Published in Mol Biol Evol on June 01, 2005
Using genomic data to unravel the root of the placental mammal phylogeny. Genome Res (2007) 4.52
Retroposed elements as archives for the evolutionary history of placental mammals. PLoS Biol (2006) 3.42
Confirming the phylogeny of mammals by use of large comparative sequence data sets. Mol Biol Evol (2008) 2.33
Bushes in the tree of life. PLoS Biol (2006) 2.16
Pegasoferae, an unexpected mammalian clade revealed by tracking ancient retroposon insertions. Proc Natl Acad Sci U S A (2006) 1.95
Multilocus phylogeography and phylogenetics using sequence-based markers. Genetica (2008) 1.92
A higher-level MRP supertree of placental mammals. BMC Evol Biol (2006) 1.53
Retroposon analysis and recent geological data suggest near-simultaneous divergence of the three superorders of mammals. Proc Natl Acad Sci U S A (2009) 1.52
A new estimate of afrotherian phylogeny based on simultaneous analysis of genomic, morphological, and fossil evidence. BMC Evol Biol (2007) 1.50
Mosaic retroposon insertion patterns in placental mammals. Genome Res (2009) 1.34
Molecular phylogeny and divergence times of Malagasy tenrecs: influence of data partitioning and taxon sampling on dating analyses. BMC Evol Biol (2008) 1.30
The historical biogeography of Mammalia. Philos Trans R Soc Lond B Biol Sci (2011) 1.15
Whole-genome phylogeny of mammals: evolutionary information in genic and nongenic regions. Proc Natl Acad Sci U S A (2009) 1.12
Families of transposable elements, population structure and the origin of species. Biol Direct (2011) 1.09
Evolutionary history of LINE-1 in the major clades of placental mammals. PLoS One (2007) 1.05
Molecular cytogenetic and genomic insights into chromosomal evolution. Heredity (Edinb) (2011) 1.01
Chromosome painting among Proboscidea, Hyracoidea and Sirenia: support for Paenungulata (Afrotheria, Mammalia) but not Tethytheria. Proc Biol Sci (2007) 0.99
Reading TE leaves: new approaches to the identification of transposable element insertions. Genome Res (2011) 0.99
Hemiplasy and homoplasy in the karyotypic phylogenies of mammals. Proc Natl Acad Sci U S A (2008) 0.95
Chromosome painting in the manatee supports Afrotheria and Paenungulata. BMC Evol Biol (2007) 0.92
Chromosomal instability in Afrotheria: fragile sites, evolutionary breakpoints and phylogenetic inference from genome sequence assemblies. BMC Evol Biol (2007) 0.89
Sauria SINEs: Novel short interspersed retroposable elements that are widespread in reptile genomes. J Mol Evol (2006) 0.89
Whale phylogeny and rapid radiation events revealed using novel retroposed elements and their flanking sequences. BMC Evol Biol (2011) 0.79
Carnivore-specific SINEs (Can-SINEs): distribution, evolution, and genomic impact. J Hered (2011) 0.79
Insertional variability of four transposable elements and population structure of the midge Chironomus riparius (Diptera). Mol Genet Genomics (2011) 0.79
The dynamic proliferation of CanSINEs mirrors the complex evolution of Feliforms. BMC Evol Biol (2014) 0.75
The presence and absence of prosencephalic cell groups relaying striatal information to the medial and lateral thalamus in tenrec. J Anat (2008) 0.75
Exaptation of Bornavirus-Like Nucleoprotein Elements in Afrotherians. PLoS Pathog (2016) 0.75
Integrative annotation of 21,037 human genes validated by full-length cDNA clones. PLoS Biol (2004) 7.17
Speciation through sensory drive in cichlid fish. Nature (2008) 5.52
Comparative analysis of chimpanzee and human Y chromosomes unveils complex evolutionary pathway. Nat Genet (2006) 3.76
Rodent phylogeny and a timescale for the evolution of Glires: evidence from an extensive taxon sampling using three nuclear genes. Mol Biol Evol (2002) 3.12
Evolution of the core and pan-genome of Streptococcus: positive selection, recombination, and genome composition. Genome Biol (2007) 3.10
