yeast xrn1  (New England Biolabs)


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    Structured Review

    New England Biolabs yeast xrn1
    ) Dhh1, B) Scd6, C) <t>Xrn1,</t> D) Lsm1-7 complex, E) Dcp1, F) Dcp2, and G) Pat1 C domain with the GST moiety cleaved with PreScission protease. The
    Yeast Xrn1, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 97/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/yeast xrn1/product/New England Biolabs
    Average 97 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    yeast xrn1 - by Bioz Stars, 2022-09
    97/100 stars

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    1) Product Images from "Decapping activators in Saccharomyces cerevisiae act by multiple mechanisms"

    Article Title: Decapping activators in Saccharomyces cerevisiae act by multiple mechanisms

    Journal: Molecular cell

    doi: 10.1016/j.molcel.2010.08.025

    ) Dhh1, B) Scd6, C) Xrn1, D) Lsm1-7 complex, E) Dcp1, F) Dcp2, and G) Pat1 C domain with the GST moiety cleaved with PreScission protease. The
    Figure Legend Snippet: ) Dhh1, B) Scd6, C) Xrn1, D) Lsm1-7 complex, E) Dcp1, F) Dcp2, and G) Pat1 C domain with the GST moiety cleaved with PreScission protease. The

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    New England Biolabs yeast xrn1
    ) Dhh1, B) Scd6, C) <t>Xrn1,</t> D) Lsm1-7 complex, E) Dcp1, F) Dcp2, and G) Pat1 C domain with the GST moiety cleaved with PreScission protease. The
    Yeast Xrn1, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 97/100, based on 3 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/yeast xrn1/product/New England Biolabs
    Average 97 stars, based on 3 article reviews
    Price from $9.99 to $1999.99
    yeast xrn1 - by Bioz Stars, 2022-09
    97/100 stars
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    ) Dhh1, B) Scd6, C) Xrn1, D) Lsm1-7 complex, E) Dcp1, F) Dcp2, and G) Pat1 C domain with the GST moiety cleaved with PreScission protease. The

    Journal: Molecular cell

    Article Title: Decapping activators in Saccharomyces cerevisiae act by multiple mechanisms

    doi: 10.1016/j.molcel.2010.08.025

    Figure Lengend Snippet: ) Dhh1, B) Scd6, C) Xrn1, D) Lsm1-7 complex, E) Dcp1, F) Dcp2, and G) Pat1 C domain with the GST moiety cleaved with PreScission protease. The

    Article Snippet: Purified yeast Xrn1 was purchased from NEB.

    Techniques:

    ALPH1ΔN has in vitro decapping activity, in the presence of an RNA 5’ polyphosphatase. Total trypanosome mRNA was treated with recombinant ALPH1 Δ N or Alph1 Δ N* as indicated, purified, treated with RNA 5’ polyphosphatase as indicated, purified, and finally treated with yeast Xrn1 as indicated. The RNA samples were analysed by northern blot probed for the SL RNA (red) and the 5.8S rRNA (green). For lane 4–7 of replicate 1, an overexposed blot of the 5.8S rRNA is shown to demonstrate equal loading. Data of two representative replicates are shown, out of a total of four replicates.

    Journal: PLoS Pathogens

    Article Title: The ApaH-like phosphatase TbALPH1 is the major mRNA decapping enzyme of trypanosomes

    doi: 10.1371/journal.ppat.1006456

    Figure Lengend Snippet: ALPH1ΔN has in vitro decapping activity, in the presence of an RNA 5’ polyphosphatase. Total trypanosome mRNA was treated with recombinant ALPH1 Δ N or Alph1 Δ N* as indicated, purified, treated with RNA 5’ polyphosphatase as indicated, purified, and finally treated with yeast Xrn1 as indicated. The RNA samples were analysed by northern blot probed for the SL RNA (red) and the 5.8S rRNA (green). For lane 4–7 of replicate 1, an overexposed blot of the 5.8S rRNA is shown to demonstrate equal loading. Data of two representative replicates are shown, out of a total of four replicates.

    Article Snippet: To each reaction, 10 μl NEB buffer 3 and 2 μl Ribolock were added and, if required, 2 μl recombinant yeast Xrn1 (NEB).

