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Phylogenomics of Eukaryotes: Impact of Missing Data on Large Alignments
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
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Relative Efficiencies of the Maximum Likelihood, Maximum Parsimony, and Neighbor-Joining Methods for Estimating Protein Phylogeny
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Systematics of Holometabolous Insect Orders Based on 18S Ribosomal RNA
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Species Sampling Has a Major Impact on Phylogenetic Inference
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Extracting Species Trees From Complex Gene Trees: Reconciled Trees And Vertebrate Phylogeny
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Information Theory and an Extension of the Maximum Likelihood Principle
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Maximum likelihood inference of protein phylogeny and the origin of chloroplasts
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Molecular phylogeny of the free-living archezoanTrepomonas agilis and the nature of the first eukaryote
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Maximum-likelihood models for combined analyses of multiple sequence data
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Phylogeny of Choanozoa, Apusozoa, and Other Protozoa and Early Eukaryote Megaevolution
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Phylogenomic Analysis of the α Proteasome Gene Family from Early-Diverging Eukaryotes
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The unusually long small subunit ribosomal RNA gene found in amitochondriate amoeboflagellate Pelomyxa palustris : its rRNA predicted secondary structure and phylogenetic implication
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The new phylogeny of eukaryotes
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How good are deep phylogenetic trees?
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Hsp70 sequences indicate that choanoflagellates are closely related to animals
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The Closest Unicellular Relatives of Animals
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Current advances in the phylogenetic reconstruction of metazoan evolution. A new paradigm for the Cambrian explosion?
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Are Ichthyosporea animals or fungi? Bayesian phylogenetic analysis of elongation factor 1α of Ichthyophonus irregularis
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A revised six-kingdom system of life
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The origin of red algae and the evolution of chloroplasts
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Evidence for a clade of nematodes, arthropods and other moulting animals
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The genome sequence of the filamentous fungus Neurospora crassa
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Genome-scale approaches to resolving incongruence in molecular phylogenies
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Intron insertion as a phylogenetic character: the engrailed homeobox of Strepsiptera does not indicate affinity with Diptera
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The analysis of 100 genes supports the grouping of three highly divergent amoebae: Dictyostelium , Entamoeba , and Mastigamoeba
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A phylogenetic analysis of myosin heavy chain type II sequences corroborates that Acoela and Nemertodermatida are basal bilaterians
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Molecular phylogenetic analyses of the mitochondrial ADP-ATP carriers: The Plantae/Fungi/Metazoa trichotomy revisited
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Incomplete taxon sampling is not a problem for phylogenetic inference
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Origin of mitochondria in relation to evolutionary history of eukaryotic alanyl-tRNA synthetase
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A receptor tyrosine kinase from choanoflagellates: Molecular insights into early animal evolution
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Molecular complementation of a genetic marker in Dictyostelium using a genomic DNA library.
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Animals and fungi are each other's closest relatives: congruent evidence from multiple proteins.
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Microsporidia are related to Fungi: Evidence from the largest subunit of RNA polymerase II and other proteins
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The Cambrian “explosion”: Slow-fuse or megatonnage?
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Missing data and rhynchosaur phylogeny
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Early Evolution of the Bilateria
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The Phylogenetic Trunk: Maximal Inclusion of Taxa with Missing Data in an Analysis of the Lepospondyli (Vertebrata, Tetrapoda)
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Fragmentary Taxa, Missing Data, and Ambiguity: Mistaken Assumptions and Conclusions
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Examining Basal Avian Divergences with Mitochondrial Sequences: Model Complexity, Taxon Sampling, and Sequence Length
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Increased Taxon Sampling Greatly Reduces Phylogenetic Error
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Increased Taxon Sampling Is Advantageous for Phylogenetic Inference
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Missing Data, Incomplete Taxa, and Phylogenetic Accuracy
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A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood
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Taxon Sampling and the Accuracy of Large Phylogenies
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Is It Better to Add Taxa or Characters to a Difficult Phylogenetic Problem?
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Phylogeny of Lobose Amoebae Based on Actin and Small-Subunit Ribosomal RNA Genes
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Nuclear-Encoded, Plastid-Targeted Genes Suggest a Single Common Origin for Apicomplexan and Dinoflagellate Plastids
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Efficient Biased Estimation of Evolutionary Distances When Substitution Rates Vary Across Sites
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Analyses of RNA Polymerase II Genes from Free-Living Protists: Phylogeny, Long Branch Attraction, and the Eukaryotic Big Bang
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Quartet Puzzling: A Quartet Maximum-Likelihood Method for Reconstructing Tree Topologies
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How often do wrong models produce better phylogenies?
