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Proposal for practical multi-kingdom classification of eukaryotes based on monophyly and comparable divergence time criteria

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1002/bies.201300176openalex-snapshot

The rise and fall of Picobiliphytes: How assumed autotrophs turned out to be heterotrophs

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Timing the Origins of Multicellular Eukaryotes Through Phylogenomics and Relaxed Molecular Clock Analyses

inferredcites →https://doi.org/10.1007/s00436-014-3838-4openalex-snapshot

Microsporidia-like parasites of amoebae belong to the early fungal lineage Rozellomycota

inferredcites →https://doi.org/10.1007/s00436-016-5055-9openalex-snapshot

Molecular identification of Nucleophaga terricolae sp. nov. (Rozellomycota), and new insights on the origin of the Microsporidia

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Kingdom Chromista and its eight phyla: a new synthesis emphasising periplastid protein targeting, cytoskeletal and periplastid evolution, and ancient divergences

inferredcites →https://doi.org/10.1007/s13225-018-0401-0openalex-snapshot

High-level classification of the Fungi and a tool for evolutionary ecological analyses

inferredcites →https://doi.org/10.1016/j.cub.2013.06.057openalex-snapshot

Shared Signatures of Parasitism and Phylogenomics Unite Cryptomycota and Microsporidia

inferredcites →https://doi.org/10.1016/j.cub.2015.07.053openalex-snapshot

Phylogenomics Reveals Convergent Evolution of Lifestyles in Close Relatives of Animals and Fungi

inferredcites →https://doi.org/10.1016/j.cub.2015.07.060openalex-snapshot

Phylogenomic Insights into Animal Evolution

inferredcites →https://doi.org/10.1016/j.cub.2017.02.031openalex-snapshot

A Large and Consistent Phylogenomic Dataset Supports Sponges as the Sister Group to All Other Animals

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Novel Predators Reshape Holozoan Phylogeny and Reveal the Presence of a Two-Component Signaling System in the Ancestor of Animals

inferredcites →https://doi.org/10.1016/j.ejop.2012.06.001openalex-snapshot

Early evolution of eukaryote feeding modes, cell structural diversity, and classification of the protozoan phyla Loukozoa, Sulcozoa, and Choanozoa

inferredcites →https://doi.org/10.1016/j.ejop.2012.08.007openalex-snapshot

Phylogeny and evolution of Planomonadida (Sulcozoa): Eight new species and new genera Fabomonas and Nutomonas

inferredcites →https://doi.org/10.1016/j.ejop.2012.09.002openalex-snapshot

Phylogeny of Heterokonta: Incisomonas marina, a uniciliate gliding opalozoan related to Solenicola (Nanomonadea), and evidence that Actinophryida evolved from raphidophytes

inferredcites →https://doi.org/10.1016/j.ejop.2016.09.003openalex-snapshot

Higher classification and phylogeny of Euglenozoa

inferredcites →https://doi.org/10.1016/j.protis.2008.07.002openalex-snapshot

Phylogeny of Novel Naked Filose and Reticulose Cercozoa: Granofilosea cl. n. and Proteomyxidea Revised

inferredcites →https://doi.org/10.1016/j.protis.2008.11.004openalex-snapshot

Seven Gene Phylogeny of Heterokonts

inferredcites →https://doi.org/10.1016/j.protis.2009.01.001openalex-snapshot

Multigene Evidence for the Placement of a Heterotrophic Amoeboid Lineage Leukarachnion sp. among Photosynthetic Stramenopiles

inferredcites →https://doi.org/10.1016/j.protis.2009.05.002openalex-snapshot

Deep Phylogeny and Evolution of Slime Moulds (Mycetozoa)

inferredcites →https://doi.org/10.1016/j.protis.2010.04.002openalex-snapshot

Phylogeny and Evolution of Apusomonadida (Protozoa: Apusozoa): New Genera and Species

inferredcites →https://doi.org/10.1016/j.protis.2011.08.001openalex-snapshot

Supermatrix Data Highlight the Phylogenetic Relationships of Photosynthetic Stramenopiles

inferredcites →https://doi.org/10.1016/j.protis.2011.10.001openalex-snapshot

Microheliella maris (Microhelida ord. n.), an Ultrastructurally Highly Distinctive New Axopodial Protist Species and Genus, and the Unity of Phylum Heliozoa

inferredcites →https://doi.org/10.1016/j.protis.2011.12.005openalex-snapshot

Oxnerella micra sp. n. (Oxnerellidae fam. n.), a Tiny Naked Centrohelid, and the Diversity and Evolution of Heliozoa

