Related by context. All words. (Click for frequent words.) 74 clades 73 phylogenetically 71 clade 71 taxa 70 morphologically 68 subfamilies 68 A. thaliana 68 gambiae 68 artiodactyls 67 phylogenies 67 introgression 67 cytochrome b 67 subgenus 67 phylogeographic 67 metazoan 67 sensu lato 67 genetic lineages 67 subfamily 66 prokaryote 66 phylogeny 66 suborder 66 gymnosperms 66 chordates 66 morphologically distinct 66 vesper bats 66 D. melanogaster 66 Prevotella 66 paradoxus 66 distinct lineages 66 orthologs 65 homozygosity 65 A. gambiae 65 archaeal 65 colugos 65 microsatellite markers 65 placental mammals 65 taxon 65 sexually dimorphic 65 deuterostomes 65 fig. S1 64 phylogenetic 64 eukaryote 64 placentals 64 outbred 64 #S rDNA 64 phenotypic variation 64 haplogroups 64 indels 64 Mammalia 64 fig. S2 64 phylogenetic relationships 64 phylogenetic tree 64 orthologous 64 polyploid 64 glabrata 64 felis 63 reproductively isolated 63 mitochondrial genomes 63 genetically divergent 63 ciliates 63 sister taxon 63 phenotypic differences 63 mammalian genomes 63 coevolution 63 lineages 63 Phylogenetic 63 cnidarians 63 phyla 63 molecular phylogenetic 63 missense mutations 63 evolutionary lineage 63 subsp 63 sequence homology 63 hominoids 63 ORFs 63 Alu elements 63 ciliated 62 metazoans 62 S. cerevisiae 62 Phylogenetic analysis 62 D. simulans 62 ZEBOV 62 Bacteroides 62 heterozygotes 62 albicans 62 T. brucei 62 monozygotic twins 62 Nocardia 62 eusocial 62 intraspecific 62 placental mammal 62 Fabaceae 62 selfing 62 amphioxus 62 allele frequencies 62 bilaterians 62 chloroplast genome 62 dinosaurian 62 heritable traits 62 Phylogenetic analyzes 62 VNTR 62 monotremes 62 habilis 62 Caenorhabditis 61 mtDNA sequence 61 tyrannosaurids 61 brucei 61 homologs 61 ontogenetic 61 clonally 61 genetic relatedness 61 annelid worms 61 Mus musculus 61 monomeric 61 phenotypically 61 homologies 61 Fig. 1C 61 jawed vertebrates 61 intermedius 61 monozygotic 61 terrestrial vertebrates 61 Proteobacteria 61 2n = 61 dizygotic twins 61 evolutionary lineages 61 serovar 61 dimeric 61 versicolor 61 Pan troglodytes 61 differentially expressed genes 61 homologues 61 Xenopus laevis 61 Anopheles gambiae 61 unicellular 61 fig. S4 61 giganteus 61 parasitoid wasp 61 Fig. 3b 61 C#BL 6 61 morphological similarities 61 monocots 61 paralogs 61 Xenopus 61 intronic 61 bdelloid rotifers 61 Fig. 1D 61 phylogenetic analyzes 61 intergenic regions 61 intergenic 61 phylogenetic trees 60 TRIM5 60 isotypes 60 genetically distinct 60 chimp genomes 60 carnivorous mammals 60 chimpanzees Pan troglodytes 60 Yersinia enterocolitica 60 taxonomically 60 metapopulation 60 mitochondrial gene 60 #S rRNA genes 60 ontogeny 60 Volvox 60 primate lineage 60 #S rRNA 60 vivax 60 operons 60 At#g# 60 morphological traits 60 angiosperm 60 substrate specificity 60 Amborella 60 Fig. 2a 60 bilaterally symmetrical 60 Homo neanderthalensis 60 ploidy 60 epistasis 60 Plasmodium vivax 60 avian dinosaurs 60 ortholog 60 mutant allele 60 echinoderms 60 T. vaginalis 60 gene duplications 60 fungal genomes 60 somites 60 #q#.