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When are Fossils Better than Extant Taxa in Phylogenetic Analysis?
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CONFIDENCE LIMITS ON PHYLOGENIES: AN APPROACH USING THE BOOTSTRAP
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Evolution of Key Cell Signaling and Adhesion Protein Families Predates Animal Origins
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Comment on "Hexapod Origins: Monophyletic or Paraphyletic?"
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The Early Evolution of Eukaryotes: A Geological Perspective
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Phylogenetic Classification and the Universal Tree
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A Kingdom-Level Phylogeny of Eukaryotes Based on Combined Protein Data
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Monophyletic Origins of the Metazoa: an Evolutionary Link with Fungi
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The Importance of Fossils in Phylogeny Reconstruction
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The evolutionary position of nematodes
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Can the Cambrian explosion be inferred through molecular phylogeny?
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Cases in which Parsimony or Compatibility Methods Will be Positively Misleading
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When are Fossils better than Extant Taxa in Phylogenetic Analysis?
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Note on the Infusoria flagellata and the Spongiae ciliatae
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
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Ultrastructure and 28S rDNA Phylogeny of Two Gregarines: Cephaloidophora cf. communis and Heliospora cf. longissima with Remarks on Gregarine Morphology and Phylogenetic Analysis
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Pitfalls in supermatrix phylogenomics
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Current Approaches to Phylogenomic Reconstruction
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Phylogenetic Place of Microsporidia in the Tree of Eukaryotes
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Molecular Systematics of the Caniform Carnivora and its Implications for Conservation
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BAD2matrix: Phylogenomic matrix concatenation, indel coding, and more
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Data‐driven guidelines for phylogenomic analyses using SNP data
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Additional molecular support for the new chordate phylogeny
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Horizontal Gene Transfer in Choanoflagellates
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Sources of Error and Incongruence in Phylogenomic Analyses
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Quest for Ancestors of Eukaryal Cells Based on Phylogenetic Analyses of Aminoacyl-tRNA Synthetases
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Structural diversity of eukaryotic 18S rRNA and its impact on alignment and phylogenetic reconstruction
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Physical Determinants in the Emergence and Inheritance of Multicellular Form
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Metazoans, Origins of
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Fungal Phylogeny in the Age of Genomics: Insights Into Phylogenetic Inference From Genome-Scale Datasets
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The history of Salpingoeca rosetta as a model for reconstructing animal origins
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Genetic analysis of an introduced biological control agent reveals temporal and geographic change, with little evidence of a host mediated shift
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Cells, molecules and morphogenesis: the making of the vertebrate ear
inferred← citeshttps://doi.org/10.1016/j.cub.2004.10.037openalex-snapshot
Capsaspora owczarzaki is an independent opisthokont lineage
inferred← citeshttps://doi.org/10.1016/j.cub.2005.04.001openalex-snapshot
Animal Phylogeny: Fatal Attraction
inferred← citeshttps://doi.org/10.1016/j.cub.2005.06.040openalex-snapshot
Monophyly of Primary Photosynthetic Eukaryotes: Green Plants, Red Algae, and Glaucophytes
inferred← citeshttps://doi.org/10.1016/j.cub.2006.07.016openalex-snapshot
Chaetognath phylogenomics: a protostome with deuterostome-like development
inferred← citeshttps://doi.org/10.1016/j.cub.2007.03.069openalex-snapshot
Multiple Gene Phylogenies Support the Monophyly of Cryptomonad and Haptophyte Host Lineages
