Phylogeny Concept

subject area of

• 'Outlier' lipocalins more than peripheral  Academic Article
• 17 th Century Variola Virus Reveals the Recent History of Smallpox  Academic Article
• A Catalog of Reference Genomes from the Human Microbiome  Academic Article
• A Comprehensive Analysis of Mammalian Mitochondrial Genome Base Composition and Improved Phylogenetic Methods  Academic Article
• A Comprehensive Expression Analysis of the Arabidopsis Proline-rich Extensin-like Receptor Kinase Gene Family using Bioinformatic and Experimental Approaches  Academic Article
• A Large and Consistent Phylogenomic Dataset Supports Sponges as the Sister Group to All Other Animals  Academic Article
• A Non-Long Terminal Repeat Retrotransposon Family Is Restricted to the Germ Line Micronucleus of the Ciliated Protozoan Tetrahymena thermophila  Academic Article
• A T-to-G Transversion at Nucleotide −567 Upstream of HBG2 in a GATA-1 Binding Motif Is Associated with Elevated Hemoglobin F  Academic Article
• A Type VI Secretion-Related Pathway in Bacteroidetes Mediates Interbacterial Antagonism  Academic Article
• A coalescent framework for comparing alternative models of population structure with genetic data: evolution of Celebes toads  Academic Article
• A comparative study of an innate immune response in Lamprologine cichlid fishes  Academic Article
• A comprehensive genomic history of extinct and living elephants  Academic Article
• A comprehensive study of genic variation in natural populations of Drosophila melanogaster. IV. Mitochondrial DNA variation and the role of history vs. selection in the genetic structure of geographic populations.  Academic Article
• A divergentPseudomonas aeruginosapalmitoyltransferase essential for cystic fibrosis-specific lipid A  Academic Article
• A draft genome of Yersinia pestis from victims of the Black Death  Academic Article
• A functionally divergent hydrogenosomal peptidase with protomitochondrial ancestry  Academic Article
• A maximum likelihood approach to the detection of selection from a phylogeny  Academic Article
• A mitochondrial DNA phylogeny of African clawed frogs: phylogeography and implications for polyploid evolution  Academic Article
• A new fossil assemblage shows that large angiosperm trees grew in North America by the Turonian (Late Cretaceous)  Academic Article
• A novel mTOR activating protein protects dopamine neurons against oxidative stress by repressing autophagy related cell death  Academic Article
• A novel strain of cynomolgus macaque cytomegalovirus: implications for host-virus co-evolution  Academic Article
• A phylogenetic analysis based on the gene encoding phosphoglycerate kinase  Academic Article
• A phylogenetic analysis of the pSymB replicon from the Sinorhizobium meliloti genome reveals a complex evolutionary history  Academic Article
• A phylogenomic and comparative genomic framework for resolving the polyphyly of the genus Bacillus: Proposal for six new genera of Bacillus species, Peribacillus gen. nov., Cytobacillus gen. nov., Mesobacillus gen. nov., Neobacillus gen. nov., Metabacillus gen. nov. and Alkalihalobacillus gen. nov.  Academic Article
• A phylogenomic and molecular marker based proposal for the division of the genus Borrelia into two genera: the emended genus Borrelia containing only the members of the relapsing fever Borrelia, and the genus Borreliella gen. nov. containing the members of the Lyme disease Borrelia (Borrelia burgdorferi sensu lato complex)  Academic Article
• A phylogenomic and molecular marker based taxonomic framework for the order Xanthomonadales: proposal to transfer the families Algiphilaceae and Solimonadaceae to the order Nevskiales ord. nov. and to create a new family within the order Xanthomonadales, the family Rhodanobacteraceae fam. nov., containing the genus Rhodanobacter and its closest relatives  Academic Article
• A phylogenomic and molecular markers based analysis of the phylum Chlamydiae: proposal to divide the class Chlamydiia into two orders, Chlamydiales and Parachlamydiales ord. nov., and emended description of the class Chlamydiia  Academic Article
• A phylogenomic and molecular markers based taxonomic framework for members of the order Entomoplasmatales: proposal for an emended order Mycoplasmatales containing the family Spiroplasmataceae and emended family Mycoplasmataceae comprised of six genera  Academic Article
• A phylogenomic framework and timescale for comparative studies of tunicates  Academic Article
• A phylogenomic reappraisal of family-level divisions within the class Halobacteria: proposal to divide the order Halobacteriales into the families Halobacteriaceae, Haloarculaceae fam. nov., and Halococcaceae fam. nov., and the order Haloferacales into the families, Haloferacaceae and Halorubraceae fam nov.  Academic Article