# [002] 60 tetraploid 60 sequenced genomes 60 #S rRNA gene 60 Aeromonas 60 HLA genes 60 biogeographical 60 brasiliensis 60 Leptospira 60 musculus 60 allelic variation 60 ecotype 60 homo erectus 60 female gametophyte 60 QTLs 60 coexpression 60 Kipunji 60 Fig. 1E 60 symbiont 60 intestinalis 60 piRNAs 60 ramidus 60 archosaurs 60 superfamily 60 Acropora 60 protist 60 inbred strains 60 Asteraceae 60 dromaeosaurid 60 elegans 60 plastids 60 autosomal 60 Fig. 1A 60 Denisovan 59 parthenogenetic 59 chordate 59 DNA transposons 59 Supplementary Fig 59 C. jejuni 59 M. anisopliae 59 eukaryotic 59 fig. S# 59 coelurosaurs 59 synteny 59 tiny single celled 59 nucleotide substitutions 59 ecotypes 59 blastomeres 59 Saccharomyces 59 rotifer 59 chromosome #q#.# [001] 59 anomodonts 59 coding sequences 59 Paranthropus robustus 59 hoofed mammals 59 molecular phylogeny 59 isoleucine 59 commensal 59 C. neoformans 59 Corynebacterium 59 linkage disequilibrium 59 Bifidobacteria 59 erythrocytes 59 Phytophthora species 59 homologous 59 Typhi 59 maternally inherited 59 Ambystoma 59 gametophyte 59 gracile 59 holotype 59 Y chromosomal 59 kDa protein 59 ABCB1 gene 59 indel 59 angiosperms 59 nucleotide substitution 59 phylum 59 Cucumis 59 herbivorous dinosaurs 59 striata 59 mtDNA sequences 59 H. sapiens 59 single celled yeast 59 Tribolium 59 theropod dinosaur 59 cytopathic 59 heterochromatic 59 previously undescribed 59 synuclein 59 clade B 59 PON1 59 mutualistic 59 trinucleotide 59 Fig. 2B 59 phenotypic characteristics 59 hemoglobins 59 freshwater snails 59 coding genes 59 S. enterica 59 Buchnera 59 immunodominant 59 dermatophytes 59 sympatric 59 BAC clones 59 HLA B# 59 hominid evolution 59 Propionibacterium 59 hepatoma 59 soluble proteins 59 Trichophyton rubrum 59 dinucleotide 59 Darwin finches 59 theropod 59 defensin 59 Ichthyostega 59 #p# [003] 59 genetic loci 59 tetramers 59 TCF#L# gene 59 Bifidobacterium longum 59 H#K#me# 59 Carnivora 59 thermophilum 59 morphological evolution 59 subcellular compartments 58 fig. S3 58 protozoans 58 LB1 58 humanus 58 Pongo pygmaeus 58 catfishes 58 aneuploid 58 Acanthostega 58 faunas 58 cytochrome 58 isotopic compositions 58 metaplasia 58 mosaicism 58 Supplementary Table 58 robustus 58 Diptera 58 Aspergillus oryzae 58 Homo antecessor 58 Homo genus 58 archosaur 58 sexually reproducing 58 cultured neurons 58 Xenopus tropicalis 58 annelids 58 heterozygous 58 biogeographic 58 ratites 58 morphologies 58 Mycobacterium smegmatis 58 P. patens 58 cis regulatory 58 cDNA libraries 58 bryozoans 58 Archaea 58 placoderms 58 sexual dimorphism 58 Amino acid 58 H. habilis 58 MLL gene 58 phylogenetic analysis 58 quasispecies 58 C. albicans 58 nucleotide sequence 58 Fig. 2b 58 flatfishes 58 denaturing gradient gel electrophoresis 58 Brassica oleracea 58 eukaryotic organisms 58 H. floresiensis 58 PCR RFLP 58 eusociality 58 intron 58 nucleotide sequences 58 PTPN# 58 lactase persistence 58 lung adenocarcinomas 58 CYP#B# 58 serpin 58 microsporidia 58 bony fishes 58 synthases 58 tetrapods evolved 58 Reactive oxygen 58 prokaryotes 58 genes differentially expressed 58 oligomeric 58 supertree 58 diploid 58 endosymbiont 58 ornithischians 58 endosymbiosis 58 Fig. 3C 58 C4 grasses 58 fig. S6 58 ncRNA 58 A. africanus 58 P. falciparum 58 R#W [002] 58 mRNA transcripts 58 herpesviruses 58 microbiomes 58 japonicus 58 red colobus 58 phenotypic traits 58 chromosome #q# [001] 58 amino acid substitutions 58 microcephalin 58 Paedocypris 58 amine oxidase 58 cDNAs 58 endophytic 58 germline mutations 58 MMP# 57 