inferred← citeshttps://doi.org/10.1016/j.cub.2007.07.036openalex-snapshot
Toward Resolving the Eukaryotic Tree: The Phylogenetic Positions of Jakobids and Cercozoans
inferred← citeshttps://doi.org/10.1016/j.cub.2010.11.035openalex-snapshot
Multigene Phylogeny of the Green Lineage Reveals the Origin and Diversification of Land Plants
inferred← citeshttps://doi.org/10.1016/j.cub.2026.03.019openalex-snapshot
Phylogenomic frameworks from deep archaeplastid evolution to embryophyte diversification
inferred← citeshttps://doi.org/10.1016/j.devcel.2004.08.010openalex-snapshot
The Unicellular Ancestry of Animal Development
inferred← citeshttps://doi.org/10.1016/j.ejop.2008.01.003openalex-snapshot
A new genus, Helgoeca gen. nov., for a nudiform choanoflagellate
inferred← citeshttps://doi.org/10.1016/j.jbi.2005.04.001openalex-snapshot
Missing data and the design of phylogenetic analyses
inferred← citeshttps://doi.org/10.1016/j.jmgm.2026.109406openalex-snapshot
A conserved fold in a sea of sequence divergence: A theoretical and evolutionary model of the acid sphingomyelinase domain
inferred← citeshttps://doi.org/10.1016/j.mito.2010.10.003openalex-snapshot
Concatenated mitochondrial DNA of the coccidian parasite Eimeria tenella
inferred← citeshttps://doi.org/10.1016/j.protis.2008.11.004openalex-snapshot
Seven Gene Phylogeny of Heterokonts
inferred← citeshttps://doi.org/10.1016/j.protis.2010.01.003openalex-snapshot
An Evaluation of the Use of the LSU rRNA D1-D5 Domain for DNA-based Taxonomy of Eukaryotic Protists
inferred← citeshttps://doi.org/10.1016/j.protis.2011.04.005openalex-snapshot
Phylogenetic Analyses of a Combined Data Set Suggest that the Attheya Lineage is the Closest Living Relative of the Pennate Diatoms (Bacillariophyceae)
inferred← citeshttps://doi.org/10.1016/j.protis.2011.12.006openalex-snapshot
Characterization and Taxonomic Validity of the Ciliate Oxytricha trifallax (Class Spirotrichea) Based on Multiple Gene Sequences: Limitations in Identifying Genera Solely by Morphology
inferred← citeshttps://doi.org/10.1016/j.simyco.2015.08.001openalex-snapshot
Phylogeny of tremellomycetous yeasts and related dimorphic and filamentous basidiomycetes reconstructed from multiple gene sequence analyses
inferred← citeshttps://doi.org/10.1016/j.sjbs.2021.03.035openalex-snapshot
Molecular characterization and expression analysis of ribosomal L18/L5e gene in Pennisetum glaucum (L.) R. Br
inferred← citeshttps://doi.org/10.1016/j.syapm.2010.03.003openalex-snapshot
En route to a genome-based classification of Archaea and Bacteria?
inferred← citeshttps://doi.org/10.1016/j.tig.2007.01.005openalex-snapshot
The origins of multicellularity: a multi-taxon genome initiative
inferred← citeshttps://doi.org/10.1016/j.tig.2020.08.012openalex-snapshot
New Approaches for Inferring Phylogenies in the Presence of Paralogs
inferred← citeshttps://doi.org/10.1016/j.tree.2006.08.004openalex-snapshot
Large-scale sequencing and the new animal phylogeny
inferred← citeshttps://doi.org/10.1016/j.tree.2019.08.008openalex-snapshot
The New Tree of Eukaryotes
inferred← citeshttps://doi.org/10.1016/j.vetpar.2009.06.010openalex-snapshot
From parasite genomes to one healthy world: Are we having fun yet?
inferred← citeshttps://doi.org/10.1016/j.ympev.2005.02.008openalex-snapshot
Identifying optimal incomplete phylogenetic data sets from sequence databases
inferred← citeshttps://doi.org/10.1016/j.ympev.2006.08.024openalex-snapshot
Contributions of rpb2 and tef1 to the phylogeny of mushrooms and allies (Basidiomycota, Fungi)
inferred← citeshttps://doi.org/10.1016/j.ympev.2006.12.022openalex-snapshot
A multi-locus chloroplast phylogeny for the Cucurbitaceae and its implications for character evolution and classification
inferred← citeshttps://doi.org/10.1016/j.ympev.2007.02.007openalex-snapshot
Molecular phylogeny of the scincid lizards of New Caledonia and adjacent areas: Evidence for a single origin of the endemic skinks of Tasmantis
inferred← citeshttps://doi.org/10.1016/j.ympev.2007.03.003openalex-snapshot
Sorting wheat from chaff in multi-gene analyses of chlorophyll c-containing plastids
inferred← citeshttps://doi.org/10.1016/j.ympev.2007.09.002openalex-snapshot
EST sequencing of Onychophora and phylogenomic analysis of Metazoa
inferred← citeshttps://doi.org/10.1016/j.ympev.2007.11.035openalex-snapshot
Lateral transfer of the gene for a widely used marker, α-tubulin, indicated by a multi-protein study of the phylogenetic position of Andalucia (Excavata)
inferred← citeshttps://doi.org/10.1016/j.ympev.2008.01.032openalex-snapshot
Molecular phylogeny of land and freshwater planarians (Tricladida, Platyhelminthes): From freshwater to land and back
inferred← citeshttps://doi.org/10.1016/j.ympev.2008.11.025openalex-snapshot
