Published in Annu Rev Genet on January 01, 1988
Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics (1992) 43.80
Archaea in coastal marine environments. Proc Natl Acad Sci U S A (1992) 24.98
The optimization principle in phylogenetic analysis tends to give incorrect topologies when the number of nucleotides or amino acids used is small. Proc Natl Acad Sci U S A (1998) 15.43
A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. III. Cladogram estimation. Genetics (1992) 10.09
Maximum likelihood estimation of a migration matrix and effective population sizes in n subpopulations by using a coalescent approach. Proc Natl Acad Sci U S A (2001) 9.38
Perspectives on archaeal diversity, thermophily and monophyly from environmental rRNA sequences. Proc Natl Acad Sci U S A (1996) 7.17
A cladistic measure of gene flow inferred from the phylogenies of alleles. Genetics (1989) 6.79
Integration within the Felsenstein equation for improved Markov chain Monte Carlo methods in population genetics. Proc Natl Acad Sci U S A (2007) 5.64
Primary characterization of a herpesvirus agent associated with Kaposi's sarcomae. J Virol (1996) 5.05
Compositional biases of bacterial genomes and evolutionary implications. J Bacteriol (1997) 4.85
A psychrophilic crenarchaeon inhabits a marine sponge: Cenarchaeum symbiosum gen. nov., sp. nov. Proc Natl Acad Sci U S A (1996) 4.73
Geobacter sulfurreducens sp. nov., a hydrogen- and acetate-oxidizing dissimilatory metal-reducing microorganism. Appl Environ Microbiol (1994) 4.44
Age and rate of diversification of the Hawaiian silversword alliance (Compositae). Proc Natl Acad Sci U S A (1998) 4.02
Isolation with migration models for more than two populations. Mol Biol Evol (2009) 4.01
MUST, a computer package of Management Utilities for Sequences and Trees. Nucleic Acids Res (1993) 3.82
Estimating substitution rates from molecular data using the coalescent. Proc Natl Acad Sci U S A (1992) 3.48
Cytoplasmic dynein heavy chain 1b is required for flagellar assembly in Chlamydomonas. Mol Biol Cell (1999) 3.20
Using allele frequencies and geographic subdivision to reconstruct gene trees within a species: molecular variance parsimony. Genetics (1994) 3.16
Computer-aided analyses of transport protein sequences: gleaning evidence concerning function, structure, biogenesis, and evolution. Microbiol Rev (1994) 3.12
HSP60 gene sequences as universal targets for microbial species identification: studies with coagulase-negative staphylococci. J Clin Microbiol (1996) 3.03
Recent enhancements to the Blocks Database servers. Nucleic Acids Res (1997) 3.01
Protein phylogenies and signature sequences: A reappraisal of evolutionary relationships among archaebacteria, eubacteria, and eukaryotes. Microbiol Mol Biol Rev (1998) 2.96
The root of the universal tree and the origin of eukaryotes based on elongation factor phylogeny. Proc Natl Acad Sci U S A (1996) 2.93
Polymorphism at the self-incompatibility locus in Solanaceae predates speciation. Proc Natl Acad Sci U S A (1990) 2.91
Borrelia burgdorferi is clonal: implications for taxonomy and vaccine development. Proc Natl Acad Sci U S A (1993) 2.77
Nitrite reductase genes (nirK and nirS) as functional markers to investigate diversity of denitrifying bacteria in pacific northwest marine sediment communities. Appl Environ Microbiol (2000) 2.72
Species-specific diversity among simian immunodeficiency viruses from African green monkeys. J Virol (1991) 2.70
Maintaining the integrity of human immunodeficiency virus sequence databases. J Virol (1996) 2.68
The new animal phylogeny: reliability and implications. Proc Natl Acad Sci U S A (2000) 2.68
Concurrent evolution of human immunodeficiency virus type 1 in patients infected from the same source: rate of sequence change and low frequency of inactivating mutations. J Virol (1990) 2.68
Immunological and virological analyses of persons infected by human immunodeficiency virus type 1 while participating in trials of recombinant gp120 subunit vaccines. J Virol (1998) 2.63
Accurate reconstruction of a known HIV-1 transmission history by phylogenetic tree analysis. Proc Natl Acad Sci U S A (1996) 2.57
Leptospira species categorized by arbitrarily primed polymerase chain reaction (PCR) and by mapped restriction polymorphisms in PCR-amplified rRNA genes. J Bacteriol (1993) 2.53
Community structure of denitrifiers, bacteria, and archaea along redox gradients in Pacific Northwest marine sediments by terminal restriction fragment length polymorphism analysis of amplified nitrite reductase (nirS) and 16S rRNA genes. Appl Environ Microbiol (2001) 2.50