morphological 57 clade C 57 ribosomal RNA rRNA 57 icosahedral 57 genus homo 57 pseudogenes 57 sifaka 57 Fig. 1b 57 taxonomic 57 anaerobes 57 clonal 57 unisexual 57 rDNA 57 M. pneumoniae 57 hypervariable 57 Pierolapithecus 57 Chlamydomonas 57 globin genes 57 frameshift mutation 57 outer membrane proteins 57 S. sanguinis 57 Trypanosoma brucei 57 orthologous genes 57 homeobox genes 57 Entamoeba 57 carnivore species 57 Trichinella 57 interspecific 57 segmental duplications 57 amino acid sequences 57 crocodilians 57 dromaeosaurs 57 femora 57 major histocompatibility complex 57 Firmicutes 57 conspecifics 57 proteomes 57 #S subunit 57 dizygotic 57 IgG1 57 genus Plasmodium 57 differential gene expression 57 antigenically 57 homozygote 57 DLC1 57 molluscan 57 haplogroup 57 carolinensis 57 B. subtilis 57 sapiens 57 homolog 57 hamartomas 57 Fig. 2A 57 MDCK cells 57 therizinosaurs 57 cDNA library 57 genotypic 57 Neisseria 57 unicellular organisms 57 affinis 57 flatworms 57 evolutionarily conserved 57 mitochondrial DNA mtDNA 57 NF1 gene 57 alleles 57 Bifidobacterium 57 Leydig cell 57 multigenic 57 chromosomal rearrangements 57 M. leprae 57 protonated 57 membrane proximal 57 prion gene 57 globular proteins 57 recombination hotspots 57 avium 57 Eukaryotes 57 polyploids 57 P. gingivalis 57 barbatus 57 angiosperms flowering plants 57 Aspergillus species 57 haemagglutinin 57 genus 57 de novo mutations 57 UTRs 57 haplotypes 57 genetic heterogeneity 57 allelic 57 bacterial symbiont 57 sialic acids 57 H#N# influenza viruses 57 australopithecines 57 miRNAs miR 57 hominoid 57 protists 57 H#N# isolates 57 Sahelanthropus tchadensis 57 vertebrate animals 57 extracellular domains 57 honeybee Apis mellifera 57 Burkholderia 57 dyads 57 Psittacosaurus 57 theropods 57 heterozygosity 57 H. influenzae 57 glomerular 57 transgene expression 57 virulence genes 57 A. ramidus 57 punctate 57 chick embryo 57 ribosomal DNA 57 CagA 57 endogenous retroviruses 57 Fig. 3B 57 polygenic 57 lysine residues 57 histocompatibility 57 T rubrum 57 trimers 57 Prochlorococcus 57 untranslated regions 57 bacterial genomes 57 retinoid X 57 viridis 57 chimpanzee Pan troglodytes 57 cyanobacterial 57 Rickettsia 57 teleost fish 57 noncoding 57 hantaviruses 57 conserved sequences 57 karyotypes 57 homodimers 57 S. Typhimurium 57 Geochelone species 57 A. fumigatus 57 coiled coil 57 toothless beak 57 Platynereis 57 CRISPR 57 orientalis 57 pacificus 57 ray finned fishes 57 endogenous retrovirus 57 animal phyla 57 imprinted genes 57 lymphoid cells 57 multinucleated 57 C#BL/#J 57 RNA fragments 57 centromeres 57 RNA binding 57 epidermidis 57 peccary 57 gigantea 57 spinous 57 Dehalococcoides 57 serologically 57 S. typhimurium 57 disulfide bond 57 flatworm 57 pipiens 57 distinct subtypes 56 indicus 56 CpG 56 Pakasuchus 56 invertebrate animals 56 simian immunodeficiency virus 56 MHC genes 56 mangabeys 56 KCNQ1 56 Fig. 2C 56 prokaryotic 56 Borrelia 56 evolutionary relatedness 56 Nilo Saharan 56 transposable elements 56 Massospondylus 56 Plasmodium species 56 δ 56 homology 56 Genotypic 56 unmethylated DNA 56 Sinosauropteryx 56 #S ribosomal RNA 56 evolutionarily 56 genomically 56 gene locus 56 Anomalocaris 56 cellularity 56 A. niger 56 annelid 56 quinone 56 Cetomimidae 56 Ehrlichia 56 cell lysates 56 single celled microbes 56 canadensis 56 CD1d 56 Kosmoceratops richardsoni 56 Indohyus 56 PGCs 56 mole rat 56 mouse lemur 56 Late Devonian 56 brevirostris 56 mutant alleles 56 mutational 56 teratoma 56 replikins 56 CHD7 56 Mycoplasma pneumoniae 56 comb jelly 56 suppressor gene 56 PON1 gene 56 isotope ratios 56 Treponema pallidum 56 eukaryotic genomes 56 choanoflagellates 56 germline cells 56 siderophore 56 V3 loop 56 unmutated 56 ectodermal 56 IgG4 56 crinoid 56 proline rich 56 multi celled 56 chromosome #q#.