Evolution underground: A molecular phylogenetic investigation of Australian burrowing freshwater crayfish (Decapoda: Parastacidae) with particular focus on Engaeus Erichson
inferred← citeshttps://doi.org/10.1016/j.ympev.2008.12.015openalex-snapshot
Reconstructing the phylogenetic relationships of the earth’s most diverse clade of freshwater fishes—order Cypriniformes (Actinopterygii: Ostariophysi): A case study using multiple nuclear loci and the mitochondrial genome
inferred← citeshttps://doi.org/10.1016/j.ympev.2009.01.012openalex-snapshot
Plastid and nuclear DNA markers reveal intricate relationships at subfamilial and tribal levels in the soapberry family (Sapindaceae)
inferred← citeshttps://doi.org/10.1016/j.ympev.2009.08.004openalex-snapshot
Patterns of macroevolution among Primates inferred from a supermatrix of mitochondrial and nuclear DNA
inferred← citeshttps://doi.org/10.1016/j.ympev.2009.08.014openalex-snapshot
A 454 sequencing approach for large scale phylogenomic analysis of the common emperor scorpion (Pandinus imperator)
inferred← citeshttps://doi.org/10.1016/j.ympev.2009.09.008openalex-snapshot
Phylogenetic relationships of phrynosomatid lizards based on nuclear and mitochondrial data, and a revised phylogeny for Sceloporus
inferred← citeshttps://doi.org/10.1016/j.ympev.2009.12.004openalex-snapshot
Phylogeny and DNA barcoding of inquiline oak gallwasps (Hymenoptera: Cynipidae) of the Western Palaearctic
inferred← citeshttps://doi.org/10.1016/j.ympev.2010.02.028openalex-snapshot
Molecular phylogenetic relationships and a revised classification of the subfamily Ericoideae (Ericaceae)
inferred← citeshttps://doi.org/10.1016/j.ympev.2010.03.013openalex-snapshot
An expanded phylogeny of treefrogs (Hylidae) based on nuclear and mitochondrial sequence data
inferred← citeshttps://doi.org/10.1016/j.ympev.2010.03.024openalex-snapshot
Ribosomal protein genes of holometabolan insects reject the Halteria, instead revealing a close affinity of Strepsiptera with Coleoptera
inferred← citeshttps://doi.org/10.1016/j.ympev.2010.04.019openalex-snapshot
A multilocus timescale for the origin of extant amphibians
inferred← citeshttps://doi.org/10.1016/j.ympev.2010.11.006openalex-snapshot
The phylogeny of advanced snakes (Colubroidea), with discovery of a new subfamily and comparison of support methods for likelihood trees
inferred← citeshttps://doi.org/10.1016/j.ympev.2010.11.017openalex-snapshot
Retrieving a mitogenomic mammal tree using composite taxa
inferred← citeshttps://doi.org/10.1016/j.ympev.2010.11.022openalex-snapshot
Phylogenetic and ecological relationships of the Hawaiian Drosophila inferred by mitochondrial DNA analysis
inferred← citeshttps://doi.org/10.1016/j.ympev.2011.06.015openalex-snapshot
Molecular phylogeny and phylogeography of the Cuban cave-fishes of the genus Lucifuga: Evidence for cryptic allopatric diversity
inferred← citeshttps://doi.org/10.1016/j.ympev.2011.08.031openalex-snapshot
A time-calibrated multi-gene phylogeny of the diatom genus Pinnularia
inferred← citeshttps://doi.org/10.1016/j.ympev.2011.09.003openalex-snapshot
Dating the arthropod tree based on large-scale transcriptome data
inferred← citeshttps://doi.org/10.1016/j.ympev.2011.10.017openalex-snapshot
Radical instability and spurious branch support by likelihood when applied to matrices with non-random distributions of missing data
inferred← citeshttps://doi.org/10.1016/j.ympev.2012.02.013openalex-snapshot
Rapid diversification in the North American minnow genus Nocomis
inferred← citeshttps://doi.org/10.1016/j.ympev.2012.08.018openalex-snapshot
Estimating divergence dates and evaluating dating methods using phylogenomic and mitochondrial data in squamate reptiles
inferred← citeshttps://doi.org/10.1016/j.ympev.2012.11.002openalex-snapshot
Mitogenomic analysis of decapod crustacean phylogeny corroborates traditional views on their relationships
inferred← citeshttps://doi.org/10.1016/j.ympev.2012.11.012openalex-snapshot
Near intron pairs and the metazoan tree
inferred← citeshttps://doi.org/10.1016/j.ympev.2013.11.011openalex-snapshot
Toward a Tree-of-Life for the boas and pythons: Multilocus species-level phylogeny with unprecedented taxon sampling
inferred← citeshttps://doi.org/10.1016/j.ympev.2013.11.013openalex-snapshot
Sampling strategies for improving tree accuracy and phylogenetic analyses: A case study in ciliate protists, with notes on the genus Paramecium
inferred← citeshttps://doi.org/10.1016/j.ympev.2014.04.007openalex-snapshot
Phylogenetic position of Myriapoda revealed by 454 transcriptome sequencing
inferred← citeshttps://doi.org/10.1016/j.ympev.2014.08.006openalex-snapshot
Should genes with missing data be excluded from phylogenetic analyses?