Phylogenetic analysis of 277 human G-protein-coupled receptors as a tool for the prediction of orphan receptor ligands. Genome Biol (2002) 2.40
Molecular evolution of herpesviruses: genomic and protein sequence comparisons. J Virol (1994) 2.34
Evolution of the army ant syndrome: the origin and long-term evolutionary stasis of a complex of behavioral and reproductive adaptations. Proc Natl Acad Sci U S A (2003) 2.30
Nucleotide sequences provide evidence of genetic exchange among distantly related lineages of Trypanosoma cruzi. Proc Natl Acad Sci U S A (2001) 2.29
Testing for equality of evolutionary rates. Genetics (1992) 2.25
Genetic characterization of rebounding HIV-1 after cessation of highly active antiretroviral therapy. J Clin Invest (2000) 2.21
Two different 16S rRNA genes in a mycobacterial strain. J Clin Microbiol (1996) 2.17
Dual human immunodeficiency virus type 1 infection and recombination in a dually exposed transfusion recipient. The Transfusion Safety Study Group. J Virol (1995) 2.15
Human immunodeficiency virus type 1 genetic evolution in children with different rates of development of disease. J Virol (1997) 2.11
Elucidation of tRNA-dependent editing by a class II tRNA synthetase and significance for cell viability. EMBO J (2003) 2.07
A survey of nuclear ribosomal internal transcribed spacer substitution rates across angiosperms: an approximate molecular clock with life history effects. BMC Evol Biol (2006) 2.06
The nop-1 gene of Neurospora crassa encodes a seven transmembrane helix retinal-binding protein homologous to archaeal rhodopsins. Proc Natl Acad Sci U S A (1999) 2.01
A novel delta-subdivision proteobacterial lineage from the lower ocean surface layer. Appl Environ Microbiol (1997) 2.00
Human immunodeficiency virus type 1 populations in blood and semen. J Virol (1998) 1.99
Maximum-Likelihood Models for Combined Analyses of Multiple Sequence Data J Mol Evol (1996) 1.99
RNA editing in bryophytes and a molecular phylogeny of land plants. EMBO J (1996) 1.99
Characterization of nef sequences in long-term survivors of human immunodeficiency virus type 1 infection. J Virol (1995) 1.95
Phylogeny and expression of axonemal and cytoplasmic dynein genes in sea urchins. Mol Biol Cell (1994) 1.90
The methanol dehydrogenase structural gene mxaF and its use as a functional gene probe for methanotrophs and methylotrophs. Appl Environ Microbiol (1997) 1.88
Molecular evolution of the myosin family: relationships derived from comparisons of amino acid sequences. Proc Natl Acad Sci U S A (1993) 1.88
Phylogenetic analysis of 48 papillomavirus types and 28 subtypes and variants: a showcase for the molecular evolution of DNA viruses. J Virol (1992) 1.88
Evolution of the Glx-tRNA synthetase family: the glutaminyl enzyme as a case of horizontal gene transfer. Proc Natl Acad Sci U S A (1994) 1.87
Distribution of tetrahydromethanopterin-dependent enzymes in methylotrophic bacteria and phylogeny of methenyl tetrahydromethanopterin cyclohydrolases. J Bacteriol (1999) 1.86
A limited number of simian immunodeficiency virus (SIV) env variants are transmitted to rhesus macaques vaginally inoculated with SIVmac251. J Virol (2010) 1.84
Sequences specific for enterovirus detected in spinal cord from patients with motor neurone disease. BMJ (1994) 1.83
Rate heterogeneity among lineages of tracheophytes: integration of molecular and fossil data and evidence for molecular living fossils. Proc Natl Acad Sci U S A (2002) 1.82
The 90S preribosome is a multimodular structure that is assembled through a hierarchical mechanism. Mol Cell Biol (2007) 1.82
How robust are "isolation with migration" analyses to violations of the im model? A simulation study. Mol Biol Evol (2009) 1.82
Molecular variants of human papillomavirus type 16 from four continents suggest ancient pandemic spread of the virus and its coevolution with humankind. J Virol (1992) 1.80
A Phylogenetic Analysis of 34 Chloroplast Genomes Elucidates the Relationships between Wild and Domestic Species within the Genus Citrus. Mol Biol Evol (2015) 1.79
Prevalence, types, and RNA concentrations of human parechoviruses, including a sixth parechovirus type, in stool samples from patients with acute enteritis. J Clin Microbiol (2007) 1.79
Detecting isolation by distance using phylogenies of genes. Genetics (1990) 1.76