inferredcites →https://doi.org/10.1016/j.protis.2012.04.005openalex-snapshot

Rigifila ramosa n. gen., n. sp., a Filose Apusozoan with a Distinctive Pellicle, is Related to Micronuclearia

inferredcites →https://doi.org/10.1016/j.protis.2012.09.002openalex-snapshot

Molecular Phylogeny of Unikonts: New Insights into the Position of Apusomonads and Ancyromonads and the Internal Relationships of Opisthokonts

inferredcites →https://doi.org/10.1016/j.protis.2013.02.003openalex-snapshot

Multigene Phylogenetic Reconstruction of the Tubulinea (Amoebozoa) Corroborates Four of the Six Major Lineages, while Additionally Revealing that Shell Composition Does not Predict Phylogeny in the Arcellinida

inferredcites →https://doi.org/10.1016/j.protis.2014.04.003openalex-snapshot

Phylogeny and Ultrastructure of Oxymonas jouteli, a Rostellum-free Species, and Opisthomitus longiflagellatus sp. nov., Oxymonadid Flagellates from the Gut of Neotermes jouteli

inferredcites →https://doi.org/10.1016/j.protis.2015.05.001openalex-snapshot

A New Deep-branching Stramenopile, Platysulcus tardus gen. nov., sp. nov.

inferredcites →https://doi.org/10.1016/j.protis.2017.06.004openalex-snapshot

Pseudophyllomitus vesiculosus (Larsen and Patterson 1990) Lee, 2002, a Poorly Studied Phagotrophic Biflagellate is the First Characterized Member of Stramenopile Environmental Clade MAST-6

inferredcites →https://doi.org/10.1016/j.tree.2011.11.010openalex-snapshot

Sequencing our way towards understanding global eukaryotic biodiversity

inferredcites →https://doi.org/10.1016/j.ympev.2007.04.019openalex-snapshot

Molecular phylogeny, scale evolution and taxonomy of centrohelid heliozoa

inferredcites →https://doi.org/10.1016/j.ympev.2013.01.010openalex-snapshot

Deep metazoan phylogeny: When different genes tell different stories

inferredcites →https://doi.org/10.1016/j.ympev.2014.08.011openalex-snapshot

Multigene phylogeny resolves deep branching of Amoebozoa

inferredcites →https://doi.org/10.1016/j.ympev.2014.08.012openalex-snapshot

Multigene eukaryote phylogeny reveals the likely protozoan ancestors of opisthokonts (animals, fungi, choanozoans) and Amoebozoa

inferredcites →https://doi.org/10.1016/j.ympev.2015.07.004openalex-snapshot

Multiple origins of Heliozoa from flagellate ancestors: New cryptist subphylum Corbihelia, superclass Corbistoma, and monophyly of Haptista, Cryptista, Hacrobia and Chromista

inferredcites →https://doi.org/10.1016/j.ympev.2016.03.023openalex-snapshot

187-gene phylogeny of protozoan phylum Amoebozoa reveals a new class (Cutosea) of deep-branching, ultrastructurally unique, enveloped marine Lobosa and clarifies amoeba evolution

inferredcites →https://doi.org/10.1016/j.ympev.2016.03.029openalex-snapshot

Phylogenomics of ‘Discosea’: A new molecular phylogenetic perspective on Amoebozoa with flat body forms

inferredcites →https://doi.org/10.1016/j.ympev.2016.10.011openalex-snapshot

A six-gene phylogeny provides new insights into choanoflagellate evolution

inferredcites →https://doi.org/10.1016/j.ympev.2017.06.019openalex-snapshot

Longamoebia is not monophyletic: Phylogenomic and cytoskeleton analyses provide novel and well-resolved relationships of amoebozoan subclades

inferredcites →https://doi.org/10.1038/ismej.2012.147openalex-snapshot

Global biogeography of highly diverse protistan communities in soil

inferredcites →https://doi.org/10.1038/ismej.2015.164openalex-snapshot

Stochastic distribution of small soil eukaryotes resulting from high dispersal and drift in a local environment

inferredcites →https://doi.org/10.1038/ismej.2015.30openalex-snapshot

Metatranscriptomic census of active protists in soils

inferredcites →https://doi.org/10.1038/nature09984openalex-snapshot

Discovery of novel intermediate forms redefines the fungal tree of life

inferredcites →https://doi.org/10.1038/s41598-017-03791-wopenalex-snapshot

Dating early animal evolution using phylogenomic data

inferredcites →https://doi.org/10.1038/srep04641openalex-snapshot

Palpitomonas bilix represents a basal cryptist lineage: insight into the character evolution in Cryptista

inferredcites →https://doi.org/10.1038/srep24874openalex-snapshot

The All-Data-Based Evolutionary Hypothesis of Ciliated Protists with a Revised Classification of the Phylum Ciliophora (Eukaryota, Alveolata)

inferredcites →https://doi.org/10.1038/srep25367openalex-snapshot

Chloroplast phylogenomic analyses reveal the deepest-branching lineage of the Chlorophyta, Palmophyllophyceae class. nov.