• A spliceosomal intron inGiardialamblia  Academic Article
• ANATOMIC ASYMMETRY IN THE TEMPORAL LOBES: ITS DOCUMENTATION, PHYLOGENESIS, AND RELATIONSHIP TO FUNCTIONAL ASYMMETRY  Academic Article
• Abundant sequence variation around the mitochondrial origin of replication in the human opportunistic yeast pathogen Candida albicans from a tropical island in China  Academic Article
• Accelerated Evolutionary Rate of Housekeeping Genes in Tunicates  Academic Article
• Adaptive Radiation and Ecological Opportunity in Sulawesi and Philippine Fanged Frog (Limnonectes) Communities  Academic Article
• Additional molecular support for the new chordate phylogeny  Academic Article
• Adenosine kinase and ribokinase – the RK family of proteins  Academic Article
• Aerobic proteobacterial methylotrophs in Movile Cave: genomic and metagenomic analyses  Academic Article
• Agricultural soil denitrifiers possess extensive nitrite reductase gene diversity  Academic Article
• Alignment/Phylogeny of the Papain Superfamily of Cysteine Proteases  Academic Article
• Amplification and sequencing of DNA from a 120–135-million-year-old weevil  Academic Article
• An Assessment of Sub-Meter Scale Spatial Variability of Arcellinida (Testate Lobose Amoebae) Assemblages in a Temperate Lake: Implications for Limnological Studies  Academic Article
• An evaluation of logic regression-based biomarker discovery across multiple intergenic regions for predicting host specificity in Escherichia coli  Academic Article
• An evolutionary model for the insect vitellins  Academic Article
• An unusual myosuppressin from the blood-feeding bugRhodnius prolixus  Academic Article
• An updated 18S rRNA phylogeny of tunicates based on mixture and secondary structure models  Academic Article
• Analysis of Canis mitochondrial DNA demonstrates high concordance between the control region and ATPase genes  Academic Article
• Analysis of the legume-rhizobia symbiosis in shrubs from central western Spain  Academic Article
• Ancestry Influences the Fate of Duplicated Genes Millions of Years After Polyploidization of Clawed Frogs (Xenopus)  Academic Article
• Ancient DNA  Academic Article
• Ancient DNA and the tropics: a rodent's tale  Academic Article
• Ancient DNA from lake sediments: Bridging the gap between paleoecology and genetics  Academic Article
• Ancient Mitogenomes Reveal the Evolutionary History and Biogeography of Sloths  Academic Article
• Ancient pathogen DNA in archaeological samples detected with a Microbial Detection Array  Academic Article
• Ancyromonadida: A New Phylogenetic Lineage Among the Protozoa Closely Related to the Common Ancestor of Metazoans, Fungi, and Choanoflagellates (Opisthokonta)  Academic Article
• Annexin-like alpha giardins: a new cytoskeletal gene family in Giardia lamblia  Academic Article
• AnnoTree: visualization and exploration of a functionally annotated microbial tree of life  Academic Article
• Antibiotic resistance is ancient  Academic Article
• Application of the Character Compatibility Approach to Generalized Molecular Sequence Data: Branching Order of the Proteobacterial Subdivisions  Academic Article
• Are similarity- or phylogeny-based methods more appropriate for classifying internal transcribed spacer (ITS) metagenomic amplicons?  Academic Article
• Armadillos exhibit less genetic polymorphism in North America than in South America: nuclear and mitochondrial data confirm a founder effect in Dasypus novemcinctus (Xenarthra)  Academic Article
• Army Ants Trapped by Their Evolutionary History  Academic Article
• Assessment of the Microbial Constituents of the Home Environment of Individuals with Cystic Fibrosis (CF) and Their Association with Lower Airways Infections  Academic Article
• Asymmetrical Evolution of Cytochrome bd Subunits  Academic Article
• Autoecological Approaches to Resolve Subjective Taxonomic Divisions within Arcellacea  Academic Article
• Bacillus DNA in fossil bees: an ancient symbiosis?  Academic Article
• Bacterial biogeography of the human digestive tract  Academic Article
• Bats and Coronaviruses  Academic Article
• Bayesian Phylogenetics Using an RNA Substitution Model Applied to Early Mammalian Evolution  Academic Article
• Bursts of nonsynonymous substitutions in HIV-1 evolution reveal instances of positive selection at conservative protein sites  Academic Article
• CLONING AND CHARACTERIZATION OF AN mRNA ENCODING AN INSULIN RECEPTOR FROM THE HORNED SCARAB BEETLEOnthophagus nigriventris(COLEOPTERA: SCARABAEIDAE)  Academic Article
• Capturing the diversity of the human gut microbiota through culture-enriched molecular profiling  Academic Article
• Carving out turf in a biodiversity hotspot: multiple, previously unrecognized shrew species co-occur on Java Island, Indonesia  Academic Article
