ArticleBMC genomics2006
Genomic divergences among cattle, dog and human estimated from large-scale alignments of genomic sequences.
Article in BMC genomics, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed.
- A comprehensive map of the bovine mobilome and their epigenetic regulation of mastitis.Functional & integrative genomics · 2026Article
- Genetic basis and origin of coat color in Leiqiong cattle.Zoological research · 2025Article
- Global genetic diversity, introgression, and evolutionary adaptation of indicine cattle revealed by whole genome sequencing.Nature communications · 2023Article
- Genomic insights into the conservation status of the world's last remaining Sumatran rhinoceros populations.Nature communications · 2021Article
- Genomic evidence for the Old divergence of Southern European wolf populations.Proceedings. Biological sciences · 2020Article
- Management of lethal recessive alleles in beef cattle through the use of mate selection software.Genetics, selection, evolution : GSE · 2019Article
- Whole-genome resequencing reveals world-wide ancestry and adaptive introgression events of domesticated cattle in East Asia.Nature communications · 2018Article
- Genomic Analysis of Demographic History and Ecological Niche Modeling in the Endangered Sumatran Rhinoceros Dicerorhinus sumatrensis.Current biology : CB · 2018Article
- Deciphering the Wisent Demographic and Adaptive Histories from Individual Whole-Genome Sequences.Molecular biology and evolution · 2016Article
- Out of southern East Asia: the natural history of domestic dogs across the world.Cell research · 2016Article
- Sequencing and annotated analysis of full genome of Holstein breed bull.Mammalian genome : official journal of the International Mammalian Genome Society · 2014Article
- Heterogeneous tempo and mode of conserved noncoding sequence evolution among four mammalian orders.Genome biology and evolution · 2013Article
- The first sequenced carnivore genome shows complex host-endogenous retrovirus relationships.PloS one · 2011Article
- Analysis of recent segmental duplications in the bovine genome.BMC genomics · 2009Article
- The evolutionary origin of man can be traced in the layers of defunct ancestral alpha satellites flanking the active centromeres of human chromosomes.PLoS genetics · 2009Article
- Characterization and distribution of retrotransposons and simple sequence repeats in the bovine genome.Proceedings of the National Academy of Sciences of the United States of America · 2009Article
- Comparative genomics indicates the mammalian CD33rSiglec locus evolved by an ancient large-scale inverse duplication and suggests all Siglecs share a common ancestral region.Immunogenetics · 2009Article
- Sequence divergence of Mus spretus and Mus musculus across a skin cancer susceptibility locus.BMC genomics · 2008Article
- Measuring the prevalence of regional mutation rates: an analysis of silent substitutions in mammals, fungi, and insects.BMC evolutionary biology · 2008Article
- Reconstruction of the ancestral ferungulate karyotype by electronic chromosome painting (E-painting).Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2006Article
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundApproximately 11 Mb of finished high quality genomic sequences were sampled from cattle, dog and human to estimate genomic divergences and their regional variation among these lineages.
resultsOptimal three-way multi-species global sequence alignments for 84 cattle clones or loci (each >50 kb of genomic sequence) were constructed using the human and dog genome assemblies as references. Genomic divergences and substitution rates were examined for each clone and for various sequence classes under different functional constraints. Analysis of these alignments revealed that the overall genomic divergences are relatively constant (0.32-0.37 change/site) for pairwise comparisons among cattle, dog and human; however substitution rates vary across genomic regions and among different sequence classes. A neutral mutation rate (2.0-2.2 x 10(-9) change/site/year) was derived from ancestral repetitive sequences, whereas the substitution rate in coding sequences (1.1 x 10(-9) change/site/year) was approximately half of the overall rate (1.9-2.0 x 10(-9) change/site/year). Relative rate tests also indicated that cattle have a significantly faster rate of substitution as compared to dog and that this difference is about 6%.
conclusionThis analysis provides a large-scale and unbiased assessment of genomic divergences and regional variation of substitution rates among cattle, dog and human. It is expected that these data will serve as a baseline for future mammalian molecular evolution studies.
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