    Techniques: In Vitro, Activity Assay, Recombinant, Purification, Northern Blot

    XRN1 protein preferentially binds to sfRNA in Kunjin or Dengue virus infections. 293T cells were infected with Kunjin virus for 2 d or Dengue virus for 4 d. RNA–protein complexes were stabilized with formaldehyde and immunoprecipitated with XRN1

    Journal: RNA

    Article Title: A noncoding RNA produced by arthropod-borne flaviviruses inhibits the cellular exoribonuclease XRN1 and alters host mRNA stability

    doi: 10.1261/rna.034330.112

    Figure Lengend Snippet: XRN1 protein preferentially binds to sfRNA in Kunjin or Dengue virus infections. 293T cells were infected with Kunjin virus for 2 d or Dengue virus for 4 d. RNA–protein complexes were stabilized with formaldehyde and immunoprecipitated with XRN1

    Article Snippet: Approximately 30 fm of radioactive RNAs was incubated in HeLa or C6/36 cytoplasmic S100 extracts prepared as described previously ( ; ) under conditions that strongly favor 5′-to-3′ exonucleolytic decay ( ) or with recombinant yeast XRN1 protein (New England Biolabs) for the times indicated.

    Techniques: Infection, Immunoprecipitation

    Cellular mRNAs are stabilized upon XRN1 depletion. ( A ) XRN1 was depleted in 293T cells using specific XRN1 KD, or cells were treated with control (LKO.1) shRNA vectors. The bar graph illustrates the efficiency of XRN1 knockdown as measured by qRT-PCR.

    Journal: RNA

    Article Title: A noncoding RNA produced by arthropod-borne flaviviruses inhibits the cellular exoribonuclease XRN1 and alters host mRNA stability

    doi: 10.1261/rna.034330.112

    Figure Lengend Snippet: Cellular mRNAs are stabilized upon XRN1 depletion. ( A ) XRN1 was depleted in 293T cells using specific XRN1 KD, or cells were treated with control (LKO.1) shRNA vectors. The bar graph illustrates the efficiency of XRN1 knockdown as measured by qRT-PCR.

    Article Snippet: Approximately 30 fm of radioactive RNAs was incubated in HeLa or C6/36 cytoplasmic S100 extracts prepared as described previously ( ; ) under conditions that strongly favor 5′-to-3′ exonucleolytic decay ( ) or with recombinant yeast XRN1 protein (New England Biolabs) for the times indicated.

    Techniques: shRNA, Quantitative RT-PCR

    sfRNA formation inhibits the cellular exoribonuclease XRN1. A radiolabeled RNA containing a 5′ monophosphate (Reporter) was incubated for the time indicated in HeLa ( A ) or C6/36 ( B ) cytoplasmic extract under conditions that favor 5′-to-3′

    Journal: RNA

    Article Title: A noncoding RNA produced by arthropod-borne flaviviruses inhibits the cellular exoribonuclease XRN1 and alters host mRNA stability

    doi: 10.1261/rna.034330.112

    Figure Lengend Snippet: sfRNA formation inhibits the cellular exoribonuclease XRN1. A radiolabeled RNA containing a 5′ monophosphate (Reporter) was incubated for the time indicated in HeLa ( A ) or C6/36 ( B ) cytoplasmic extract under conditions that favor 5′-to-3′

    Article Snippet: Approximately 30 fm of radioactive RNAs was incubated in HeLa or C6/36 cytoplasmic S100 extracts prepared as described previously ( ; ) under conditions that strongly favor 5′-to-3′ exonucleolytic decay ( ) or with recombinant yeast XRN1 protein (New England Biolabs) for the times indicated.

    Techniques: Incubation

    XRN1 stalls at the 5′ border of the Dengue virus 3′ UTR to generate sfRNAs. Radiolabeled reporter RNAs derived from a pGem4 template (Reporter Only) or RNAs from the same plasmid containing the stem–loop 1 region of the 3′

    Journal: RNA

    Article Title: A noncoding RNA produced by arthropod-borne flaviviruses inhibits the cellular exoribonuclease XRN1 and alters host mRNA stability

    doi: 10.1261/rna.034330.112

    Figure Lengend Snippet: XRN1 stalls at the 5′ border of the Dengue virus 3′ UTR to generate sfRNAs. Radiolabeled reporter RNAs derived from a pGem4 template (Reporter Only) or RNAs from the same plasmid containing the stem–loop 1 region of the 3′

    Article Snippet: Approximately 30 fm of radioactive RNAs was incubated in HeLa or C6/36 cytoplasmic S100 extracts prepared as described previously ( ; ) under conditions that strongly favor 5′-to-3′ exonucleolytic decay ( ) or with recombinant yeast XRN1 protein (New England Biolabs) for the times indicated.

