PUBLICATION

A large-scale zebrafish gene knockout resource for the genome-wide study of gene function

Authors
Varshney, G.K., Lu, J., Gildea, D., Huang, H., Pei, W., Yang, Z., Huang, S.C., Schoenfeld, D.S., Pho, N., Casero, D., Hirase, T., Mosbrook-Davis, D.M., Zhang, S., Jao, L.E., Zhang, B., Woods, I.G., Zimmerman, S., Schier, A.F., Wolfsberg, T., Pellegrini, M., Burgess, S.M., and Lin, S.
ID
ZDB-PUB-130221-6
Date
2013
Source
Genome research   23(4): 727-735 (Journal)
Registered Authors
Burgess, Shawn, Huang, Haigen, Jao, Li-En, Lin, Shuo, Pei, Wuhong, Schier, Alexander, Varshney, Gaurav, Woods, Ian G., Yang, Zhongan, Zhang, Bo, Zimmerman, Steve
Keywords
none
MeSH Terms
  • Alleles
  • Animals
  • Chromosome Mapping/methods
  • Computational Biology/methods
  • Gammaretrovirus/physiology
  • Gene Knockout Techniques*
  • Genome-Wide Association Study*
  • Genomics*
  • Molecular Sequence Annotation
  • Mutagenesis, Insertional
  • Mutation
  • Phenotype
  • Virus Integration
  • Zebrafish/genetics*
PubMed
23382537 Full text @ Genome Res.
Abstract

With the completion of zebrafish genome sequencing project, it becomes possible to analyze the function of zebrafish genes in a systematic way. The first step in such an analysis is to inactivate each protein-coding gene by targeted or random mutation. Here we describe a streamlined pipeline using proviral insertions coupled with high-throughput sequencing and mapping technologies to widely mutagenize genes in the zebrafish genome. We also report the first 6,144 mutagenized and archived F1s predicted to carry up to 3,776 mutations in annotated genes. Using in vitro fertilization, we have rescued and characterized roughly 0.5% of the predicted mutations, showing mutation efficacy and a variety of phenotypes relevant to both developmental processes and human genetic diseases. Mutagenized fish lines are being made freely available to the public through the Zebrafish International Resource Center. These fish lines establish an important milestone for zebrafish genetics research and should greatly facilitate systematic functional studies of the vertebrate genome.

Genes / Markers
Figures
Expression
Phenotype
Mutation and Transgenics
Human Disease / Model Data
Sequence Targeting Reagents
Fish
Antibodies
Orthology
Engineered Foreign Genes
Mapping
Errata and Notes