Published in Biol Lett on August 23, 2008
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Rapid response of a marine mammal species to holocene climate and habitat change. PLoS Genet (2009) 1.12
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Reconciling deep calibration and demographic history: bayesian inference of post glacial colonization patterns in Carcinus aestuarii (Nardo, 1847) and C. maenas (Linnaeus, 1758). PLoS One (2011) 0.80
Merging and comparing three mitochondrial markers for phylogenetic studies of Eurasian reindeer (Rangifer tarandus). Ecol Evol (2016) 0.77
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Maternal and paternal lineages in cross-breeding bovine species. Has wisent a hybrid origin? Mol Biol Evol (2004) 1.33
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Choosing appropriate substitution models for the phylogenetic analysis of protein-coding sequences. Mol Biol Evol (2005) 8.42
Metagenomics to paleogenomics: large-scale sequencing of mammoth DNA. Science (2005) 8.14
The amphioxus genome and the evolution of the chordate karyotype. Nature (2008) 8.03
Analyses of pig genomes provide insight into porcine demography and evolution. Nature (2012) 5.58
The oyster genome reveals stress adaptation and complexity of shell formation. Nature (2012) 5.30
Diverse plant and animal genetic records from Holocene and Pleistocene sediments. Science (2003) 4.48
Phylogenomics of eukaryotes: impact of missing data on large alignments. Mol Biol Evol (2004) 3.65
Ancient DNA, pig domestication, and the spread of the Neolithic into Europe. Proc Natl Acad Sci U S A (2007) 3.45
Recalibrating Equus evolution using the genome sequence of an early Middle Pleistocene horse. Nature (2013) 3.45
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Accommodating the effect of ancient DNA damage on inferences of demographic histories. Mol Biol Evol (2008) 3.07
Identification of the yellow skin gene reveals a hybrid origin of the domestic chicken. PLoS Genet (2008) 3.04
The amphioxus genome illuminates vertebrate origins and cephalochordate biology. Genome Res (2008) 3.04
Mitochondrial DNA analysis shows a Near Eastern Neolithic origin for domestic cattle and no indication of domestication of European aurochs. Proc Biol Sci (2007) 2.61
Species-specific responses of Late Quaternary megafauna to climate and humans. Nature (2011) 2.60
Ancient hybridization and an Irish origin for the modern polar bear matriline. Curr Biol (2011) 2.33
Evidence for time dependency of molecular rate estimates. Syst Biol (2007) 2.26
Synonymous substitution rates predict HIV disease progression as a result of underlying replication dynamics. PLoS Comput Biol (2007) 2.25
Assessing the fidelity of ancient DNA sequences amplified from nuclear genes. Genetics (2005) 2.21
Genomic evidence of geographically widespread effect of gene flow from polar bears into brown bears. Mol Ecol (2015) 2.19
Indo-European and Asian origins for Chilean and Pacific chickens revealed by mtDNA. Proc Natl Acad Sci U S A (2008) 2.13
Contrasting mode of evolution at a coat color locus in wild and domestic pigs. PLoS Genet (2009) 2.09
The global spread of hepatitis C virus 1a and 1b: a phylodynamic and phylogeographic analysis. PLoS Med (2009) 2.06
Using ancient DNA to study the origins and dispersal of ancestral Polynesian chickens across the Pacific. Proc Natl Acad Sci U S A (2014) 2.04
The earliest evidence for anatomically modern humans in northwestern Europe. Nature (2011) 2.03
Improving Bayesian population dynamics inference: a coalescent-based model for multiple loci. Mol Biol Evol (2012) 2.02
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Skyline-plot methods for estimating demographic history from nucleotide sequences. Mol Ecol Resour (2011) 1.90