• Characterization and assessment of an avian repetitive DNA sequence as an icterid phylogenetic marker  Academic Article
• Characterization of Class I– and Class II–Like Major Histocompatibility Complex Loci in Pedigrees of North Atlantic Right Whales  Academic Article
• Characterization of a Rifampin-Inactivating Glycosyltransferase from a Screen of Environmental Actinomycetes  Academic Article
• Characterization of a cetacean aromatase (CYP19) and the phylogeny and functional conservation of vertebrate aromatase  Academic Article
• Characterization of yeast homoserine dehydrogenase, an antifungal target: the invariant histidine 309 is important for enzyme integrity  Academic Article
• Chimeric Structure of the NAD(P)+- and NADP+-dependent Malic Enzymes ofRhizobium (Sinorhizobium) meliloti  Academic Article
• Chitinase genes (CHIAs) provide genomic footprints of a post-Cretaceous dietary radiation in placental mammals  Academic Article
• Chlamydiae-specific proteins and indels: novel tools for studies  Academic Article
• Clades of huge phages from across Earth’s ecosystems  Academic Article
• Clinical and tree hollow populations of human pathogenic yeast in Hamilton, Ontario, Canada are different  Academic Article
• Clonal Genotype of Geomyces destructans among Bats with White Nose Syndrome, New York, USA  Academic Article
• Clonal and Spontaneous Origins of Fluconazole Resistance in Candida albicans  Academic Article
• Cloning and Some Novel Characteristics of Mitochondrial Hsp70 from Chinese Hamster Cells  Academic Article
• Cloning of Giardia lamblia heat shock protein HSP70 homologs: implications regarding origin of eukaryotic cells and of endoplasmic reticulum.  Academic Article
• Cloning of the hsp70 (dnaK) genes from Rhizobium meliloti and Pseudomonas cepacia: phylogenetic analyses of mitochondrial origin based on a highly conserved protein sequence.  Academic Article
• Codon Bias and Base Composition Are Poor Indicators of Horizontally Transferred Genes  Academic Article
• Cold-Active Winter Rye Glucanases with Ice-Binding Capacity  Academic Article
• Comment on "Hexapod Origins: Monophyletic or Paraphyletic?"  Academic Article
• Comment: Characterization of Two Historic Smallpox Specimens from a Czech Museum  Academic Article
• Comparative Gene Genealogies Indicate that Two Clonal Lineages of Cryptococcus gattii in British Columbia Resemble Strains from Other Geographical Areas  Academic Article
• Comparative Genome Analysis Provides Insights into the Evolution and Adaptation of Pseudomonas syringae pv. aesculi on Aesculus hippocastanum  Academic Article
• Comparative analysis of function and interaction of transcription factors in nematodes: Extensive conservation of orthology coupled to rapid sequence evolution  Academic Article
• Comparative and genetic analysis of the four sequenced Paenibacillus polymyxa genomes reveals a diverse metabolism and conservation of genes relevant to plant-growth promotion and competitiveness  Academic Article
• Comparative chromosome painting of pronghorn (Antilocapra americana) and saola (Pseudoryx nghetinhensis) karyotypes with human and dromedary camel probes  Academic Article
• Comparative gene genealogical analyses of strains of serotype AD identify recombination in populations of serotypes A and D in the human pathogenic yeast Cryptococcus neoformans  Academic Article
• Comparative molecular phylogeography of two Xenopus species, X. gilli and X. laevis , in the south‐western Cape Province, South Africa  Academic Article
• Comparative proteome analysis of Acidaminococcus intestini supports a relationship between outer membrane biogenesis in Negativicutes and Proteobacteria  Academic Article
• Comparison of Bayesian and Maximum Likelihood Bootstrap Measures of Phylogenetic Reliability  Academic Article
• Comparison of fecal biota from specific pathogen free and feral mice  Academic Article
• Comparison of mitochondrial genomes provides insights into intron dynamics and evolution in the caterpillar fungus Cordyceps militaris  Academic Article
• Comparison of the Fecal Microbiota of Healthy Horses and Horses with Colitis by High Throughput Sequencing of the V3-V5 Region of the 16S rRNA Gene  Academic Article
• Complete Columbian mammoth mitogenome suggests interbreeding with woolly mammoths  Academic Article
• Complete mitochondrial genomes of living and extinct pigeons revise the timing of the columbiform radiation  Academic Article
• Conserved signature indels and signature proteins as novel tools for understanding microbial phylogeny and systematics: identification of molecular signatures that are specific for the phytopathogenic genera Dickeya, Pectobacterium and Brenneria  Academic Article
• Constraining the Time Interval for the Origin of Life on Earth  Academic Article