inferred← citeshttps://doi.org/10.1016/j.ympev.2015.02.002openalex-snapshot
Do missing data influence the accuracy of divergence-time estimation with BEAST?
inferred← citeshttps://doi.org/10.1016/j.ympev.2015.10.009openalex-snapshot
Combining phylogenomic and supermatrix approaches, and a time-calibrated phylogeny for squamate reptiles (lizards and snakes) based on 52 genes and 4162 species
inferred← citeshttps://doi.org/10.1016/j.ympev.2017.03.002openalex-snapshot
Evolutionary and domestication history of Cucurbita (pumpkin and squash) species inferred from 44 nuclear loci
inferred← citeshttps://doi.org/10.1016/j.ympev.2019.01.012openalex-snapshot
Effects of missing data and data type on phylotranscriptomic analysis of stony corals (Cnidaria: Anthozoa: Scleractinia)
inferred← citeshttps://doi.org/10.1016/j.ympev.2019.106611openalex-snapshot
Extracting phylogenetic signal from phylogenomic data: Higher-level relationships of the nightbirds (Strisores)
inferred← citeshttps://doi.org/10.1016/j.ympev.2023.107907openalex-snapshot
Frog phylogeny: A time-calibrated, species-level tree based on hundreds of loci and 5,242 species
inferred← citeshttps://doi.org/10.1016/j.ympev.2024.108201openalex-snapshot
Phylogenomic analysis of brachyuran crabs using transcriptome data reveals possible sources of conflicting phylogenetic relationships within the group
inferred← citeshttps://doi.org/10.1016/j.zool.2005.09.006openalex-snapshot
Magic bullets and golden rules: Data sampling in molecular phylogenetics
inferred← citeshttps://doi.org/10.1016/s0065-308x(05)60003-6openalex-snapshot
Advances and Trends in the Molecular Systematics of the Parasitic Platyhelminthes
inferred← citeshttps://doi.org/10.1017/cbo9781316338797.015openalex-snapshot
Molecular data in systematics: a promise fulfilled, a future beckoning
inferred← citeshttps://doi.org/10.1038/nature04336openalex-snapshot
Tunicates and not cephalochordates are the closest living relatives of vertebrates
inferred← citeshttps://doi.org/10.1038/nature06614openalex-snapshot
Broad phylogenomic sampling improves resolution of the animal tree of life
inferred← citeshttps://doi.org/10.1038/nature06617openalex-snapshot
The genome of the choanoflagellate Monosiga brevicollis and the origin of metazoans
inferred← citeshttps://doi.org/10.1038/ncomms5956openalex-snapshot
Resolution of deep angiosperm phylogeny using conserved nuclear genes and estimates of early divergence times
inferred← citeshttps://doi.org/10.1038/nrg1603openalex-snapshot
Phylogenomics and the reconstruction of the tree of life
inferred← citeshttps://doi.org/10.1038/nrg2416openalex-snapshot
The evolution of cell types in animals: emerging principles from molecular studies
inferred← citeshttps://doi.org/10.1038/onc.2010.148openalex-snapshot
Functional transition of Pak proto-oncogene during early evolution of metazoans
inferred← citeshttps://doi.org/10.1038/s41598-022-26972-8openalex-snapshot
First putative occurrence in the fossil record of choanoflagellates, the sister group of Metazoa
inferred← citeshttps://doi.org/10.1038/srep00013openalex-snapshot
Phylogenomic evidence for a common ancestor of mitochondria and the SAR11 clade
inferred← citeshttps://doi.org/10.1038/srep00665openalex-snapshot
Integrating multi-origin expression data improves the resolution of deep phylogeny of ray-finned fish (Actinopterygii)
inferred← citeshttps://doi.org/10.1038/srep02545openalex-snapshot
Fossilization causes organisms to appear erroneously primitive by distorting evolutionary trees
inferred← citeshttps://doi.org/10.1039/c3mb70443bopenalex-snapshot
The relationship between classification of multi-domain proteins using an alignment-free approach and their functions: a case study with immunoglobulins
inferred← citeshttps://doi.org/10.1071/is25029openalex-snapshot
Phylogeny and evolution of male genitalia in Withiidae (Arachnida: Pseudoscorpiones)
inferred← citeshttps://doi.org/10.1073/pnas.0403984101openalex-snapshot
The timing of eukaryotic evolution: Does a relaxed molecular clock reconcile proteins and fossils?