Molecules consolidate the placental mammal tree. Trends Ecol Evol (2004) 3.02
Functional noncoding sequences derived from SINEs in the mammalian genome. Genome Res (2006) 2.50
Alternative tertiary structure of tRNA for recognition by a posttranscriptional modification enzyme. Cell (2003) 2.29
Whole-genome screening indicates a possible burst of formation of processed pseudogenes and Alu repeats by particular L1 subfamilies in ancestral primates. Genome Biol (2003) 2.19
LINEs mobilize SINEs in the eel through a shared 3' sequence. Cell (2002) 2.15
Divergent selection on opsins drives incipient speciation in Lake Victoria cichlids. PLoS Biol (2006) 2.08
Nuclear gene sequences provide evidence for the monophyly of australidelphian marsupials. Mol Phylogenet Evol (2003) 2.04
Inactivation of CMP-N-acetylneuraminic acid hydroxylase occurred prior to brain expansion during human evolution. Proc Natl Acad Sci U S A (2002) 2.00
Loss of urate oxidase activity in hominoids and its evolutionary implications. Mol Biol Evol (2002) 2.00
Pegasoferae, an unexpected mammalian clade revealed by tracking ancient retroposon insertions. Proc Natl Acad Sci U S A (2006) 1.95
Spot pattern of leopard Danio is caused by mutation in the zebrafish connexin41.8 gene. EMBO Rep (2006) 1.83
Molecular phylogeny of living xenarthrans and the impact of character and taxon sampling on the placental tree rooting. Mol Biol Evol (2002) 1.79
SINEs of speciation: tracking lineages with retroposons. Trends Ecol Evol (2004) 1.64
The amelogenin loci span an ancient pseudoautosomal boundary in diverse mammalian species. Proc Natl Acad Sci U S A (2003) 1.64
Local molecular clocks in three nuclear genes: divergence times for rodents and other mammals and incompatibility among fossil calibrations. J Mol Evol (2003) 1.59
Molecular evidence for the monophyly of tenrecidae (mammalia) and the timing of the colonization of Madagascar by Malagasy Tenrecs. Mol Phylogenet Evol (2002) 1.56
Possible involvement of SINEs in mammalian-specific brain formation. Proc Natl Acad Sci U S A (2008) 1.54
Evolutionary dynamics of complete Campylobacter pan-genomes and the bacterial species concept. Genome Biol Evol (2010) 1.54
Pigment pattern in jaguar/obelix zebrafish is caused by a Kir7.1 mutation: implications for the regulation of melanosome movement. PLoS Genet (2006) 1.53
Retroposon analysis and recent geological data suggest near-simultaneous divergence of the three superorders of mammals. Proc Natl Acad Sci U S A (2009) 1.52
Vestibular evidence for the evolution of aquatic behaviour in early cetaceans. Nature (2002) 1.50
Gender difference in baroreflex sensitivity to predict cardiac and cerebrovascular events in type 2 diabetic patients. Circ J (2011) 1.47
Sound transmission in archaic and modern whales: anatomical adaptations for underwater hearing. Anat Rec (Hoboken) (2007) 1.45
Poxviruses as possible vectors for horizontal transfer of retroposons from reptiles to mammals. Proc Natl Acad Sci U S A (2007) 1.44
Mitochondrial phylogenetics and evolution of mysticete whales. Syst Biol (2005) 1.44
Coevolution of the S-locus genes SRK, SLG and SP11/SCR in Brassica oleracea and B. rapa. Genetics (2002) 1.42
Novel morphology in Enteromorpha (Ulvophyceae) forming green tides. Am J Bot (2002) 1.41
Morphoregulation of teeth: modulating the number, size, shape and differentiation by tuning Bmp activity. Evol Dev (2005) 1.38
Fixation of the human-specific CMP-N-acetylneuraminic acid hydroxylase pseudogene and implications of haplotype diversity for human evolution. Genetics (2005) 1.34
The Sahara as a vicariant agent, and the role of Miocene climatic events, in the diversification of the mammalian order Macroscelidea (elephant shrews). Proc Natl Acad Sci U S A (2003) 1.33
The evolution of the pro-domain of bone morphogenetic protein 4 (Bmp4) in an explosively speciated lineage of East African cichlid fishes. Mol Biol Evol (2002) 1.32
