ArticleBMC genomics2009
Revisiting the missing protein-coding gene catalog of the domestic dog.
Article in BMC genomics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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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.
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Who cites it
9 citing papers in PubMed.
- Integrative mapping of the dog epigenome: Reference annotation for comparative intertissue and cross-species studies.Science advances · 2023Article
- A fully-automated method discovers loss of mouse-lethal and human-monogenic disease genes in 58 mammals.Nucleic acids research · 2020Article
- TimeMeter assesses temporal gene expression similarity and identifies differentially progressing genes.Nucleic acids research · 2020Article
- Cancer. Hiding in plain view--an ancient dog in the modern world.Science (New York, N.Y.) · 2014Article
- Analysis of the canine brain transcriptome with an emphasis on the hypothalamus and cerebral cortex.Mammalian genome : official journal of the International Mammalian Genome Society · 2013Article
- Comparative Genomics of X-linked Muscular Dystrophies: The Golden Retriever Model.Current genomics · 2013Article
- Annotation of the domestic dog genome sequence: finding the missing genes.Mammalian genome : official journal of the International Mammalian Genome Society · 2012Article
- Expanding whole exome resequencing into non-human primates.Genome biology · 2011Article
- Man's best friend becomes biology's best in show: genome analyses in the domestic dog.Annual review of genetics · 2010Review
Corrections and comments
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Authors and funding
7 authors.
Funding
Abstract
backgroundAmong mammals for which there is a high sequence coverage, the whole genome assembly of the dog is unique in that it predicts a low number of protein-coding genes, ~19,000, compared to the over 20,000 reported for other mammalian species. Of particular interest are the more than 400 of genes annotated in primates and rodent genomes, but missing in dog.
resultsUsing over 14,000 orthologous genes between human, chimpanzee, mouse rat and dog, we built multiple pairwise synteny maps to infer short orthologous intervals that were targeted for characterizing the canine missing genes. Based on gene prediction and a functionality test using the ratio of replacement to silent nucleotide substitution rates (d(N)/d(S)), we provide compelling structural and functional evidence for the identification of 232 new protein-coding genes in the canine genome and 69 gene losses, characterized as undetected gene or pseudogenes. Gene loss phyletic pattern analysis using ten species from chicken to human allowed us to characterize 28 canine-specific gene losses that have functional orthologs continuously from chicken or marsupials through human, and 10 genes that arose specifically in the evolutionary lineage leading to rodent and primates.
conclusionThis study demonstrates the central role of comparative genomics for refining gene catalogs and exploring the evolutionary history of gene repertoires, particularly as applied for the characterization of species-specific gene gains and losses.
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