oxford Nanopore Technologies, Oxford, UK) according to the manufacturer’s instructions. .. The barcoded samples were pooled together and ligated with a Nanopore sequencing adaptor (Adaptor Mix II) using the Ligation Sequencing Kit (SQK-LSK109; Oxford Nanopore Technologies, Oxford, UK), followed by sequencing on a Flongle flow cell using the Nanopore MinION sequencer (Oxford Nanopore Technologies, Oxford, UK) for 24 h.

    Concentration Assay:

    Article Title: DNA construct for sequencing and method for preparing the same
    Article Snippet: End Repair/dA-Tailing Follow the NEBNext® UltraTM End Repair/dA-Tailing Module (NEB #E7442) protocol: Mix the following components in a sterile, nuclease-free tube: (green) End Prep Enzyme Mix—3.0 μl; (green) End Repair Reaction Buffer (10×)—6.5 μl; PCR amplicons from previous step—55.5 μl; Mix by pipetting, followed by a quick spin to collect all liquid from the sides of the tube. .. Place in a thermocycler, with the heated lid on, and run the following program: 30 minutes @ 20° C.; 30 minutes @ 65° C.; Hold at 4° C. Proceed directly to NEBNext Ultra Ligation Module (NEB #E7445): If DNA input prior to End Repair is <100 ng, dilute the xGen® Dual Index UMI Adapters 1:10 in 10 mM Tris-HCl pH 7.5-8.0 or 10 mM Tris-HCl pH 7.5-8.0 with 10 mM NaCl to a final concentration of 1.5 μM. ..



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    (A) Volcano plot analysis of host transcriptome-wide genes differentially expressed in primary B cells from three independent donors infected with WT or TES2m LMP1 for 21 days. Positive fold changes indicate higher transcripts in cells with TES2m LMP1. (B) PFKFB4 glucose metabolism roles. Glucose is metabolized by glycolysis or by the PPP. Glycolysis flux is regulated via Fructose-2,6-BP, an allosteric regulator of PFK1. PFKFB3 phosphorylates Fructose-6-P into Fructose-2,6-BP while PFKFB4 phosphatase activity converts Fructose-2,6-BP to Fructose-6-P to shunt glycolytic flux to PPP. Created in BioRender. Burton, E. (2026) https://BioRender.com/i0gawc8 . (C) KEGG pathway analysis of transcripts significantly upregulated in cells infected by EBV with WT LMP1 at day 21 post infection. (D) KEGG pathway analysis of transcripts significantly upregulated in cells infected by TES2m EBV at day 21 post infection. (E) PFKFB4 protein levels in WT versus TES2m LMP1 EBV infected cells. Cells from two independent donors were infected with EBV with WT LMP1 or TES2m LMP1 for 22 days. Densitometry values of PFKFB4 vs β-Actin load controls are shown. (F) Effects of LCL LMP1 KO on PFKFB4 <t>mRNA.</t> Median PFKFB4 reads from RNAseq analysis of Cas9+ GM12878 cells with control vs LMP1 targeting sgRNA expression for 48 hours. Shown are data from n=3 RNAseq datasets. (G) PFKFB4 protein levels in LMP1 KO LCLs. Cas9+ GM12878 were mock induced or induced to express LMP1 sgRNA for 48 hours. WCL was extracted and immunoblot was carried out using the indicated antibodies. (H) Effects of TES1 vs TES2 signaling inhibition on LCL PFKFB4 expression. Median PFKFB4 RNAseq reads from RNAseq analysis of Cas9+ GM12878 expressing LMP1 sgRNA together with dox-induced LMP1 TES1m vs WT LMP1 cDNA expression. Shown are data from n=3 RNAseq datasets. (I) Relative PFKFB4 protein abundances from proteomic analysis of primary human B-cells at the indicated days post-infection by the EBV B95.8 strain. Shown are mean ± SD values from n=4 replicates. (J) Effects of exogenous PFKFB4 expression on proliferation of primary B cells infected by EBV with WT versus TES2m LMP1. Peripheral blood B cells from three independent donors were infected with EBV with WT vs TES2m LMP1. After 14 days, cells were transduced with lentivirus control or with lentivirus driving stable PFKFB4 expression. Five days post-selection, cells were re-seeded. Twelve days later, live cell counts were defined. P-values were determined by one-sided Fisher’s exact test. * p<0.05, **p<0.005, ***p<0.0005. blots are representative of n=3 independent replicates.
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    Image Search Results