Microbat paraphyly and the convergent evolution of a key innovation in Old World rhinolophoid microbats. Proc Natl Acad Sci U S A (2002) 1.32
Lineage-specific loss of function of bitter taste receptor genes in humans and nonhuman primates. Genetics (2005) 1.31
Rooting the eutherian tree: the power and pitfalls of phylogenomics. Genome Biol (2007) 1.31
Evolutionary and population genomics of the cavity causing bacteria Streptococcus mutans. Mol Biol Evol (2012) 1.29
Genetic evidence that the non-homologous end-joining repair pathway is involved in LINE retrotransposition. PLoS Genet (2009) 1.28
Parallelism of amino acid changes at the RH1 affecting spectral sensitivity among deep-water cichlids from Lakes Tanganyika and Malawi. Proc Natl Acad Sci U S A (2005) 1.27
Comparative genomics and the role of lateral gene transfer in the evolution of bovine adapted Streptococcus agalactiae. Infect Genet Evol (2011) 1.26
Novel sex pheromone desaturases in the genomes of corn borers generated through gene duplication and retroposon fusion. Proc Natl Acad Sci U S A (2007) 1.26
The dominance of alleles controlling self-incompatibility in Brassica pollen is regulated at the RNA level. Plant Cell (2002) 1.26
V-SINEs: a new superfamily of vertebrate SINEs that are widespread in vertebrate genomes and retain a strongly conserved segment within each repetitive unit. Genome Res (2002) 1.22
Variable sensitivity to bacterial methionyl-tRNA synthetase inhibitors reveals subpopulations of Streptococcus pneumoniae with two distinct methionyl-tRNA synthetase genes. Antimicrob Agents Chemother (2003) 1.21
Using SINEs to probe ancient explosive speciation: "hidden" radiation of African cichlids? Mol Biol Evol (2003) 1.21
The effect of selection on a long wavelength-sensitive (LWS) opsin gene of Lake Victoria cichlid fishes. Proc Natl Acad Sci U S A (2002) 1.20
The origin and genetic variation of domestic chickens with special reference to junglefowls Gallus g. gallus and G. varius. PLoS One (2010) 1.20
Horizontal transfer of drug-resistant aminoacyl-transfer-RNA synthetases of anthrax and Gram-positive pathogens. EMBO Rep (2003) 1.20
Contribution of homoplasy and of ancestral polymorphism to the evolution of genes in anthropoid primates. Mol Biol Evol (2002) 1.18
Afrotherian phylogeny as inferred from complete mitochondrial genomes. Mol Phylogenet Evol (2003) 1.16
Molecular phylogenetic evidence refuting the hypothesis of Batoidea (rays and skates) as derived sharks. Mol Phylogenet Evol (2003) 1.16
Development of the embryo, larva and early juvenile of Nile tilapia Oreochromis niloticus (Pisces: Cichlidae). Developmental staging system. Dev Growth Differ (2007) 1.15
Pervasive, genome-wide positive selection leading to functional divergence in the bacterial genus Campylobacter. Genome Res (2009) 1.15
Genetic connectivity in the Florida reef system: comparative phylogeography of commensal invertebrates with contrasting reproductive strategies. Mol Ecol (2007) 1.14
Molecular phylogenetic evidence confirming the Eulipotyphla concept and in support of hedgehogs as the sister group to shrews. Mol Phylogenet Evol (2002) 1.13
Origins of mouse inbred strains deduced from whole-genome scanning by polymorphic microsatellite loci. Mamm Genome (2005) 1.12
Ancient SINEs from African endemic mammals. Mol Biol Evol (2003) 1.11
Comparative genomic analysis of the Streptococcus dysgalactiae species group: gene content, molecular adaptation, and promoter evolution. Genome Biol Evol (2011) 1.11
Coelacanth genomes reveal signatures for evolutionary transition from water to land. Genome Res (2013) 1.10
B chromosomes have a functional effect on female sex determination in Lake Victoria cichlid fishes. PLoS Genet (2011) 1.08
