ArticleBMC genomics2011
A first generation integrated map of the rainbow trout genome.
Article in BMC genomics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.
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Who cites it
32 citing papers in PubMed.
- BAC-FISH Based Physical Map of Endangered CatfishInternational journal of molecular sciences · 2022Article
- High-throughput sequencing reveals microRNAs in response to heat stress in the head kidney of rainbow trout (Oncorhynchus mykiss).Functional & integrative genomics · 2019Article
- Review
- Standardized IMGT® Nomenclature of Salmonidae IGH Genes, the Paradigm of Atlantic Salmon and Rainbow Trout: From Genomics to Repertoires.Frontiers in immunology · 2019Article
- Population genetic analysis of aquaculture salmonid populations in China using a 57K rainbow trout SNP array.PloS one · 2018Article
- Using Linkage Maps as a Tool To Determine Patterns of Chromosome Synteny in the GenusG3 (Bethesda, Md.) · 2017Article
- Transcriptome assembly, gene annotation and tissue gene expression atlas of the rainbow trout.PloS one · 2015Article
- A high-density linkage map for Astyanax mexicanus using genotyping-by-sequencing technology.G3 (Bethesda, Md.) · 2014Article
- Association mapping of disease resistance traits in rainbow trout using restriction site associated DNA sequencing.G3 (Bethesda, Md.) · 2014Article
- Consolidation of the genetic and cytogenetic maps of turbot (Scophthalmus maximus) using FISH with BAC clones.Chromosoma · 2014Article
- Detection of QTL in rainbow trout affecting survival when challenged with Flavobacterium psychrophilum.Marine biotechnology (New York, N.Y.) · 2014Article
- The rainbow trout genome provides novel insights into evolution after whole-genome duplication in vertebrates.Nature communications · 2014Article
- A first generation BAC-based physical map of the half-smooth tongue sole (Cynoglossus semilaevis) genome.BMC genomics · 2014Article
- Characterization of the rainbow trout spleen transcriptome and identification of immune-related genes.Frontiers in genetics · 2014Article
- Genetics and genomics of disease resistance in salmonid species.Frontiers in genetics · 2014Review
- Identification of single nucleotide polymorphisms from the transcriptome of an organism with a whole genome duplication.BMC bioinformatics · 2013Article
- Whole genome comparative analysis of channel catfish (Ictalurus punctatus) with four model fish species.BMC genomics · 2013Article
- Evaluating adaptive divergence between migratory and nonmigratory ecotypes of a salmonid fish, Oncorhynchus mykiss.G3 (Bethesda, Md.) · 2013Article
- Comparative genomic analysis of catfish linkage group 8 reveals two homologous chromosomes in zebrafish and other teleosts with extensive inter-chromosomal rearrangements.BMC genomics · 2013Article
- Article
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Authors and funding
12 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundRainbow trout (Oncorhynchus mykiss) are the most-widely cultivated cold freshwater fish in the world and an important model species for many research areas. Coupling great interest in this species as a research model with the need for genetic improvement of aquaculture production efficiency traits justifies the continued development of genomics research resources. Many quantitative trait loci (QTL) have been identified for production and life-history traits in rainbow trout. An integrated physical and genetic map is needed to facilitate fine mapping of QTL and the selection of positional candidate genes for incorporation in marker-assisted selection (MAS) programs for improving rainbow trout aquaculture production.
resultsThe first generation integrated map of the rainbow trout genome is composed of 238 BAC contigs anchored to chromosomes of the genetic map. It covers more than 10% of the genome across segments from all 29 chromosomes. Anchoring of 203 contigs to chromosomes of the National Center for Cool and Cold Water Aquaculture (NCCCWA) genetic map was achieved through mapping of 288 genetic markers derived from BAC end sequences (BES), screening of the BAC library with previously mapped markers and matching of SNPs with BES reads. In addition, 35 contigs were anchored to linkage groups of the INRA (French National Institute of Agricultural Research) genetic map through markers that were not informative for linkage analysis in the NCCCWA mapping panel. The ratio of physical to genetic linkage distances varied substantially among chromosomes and BAC contigs with an average of 3,033 Kb/cM.
conclusionsThe integrated map described here provides a framework for a robust composite genome map for rainbow trout. This resource is needed for genomic analyses in this research model and economically important species and will facilitate comparative genome mapping with other salmonids and with model fish species. This resource will also facilitate efforts to assemble a whole-genome reference sequence for rainbow trout.
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