# [002] 56 ribosomal RNA 56 Apis mellifera 56 filoviruses 56 methylation patterns 56 MC1R gene 56 Chlamydomonas reinhardtii 56 L. pneumophila 56 Collembola 56 ostracods 56 sengi 56 Gallus gallus 56 tRNA synthetases 56 P. infestans 56 transcriptomes 56 sympatric speciation 56 Enterobacteriaceae 56 species 56 dimorphic 56 pallidus 56 pygmaeus 56 multicellular organism 56 mosasaurs 56 Streptococcus thermophilus 56 unmethylated 56 paramyxoviruses 56 haploid 56 pea aphid 56 paternally inherited 56 tetrapod 56 abnormal prion protein 56 P. reichenowi 56 operon 56 microhabitats 56 retrotransposon 56 proband 56 macromolecule 56 Chiroptera 56 gametocytes 56 Heterodontosaurus 56 methyltransferase 56 transmissible spongiform encephalopathies 56 trimer 56 endospores 56 B. cereus 56 Trichoderma 56 allele frequency 56 Simian Immunodeficiency Virus 56 hippocampal neurons 56 vertebrate 56 tRNA synthetase 56 deacetylation 56 opportunistic pathogen 56 Alleles 56 Enterobacter 56 staphylococci 56 carboxyl terminal 56 transmembrane domains 56 Fig. 1c 56 allelic variants 56 Fig. 3A 56 Fig. 3a 56 Phenotypic 56 Histological examination 56 polychaete 56 PRNP 56 heterozygote 56 posttranslational modifications 56 ABCB1 56 mammalian ancestor 56 genuses 56 Castorocauda 56 papillomas 56 chromatogram 56 prion strains 56 vitellogenin 56 Haplogroup 56 terrestris 56 ribosomal proteins 56 serum antibodies 56 deleterious mutations 56 microdeletion 56 commensal bacteria 56 hyphae 56 Streptococcus agalactiae 56 Dictyostelium 56 QTL mapping 56 NOD mouse 56 cysteines 56 hominid species 56 microfilariae 56 extracellular domain 56 Homo ergaster 56 Nosema apis 56 chromosomal DNA 56 functional polymorphism 56 lobe finned fishes 56 GPx 56 cellular prion protein 56 arthropod 56 cybrid 56 V#F mutation 56 Dicer enzyme 56 Plasmodium knowlesi 56 Nectocaris 56 diatom species 56 centromeric 56 morphogen 56 antarctica 56 contigs 56 multi celled organisms 56 Inkayacu 56 lateralized 56 valine 55 trypanosome 55 H. erectus 55 Arabidopsis genome 55 protein fragment 55 fruitfly Drosophila 55 subspecies 55 evolutionary divergence 55 SARS CoV 55 hyperplastic 55 #p#.# [001] 55 fruitflies 55 Deinococcus 55 Propionibacterium acnes 55 X. laevis 55 organism genome 55 PDZ domains 55 phenotypic plasticity 55 thale cress Arabidopsis thaliana 55 BARD1 55 hydroxyproline 55 epigenetically 55 aculeatus 55 genus Homo 55 deletion mutant 55 rRNA 55 polyploidy 55 ependymomas 55 symbioses 55 Streptomyces 55 sauropodomorph 55 marine invertebrate 55 Guanlong wucaii 55 karyotype 55 polypoid 55 Candida glabrata 55 wildtype 55 spontaneous mutation 55 neotropical 55 Brassicaceae 55 S. pombe 55 mRNA molecules 55 forkhead 55 Caenorhabditis elegans 55 outcrossing 55 amino acid residues 55 lactis 55 enolase 55 disulfide bonds 55 metabolomic profiles 