inferred← citeshttps://doi.org/10.1073/pnas.0404505101openalex-snapshot
A class of eukaryotic GTPase with a punctate distribution suggesting multiple functional replacements of translation elongation factor 1α
inferred← citeshttps://doi.org/10.1073/pnas.0600021103openalex-snapshot
Functional development of Src tyrosine kinases during evolution from a unicellular ancestor to multicellular animals
inferred← citeshttps://doi.org/10.1073/pnas.0610699104openalex-snapshot
Pattern pluralism and the Tree of Life hypothesis
inferred← citeshttps://doi.org/10.1073/pnas.0801991105openalex-snapshot
Indo-European and Asian origins for Chilean and Pacific chickens revealed by mtDNA
inferred← citeshttps://doi.org/10.1073/pnas.1719358115openalex-snapshot
Comprehensive phylogeny of ray-finned fishes (Actinopterygii) based on transcriptomic and genomic data
inferred← citeshttps://doi.org/10.1080/10383441.2010.10854685openalex-snapshot
Taxonomic Conceptions of Algae, Animals, Fungi and Plants in Granting Intellectual Property Privileges
inferred← citeshttps://doi.org/10.1080/10635150500234534openalex-snapshot
Asynchronous Colonization of Madagascar by the Four Endemic Clades of Primates, Tenrecs, Carnivores, and Rodents as Inferred from Nuclear Genes
inferred← citeshttps://doi.org/10.1080/10635150500234609openalex-snapshot
An Empirical Assessment of Long-Branch Attraction Artefacts in Deep Eukaryotic Phylogenomics
inferred← citeshttps://doi.org/10.1080/10635150500234625openalex-snapshot
Hylid Frog Phylogeny and Sampling Strategies for Speciose Clades
inferred← citeshttps://doi.org/10.1080/10635150500541722openalex-snapshot
Supertree Bootstrapping Methods for Assessing Phylogenetic Variation among Genes in Genome-Scale Data Sets
inferred← citeshttps://doi.org/10.1080/10635150600969872openalex-snapshot
SDM: A Fast Distance-Based Approach for (Super)Tree Building in Phylogenomics
inferred← citeshttps://doi.org/10.1080/10635150600999150openalex-snapshot
Phylogenetic Supermatrix Analysis of GenBank Sequences from 2228 Papilionoid Legumes
inferred← citeshttps://doi.org/10.1080/10635150601109759openalex-snapshot
From Phylogenetics to Phylogenomics: The Evolutionary Relationships of Insect Endosymbiotic γ-Proteobacteria as a Test Case
inferred← citeshttps://doi.org/10.1080/10635150802033006openalex-snapshot
Genomic Outposts Serve the Phylogenomic Pioneers: Designing Novel Nuclear Markers for Genomic DNA Extractions of Lepidoptera
inferred← citeshttps://doi.org/10.1080/10635150802166053openalex-snapshot
Branch Lengths, Support, and Congruence: Testing the Phylogenomic Approach with 20 Nuclear Loci in Snakes
inferred← citeshttps://doi.org/10.1080/14772000.2021.1933249openalex-snapshot
Phylogeny of terraranan frogs based on 2,665 loci and impacts of missing data on phylogenomic analyses
inferred← citeshttps://doi.org/10.1080/14772000.2025.2539104openalex-snapshot
Molecular phylogenetic study of Argyreia (Ipomoeeae: Convolvulaceae) and implications for its systematics
inferred← citeshttps://doi.org/10.1080/15572536.2006.11832613openalex-snapshot
Research Coordination Networks: a phylogeny for kingdom Fungi (Deep Hypha)
inferred← citeshttps://doi.org/10.1086/507882openalex-snapshot
Evolutionary and Ecological Causes of the Latitudinal Diversity Gradient in Hylid Frogs: Treefrog Trees Unearth the Roots of High Tropical Diversity
inferred← citeshttps://doi.org/10.1088/1478-3975/5/1/015008openalex-snapshot
Dynamical patterning modules: physico-genetic determinants of morphological development and evolution