• Control of breathing and adaptation to high altitude in the bar-headed goose  Academic Article
• Convergence of gut microbiomes in myrmecophagous mammals  Academic Article
• Corticosteroid receptor gene expression is related to sex and social behaviour in a social fish  Academic Article
• Critical Issues in Bacterial Phylogeny  Academic Article
• Culture and molecular-based profiles show shifts in bacterial communities of the upper respiratory tract that occur with age  Academic Article
• D-Ala-D-Ala ligases from glycopeptide antibiotic-producing organisms are highly homologous to the enterococcal vancomycin-resistance ligases VanA and VanB  Academic Article
• DNA Sequence Analyses Reveal Abundant Diversity, Endemism and Evidence for Asian Origin of the Porcini Mushrooms  Academic Article
• Dating the Ngandong Humans  Academic Article
• Deep Sequencing of Mixed Total DNA without Barcodes Allows Efficient Assembly of Highly Plastic Ascidian Mitochondrial Genomes  Academic Article
• Demographic expansion and genetic load of the halophyte model plant Eutrema salsugineum  Academic Article
• Detecting recent speciation events: the case of the finless porpoise (genus Neophocaena)  Academic Article
• Development of Real-Time PCR Assays for Detection of the Streptococcus milleri Group from Cystic Fibrosis Clinical Specimens by Targeting the cpn60 and 16S rRNA Genes  Academic Article
• Differential Y‐chromosome Anatolian Influences on the Greek and Cretan Neolithic  Academic Article
• Directionality in the evolution of influenza A haemagglutinin  Academic Article
• Discovery of a proteolytic flagellin family in diverse bacterial phyla that assembles enzymatically active flagella  Academic Article
• Dispersers shape fruit diversity in Ficus (Moraceae)  Academic Article
• Distinction between Borrelia and Borreliella is more robustly supported by molecular and phenotypic characteristics than all other neighbouring prokaryotic genera: Response to Margos' et al. "The genus Borrelia reloaded" (PLoS ONE 13(12): e0208432)  Academic Article
• Distinctive Protein Signatures Provide Molecular Markers and Evidence for the Monophyletic Nature of the Deinococcus-Thermus Phylum  Academic Article
• Diurnal Floc Generation from Neuston Biofilms in Two Contrasting Freshwater Lakes  Academic Article
• Divergence, hybridization, and recombination in the mitochondrial genome of the human pathogenic yeastCryptococcus gattii  Academic Article
• Divergent respiratory and cardiovascular responses to hypoxia in bar-headed geese and Andean birds  Academic Article
• Divergent subgenome evolution after allopolyploidization in African clawed frogs (Xenopus)  Academic Article
• Diversification of Wolbachia Endosymbiont in the Culex pipiens Mosquito  Academic Article
• Diversity Considerations in HIV-1 Vaccine Selection  Academic Article
• Diversity and relationships among strains of culturable yeasts in agricultural soils in Cameroon  Academic Article
• Diversity of commensal yeasts within and among healthy hosts  Academic Article
• Division of the genus Borrelia into two genera (corresponding to Lyme disease and relapsing fever groups) reflects their genetic and phenotypic distinctiveness and will lead to a better understanding of these two groups of microbes (Margos et al. (2016) There is inadequate evidence to support the division of the genus Borrelia. Int. J. Syst. Evol. Microbiol. doi: 10.1099/ijsem.0.001717)  Academic Article
• Drainage isolation and climate change-driven population expansion shape the genetic structures of Tuber indicum complex in the Hengduan Mountains region  Academic Article
• EVOLUTION OF THE CLOSELY RELATED, SEX-RELATED GENES DM-W AND DMRT1 IN AFRICAN CLAWED FROGS (XENOPUS)  Academic Article
• Ecological Genomics of Marine Roseobacters  Academic Article
• Ecological and physical barriers shape genetic structure of the Alpine porcini (Boletus reticuloceps)  Academic Article
• Enzyme Evolution Explained (Sort Of)  Academic Article
• Estimating Maximum Likelihood Phylogenies with PhyML  Academic Article
• Estimating the Frequency of Horizontal Gene Transfer Using Phylogenetic Models of Gene Gain and Loss  Academic Article
• Evidence for Inbreeding and Genetic Differentiation among Geographic Populations of the Saprophytic Mushroom Trogia venenata from Southwestern China  Academic Article
• Evidence for Lateral Transfer of Genes Encoding Ferredoxins, Nitroreductases, NADH Oxidase, and Alcohol Dehydrogenase 3 from Anaerobic Prokaryotes to Giardialamblia and Entamoebahistolytica  Academic Article
• Evidence for local DNA influences on patterns of substitutions in the human α-interferon gene family  Academic Article
• Evidence for the monophyletic evolution of benzylisoquinoline alkaloid biosynthesis in angiosperms  Academic Article
• Evidence for the monophyletic evolution of benzylisoquinoline alkaloid biosynthesis in angiosperms.  Academic Article