inferredcites →https://doi.org/10.1073/pnas.1110633108openalex-snapshot

Estimating the timing of early eukaryotic diversification with multigene molecular clocks

inferredcites →https://doi.org/10.1073/pnas.1503453112openalex-snapshot

Error, signal, and the placement of Ctenophora sister to all other animals

inferredcites →https://doi.org/10.1073/pnas.87.12.4576openalex-snapshot

Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya.

inferredcites →https://doi.org/10.1073/pnas.96.13.7358openalex-snapshot

Proposal for a standardized temporal scheme of biological classification for extant species

inferredcites →https://doi.org/10.1080/01490450303891openalex-snapshot

Estimated Minimal Divergence Times of the Major Bacterial and Archaeal Phyla

inferredcites →https://doi.org/10.1093/gbe/evu015openalex-snapshot

Gene Content Evolution in Discobid Mitochondria Deduced from the Phylogenetic Position and Complete Mitochondrial Genome of Tsukubamonas globosa

inferredcites →https://doi.org/10.1093/molbev/msp185openalex-snapshot

Phylogeny of the "Forgotten" Cellular Slime Mold, Fonticula alba, Reveals a Key Evolutionary Branch within Opisthokonta

inferredcites →https://doi.org/10.1093/molbev/mss001openalex-snapshot

Collodictyon--An Ancient Lineage in the Tree of Eukaryotes

inferredcites →https://doi.org/10.1093/molbev/msw168openalex-snapshot

A Phylogenomic Framework to Study the Diversity and Evolution of Stramenopiles (=Heterokonts)

inferredcites →https://doi.org/10.1093/molbev/msx075openalex-snapshot

Single Cell Transcriptomics, Mega-Phylogeny, and the Genetic Basis of Morphological Innovations in Rhizaria

inferredcites →https://doi.org/10.1093/molbev/msx162openalex-snapshot

Between a Pod and a Hard Test: The Deep Evolution of Amoebae

inferredcites →https://doi.org/10.1093/nar/gks1219openalex-snapshot

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

inferredcites →https://doi.org/10.1093/sysbio/syq037openalex-snapshot

Broadly Sampled Multigene Analyses Yield a Well-Resolved Eukaryotic Tree of Life

inferredcites →https://doi.org/10.1093/sysbio/syu126openalex-snapshot

Taxon-Rich Phylogenomic Analyses Resolve the Eukaryotic Tree of Life and Reveal the Power of Subsampling by Sites

inferredcites →https://doi.org/10.1098/rspb.2011.2301openalex-snapshot

The evolutionary history of haptophytes and cryptophytes: phylogenomic evidence for separate origins

inferredcites →https://doi.org/10.1098/rspb.2013.1755openalex-snapshot

Phylogenomics demonstrates that breviate flagellates are related to opisthokonts and apusomonads

inferredcites →https://doi.org/10.1098/rspb.2015.2802openalex-snapshot

Untangling the early diversification of eukaryotes: a phylogenomic study of the evolutionary origins of Centrohelida, Haptophyta and Cryptista

inferredcites →https://doi.org/10.1101/227884openalex-snapshot

Phylogenomics places orphan protistan lineages in a novel eukaryotic super-group

inferredcites →https://doi.org/10.1101/235549openalex-snapshot

Molecular data from Orthonectid worms show they are highly degenerate members of phylum Annelida not phylum Mesozoa

inferredcites →https://doi.org/10.1101/cshperspect.a016147openalex-snapshot

The Eukaryotic Tree of Life from a Global Phylogenomic Perspective

inferredcites →https://doi.org/10.1111/boj.12385openalex-snapshot

An update of the Angiosperm Phylogeny Group classification for the orders and families of flowering plants: APG IV

inferredcites →https://doi.org/10.1111/j.1529-8817.2006.00210.xopenalex-snapshot

DEFINING THE MAJOR LINEAGES OF RED ALGAE (RHODOPHYTA)1

inferredcites →https://doi.org/10.1111/j.1550-7408.2012.00644.xopenalex-snapshot

The Revised Classification of Eukaryotes

inferredcites →https://doi.org/10.1111/jeu.12207openalex-snapshot

Morphological Identities of Two Different Marine Stramenopile Environmental Sequence Clades: Bicosoeca kenaiensis (Hilliard, 1971) and Cantina marsupialis (Larsen and Patterson, 1990) gen. nov., comb. nov.