inferred← citeshttps://doi.org/10.1089/aid.2017.0061openalex-snapshot
HIV-1 Full-Genome Phylogenetics of Generalized Epidemics in Sub-Saharan Africa: Impact of Missing Nucleotide Characters in Next-Generation Sequences
inferred← citeshttps://doi.org/10.1089/omi.2006.10.231openalex-snapshot
Taking the First Steps towards a Standard for Reporting on Phylogenies: Minimum Information about a Phylogenetic Analysis (MIAPA)
inferred← citeshttps://doi.org/10.1093/bioinformatics/btm015openalex-snapshot
Assessment of phylogenomic and orthology approaches for phylogenetic inference
inferred← citeshttps://doi.org/10.1093/bioinformatics/btp015openalex-snapshot
A hierarchical model for incomplete alignments in phylogenetic inference
inferred← citeshttps://doi.org/10.1093/biolinnean/blaf082openalex-snapshot
Host-shifting pattern common in relatives: phylogenetic study of Sapindaceae-associated Cameraria (Lepidoptera: Gracillariidae), with a description and population genetics of Cameraria serena sp. nov.
inferred← citeshttps://doi.org/10.1093/gbe/evaa113openalex-snapshot
Uneven Missing Data Skew Phylogenomic Relationships within the Lories and Lorikeets
inferred← citeshttps://doi.org/10.1093/gbe/evp022openalex-snapshot
Large-Scale Phylogenomic Analyses Reveal That Two Enigmatic Protist Lineages, Telonemia and Centroheliozoa, Are Related to Photosynthetic Chromalveolates
inferred← citeshttps://doi.org/10.1093/gbe/evs104openalex-snapshot
Insect Phylogenomics: Exploring the Source of Incongruence Using New Transcriptomic Data
inferred← citeshttps://doi.org/10.1093/gbe/evt195openalex-snapshot
Being Aquifex aeolicus: Untangling a Hyperthermophile’s Checkered Past
inferred← citeshttps://doi.org/10.1093/gbe/evw196openalex-snapshot
Phylogenetic Resolution of Deep Eukaryotic and Fungal Relationships Using Highly Conserved Low-Copy Nuclear Genes
inferred← citeshttps://doi.org/10.1093/icb/icm071openalex-snapshot
Fossils and phylogenies: integrating multiple lines of evidence to investigate the origin of early major metazoan lineages
inferred← citeshttps://doi.org/10.1093/icb/icy036openalex-snapshot
What Makes an Animal? The Molecular Quest for the Origin of the Animal Kingdom
inferred← citeshttps://doi.org/10.1093/isd/ixad012openalex-snapshot
UCE phylogenomics, biogeography, and classification of long-horned bees (Hymenoptera: Apidae: Eucerini), with insights on using specimens with extremely degraded DNA
inferred← citeshttps://doi.org/10.1093/jambio/lxag056openalex-snapshot
Tracing ancient life through the genomic record
inferred← citeshttps://doi.org/10.1093/jhered/esac061openalex-snapshot
Estimating phylogenies from genomes: A beginners review of commonly used genomic data in vertebrate phylogenomics
inferred← citeshttps://doi.org/10.1093/molbev/msab151openalex-snapshot
Phylogenomic Subsampling and the Search for Phylogenetically Reliable Loci
inferred← citeshttps://doi.org/10.1093/molbev/msad109openalex-snapshot
Redefining Possible: Combining Phylogenomic and Supersparse Data in Frogs
inferred← citeshttps://doi.org/10.1093/molbev/msi023openalex-snapshot
Root of the Eukaryota Tree as Inferred from Combined Maximum Likelihood Analyses of Multiple Molecular Sequence Data
inferred← citeshttps://doi.org/10.1093/molbev/msi107openalex-snapshot
Ancient Origin of Glycosyl Hydrolase Family 9 Cellulase Genes
inferred← citeshttps://doi.org/10.1093/molbev/msi111openalex-snapshot
Multigene Analyses of Bilaterian Animals Corroborate the Monophyly of Ecdysozoa, Lophotrochozoa, and Protostomia
inferred← citeshttps://doi.org/10.1093/molbev/msi221openalex-snapshot