• Evidence for the presence of key chlorophyll-biosynthesis-related proteins in the genus Rubrobacter (Phylum Actinobacteria) and its implications for the evolution and origin of photosynthesis  Academic Article
• Evidence of Naturalized Stress-Tolerant Strains of Escherichia coli in Municipal Wastewater Treatment Plants  Academic Article
• Evidence of unique genetic diversity in Aspergillus fumigatus isolates from Cameroon  Academic Article
• Evidence that Human Chlamydia pneumoniae Was Zoonotically Acquired  Academic Article
• Evolution in the Fast Lane: Rapidly Evolving Sex-Related Genes in Drosophila  Academic Article
• Evolution of Allosteric Control in Glycogen Phosphorylase  Academic Article
• Evolution of Eukaryotic Transcription: Insights From the Genome of Giardia lamblia  Academic Article
• Evolution of HSP70 gene and its implications regarding relationships between archaebacteria, eubacteria, and eukaryotes  Academic Article
• Evolution of Proteasome Regulators in Eukaryotes  Academic Article
• Evolution of RAG-1 in Polyploid Clawed Frogs  Academic Article
• Evolution of genes and genomes on the Drosophila phylogeny  Academic Article
• Evolution of the Largest Mammalian Genome  Academic Article
• Evolution of the RpoS Regulon: Origin of RpoS and the Conservation of RpoS-Dependent Regulation in Bacteria  Academic Article
• Evolution of the chaperonin families (HSP60, HSP 10 and TCP-1) of proteins and the origin of eukaryotic cells  Academic Article
• Evolution ofDrosophilasex comb length illustrates the inextricable interplay between selection and variation  Academic Article
• Evolution-guided discovery of antibiotics that inhibit peptidoglycan remodelling  Academic Article
• Evolutionary analysis of selective constraints identifies ameloblastin (AMBN) as a potential candidate for amelogenesis imperfecta  Academic Article
• Evolutionary and Functional Analyses of the Interaction between the Myeloid Restriction Factor SAMHD1 and the Lentiviral Vpx Protein  Academic Article
• Evolutionary and functional diversity of thePseudomonastype IVa pilin island  Academic Article
• Evolutionary rate variation within Mus APRT  Academic Article
• Evolutionary relationships among photosynthetic prokaryotes (Heliobacterium chlorum, Chloroflexus aurantiacus, cyanobacteria, Chlorobium tepidum and proteobacteria): implications regarding the origin of photosynthesis  Academic Article
• Expanded diversity of microbial groups that shape the dissimilatory sulfur cycle  Academic Article
• Expanding the soil antibiotic resistome: exploring environmental diversity  Academic Article
• Exploratory analysis of multiple sequence alignments using phylogenies  Academic Article
• Expressed sequence tags from the Yukon ecotype of Thellungiella reveal that gene expression in response to cold, drought and salinity shows little overlap  Academic Article
• Extracting Haplotypes from Diploid Organisms  Academic Article
• Factors Affecting the Errors in the Estimation of Evolutionary Distances Between Sequences  Academic Article
• Factors That Affect Large Subunit Ribosomal DNA Amplicon Sequencing Studies of Fungal Communities: Classification Method, Primer Choice, and Error  Academic Article
• Fate of Cd during Microbial Fe(III) Mineral Reduction by a Novel and Cd-TolerantGeobacterSpecies  Academic Article
• First Evidence for the Presence of Iron Oxidizing Zetaproteobacteria at the Levantine Continental Margins  Academic Article
• Fish gill morphology: inside out  Academic Article
• Fossil Rhabdoviral Sequences Integrated into Arthropod Genomes: Ontogeny, Evolution, and Potential Functionality  Academic Article
• Frequent heteroplasmy and recombination in the mitochondrial genomes of the basidiomycete mushroom Thelephora ganbajun  Academic Article
• Functional Biogeography of Ocean Microbes Revealed through Non-Negative Matrix Factorization  Academic Article
• Functional Divergence in the Arabidopsis  -1,3-Glucanase Gene Family Inferred by Phylogenetic Reconstruction of Expression States  Academic Article
• Functional Diversity of Haloacid Dehalogenase Superfamily Phosphatases fromSaccharomyces cerevisiae  Academic Article
• Functional metagenomics reveals novel β-galactosidases not predictable from gene sequences  Academic Article
• Fungal mitochondrial genomes and genetic polymorphisms  Academic Article
• GEOSCIENCE: Microbial Geoengineers  Academic Article
• Galactitol catabolism in Sinorhizobium meliloti is dependent on a chromosomally encoded sorbitol dehydrogenase and a pSymB-encoded operon necessary for tagatose catabolism  Academic Article
• Gene Gain and Gene Loss in Streptococcus: Is It Driven by Habitat?  Academic Article
• Gene duplication and divergence produce divergent MHC genotypes without disassortative mating  Academic Article