55 Salmonella enterica 55 europaea 55 5 hydroxymethylcytosine 55 Vps# 55 echinoderm 55 autosomes 55 PB1 F2 55 eukaryotic cell 55 mycobacteria 55 germline 55 australis 55 intracytoplasmic 55 microscopic single celled 55 domestica 55 floral nectar 55 β1 55 called Abydosaurus mcintoshi 55 hominin species 55 parasitized 55 Osedax worms 55 genetic polymorphism 55 chick embryos 55 tetramer 55 Y. pestis 55 mtDNA 55 Leydig cells 55 Stegodon 55 immunoreactivity 55 outgroups 55 antigenic epitopes 55 parthenogenic 55 homologue 55 Treponema 55 picornavirus 55 caecilians 55 SIVcpz 55 Enterococcus faecalis 55 HLA gene 55 Plasmodium 55 single celled algae 55 pummelo 55 homodimer 55 Prototaxites 55 flavivirus 55 Australopithecines 55 toothed whales 55 homologous genes 55 acetylated 55 primordia 55 C#Y 55 medaka 55 hominins 55 neural crest 55 cecal 55 hindlimbs 55 PrPSc 55 KIAA# 55 Geochelone 55 cichlid species 55 morphometric 55 hexose 55 anal fin 55 lymphocytic 55 Confocal microscopy 55 endonuclease 55 Mesozoic mammals 55 sativum 55 Comparative genomics 55 hexamers 55 vertebrate species 55 AVPR1A 55 telomere DNA 55 rostral 55 evolvability 55 nitrogen isotope 55 insects crustaceans 55 fission yeast 55 outgroup 55 proteinase 55 collagenous 55 KCNH2 55 hydrolase 55 telomeric 55 chromatid 55 Transcriptome 55 genome rearrangements 55 parasitaemia 55 Figure 1C 55 cathepsin B 55 tRNA genes 55 pseudogene 55 multicellular 55 synaptotagmin 55 ribosomal protein 55 vertebrate genomes 55 Staphylococcus epidermidis 55 S. constellatus 55 transcriptome sequencing 55 #q#.# [001] 55 superorganism 55 lagomorphs 55 Heliconius 55 HLA G 55 plantarum 55 spp 55 genera 55 tropomyosin 55 killifish 55 HepG2 cells 55 noncoding RNAs 55 cadherins 55 lymphoblastoid cell lines 55 odorant receptor 55 ultraconserved elements 55 pyrope garnet 55 planktonic foraminifera 55 kipunji 55 PCR amplified 55 monomorphic 55 Bacillus species 55 Bacillus thuringiensis bacterium 55 cerevisiae 55 theropod dinosaurs 55 Figure 2C 55 reassorted 55 gut microbes 55 Pollen grains 55 catenin 55 Neu5Gc 55 monogenic 55 rotaviruses 55 PcG proteins 55 perivascular 55 resistant isolates 55 pea aphids 55 CTVT 55 plectasin 55 rufa 55 adventitious roots 55 asiatica 55 loach 55 Haemophilus 55 phagocytic cells 55 familial clustering 55 Fig. 4B 55 umbilical vein 55 socially monogamous 55 erectus 55 peroxidase 55 recessive mutation 55 microbial organisms 55 Mendelian 55 neural crest cells 55 alternatively spliced 55 kD 55 P. syringae 55 cartilaginous fish 55 histone H4 55 non mammalian vertebrates 55 sequenced genome 55 palustris 55 morphological characteristics 55 cone snails 55 maternal lineages 55 cytotoxin 55 hemolymph 55 Secretase 55 RANTES 55 plasmodium 55 O. tugenensis 55 capsular polysaccharide 55 non coding RNA 55 MRSA isolates 55 site directed mutagenesis 55 transmembrane 55 autoreactive 55 rs# [001] 55 comparative genomic analysis 55 olfactory receptor 55 gastric adenocarcinoma 55 thaliana 55 homozygotes 55 Cucurbita pepo 55 transmembrane protein 54 africanus 54 γ 54 PBMCs 54 fibrillar 54 Clostridia 54 M. genitalium 54 introns 54 nematode worm 54 parasitize 54 heterotrophic 54 chromosome rearrangements 54 distantly related species 54 mitochondrial genome 54 Dictyostelium discoideum 54 beta lactamases 54 antiquus