    (A) Volcano plot analysis of host transcriptome-wide genes differentially expressed in primary B cells from three independent donors infected with WT or TES2m LMP1 for 21 days. Positive fold changes indicate higher transcripts in cells with TES2m LMP1. (B) PFKFB4 glucose metabolism roles. Glucose is metabolized by glycolysis or by the PPP. Glycolysis flux is regulated via Fructose-2,6-BP, an allosteric regulator of PFK1. PFKFB3 phosphorylates Fructose-6-P into Fructose-2,6-BP while PFKFB4 phosphatase activity converts Fructose-2,6-BP to Fructose-6-P to shunt glycolytic flux to PPP. Created in BioRender. Burton, E. (2026) https://BioRender.com/i0gawc8 . (C) KEGG pathway analysis of transcripts significantly upregulated in cells infected by EBV with WT LMP1 at day 21 post infection. (D) KEGG pathway analysis of transcripts significantly upregulated in cells infected by TES2m EBV at day 21 post infection. (E) PFKFB4 protein levels in WT versus TES2m LMP1 EBV infected cells. Cells from two independent donors were infected with EBV with WT LMP1 or TES2m LMP1 for 22 days. Densitometry values of PFKFB4 vs β-Actin load controls are shown. (F) Effects of LCL LMP1 KO on PFKFB4 mRNA. Median PFKFB4 reads from RNAseq analysis of Cas9+ GM12878 cells with control vs LMP1 targeting sgRNA expression for 48 hours. Shown are data from n=3 RNAseq datasets. (G) PFKFB4 protein levels in LMP1 KO LCLs. Cas9+ GM12878 were mock induced or induced to express LMP1 sgRNA for 48 hours. WCL was extracted and immunoblot was carried out using the indicated antibodies. (H) Effects of TES1 vs TES2 signaling inhibition on LCL PFKFB4 expression. Median PFKFB4 RNAseq reads from RNAseq analysis of Cas9+ GM12878 expressing LMP1 sgRNA together with dox-induced LMP1 TES1m vs WT LMP1 cDNA expression. Shown are data from n=3 RNAseq datasets. (I) Relative PFKFB4 protein abundances from proteomic analysis of primary human B-cells at the indicated days post-infection by the EBV B95.8 strain. Shown are mean ± SD values from n=4 replicates. (J) Effects of exogenous PFKFB4 expression on proliferation of primary B cells infected by EBV with WT versus TES2m LMP1. Peripheral blood B cells from three independent donors were infected with EBV with WT vs TES2m LMP1. After 14 days, cells were transduced with lentivirus control or with lentivirus driving stable PFKFB4 expression. Five days post-selection, cells were re-seeded. Twelve days later, live cell counts were defined. P-values were determined by one-sided Fisher’s exact test. * p<0.05, **p<0.005, ***p<0.0005. blots are representative of n=3 independent replicates.

    Journal: bioRxiv

    Article Title: Epstein-Barr Virus Latent Membrane Protein 1 Suppresses Ferroptosis via Pentose Phosphate Pathway and Glutathione Metabolism

    doi: 10.64898/2026.03.09.710628

    Figure Lengend Snippet: (A) Volcano plot analysis of host transcriptome-wide genes differentially expressed in primary B cells from three independent donors infected with WT or TES2m LMP1 for 21 days. Positive fold changes indicate higher transcripts in cells with TES2m LMP1. (B) PFKFB4 glucose metabolism roles. Glucose is metabolized by glycolysis or by the PPP. Glycolysis flux is regulated via Fructose-2,6-BP, an allosteric regulator of PFK1. PFKFB3 phosphorylates Fructose-6-P into Fructose-2,6-BP while PFKFB4 phosphatase activity converts Fructose-2,6-BP to Fructose-6-P to shunt glycolytic flux to PPP. Created in BioRender. Burton, E. (2026) https://BioRender.com/i0gawc8 . (C) KEGG pathway analysis of transcripts significantly upregulated in cells infected by EBV with WT LMP1 at day 21 post infection. (D) KEGG pathway analysis of transcripts significantly upregulated in cells infected by TES2m EBV at day 21 post infection. (E) PFKFB4 protein levels in WT versus TES2m LMP1 EBV infected cells. Cells from two independent donors were infected with EBV with WT LMP1 or TES2m LMP1 for 22 days. Densitometry values of PFKFB4 vs β-Actin load controls are shown. (F) Effects of LCL LMP1 KO on PFKFB4 mRNA. Median PFKFB4 reads from RNAseq analysis of Cas9+ GM12878 cells with control vs LMP1 targeting sgRNA expression for 48 hours. Shown are data from n=3 RNAseq datasets. (G) PFKFB4 protein levels in LMP1 KO LCLs. Cas9+ GM12878 were mock induced or induced to express LMP1 sgRNA for 48 hours. WCL was extracted and immunoblot was carried out using the indicated antibodies. (H) Effects of TES1 vs TES2 signaling inhibition on LCL PFKFB4 expression. Median PFKFB4 RNAseq reads from RNAseq analysis of Cas9+ GM12878 expressing LMP1 sgRNA together with dox-induced LMP1 TES1m vs WT LMP1 cDNA expression. Shown are data from n=3 RNAseq datasets. (I) Relative PFKFB4 protein abundances from proteomic analysis of primary human B-cells at the indicated days post-infection by the EBV B95.8 strain. Shown are mean ± SD values from n=4 replicates. (J) Effects of exogenous PFKFB4 expression on proliferation of primary B cells infected by EBV with WT versus TES2m LMP1. Peripheral blood B cells from three independent donors were infected with EBV with WT vs TES2m LMP1. After 14 days, cells were transduced with lentivirus control or with lentivirus driving stable PFKFB4 expression. Five days post-selection, cells were re-seeded. Twelve days later, live cell counts were defined. P-values were determined by one-sided Fisher’s exact test. * p<0.05, **p<0.005, ***p<0.0005. blots are representative of n=3 independent replicates.

    Article Snippet: To construct indexed libraries, 1 μg of total RNA was used for polyA mRNA selection using NEBNext Poly(A) mRNA Magnetic Isolation Module (Cat#E7490S), and library preparation with NEBNext Ultra RNA Library Prep with Sample Purification Beads (Cat#E7765S).

    Techniques: Infection, Activity Assay, RNA sequencing, Control, Expressing, Western Blot, Inhibition, Transduction, Selection