ArticleBMC genomics2005
Fish and chips: various methodologies demonstrate utility of a 16,006-gene salmonid microarray.
Article in BMC genomics, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 62 papers, 1 of them a synthesis that pooled it.
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Who cites it
62 citing papers in PubMed, 1 synthesis or guideline pooled it, 205 citations in OpenAlex.
- Sensitive and robust gene expression changes in fish exposed to estrogen--a microarray approach.BMC genomics · 2007Pooled it
- Genotyping of Two Mediterranean Trout Populations in Central-Southern Italy for Conservation Purposes Using a Rainbow-Trout-Derived SNP Array.Animals : an open access journal from MDPI · 2021Article
- De novo transcriptome assembly, annotation and comparison of four ecological and evolutionary model salmonid fish species.BMC genomics · 2018Article
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- Zebra Fish Lacking Adaptive Immunity Acquire an Antiviral Alert State Characterized by Upregulated Gene Expression of Apoptosis, Multigene Families, and Interferon-Related Genes.Frontiers in immunology · 2017Article
- Comparison of growth-related traits and gene expression profiles between the offspring of neomale (XX) and normal male (XY) rainbow trout.Marine biotechnology (New York, N.Y.) · 2015Article
- Divergence in expression of candidate genes for the smoltification process between juvenile resident rainbow and anadromous steelhead trout.Marine biotechnology (New York, N.Y.) · 2014Article
- A comparison of gene transcription profiles of domesticated and wild Atlantic salmon (Salmo salar L.) at early life stages, reared under controlled conditions.BMC genomics · 2014Article
- Identification of a gene set to evaluate the potential effects of loud sounds from seismic surveys on the ears of fishes: a study with Salmo salar.Journal of fish biology · 2014Article
- Differential gene expression in small and large rainbow trout derived from two seasonal spawning groups.BMC genomics · 2014Article
- Genetics and genomics of disease resistance in salmonid species.Frontiers in genetics · 2014Review
- Local adaptation at the transcriptome level in brown trout: evidence from early life history temperature genomic reaction norms.PloS one · 2014Article
- Gene expression and pathologic alterations in juvenile rainbow trout due to chronic dietary TCDD exposure.Aquatic toxicology (Amsterdam, Netherlands) · 2013Article
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- Differential gene expression associated with dietary methylmercury (MeHg) exposure in rainbow trout (Oncorhynchus mykiss) and zebrafish (Danio rerio).Ecotoxicology (London, England) · 2013Article
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- Microarray gene expression profiles from mature gonad tissues of Atlantic bluefin tuna, Thunnus thynnus in the Gulf of Mexico.BMC genomics · 2012Article
- Evolutionary insights into scleractinian corals using comparative genomic hybridizations.BMC genomics · 2012Article
- Consequences of high temperatures and premature mortality on the transcriptome and blood physiology of wild adult sockeye salmon (Oncorhynchus nerka).Ecology and evolution · 2012Article
- Generation of a reference transcriptome for evaluating rainbow trout responses to various stressors.BMC genomics · 2011Article
2 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundWe have developed and fabricated a salmonid microarray containing cDNAs representing 16,006 genes. The genes spotted on the array have been stringently selected from Atlantic salmon and rainbow trout expressed sequence tag (EST) databases. The EST databases presently contain over 300,000 sequences from over 175 salmonid cDNA libraries derived from a wide variety of tissues and different developmental stages. In order to evaluate the utility of the microarray, a number of hybridization techniques and screening methods have been developed and tested.
resultsWe have analyzed and evaluated the utility of a microarray containing 16,006 (16K) salmonid cDNAs in a variety of potential experimental settings. We quantified the amount of transcriptome binding that occurred in cross-species, organ complexity and intraspecific variation hybridization studies. We also developed a methodology to rapidly identify and confirm the contents of a bacterial artificial chromosome (BAC) library containing Atlantic salmon genomic DNA.
conclusionWe validate and demonstrate the usefulness of the 16K microarray over a wide range of teleosts, even for transcriptome targets from species distantly related to salmonids. We show the potential of the use of the microarray in a variety of experimental settings through hybridization studies that examine the binding of targets derived from different organs and tissues. Intraspecific variation in transcriptome expression is evaluated and discussed. Finally, BAC hybridizations are demonstrated as a rapid and accurate means to identify gene content.
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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.