Evidence map›Paper›PMID 31407282›Full record

ArticleMethods in molecular biology (Clifton, N.J.)2019

Live-Cell Imaging of mRNP-NPC Interactions in Budding Yeast.

Azra Lari, Farzin Farzam, Pierre Bensidoun, Marlene Oeffinger, Daniel Zenklusen, David Grunwald, Ben Montpetit

Open access · greenAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Methods in molecular biology (Clifton, N.J.), 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
1.3field-weighted citation impact, top 17% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

3 citing papers in PubMed, 4 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

7 authors at 5 institutions in 2 countries.

Azra LariDepartment of Cell Biology, University of Alberta, Edmonton, Canada.
Farzin FarzamRNA Therapeutics Institute, University of Massachusetts Medical School, Worcester, MA, USA.
Pierre BensidounDépartement de Biochimie et Médecine Moléculaire, Université de Montréal, Montréal, QC, Canada.
Marlene OeffingerDépartement de Biochimie et Médecine Moléculaire, Université de Montréal, Montréal, QC, Canada.
Daniel ZenklusenDépartement de Biochimie et Médecine Moléculaire, Université de Montréal, Montréal, QC, Canada.
David GrunwaldRNA Therapeutics Institute, University of Massachusetts Medical School, Worcester, MA, USA.
Ben MontpetitDepartment of Cell Biology, University of Alberta, Edmonton, Canada. ben.montpetit@ucdavis.edu.
Université de Montréal · CAUniversity of Massachusetts Chan Medical School · USMontreal Clinical Research Institute · CAUniversity of Alberta · CAUniversity of California, Davis · US

Funding

Function and Regulation of a DEAD-box protein in mRNA ExportR01GM124120 · NIGMS · UNIVERSITY OF CALIFORNIA AT DAVIS · PI MONTPETIT, BENJAMEN H.W. · 2017 to 2021
$2.0M
Canonical and non-canonical nuclear HIV-RNA gene export in living cellsR01GM123541 · NIGMS · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI GRUNWALD, DAVID · 2016 to 2019
$1.3M
Visualizing local and global chromatin architecture, and gene expression in the individual cell by structural (SUSHI) and temporal (3D-SMRT) single molecule imagingU01DA047733 · NIDA · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI GRUNWALD, DAVID · 2018 to 2019
$1.0M
Visualizing local and global chromatin architecture, and gene expression in the individual cell by structural (SUSHI) and temporal (3D-SMRT) single molecule imagingU01EB021238 · NIBIB · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI GRUNWALD, DAVID · 2015 to 2017
$990k
CIHR 366682NIBIB NIH HHS U01 EB021238NIDA NIH HHS U01 DA047733NIGMS NIH HHS R01 GM123541NIGMS NIH HHS R01 GM124120
6 · The paper itself

Abstract

Single-molecule resolution imaging has become an important tool in the study of cell biology. Aptamer-based approaches (e.g., MS2 and PP7) allow for detection of single RNA molecules in living cells and have been used to study various aspects of mRNA metabolism, including mRNP nuclear export. Here we outline an imaging protocol for the study of interactions between mRNPs and nuclear pore complexes (NPCs) in the yeast S. cerevisiae, including mRNP export. We describe in detail the steps that allow for high-resolution live-cell mRNP imaging and measurement of mRNP interactions with NPCs using simultaneous two-color imaging. Our protocol discusses yeast strain construction, choice of marker proteins to label the nuclear pore complex, as well as imaging conditions that allow high signal-to-noise data acquisition. Moreover, we describe various aspects of postacquisition image analysis for single molecule tracking and image registration allowing for the characterization of mRNP-NPC interactions.

Indexed as

Microscopy, FluorescenceActive Transport, Cell NucleusGene Expression Regulation, FungalMolecular ImagingNuclear PoreRecombinant Fusion ProteinsRibonucleoproteinsSaccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsSingle Molecule ImagingTime Factorsmessenger ribonucleoproteinRecombinant Fusion ProteinsRibonucleoproteinsSaccharomyces cerevisiae ProteinsBudding yeastFluorescent imagingLive-cell imagingmRNP exportNPCNuclear pore complexPP7S. cerevisiaeSingle moleculeSuperregistration

Identifiers

PMID31407282
PMCPMC7392168
OpenAlexW2968297149

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.