inferredcites →https://doi.org/10.1111/jeu.12376openalex-snapshot

Ultrastructure and Molecular Phylogeny of Iotanema spirale gen. nov. et sp. nov., a New Lineage of Endobiotic Fornicata with Strikingly Simplified Ultrastructure

inferredcites →https://doi.org/10.1111/jeu.12414openalex-snapshot

UniEuk: Time to Speak a Common Language in Protistology!

inferredcites →https://doi.org/10.1111/nph.13264openalex-snapshot

A metacalibrated time‐tree documents the early rise of flowering plant phylogenetic diversity

inferredcites →https://doi.org/10.1126/science.1203163openalex-snapshot

Single-Cell Genomics Reveals Organismal Interactions in Uncultivated Marine Protists

inferredcites →https://doi.org/10.11646/zootaxa.3148.1.1openalex-snapshot

Animal biodiversity: An outline of higher-level classification and survey of taxonomic richness (COVER)

inferredcites →https://doi.org/10.1186/1471-2148-14-23openalex-snapshot

From algae to angiosperms–inferring the phylogeny of green plants (Viridiplantae) from 360 plastid genomes

inferredcites →https://doi.org/10.1186/1471-2148-8-14openalex-snapshot

Broadly sampled multigene trees of eukaryotes

inferredcites →https://doi.org/10.1186/1741-7007-11-40openalex-snapshot

The new micro-kingdoms of eukaryotes

inferredcites →https://doi.org/10.1186/1741-7007-2-13openalex-snapshot

How many novel eukaryotic 'kingdoms'? Pitfalls and limitations of environmental DNA surveys

inferredcites →https://doi.org/10.1186/s40168-017-0259-5openalex-snapshot

Novel soil-inhabiting clades fill gaps in the fungal tree of life

inferredcites →https://doi.org/10.1371/journal.pone.0000790openalex-snapshot

Phylogenomics Reshuffles the Eukaryotic Supergroups

inferredcites →https://doi.org/10.1371/journal.pone.0012759openalex-snapshot

A Molecular Genetic Timescale for the Diversification of Autotrophic Stramenopiles (Ochrophyta): Substantive Underestimation of Putative Fossil Ages

inferredcites →https://doi.org/10.1371/journal.pone.0119248openalex-snapshot

A Higher Level Classification of All Living Organisms

inferredcites →https://doi.org/10.3389/fmicb.2014.00112openalex-snapshot

Morphology, phylogeny, and ecology of the aphelids (Aphelidea, Opisthokonta) and proposal for the new superphylum Opisthosporidia

inferredcites →https://doi.org/10.3389/fmicb.2016.01194openalex-snapshot

Heterokont Predator Develorapax marinus gen. et sp. nov. – A Model of the Ochrophyte Ancestor

inferredcites →https://doi.org/10.3389/fmicb.2017.01594openalex-snapshot

Evolutionary Trends of Perkinsozoa (Alveolata) Characters Based on Observations of Two New Genera of Parasitoids of dinoflagellates, Dinovorax gen. nov. and Snorkelia gen. nov.

inferredcites →https://doi.org/10.3852/16-042openalex-snapshot

A phylum-level phylogenetic classification of zygomycete fungi based on genome-scale data

inferredcites →https://doi.org/10.5772/intechopen.68562openalex-snapshot

Principle of Conservatism of Cellular Structures as the Basis for Construction of the Multikingdom System of the Organic Word

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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Fungal colonization associated with phenological stages of a photosynthetic terrestrial temperate orchid from the Southern Iberian Peninsula

inferred← citeshttps://doi.org/10.1007/s13225-018-0401-0openalex-snapshot

High-level classification of the Fungi and a tool for evolutionary ecological analyses

inferred← citeshttps://doi.org/10.1016/j.forsciint.2019.05.054openalex-snapshot

A eukaryotic community succession based method for postmortem interval (PMI) estimation of decomposing porcine remains

inferred← citeshttps://doi.org/10.1016/j.forsciint.2021.110784openalex-snapshot

Prediction of minimum postmortem submersion interval (PMSImin) based on eukaryotic community succession on skeletal remains recovered from a lentic environment

inferred← citeshttps://doi.org/10.1093/database/baae043openalex-snapshot

EUKARYOME: the rRNA gene reference database for identification of all eukaryotes

inferred← citeshttps://doi.org/10.1111/1758-2229.12776openalex-snapshot

Towards PacBio‐based pan‐eukaryote metabarcoding using full‐length ITS sequences

inferred← citeshttps://doi.org/10.25772/p49b-9v51openalex-snapshot

Postmortem Interval Estimation Based on Eukaryotic Community Associated with Soil Under Decomposing Porcine Remains

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