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A Defined Zebrafish Line for High-Throughput Genetics and Genomics: NHGRI-1

Matthew C. LaFave, Gaurav K. Varshney, Meghana Vemulapalli, James C. Mullikin and Shawn M. Burgess
Genetics Early online July 10, 2014; https://doi.org/10.1534/genetics.114.166769
Matthew C. LaFave
NHGRI, National Institutes of Health
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Gaurav K. Varshney
NHGRI, National Institutes of Health
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Meghana Vemulapalli
NHGRI, National Institutes of Health
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James C. Mullikin
NHGRI, National Institutes of Health
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Shawn M. Burgess
NHGRI, National Institutes of Health
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Abstract

Substantial intra-strain variation at the nucleotide level complicates molecular and genetic studies in zebrafish, such as the use of CRISPRs or morpholinos to inactivate genes. In the absence of robust inbred zebrafish lines, we generated NHGRI-1, a healthy and fecund strain derived from founder parents we sequenced to a depth of ~50x. Within this strain, we have identified the majority of the genome that matches the reference sequence, and documented most of the variants. This strain has utility for many reasons, but in particular it will be useful for any researcher who needs to know the exact sequence (with all variants) of a particular genomic region, or who wants to be able to robustly map sequences back to a genome with all possible variants defined.

  • CRISPR
  • SNV
  • genome sequence
  • variants
  • zebrafish
  • Received May 30, 2014.
  • Accepted June 28, 2014.
  • Copyright © 2014, The Genetics Society of America
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Volume 208 Issue 4, April 2018

Genetics: 208 (4)

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A Defined Zebrafish Line for High-Throughput Genetics and Genomics: NHGRI-1

Matthew C. LaFave, Gaurav K. Varshney, Meghana Vemulapalli, James C. Mullikin and Shawn M. Burgess
Genetics Early online July 10, 2014; https://doi.org/10.1534/genetics.114.166769
Matthew C. LaFave
NHGRI, National Institutes of Health
  • Find this author on Google Scholar
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Gaurav K. Varshney
NHGRI, National Institutes of Health
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Meghana Vemulapalli
NHGRI, National Institutes of Health
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James C. Mullikin
NHGRI, National Institutes of Health
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Shawn M. Burgess
NHGRI, National Institutes of Health
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  • For correspondence: burgess@mail.nih.gov
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Citation

A Defined Zebrafish Line for High-Throughput Genetics and Genomics: NHGRI-1

Matthew C. LaFave, Gaurav K. Varshney, Meghana Vemulapalli, James C. Mullikin and Shawn M. Burgess
Genetics Early online July 10, 2014; https://doi.org/10.1534/genetics.114.166769
Matthew C. LaFave
NHGRI, National Institutes of Health
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Gaurav K. Varshney
NHGRI, National Institutes of Health
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Meghana Vemulapalli
NHGRI, National Institutes of Health
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
James C. Mullikin
NHGRI, National Institutes of Health
  • Find this author on Google Scholar
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  • Search for this author on this site
Shawn M. Burgess
NHGRI, National Institutes of Health
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • For correspondence: burgess@mail.nih.gov

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