True single-molecule DNA sequencing of a pleistocene horse bone. Genome Res (2011) 1.88
Using time-structured data to estimate evolutionary rates of double-stranded DNA viruses. Mol Biol Evol (2010) 1.80
Ancient papillomavirus-host co-speciation in Felidae. Genome Biol (2007) 1.75
Recombination confounds the early evolutionary history of human immunodeficiency virus type 1: subtype G is a circulating recombinant form. J Virol (2007) 1.74
Establishing the validity of domestication genes using DNA from ancient chickens. Proc Natl Acad Sci U S A (2014) 1.69
Pig domestication and human-mediated dispersal in western Eurasia revealed through ancient DNA and geometric morphometrics. Mol Biol Evol (2012) 1.68
The effect of inappropriate calibration: three case studies in molecular ecology. PLoS One (2008) 1.67
The hypoxia-inducible transcription factor pathway regulates oxygen sensing in the simplest animal, Trichoplax adhaerens. EMBO Rep (2010) 1.62
Were vertebrates octoploid? Philos Trans R Soc Lond B Biol Sci (2002) 1.62
Eleven daughters of NANOG. Genomics (2004) 1.56
Ancient DNA analyses exclude humans as the driving force behind late Pleistocene musk ox (Ovibos moschatus) population dynamics. Proc Natl Acad Sci U S A (2010) 1.55
Buddenbrockia is a cnidarian worm. Science (2007) 1.48
Genetic structure and extinction of the woolly mammoth, Mammuthus primigenius. Curr Biol (2007) 1.47
Ancient DNA chronology within sediment deposits: are paleobiological reconstructions possible and is DNA leaching a factor? Mol Biol Evol (2007) 1.44
The origin of the 'Mycoplasma mycoides cluster' coincides with domestication of ruminants. PLoS One (2012) 1.42
Comment on "Protein sequences from mastodon and Tyrannosaurus rex revealed by mass spectrometry". Science (2008) 1.41
Genome sequencing reveals fine scale diversification and reticulation history during speciation in Sus. Genome Biol (2013) 1.39
Phylogeography of lions (Panthera leo ssp.) reveals three distinct taxa and a late Pleistocene reduction in genetic diversity. Mol Ecol (2009) 1.34
Genomic evidence for island population conversion resolves conflicting theories of polar bear evolution. PLoS Genet (2013) 1.31
Ciona intestinalis ParaHox genes: evolution of Hox/ParaHox cluster integrity, developmental mode, and temporal colinearity. Mol Phylogenet Evol (2002) 1.31
Use of domesticated pigs by Mesolithic hunter-gatherers in northwestern Europe. Nat Commun (2013) 1.29
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Patterns of conservation and change in honey bee developmental genes. Genome Res (2006) 1.26
Bayesian estimation of substitution rates from ancient DNA sequences with low information content. Syst Biol (2011) 1.25
Discovery of lost diversity of paternal horse lineages using ancient DNA. Nat Commun (2011) 1.20
Revealing the maternal demographic history of Panthera leo using ancient DNA and a spatially explicit genealogical analysis. BMC Evol Biol (2014) 1.20
Insights into the evolutionary history of an emerging livestock pathogen: porcine circovirus 2. J Virol (2009) 1.19
Ancient mitochondrial DNA from hair. Curr Biol (2004) 1.19
Breakup of a homeobox cluster after genome duplication in teleosts. Proc Natl Acad Sci U S A (2006) 1.19
Dispersal of NK homeobox gene clusters in amphioxus and humans. Proc Natl Acad Sci U S A (2003) 1.18
Annotation, nomenclature and evolution of four novel homeobox genes expressed in the human germ line. Gene (2006) 1.18
A complete mitochondrial genome sequence from a mesolithic wild aurochs (Bos primigenius). PLoS One (2010) 1.18
Ancient DNA and population turnover in southern levantine pigs--signature of the sea peoples migration? Sci Rep (2013) 1.17
Partial genetic turnover in neandertals: continuity in the East and population replacement in the West. Mol Biol Evol (2012) 1.14
