title: A defined zebrafish line for high-throughput genetics and genomics: NHGRI-1.
abstract: Substantial intrastrain 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 ∼50×. 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.
authors.affiliation: Developmental Genomics Section, Translational and Functional Genomics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, Maryland 20892.
authors.forename: Matthew C
authors.initials: MC
authors.lastname: LaFave
authors.affiliation: Developmental Genomics Section, Translational and Functional Genomics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, Maryland 20892.
authors.forename: Gaurav K
authors.initials: GK
authors.lastname: Varshney
authors.affiliation: National Institutes of Health Intramural Sequencing Center, National Human Genome Research Institute, National Institutes of Health, Bethesda, Maryland 20814.
authors.forename: Meghana
authors.initials: M
authors.lastname: Vemulapalli
authors.affiliation: National Institutes of Health Intramural Sequencing Center, National Human Genome Research Institute, National Institutes of Health, Bethesda, Maryland 20814 Comparative Genomics Analysis Unit, Cancer Genetics and Comparative Genomics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, Maryland 20814.
authors.forename: James C
authors.initials: JC
authors.lastname: Mullikin
authors.affiliation: Developmental Genomics Section, Translational and Functional Genomics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, Maryland 20892 burgess@mail.nih.gov.
authors.forename: Shawn M
authors.initials: SM
authors.lastname: Burgess
mesh_terms: D000818:Animals; D017849:Animals, Inbred Strains; D023281:Genomics / Q000379:methods*; D057166:High-Throughput Screening Assays / Q000379:methods*; D015027:Zebrafish / Q000235:genetics*
keywords: CRISPR; SNV; genome sequence; variants; zebrafish