ArticleBMC genomics2015
Genome-wide analysis reveals the extent of EAV-HP integration in domestic chicken.
Article in BMC genomics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
What it found
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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.
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Who cites it
9 citing papers in PubMed, 14 citations in OpenAlex.
- Genome-wide characterization and comparison of endogenous retroviruses among 3 duck reference genomes.Poultry science · 2024Article
- Metagenomic Analysis of Viromes ofViruses · 2024Article
- Comparison of Multiple Strategies for Precision Transgene Knock-In inInternational journal of molecular sciences · 2023Article
- Detection of long terminal repeat loci derived from endogenous retrovirus in junglefowl using whole-genome sequencing.Scientific reports · 2023Article
- The association between microbial community and ileal gene expression on intestinal wall thickness alterations in chickens.Poultry science · 2020Article
- Harnessing genomic information for livestock improvement.Nature reviews. Genetics · 2019Review
- Whole-Genome Resequencing of Red Junglefowl and Indigenous Village Chicken Reveal New Insights on the Genome Dynamics of the Species.Frontiers in genetics · 2018Article
- Enhancing Targeted Genomic DNA Editing in Chicken Cells Using the CRISPR/Cas9 System.PloS one · 2017Article
- Article
Corrections and comments
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Authors and funding
11 authors at 4 institutions in 4 countries.
Funding
Abstract
backgroundEAV-HP is an ancient retrovirus pre-dating Gallus speciation, which continues to circulate in modern chicken populations, and led to the emergence of avian leukosis virus subgroup J causing significant economic losses to the poultry industry. We mapped EAV-HP integration sites in Ethiopian village chickens, a Silkie, Taiwan Country chicken, red junglefowl Gallus gallus and several inbred experimental lines using whole-genome sequence data.
resultsAn average of 75.22 ± 9.52 integration sites per bird were identified, which collectively group into 279 intervals of which 5 % are common to 90 % of the genomes analysed and are suggestive of pre-domestication integration events. More than a third of intervals are specific to individual genomes, supporting active circulation of EAV-HP in modern chickens. Interval density is correlated with chromosome length (P < 2.31(-6)), and 27 % of intervals are located within 5 kb of a transcript. Functional annotation clustering of genes reveals enrichment for immune-related functions (P < 0.05).
conclusionsOur results illustrate a non-random distribution of EAV-HP in the genome, emphasising the importance it may have played in the adaptation of the species, and provide a platform from which to extend investigations on the co-evolutionary significance of endogenous retroviral genera with their hosts.
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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.