Influence of Tertiary paleoenvironmental changes on the diversification of South American mammals: a relaxed molecular clock study within xenarthrans. BMC Evol Biol (2004) 1.75
Three roads diverged? Routes to phylogeographic inference. Trends Ecol Evol (2010) 1.74
A genomic view of the sea urchin nervous system. Dev Biol (2006) 1.68
Natural infection of a household pet red-capped mangabey (Cercocebus torquatus torquatus) with a new simian immunodeficiency virus. J Virol (1998) 1.66
The fate of laterally transferred genes: life in the fast lane to adaptation or death. Genome Res (2006) 1.66
Relationship between Phylogeny and Pathotype for the Bacterial Blight Pathogen of Rice. Appl Environ Microbiol (1994) 1.64
DNA variation in a 5-Mb region of the X chromosome and estimates of sex-specific/type-specific mutation rates. Am J Hum Genet (1999) 1.64
The evolution of the vertebrate Dlx gene family. Proc Natl Acad Sci U S A (1996) 1.64
Analysis of the F antigen-specific papA alleles of extraintestinal pathogenic Escherichia coli using a novel multiplex PCR-based assay. Infect Immun (2000) 1.64
Evolution and probable transmission of intersubtype recombinant human immunodeficiency virus type 1 in a Zambian couple. J Virol (1997) 1.62
Characterization of the gill symbiont of Thyasira flexuosa (Thyasiridae: Bivalvia) by use of polymerase chain reaction and 16S rRNA sequence analysis. J Bacteriol (1992) 1.59
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
The complete mitochondrial DNA sequences of Nephroselmis olivacea and Pedinomonas minor. Two radically different evolutionary patterns within green algae. Plant Cell (1999) 1.59
A distinct African lentivirus from Sykes' monkeys. J Virol (1993) 1.58
Sequence variants of human papillomavirus type 16 in clinical samples permit verification and extension of epidemiological studies and construction of a phylogenetic tree. J Clin Microbiol (1991) 1.57
Rapidly evolving mitochondrial genome and directional selection in mitochondrial genes in the parasitic wasp nasonia (hymenoptera: pteromalidae). Mol Biol Evol (2008) 1.55
Evaluating support for the current classification of eukaryotic diversity. PLoS Genet (2006) 1.55
Methanotroph diversity in landfill soil: isolation of novel type I and type II methanotrophs whose presence was suggested by culture-independent 16S ribosomal DNA analysis. Appl Environ Microbiol (1999) 1.54
Structure and evolution of genes encoding polyubiquitin and ubiquitin-like proteins in Arabidopsis thaliana ecotype Columbia. Genetics (1995) 1.53
Dissimilatory arsenate reduction with sulfide as electron donor: experiments with mono lake water and Isolation of strain MLMS-1, a chemoautotrophic arsenate respirer. Appl Environ Microbiol (2004) 1.47
The evolution of early Foraminifera. Proc Natl Acad Sci U S A (2003) 1.46
Chloroplast gene sequences and the study of plant evolution. Proc Natl Acad Sci U S A (1993) 1.45
Estimating divergence parameters with small samples from a large number of loci. Genetics (2009) 1.45
Investigation of the validity of species status of Ixodes dammini (Acari: Ixodidae) using rDNA. Proc Natl Acad Sci U S A (1993) 1.45
Detecting the limits of regulatory element conservation and divergence estimation using pairwise and multiple alignments. BMC Bioinformatics (2006) 1.44
Properties of consensus methods for inferring species trees from gene trees. Syst Biol (2009) 1.43
Phylogenetic fate mapping. Proc Natl Acad Sci U S A (2006) 1.42
Understanding the origin of species with genome-scale data: modelling gene flow. Nat Rev Genet (2013) 1.41
Molecular characterization and phylogenetic distribution of the streptococcal superantigen gene (ssa) from Streptococcus pyogenes. Infect Immun (1994) 1.39
A noncognate aminoacyl-tRNA synthetase that may resolve a missing link in protein evolution. Proc Natl Acad Sci U S A (2003) 1.39
A new common mutation in the hemagglutinin of the 2009 (H1N1) influenza A virus. PLoS Curr (2010) 1.37
An analysis of the origin of metazoans, using comparisons of partial sequences of the 28S RNA, reveals an early emergence of triploblasts. EMBO J (1991) 1.37
Crystal structures that suggest late development of genetic code components for differentiating aromatic side chains. Proc Natl Acad Sci U S A (2003) 1.36
Estimating effective population size from samples of sequences: a bootstrap Monte Carlo integration method. Genet Res (1992) 3.60
Counting phylogenetic invariants in some simple cases. J Theor Biol (1991) 0.89