Evidence map›Paper›PMID 25533206›Full record

ArticleDevelopmental cell2015

Reverse genetic screening reveals poor correlation between morpholino-induced and mutant phenotypes in zebrafish.

F O Kok, M Shin, C-W Ni, A Gupta, A S Grosse, A van Impel, B C Kirchmaier, J Peterson-Maduro, G Kourkoulis, I Male and 7 more

Open access · bronzeAbstract read
In one paragraph

Article in Developmental cell, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 440 papers.

0numbers the graph read from it
0cells of the map it votes in
440citing papers in PubMed
42.4field-weighted citation impact, top 1% 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

440 citing papers in PubMed, 770 citations in OpenAlex.

  1. Review
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380 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

17 authors at 4 institutions in 4 countries.

F O Kok *Program in Gene Function and Expression, University of Massachusetts Medical School, Worcester, MA 01605, USA.
M Shin *Program in Gene Function and Expression, University of Massachusetts Medical School, Worcester, MA 01605, USA.
C-W Ni *Program in Gene Function and Expression, University of Massachusetts Medical School, Worcester, MA 01605, USA.
A GuptaProgram in Gene Function and Expression, University of Massachusetts Medical School, Worcester, MA 01605, USA.
A S GrosseProgram in Gene Function and Expression, University of Massachusetts Medical School, Worcester, MA 01605, USA.
A van ImpelHubrecht Institute - KNAW & UMC Utrecht, 3584CT Utrecht, Netherlands.
B C KirchmaierHubrecht Institute - KNAW & UMC Utrecht, 3584CT Utrecht, Netherlands.
J Peterson-MaduroHubrecht Institute - KNAW & UMC Utrecht, 3584CT Utrecht, Netherlands.
G KourkoulisProgram in Gene Function and Expression, University of Massachusetts Medical School, Worcester, MA 01605, USA.
I MaleProgram in Gene Function and Expression, University of Massachusetts Medical School, Worcester, MA 01605, USA.
D F DeSantisProgram in Gene Function and Expression, University of Massachusetts Medical School, Worcester, MA 01605, USA.
S Sheppard-TindellProgram in Gene Function and Expression, University of Massachusetts Medical School, Worcester, MA 01605, USA.
L EbarasiUppsala University, Department of Immunology, Genetics, and Pathology, Rudbeck Laboratory, 751 85 Uppsala, Sweden.
C BetsholtzUppsala University, Department of Immunology, Genetics, and Pathology, Rudbeck Laboratory, 751 85 Uppsala, Sweden.
S Schulte-MerkerHubrecht Institute - KNAW & UMC Utrecht, 3584CT Utrecht, Netherlands.
S A WolfeProgram in Gene Function and Expression, University of Massachusetts Medical School, Worcester, MA 01605, USA.
N D LawsonProgram in Gene Function and Expression, University of Massachusetts Medical School, Worcester, MA 01605, USA.
University of Massachusetts Chan Medical School · USHubrecht Institute for Developmental Biology and Stem Cell Research · NLKarolinska Institutet · SEUniversity of Münster · DE

Funding

TRAINING PROGRAM IN ORGANOGENESIST32HD007505 · NICHD · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI PASCA DI MAGLIANO, MARINA, SPENCE, JASON · 1997 to 2021
$6.9M
Using zinc finger nucleases to manipulate the zebrafish genomeR01HL093766 · NHLBI · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI LAWSON, NATHAN D, WOLFE, SCOT A · 2008 to 2017
$4.1M
Transdisciplinary Training In Cardiovascular ResearchT32HL120823 · NHLBI · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI DONAHUE, J KEVIN, KIEFE, CATARINA I. · 2014 to 2025
$3.9M
Transgenic screen for artery development mutantsR01HL079266 · NHLBI · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI LAWSON, NATHAN D · 2004 to 2013
$3.5M
Transcriptional Control of Endothelial DifferentiationR01HL101374 · NHLBI · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI LAWSON, NATHAN D · 2010 to 2013
$1.6M
NHLBI NIH HHS R01 HL079266NHLBI NIH HHS R01HL079266NHLBI NIH HHS R01 HL093766NHLBI NIH HHS R01HL093766NHLBI NIH HHS R01 HL101374NHLBI NIH HHS R01HL101374NHLBI NIH HHS T32 HL120823NICHD NIH HHS T32 HD007505
6 · The paper itself

Abstract

The widespread availability of programmable site-specific nucleases now enables targeted gene disruption in the zebrafish. In this study, we applied site-specific nucleases to generate zebrafish lines bearing individual mutations in more than 20 genes. We found that mutations in only a small proportion of genes caused defects in embryogenesis. Moreover, mutants for ten different genes failed to recapitulate published Morpholino-induced phenotypes (morphants). The absence of phenotypes in mutant embryos was not likely due to maternal effects or failure to eliminate gene function. Consistently, a comparison of published morphant defects with the Sanger Zebrafish Mutation Project revealed that approximately 80% of morphant phenotypes were not observed in mutant embryos, similar to our mutant collection. Based on these results, we suggest that mutant phenotypes become the standard metric to define gene function in zebrafish, after which Morpholinos that recapitulate respective phenotypes could be reliably applied for ancillary analyses.

Indexed as

AnimalsBlotting, WesternDeoxyribonucleasesGene Expression RegulationGene Expression Regulation, DevelopmentalGene Knockdown TechniquesMorpholinosMutationOligonucleotides, AntisensePhenotypeReal-Time Polymerase Chain ReactionReverse Transcriptase Polymerase Chain ReactionRNA, MessengerZebrafishZebrafish ProteinsDeoxyribonucleasesMorpholinosOligonucleotides, AntisenseRNA, MessengerZebrafish Proteins

Identifiers

PMID25533206
PMCPMC4487878
OpenAlexW2136963255

What OpenQuestion holds

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Read underepoch 390

Registered trials

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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.