The dynamics of vertebrate homeobox gene evolution: gain and loss of genes in mouse and human lineages. BMC Evol Biol (2011) 1.13
Bayesian estimation of sequence damage in ancient DNA. Mol Biol Evol (2007) 1.13
Mitochondrial phylogenomics of modern and ancient equids. PLoS One (2013) 1.12
Genomic analysis of hepatitis B virus reveals antigen state and genotype as sources of evolutionary rate variation. Viruses (2011) 1.09
An unusual choanoflagellate protein released by Hedgehog autocatalytic processing. Proc Biol Sci (2006) 1.07
Population dynamic of the extinct European aurochs: genetic evidence of a north-south differentiation pattern and no evidence of post-glacial expansion. BMC Evol Biol (2010) 1.06
Comprehensive survey and classification of homeobox genes in the genome of amphioxus, Branchiostoma floridae. Dev Genes Evol (2008) 1.05
HomeoDB2: functional expansion of a comparative homeobox gene database for evolutionary developmental biology. Evol Dev (2012) 1.05
Bayesian phylogenetic analysis supports monophyly of ambulacraria and of cyclostomes. Zoolog Sci (2002) 1.04
A Gbx homeobox gene in amphioxus: insights into ancestry of the ANTP class and evolution of the midbrain/hindbrain boundary. Dev Biol (2006) 1.02
The complete mitochondrial genome of an 11,450-year-old aurochsen (Bos primigenius) from Central Italy. BMC Evol Biol (2011) 1.02
The urbilaterian Super-Hox cluster. Trends Genet (2008) 0.99
No more than 14: the end of the amphioxus Hox cluster. Int J Biol Sci (2005) 0.99
Storytelling and story testing in domestication. Proc Natl Acad Sci U S A (2014) 0.96
Adélie penguins and temperature changes in Antarctica: a long-term view. Integr Zool (2012) 0.95
Estimating the relative contribution of dNTP pool imbalance and APOBEC3G/3F editing to HIV evolution in vivo. J Comput Biol (2007) 0.95
An antecedent of the MHC-linked genomic region in amphioxus. Immunogenetics (2004) 0.95
No proof that typhoid caused the Plague of Athens (a reply to Papagrigorakis et al.). Int J Infect Dis (2006) 0.94
Ancient DNA provides new insights into the evolutionary history of New Zealand's extinct giant eagle. PLoS Biol (2005) 0.94
Parallel retention of Pdx2 genes in cartilaginous fish and coelacanths. Mol Biol Evol (2010) 0.93
Do cnidarians have a ParaHox cluster? Analysis of synteny around a Nematostella homeobox gene cluster. Evol Dev (2008) 0.93
Improving the performance of true single molecule sequencing for ancient DNA. BMC Genomics (2012) 0.92
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Molecular phylogeny and evolution of the extinct bovid Myotragus balearicus. Mol Phylogenet Evol (2002) 0.88
A family of diatom-like silicon transporters in the siliceous loricate choanoflagellates. Proc Biol Sci (2013) 0.88
Is amino acid racemization a useful tool for screening for ancient DNA in bone? Proc Biol Sci (2009) 0.87
A genome-wide view of transcription factor gene diversity in chordate evolution: less gene loss in amphioxus? Brief Funct Genomics (2012) 0.86
Evolution of the Alx homeobox gene family: parallel retention and independent loss of the vertebrate Alx3 gene. Evol Dev (2011) 0.85
The origin and evolution of ARGFX homeobox loci in mammalian radiation. BMC Evol Biol (2010) 0.85
How are comparative genomics and the study of microRNAs changing our views on arthropod endocrinology and adaptations to the environment? Gen Comp Endocrinol (2013) 0.84
The impact of past climate change on genetic variation and population connectivity in the Icelandic arctic fox. Proc Biol Sci (2012) 0.84
A degenerate ParaHox gene cluster in a degenerate vertebrate. Mol Biol Evol (2007) 0.83
A phenol-chloroform protocol for extracting DNA from ancient samples. Methods Mol Biol (2012) 0.83