ArticleBMC genomics2007
A first generation BAC-based physical map of the channel catfish genome.
Article in BMC genomics, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
31 citing papers in PubMed.
- A Comprehensive Annotation of the Channel Catfish (Frontiers in immunology · 2021Article
- Comparison of Channel Catfish and Blue Catfish Gut Microbiota Assemblages Shows Minimal Effects of Host Genetics on Microbial Structure and Inferred Function.Frontiers in microbiology · 2018Article
- Metallothionein from Wild Populations of the African Catfish Clarias gariepinus: From Sequence, Protein Expression and Metal Binding Properties to Transcriptional Biomarker of Metal Pollution.International journal of molecular sciences · 2017Article
- Aquaculture genomics, genetics and breeding in the United States: current status, challenges, and priorities for future research.BMC genomics · 2017Review
- Development of a 690 K SNP array in catfish and its application for genetic mapping and validation of the reference genome sequence.Scientific reports · 2017Article
- Comparative mapping for bighead carp (Aristichthys nobilis) against model and non-model fishes provides insights into the genomic evolution of cyprinids.Molecular genetics and genomics : MGG · 2015Article
- Construction of a high-density, high-resolution genetic map and its integration with BAC-based physical map in channel catfish.DNA research : an international journal for rapid publication of reports on genes and genomes · 2015Article
- A first generation BAC-based physical map of the half-smooth tongue sole (Cynoglossus semilaevis) genome.BMC genomics · 2014Article
- Whole genome comparative analysis of channel catfish (Ictalurus punctatus) with four model fish species.BMC genomics · 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
- Generation of physical map contig-specific sequences useful for whole genome sequence scaffolding.PloS one · 2013Article
- Second-generation genetic linkage map of catfish and its integration with the BAC-based physical map.G3 (Bethesda, Md.) · 2012Article
- A second generation integrated map of the rainbow trout (Oncorhynchus mykiss) genome: analysis of conserved synteny with model fish genomes.Marine biotechnology (New York, N.Y.) · 2012Article
- Article
- Generation of the first BAC-based physical map of the common carp genome.BMC genomics · 2011Article
- Enhancing genome investigations in the mosquito Culex quinquefasciatus via BAC library construction and characterization.BMC research notes · 2011Article
- A first generation integrated map of the rainbow trout genome.BMC genomics · 2011Article
- Article
- The catfish genome database cBARBEL: an informatic platform for genome biology of ictalurid catfish.Nucleic acids research · 2011Article
- Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundChannel catfish, Ictalurus punctatus, is the leading species in North American aquaculture. Genetic improvement of catfish is performed through selective breeding, and genomic tools will help improve selection efficiency. A physical map is needed to integrate the genetic map with the karyotype and to support fine mapping of phenotypic trait alleles such as Quantitative Trait Loci (QTL) and the effective positional cloning of genes.
resultsA genome-wide physical map of the channel catfish was constructed by High-Information-Content Fingerprinting (HICF) of 46,548 Bacterial Artificial Chromosomes (BAC) clones using the SNaPshot technique. The clones were assembled into contigs with FPC software. The resulting assembly contained 1,782 contigs and covered an estimated physical length of 0.93 Gb. The validity of the assembly was demonstrated by 1) anchoring 19 of the largest contigs to the microsatellite linkage map 2) comparing the assembly of a multi-gene family to Restriction Fragment Length Polymorphism (RFLP) patterns seen in Southern blots, and 3) contig sequencing.
conclusionThis is the first physical map for channel catfish. The HICF technique allowed the project to be finished with a limited amount of human resource in a high throughput manner. This physical map will greatly facilitate the detailed study of many different genomic regions in channel catfish, and the positional cloning of genes controlling economically important production traits.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
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.