• Generation and Analysis of a Mouse Intestinal Metatranscriptome through Illumina Based RNA-Sequencing  Academic Article
• Genetic Analyses from Ancient DNA  Academic Article
• Genetic Analyses of the Internal Transcribed Spacer Sequences Suggest Introgression and Duplication in the Medicinal Mushroom Agaricus subrufescens  Academic Article
• Genetic Diversity of Dahongjun, the Commercially Important “Big Red Mushroom” from Southern China  Academic Article
• Genetic Structure of Herpetofauna on Halmahera Island, Indonesia: Implications for Aketajawe-Lolobata National Park  Academic Article
• Genetic Tracking of the Raccoon Variant of Rabies Virus in Eastern North America  Academic Article
• Genetic and biochemical properties of an alkaline phosphatase PhoX family protein found in many bacteria  Academic Article
• Genetic and epidemiological analysis of norovirus from children with gastroenteritis in Botswana, 2013–2015  Academic Article
• Genetic differentiation, recombination and clonal expansion in environmental populations of Cryptococcus gattii in India  Academic Article
• Genetic diversity of the endemic gourmet mushroom Thelephora ganbajun from south-western China  Academic Article
• Genetics, Morphology, Advertisement Calls, and Historical Records Distinguish Six New Polyploid Species of African Clawed Frog (Xenopus, Pipidae) from West and Central Africa  Academic Article
• Genome comparisons reveal a dominant mechanism of chromosome number reduction in grasses and accelerated genome evolution in Triticeae  Academic Article
• Genome duplication events have led to a diversification in the CPT I gene family in fish  Academic Article
• Genome sequence of adherent-invasive Escherichia coli and comparative genomic analysis with other E. coli pathotypes  Academic Article
• Genome skimming by shotgun sequencing helps resolve the phylogeny of a pantropical tree family  Academic Article
• Genome structure and gene content in protist mitochondrial DNAs  Academic Article
• Genome-Scale Phylogeny and the Detection of Systematic Biases  Academic Article
• Genome-based phylogeny and taxonomy of the ‘Enterobacteriales’: proposal for Enterobacterales ord. nov. divided into the families Enterobacteriaceae, Erwiniaceae fam. nov., Pectobacteriaceae fam. nov., Yersiniaceae fam. nov., Hafniaceae fam. nov., Morganellaceae fam. nov., and Budviciaceae fam. nov.  Academic Article
• Genome-based taxonomic framework for the class Negativicutes: division of the class Negativicutes into the orders Selenomonadales emend., Acidaminococcales ord. nov. and Veillonellales ord. nov.  Academic Article
• Genomic Analyses Identify Novel Molecular Signatures Specific for the Caenorhabditis and other Nematode Taxa Providing Novel Means for Genetic and Biochemical Studies  Academic Article
• Genomic Minimalism in the Early Diverging Intestinal Parasite Giardia lamblia  Academic Article
• Genomic analyses reveal low mitochondrial and high nuclear diversity in the cyclosporin-producing fungus Tolypocladium inflatum  Academic Article
• Genomic and transcriptomic analyses of the tangerine pathotype of Alternaria alternata in response to oxidative stress  Academic Article
• Genomic insights into the evolution and ecology of botulinum neurotoxins  Academic Article
• Genomic organization and linkage via a bidirectional promoter of the AP-3 (adaptor protein-3) mu3A and AK (adenosine kinase) genes: deletion mutants of AK in Chinese hamster cells extend into the AP-3 mu3A gene  Academic Article
• Genomics as a means to understand bacterial phylogeny and ecological adaptation: the case of bifidobacteria  Academic Article
• Genomics of Loa loa, a Wolbachia-free filarial parasite of humans  Academic Article
• HSP70 phylogeny and the relationship between archaebacteria, eubacteria, and eukaryotes  Academic Article
• HYBRIDIZATION AND POPULATION GENETICS OF TWO MACAQUE SPECIES IN SULAWESI, INDONESIA  Academic Article
• Have wing morphology or flight kinematics evolved for extreme high altitude migration in the bar-headed goose?  Academic Article
• Heterologous Complementation Reveals a Specialized Activity for BacA in the Medicago–Sinorhizobium meliloti Symbiosis  Academic Article
• Heterotachy and long-branch attraction in phylogenetics.  Academic Article
• High inbreeding, limited recombination and divergent evolutionary patterns between two sympatric morel species in China  Academic Article
• Human symbionts inject and neutralize antibacterial toxins to persist in the gut  Academic Article
• Hydrocarbon-related microbial processes in the deep sediments of the Eastern Mediterranean Levantine Basin  Academic Article
• Identification and characterization of RED120: A conserved PWI domain protein with links to splicing and 3′-end formation  Academic Article