    Techniques: Derivative Assay, Plasmid Preparation

    Uncapped mRNAs accumulate in flavivirus-infected cells due to XRN1 inhibition by sfRNA formation. 293T cells were either mock-treated or infected with Dengue virus (DenV) ( A ), Kunjin virus (KUN) ( B ), or a Kunjin virus mutant that cannot make sfRNA (KUN

    Journal: RNA

    Article Title: A noncoding RNA produced by arthropod-borne flaviviruses inhibits the cellular exoribonuclease XRN1 and alters host mRNA stability

    doi: 10.1261/rna.034330.112

    Figure Lengend Snippet: Uncapped mRNAs accumulate in flavivirus-infected cells due to XRN1 inhibition by sfRNA formation. 293T cells were either mock-treated or infected with Dengue virus (DenV) ( A ), Kunjin virus (KUN) ( B ), or a Kunjin virus mutant that cannot make sfRNA (KUN

    Article Snippet: Approximately 30 fm of radioactive RNAs was incubated in HeLa or C6/36 cytoplasmic S100 extracts prepared as described previously ( ; ) under conditions that strongly favor 5′-to-3′ exonucleolytic decay ( ) or with recombinant yeast XRN1 protein (New England Biolabs) for the times indicated.

    Techniques: Infection, Inhibition, Mutagenesis

    ZIKV 3′-UTR stalls and represses the activity of the host cell 5′–3′-exoribonuclease XRN1. A, radiolabeled, 5′-monophosphorylated control ( CTRL ) RNA or RNAs containing the intact ZIKV 3′-UTR or with mutations that debilitate the first ( MUT1 ), second ( MUT2 ), or both ( DM ) structures that lead to the formation of sfRNAs in cells were incubated with either recombinant XRN1, C6/36 mosquito cytoplasmic extract, or HeLa cytoplasmic extract for the indicated amount of time. Reaction products were analyzed on a 5% denaturing acrylamide gel and quantified by phosphorimaging. The position of size markers is indicated on the left. B , 61 base-radiolabeled reporter RNA derived from pGEM4 was incubated with XRN1 (derived from HeLa extract) in the presence of a 20× excess of a cold competitor RNA derived from either pGEM4 ( control RNA lanes ), the DENV-2 3′ UTR ( DENV 3′ UTR lanes ), the ZIKV 3′ UTR ( ZIKV 3′ UTR lanes ), or the ZIKV 3′ UTR containing mutations that prohibit sfRNA formation ( ZIKV DM lanes ) for the times indicated. Radiolabeled reaction products derived from XRN1 acting on the reporter RNA were resolved on a 5% acrylamide gel containing urea and visualized by phosphorimaging. Gels from three independent experiments were quantified, and results are shown graphically in the lower panel . The asterisk represents a p value of

    Journal: The Journal of Biological Chemistry

    Article Title: Zika virus noncoding sfRNAs sequester multiple host-derived RNA-binding proteins and modulate mRNA decay and splicing during infection

    doi: 10.1074/jbc.RA119.009129

    Figure Lengend Snippet: ZIKV 3′-UTR stalls and represses the activity of the host cell 5′–3′-exoribonuclease XRN1. A, radiolabeled, 5′-monophosphorylated control ( CTRL ) RNA or RNAs containing the intact ZIKV 3′-UTR or with mutations that debilitate the first ( MUT1 ), second ( MUT2 ), or both ( DM ) structures that lead to the formation of sfRNAs in cells were incubated with either recombinant XRN1, C6/36 mosquito cytoplasmic extract, or HeLa cytoplasmic extract for the indicated amount of time. Reaction products were analyzed on a 5% denaturing acrylamide gel and quantified by phosphorimaging. The position of size markers is indicated on the left. B , 61 base-radiolabeled reporter RNA derived from pGEM4 was incubated with XRN1 (derived from HeLa extract) in the presence of a 20× excess of a cold competitor RNA derived from either pGEM4 ( control RNA lanes ), the DENV-2 3′ UTR ( DENV 3′ UTR lanes ), the ZIKV 3′ UTR ( ZIKV 3′ UTR lanes ), or the ZIKV 3′ UTR containing mutations that prohibit sfRNA formation ( ZIKV DM lanes ) for the times indicated. Radiolabeled reaction products derived from XRN1 acting on the reporter RNA were resolved on a 5% acrylamide gel containing urea and visualized by phosphorimaging. Gels from three independent experiments were quantified, and results are shown graphically in the lower panel . The asterisk represents a p value of

    Article Snippet: Approximately 30 femtomoles of radioactive RNAs was incubated with either recombinant yeast XRN1 protein (New England Biolabs), HeLa cytoplasmic extracts, or C6/36 cytoplasmic S100 extracts prepared as described previously ( – ) under conditions that promote 5′–3′-exonucleolytic decay ( ).

    Techniques: Activity Assay, Incubation, Recombinant, Acrylamide Gel Assay, Derivative Assay