The Presence of a Haloarchaeal Type Tyrosyl-tRNA Synthetase Marks the Opisthokonts as Monophyletic
inferred← citeshttps://doi.org/10.1093/molbev/msj011openalex-snapshot
The Protistan Origins of Animals and Fungi
inferred← citeshttps://doi.org/10.1093/molbev/msj041openalex-snapshot
Dense Taxonomic EST Sampling and Its Applications for Molecular Systematics of the Coleoptera (Beetles)
inferred← citeshttps://doi.org/10.1093/molbev/msj068openalex-snapshot
Comprehensive Multigene Phylogenies of Excavate Protists Reveal the Evolutionary Positions of “Primitive” Eukaryotes
inferred← citeshttps://doi.org/10.1093/molbev/msl055openalex-snapshot
Monophyly of Rhizaria and Multigene Phylogeny of Unicellular Bikonts
inferred← citeshttps://doi.org/10.1093/molbev/msl200openalex-snapshot
Phylogenetic Analyses of Nuclear, Mitochondrial, and Plastid Multigene Data Sets Support the Placement of Mesostigma in the Streptophyta
inferred← citeshttps://doi.org/10.1093/molbev/msm089openalex-snapshot
Phylogenomic Analysis Supports the Monophyly of Cryptophytes and Haptophytes and the Association of Rhizaria with Chromalveolates
inferred← citeshttps://doi.org/10.1093/molbev/msm214openalex-snapshot
Spiralian Phylogenomics Supports the Resurrection of Bryozoa Comprising Ectoprocta and Entoprocta
inferred← citeshttps://doi.org/10.1093/molbev/msn006openalex-snapshot
A Phylogenomic Investigation into the Origin of Metazoa
inferred← citeshttps://doi.org/10.1093/molbev/msn035openalex-snapshot
Rare Genomic Characters Do Not Support Coelomata: Intron Loss/Gain
inferred← citeshttps://doi.org/10.1093/molbev/msn104openalex-snapshot
Confirming the Phylogeny of Mammals by Use of Large Comparative Sequence Data Sets
inferred← citeshttps://doi.org/10.1093/molbev/msn213openalex-snapshot
The Apicomplexan Whole-Genome Phylogeny: An Analysis of Incongruence among Gene Trees
inferred← citeshttps://doi.org/10.1093/molbev/msn221openalex-snapshot
Phylogenomic Analyses Support the Monophyly of Taphrinomycotina, including Schizosaccharomyces Fission Yeasts
inferred← citeshttps://doi.org/10.1093/molbev/msn271openalex-snapshot
Gnathostome Phylogenomics Utilizing Lungfish EST Sequences
inferred← citeshttps://doi.org/10.1093/molbev/msp191openalex-snapshot
A Phylogenomic Approach to Resolve the Basal Pterygote Divergence
inferred← citeshttps://doi.org/10.1093/molbev/msq059openalex-snapshot
Phylogenomic Evidence for Separate Acquisition of Plastids in Cryptophytes, Haptophytes, and Stramenopiles
inferred← citeshttps://doi.org/10.1093/molbev/msq159openalex-snapshot
The Phylogenetic Position of Myxozoa: Exploring Conflicting Signals in Phylogenomic and Ribosomal Data Sets
inferred← citeshttps://doi.org/10.1093/molbev/msq170openalex-snapshot
The Position of Gnetales among Seed Plants: Overcoming Pitfalls of Chloroplast Phylogenomics
inferred← citeshttps://doi.org/10.1093/molbev/msr185openalex-snapshot
Phylogenetic Relationships within the Opisthokonta Based on Phylogenomic Analyses of Conserved Single-Copy Protein Domains
inferred← citeshttps://doi.org/10.1093/molbev/msr271openalex-snapshot
Phylogenetic Analysis of the Teneurins: Conserved Features and Premetazoan Ancestry
inferred← citeshttps://doi.org/10.1093/molbev/mss140openalex-snapshot
The Influence of Rate Heterogeneity among Sites on the Time Dependence of Molecular Rates
inferred← citeshttps://doi.org/10.1093/molbev/mss208openalex-snapshot
Impact of Missing Data on Phylogenies Inferred from Empirical Phylogenomic Data Sets
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