ArticleBMC genetics2009
Estimates of linkage disequilibrium and effective population size in rainbow trout.
Article in BMC genetics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 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
22 citing papers in PubMed.
- Genetic dissection of the root system architecture QTLome and its relationship with early shoot development, breeding and adaptation in durum wheat.The plant genome · 2025Article
- Genetic Diversity within a Collection of Italian Maize Inbred Lines: A Resource for Maize Genomics and Breeding.Plants (Basel, Switzerland) · 2024Article
- Genomic predictions for fillet yield and firmness in rainbow trout using reduced-density SNP panels.BMC genomics · 2021Article
- Genome-Wide Association Study and Gene Specific Markers Identified 51 Genes or QTL for Resistance to Stripe Rust in U.S. Winter Wheat Cultivars and Breeding Lines.Frontiers in plant science · 2020Article
- The Global Durum Wheat Panel (GDP): An International Platform to Identify and Exchange Beneficial Alleles.Frontiers in plant science · 2020Article
- Assessing Accuracy of Genomic Predictions for Resistance to Infectious Hematopoietic Necrosis Virus With Progeny Testing of Selection Candidates in a Commercial Rainbow Trout Breeding Population.Frontiers in veterinary science · 2020Article
- Genome-wide estimates of genetic diversity, inbreeding and effective size of experimental and commercial rainbow trout lines undergoing selective breeding.Genetics, selection, evolution : GSE · 2019Article
- Linkage disequilibrium and within-breed genetic diversity in Iranian Zandi sheep.Archives animal breeding · 2019Article
- Whole Genome Linkage Disequilibrium and Effective Population Size in a Coho Salmon (Frontiers in genetics · 2019Article
- Genome-Wide Patterns of Population Structure and Linkage Disequilibrium in Farmed Nile Tilapia (Frontiers in genetics · 2019Article
- Population Genomic Structure and Genome-Wide Linkage Disequilibrium in Farmed Atlantic Salmon (Frontiers in genetics · 2018Article
- Comparative Aerial and Ground Based High Throughput Phenotyping for the Genetic Dissection of NDVI as a Proxy for Drought Adaptive Traits in Durum Wheat.Frontiers in plant science · 2018Article
- Genome-wide association mapping reveals a rich genetic architecture of stripe rust resistance loci in emmer wheat (Triticum turgidum ssp. dicoccum).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2017Article
- Genome-wide association mapping for seedling and field resistance to Puccinia striiformis f. sp. tritici in elite durum wheat.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2017Article
- Genomic selection models double the accuracy of predicted breeding values for bacterial cold water disease resistance compared to a traditional pedigree-based model in rainbow trout aquaculture.Genetics, selection, evolution : GSE · 2017Article
- Linkage disequilibrium, persistence of phase and effective population size estimates in Hereford and Braford cattle.BMC genetics · 2016Article
- A genome-wide association study of resistance to stripe rust (Puccinia striiformis f. sp. tritici) in a worldwide collection of hexaploid spring wheat (Triticum aestivum L.).G3 (Bethesda, Md.) · 2015Article
- Association mapping of disease resistance traits in rainbow trout using restriction site associated DNA sequencing.G3 (Bethesda, Md.) · 2014Article
- A consensus framework map of durum wheat (Triticum durum Desf.) suitable for linkage disequilibrium analysis and genome-wide association mapping.BMC genomics · 2014Article
- Analysis of BAC-end sequences in rainbow trout: content characterization and assessment of synteny between trout and other fish genomes.BMC genomics · 2011Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe use of molecular genetic technologies for broodstock management and selective breeding of aquaculture species is becoming increasingly more common with the continued development of genome tools and reagents. Several laboratories have produced genetic maps for rainbow trout to aid in the identification of loci affecting phenotypes of interest. These maps have resulted in the identification of many quantitative/qualitative trait loci affecting phenotypic variation in traits associated with albinism, disease resistance, temperature tolerance, sex determination, embryonic development rate, spawning date, condition factor and growth. Unfortunately, the elucidation of the precise allelic variation and/or genes underlying phenotypic diversity has yet to be achieved in this species having low marker densities and lacking a whole genome reference sequence. Experimental designs which integrate segregation analyses with linkage disequilibrium (LD) approaches facilitate the discovery of genes affecting important traits. To date the extent of LD has been characterized for humans and several agriculturally important livestock species but not for rainbow trout.
resultsWe observed that the level of LD between syntenic loci decayed rapidly at distances greater than 2 cM which is similar to observations of LD in other agriculturally important species including cattle, sheep, pigs and chickens. However, in some cases significant LD was also observed up to 50 cM. Our estimate of effective population size based on genome wide estimates of LD for the NCCCWA broodstock population was 145, indicating that this population will respond well to high selection intensity. However, the range of effective population size based on individual chromosomes was 75.51 - 203.35, possibly indicating that suites of genes on each chromosome are disproportionately under selection pressures.
conclusionsOur results indicate that large numbers of markers, more than are currently available for this species, will be required to enable the use of genome-wide integrated mapping approaches aimed at identifying genes of interest in rainbow trout.
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.