• Identification and developmental expression of the full complement of Cytochrome P450 genes in Zebrafish  Academic Article
• Identification of a Hydroxyproline Transport System in the Legume Endosymbiont Sinorhizobium meliloti  Academic Article
• Identification of a Novel Group of Bacteria in Sludge from a Deteriorated Biological Phosphorus Removal Reactor  Academic Article
• Identification of a Novel Hepatitis C Virus Genotype From Punjab, India: Expanding Classification of Hepatitis C Virus Into 8 Genotypes  Academic Article
• Identification of a conserved 8 aa insert in the PIP5K protein in the Saccharomycetaceae family of fungi and the molecular dynamics simulations and structural analysis to investigate its potential functional role  Academic Article
• Identification of a diphtheria toxin‐like gene family beyond the Corynebacterium genus  Academic Article
• Identification of distinctive molecular traits that are characteristic of the phylum “Deinococcus-Thermus” and distinguish its main constituent groups  Academic Article
• Identification of numerous hepatitis C virus genotypes in Montreal, Canada.  Academic Article
• Identification, spatial expression analysis and functional characterization of a pyrokinin-1 receptor in the Chagas’ disease vector, Rhodnius prolixus  Academic Article
• Identifying producers of antibacterial compounds by screening for antibiotic resistance  Academic Article
• Impact of genomics on the understanding of microbial evolution and classification: the importance of Darwin's views on classification  Academic Article
• Incidence of elephant endotheliotropic herpesvirus in Asian elephants in India  Academic Article
• Increase in Carbohydrate Utilization in High-Altitude Andean Mice  Academic Article
• Inferring Bacterial Genome Flux While Considering Truncated Genes  Academic Article
• Inferring sequence regions under functional divergence in duplicate genes  Academic Article
• Influence of Tertiary paleoenvironmental changes on the diversification of South American mammals: a relaxed molecular clock study within xenarthrans.  Academic Article
• Insulin signaling and limb-patterning: candidate pathways for the origin and evolutionary diversification of beetle ‘horns’  Academic Article
• Integrated gene and species phylogenies from unaligned whole genome protein sequences  Academic Article
• Intergenic Sequence Comparison of Escherichia coli Isolates Reveals Lifestyle Adaptations but Not Host Specificity  Academic Article
• Interspecies Recombination Contributes Minimally to Fluoroquinolone Resistance in Streptococcus pneumoniae  Academic Article
• Iron-Dependent Hydrogenases of Entamoeba histolytica and Giardia lamblia: Activity of the Recombinant Entamoebic Enzyme and Evidence for Lateral Gene Transfer  Academic Article
• Is Antigenic Sin Always “Original?” Re-examining the Evidence Regarding Circulation of a Human H1 Influenza Virus Immediately Prior to the 1918 Spanish Flu  Academic Article
• Is there convergence in the molecular pathways underlying the repeated evolution of sociality in African cichlids?  Academic Article
• Isolation and Characterization of Novel Marine-Derived Actinomycete Taxa Rich in Bioactive Metabolites  Academic Article
• Isolation, identification and characterization of Paenibacillus polymyxa CR1 with potentials for biopesticide, biofertilization, biomass degradation and biofuel production  Academic Article
• Iterative Evolution of Increased Behavioral Variation Characterizes the Transition to Sociality in Spiders and Proves Advantageous  Academic Article
• JOINT RECONSTRUCTION OF DIVERGENCE TIMES AND LIFE-HISTORY EVOLUTION IN PLACENTAL MAMMALS USING A PHYLOGENETIC COVARIANCE MODEL  Academic Article
• Latent homologues for the neural crest as an evolutionary novelty  Academic Article
• Lateral Transfers of Serine Hydroxymethyltransferase (glyA) and UDP-N-Acetylglucosamine Enolpyruvyl Transferase (murA) Genes from Free-living Actinobacteria to the Parasitic Chlamydiae  Academic Article
• Lateral gene transfer in Mycobacterium avium subspecies paratuberculosis  Academic Article
• Les datations moléculaires à l’heure de la génomique  Academic Article
• Less Is More in Mammalian Phylogenomics: AT-Rich Genes Minimize Tree Conflicts and Unravel the Root of Placental Mammals  Academic Article
• Life history evolution in cichlids 1: revisiting the evolution of life histories in relation to parental care  Academic Article
• Life history evolution in cichlids 2: directional evolution of the trade-off between egg number and egg size  Academic Article
• Lineage-specific mutational clustering in protein structures predicts evolutionary shifts in function  Academic Article
• Local Molecular Clocks in Three Nuclear Genes: Divergence Times for Rodents and Other Mammals and Incompatibility Among Fossil Calibrations  Conference Paper