A novel testis ubiquitin-binding protein gene arose by exon shuffling in hominoids. Genome Res (2007) 1.07
Molecular systematics of armadillos (Xenarthra, Dasypodidae): contribution of maximum likelihood and Bayesian analyses of mitochondrial and nuclear genes. Mol Phylogenet Evol (2003) 1.06
Gene regulation by CcpA and catabolite repression explored by RNA-Seq in Streptococcus mutans. PLoS One (2013) 1.05
Isolation and characterization of retrotransposition-competent LINEs from zebrafish. Gene (2005) 1.04
Characterization of novel Alu- and tRNA-related SINEs from the tree shrew and evolutionary implications of their origins. Mol Biol Evol (2002) 1.04
Crystal structure of archaeosine tRNA-guanine transglycosylase. J Mol Biol (2002) 1.03
The origin and evolution of human ampliconic gene families and ampliconic structure. Genome Res (2006) 1.03
Seasonal change in bacterial flora and biomass in mountain snow from the Tateyama Mountains, Japan, analyzed by 16S rRNA gene sequencing and real-time PCR. Appl Environ Microbiol (2005) 1.02
Novel SINE families from salmons validate Parahucho (Salmonidae) as a distinct genus and give evidence that SINEs can incorporate LINE-related 3'-tails of other SINEs. Mol Biol Evol (2007) 1.02
Mitochondrial phylogeny of hedgehogs and monophyly of Eulipotyphla. Mol Phylogenet Evol (2003) 1.01
Preservation of a pseudogene by gene conversion and diversifying selection. Genetics (2008) 1.01
Retroposons of salmonoid fishes (Actinopterygii: Salmonoidei) and their evolution. Gene (2008) 1.00
Balaenoptera omurai is a newly discovered baleen whale that represents an ancient evolutionary lineage. Mol Phylogenet Evol (2006) 1.00
Combining multiple data sets in a likelihood analysis: which models are the best? Mol Biol Evol (2002) 1.00
Extensive mitochondrial gene arrangements in coleoid Cephalopoda and their phylogenetic implications. Mol Phylogenet Evol (2006) 0.99
Persistence of Mhc heterozygosity in homozygous clonal killifish, Rivulus marmoratus: implications for the origin of hermaphroditism. Genetics (2002) 0.99
Phylogenomics and the dynamic genome evolution of the genus Streptococcus. Genome Biol Evol (2014) 0.99
Phenotypic heterogeneity of genomically-diverse isolates of Streptococcus mutans. PLoS One (2013) 0.98
Evolutionary history of the cancer immunity antigen MAGE gene family. PLoS One (2011) 0.98
Expanded multilocus sequence typing and comparative genomic hybridization of Campylobacter coli isolates from multiple hosts. Appl Environ Microbiol (2010) 0.96
Natural selection in the TLR-related genes in the course of primate evolution. Immunogenetics (2008) 0.95
Toothed whale monophyly reassessed by SINE insertion analysis: the absence of lineage sorting effects suggests a small population of a common ancestral species. Mol Phylogenet Evol (2006) 0.95
Proceedings of the SMBE Tri-National Young Investigators' Workshop 2005. Baleen whale phylogeny and a past extensive radiation event revealed by SINE insertion analysis. Mol Biol Evol (2005) 0.95
Phylogenetic analyses of Zostera species based on rbcL and matK nucleotide sequences: implications for the origin and diversification of seagrasses in Japanese waters. Genes Genet Syst (2003) 0.95
Gene repertoire evolution of Streptococcus pyogenes inferred from phylogenomic analysis with Streptococcus canis and Streptococcus dysgalactiae. PLoS One (2012) 0.95
Novel retrotransposon analysis reveals multiple mobility pathways dictated by hosts. Genome Res (2006) 0.94
Comparative characterization of the virulence gene clusters (lipooligosaccharide [LOS] and capsular polysaccharide [CPS]) for Campylobacter coli, Campylobacter jejuni subsp. jejuni and related Campylobacter species. Infect Genet Evol (2012) 0.94
A mammalian conserved element derived from SINE displays enhancer properties recapitulating Satb2 expression in early-born callosal projection neurons. PLoS One (2011) 0.93