• Microbial Diversity and Host-Specific Sequences of Canada Goose Feces  Academic Article
• Microbial ecology in the age of genomics and metagenomics: concepts, tools, and recent advances  Academic Article
• Microbial systematics in the post-genomics era  Academic Article
• Microbiota at Multiple Body Sites during Pregnancy in a Rural Tanzanian Population and Effects of Moringa-Supplemented Probiotic Yogurt  Academic Article
• Middle East Respiratory Syndrome Coronavirus Infection in Dromedary Camels in Saudi Arabia  Academic Article
• Minimal ProtoHox cluster inferred from bilaterian and cnidarian Hox complements  Academic Article
• Mitochondrial DNA analysis of sympatric morphotypes of bottlenose dolphins (genus: Tursiops) in Chinese waters  Academic Article
• Mitochondrial DNA variation and genetic structure in populations of Drosophila melanogaster.  Academic Article
• Molecular Cloning and Characterization of Tetrahydroprotoberberinecis-N-Methyltransferase, an Enzyme Involved in Alkaloid Biosynthesis in Opium Poppy  Academic Article
• Molecular Evolution of Cytochrome c Oxidase Underlies High-Altitude Adaptation in the Bar-Headed Goose  Academic Article
• Molecular Phylogeny of Living Xenarthrans and the Impact of Character and Taxon Sampling on the Placental Tree Rooting  Academic Article
• Molecular Polymorphism and Divergence of Duplicated Genes in Tetraploid African Clawed Frogs (Xenopus)  Academic Article
• Molecular Traits of Long Non-protein Coding RNAs from Diverse Plant Species Show Little Evidence of Phylogenetic Relationships  Academic Article
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• Molecular and phylogenetic approaches for assessing sources of Cryptosporidium contamination in water  Academic Article
• Molecular caving  Academic Article
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• Molecular evolution of the vesicle coat component βCOP in Toxoplasma gondii  Academic Article
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• Molecular signatures (conserved indels) in protein sequences that are specific for the order Pasteurellales and distinguish two of its main clades  Academic Article
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• Molecular signatures for the class Coriobacteriia and its different clades; proposal for division of the class Coriobacteriia into the emended order Coriobacteriales , containing the emended family Coriobacteriaceae and Atopobiaceae fam. nov., and Eggerthellales ord. nov., containing the family Eggerthellaceae fam. nov.  Academic Article
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• Multiple gene genealogical analyses reveal both common and distinct population genetic patterns among replicons in the nitrogen-fixing bacterium Sinorhizobium meliloti  Academic Article
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• Multiple origins of hybrid strains of Cryptococcus neoformans with serotype AD  Academic Article
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• Necessity and rationale for the proposed name changes in the classification of Mollicutes species. Reply to: ‘Recommended rejection of the names Malacoplasma gen. nov., Mesomycoplasma gen. nov., Metamycoplasma gen. nov., Metamycoplasmataceae fam. nov., Mycoplasmoidaceae fam. nov., Mycoplasmoidales ord. nov., Mycoplasmoides gen. nov., Mycoplasmopsis gen. nov. [Gupta, Sawnani, Adeolu, Alnajar and Oren 2018] and all proposed species comb. nov. placed therein’, by M. Balish et al. (Int J Syst Evol Microbiol, 2019;69:3650–3653)  Academic Article
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• Novel DNA Sequences from Natural Strains of the Nitrogen-Fixing Symbiotic Bacterium Sinorhizobium meliloti  Academic Article
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• Polymerase chain reaction-based detection of bacteria in semen**Supported by grants from The Physicians' Services Incorporated Foundation, Toronto, Ontario, Canada (K.J, D.H., and M.W.M.). A Roscoe-Reid Graham Scholarship in Surgical Science and a Canadian Urology Association Scholarship, Toronto, Ontario, Canada is held by K.J.  Academic Article
• Polymorphism of human papillomavirus type 31 isolates infecting the genital tract of HIV-seropositive and HIV-seronegative women at risk for HIV infection  Academic Article
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• Predicting West Nile virus transmission in North American bird communities using phylogenetic mixed effects models and eBird citizen science data  Academic Article
• Predicting biotic interactions and their variability in a changing environment  Academic Article
• Prevalence of Epistasis in the Evolution of Influenza A Surface Proteins  Academic Article
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