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Concatenated Analysis Sheds Light on Early Metazoan Evolution and Fuels a Modern “Urmetazoon” Hypothesis

https://doi.org/10.1371/journal.pbio.1000020
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What this work says

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

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The general stochastic model of nucleotide substitution
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Is the evolution of Cnox-2 Hox/ParaHox genes “multicolored” and “polygenealogical?”
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Broad phylogenomic sampling improves resolution of the animal tree of life
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The Trichoplax genome and the nature of placozoans
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Mitochondrial genome of Trichoplax adhaerens supports Placozoa as the basal lower metazoan phylum
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Implications of cnidarian gene expression patterns for the origins of bilaterality is the glass half full or half empty?
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Can we ever identify the Urmetazoan?
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Cnidarian milestones in metazoan evolution
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Key transitions in animal evolution
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A food's-eye view of the transition from basal metazoans to bilaterians
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Placozoa Are Not Derived Cnidarians: Evidence from Molecular Morphology
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Mitochondrial Genomes of Two Demosponges Provide Insights into An Early Stage of Animal Evolution
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Lack of Resolution in the Animal Phylogeny: Closely Spaced Cladogeneses or Undetected Systematic Errors?
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MAFFT version 5: improvement in accuracy of multiple sequence alignment
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A General Empirical Model of Protein Evolution Derived from Multiple Protein Families Using a Maximum-Likelihood Approach
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Multiple Comparisons of Log-Likelihoods with Applications to Phylogenetic Inference
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Maximum-likelihood estimation of phylogeny from DNA sequences when substitution rates differ over sites.
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Multiple Sources of Character Information and the Phylogeny of Hawaiian Drosophilids
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Evolutionary relationships of Metazoa within the eukaryotes based on molecular data from Porifera
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Inferring confidence sets of possibly misspecified gene trees
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Poriferan ANTP genes: primitively simple or secondarily reduced?
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THE LIMITS OF AMINO ACID SEQUENCE DATA IN ANGIOSPERM PHYLOGENETIC RECONSTRUCTION
inferredcites →https://doi.org/10.1126/science.1116759openalex-snapshot
Animal Evolution and the Molecular Signature of Radiations Compressed in Time
inferredcites →https://doi.org/10.1126/science.1604319openalex-snapshot
Exhaustive Matching of the Entire Protein Sequence Database
inferredcites →https://doi.org/10.1126/science.8469985openalex-snapshot
Monophyletic Origins of the Metazoa: an Evolutionary Link with Fungi
inferredcites →https://doi.org/10.1371/journal.pbio.0040352openalex-snapshot
Bushes in the Tree of Life
inferredcites →https://doi.org/10.1371/journal.pgen.0030013openalex-snapshot
Comparative Genomics of Large Mitochondria in Placozoans
inferredcites →https://doi.org/10.1371/journal.pone.0000694openalex-snapshot
Changing Hydrozoan Bauplans by Silencing Hox-Like Genes
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The Early ANTP Gene Repertoire: Insights from the Placozoan Genome
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Mesodermal anatomies in cnidarian polyps and medusae
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DNA Content and Fragmentation of the Egg Nucleus of Trichoplax adhaerens

What points at this work

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

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Inhibitors of the p53-Mdm2 interaction increase programmed cell death and produce abnormal phenotypes in the placozoon Trichoplax adhaerens (F.E. Schulze)
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The pericardium in the deuterostome Saccoglossus kowalevskii (Enteropneusta) develops from the ectoderm via schizocoely
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inferred← citeshttps://doi.org/10.1017/9781108616751openalex-snapshot
Evolution and Development
inferred← citeshttps://doi.org/10.1017/9781139939867.012openalex-snapshot
Hydra
inferred← citeshttps://doi.org/10.1017/s0031182016001487openalex-snapshot
Glycogen Synthase Kinase-3 is involved in glycogen metabolism control and embryogenesis of Rhodnius prolixus
inferred← citeshttps://doi.org/10.1017/s1089332600002448openalex-snapshot
Molecules, Morphology, Fossils and the Origination and Extinction Dynamics of Scleractinian Corals
inferred← citeshttps://doi.org/10.1038/nature09201openalex-snapshot
The Amphimedon queenslandica genome and the evolution of animal complexity
inferred← citeshttps://doi.org/10.1038/nature12130openalex-snapshot
Inferring ancient divergences requires genes with strong phylogenetic signals
inferred← citeshttps://doi.org/10.1038/nature13400openalex-snapshot
The ctenophore genome and the evolutionary origins of neural systems
inferred← citeshttps://doi.org/10.1038/nature13996openalex-snapshot
Spatiotemporal transcriptomics reveals the evolutionary history of the endoderm germ layer
inferred← citeshttps://doi.org/10.1038/ncomms1457openalex-snapshot
A stem-group cnidarian described from the mid-Cambrian of China and its significance for cnidarian evolution
inferred← citeshttps://doi.org/10.1038/ncomms2424openalex-snapshot
Deep proteome profiling of Trichoplax adhaerens reveals remarkable features at the origin of metazoan multicellularity
inferred← citeshttps://doi.org/10.1038/ncomms6536openalex-snapshot
Sequential actions of β-catenin and Bmp pattern the oral nerve net in Nematostella vectensis
inferred← citeshttps://doi.org/10.1038/news.2009.55openalex-snapshot
Humans and sponges may share a slimy ancestor
inferred← citeshttps://doi.org/10.1038/s41598-018-29400-yopenalex-snapshot
Trichoplax genomes reveal profound admixture and suggest stable wild populations without bisexual reproduction
inferred← citeshttps://doi.org/10.1038/s42003-025-08655-yopenalex-snapshot
An extinct clade of the basal Epitheliozoa: phylogenetic position and implication of the enigmatic Cambrian chancelloriids
inferred← citeshttps://doi.org/10.1038/s42003-025-09409-6openalex-snapshot
An ancient lysozyme in placozoans participates in acidic extracellular digestion
inferred← citeshttps://doi.org/10.1073/pnas.1105499108openalex-snapshot
MicroRNAs and phylogenomics resolve the relationships of Tardigrada and suggest that velvet worms are the sister group of Arthropoda
inferred← citeshttps://doi.org/10.1073/pnas.1201884109openalex-snapshot
Adaptive evolution of voltage-gated sodium channels: The first 800 million years
inferred← citeshttps://doi.org/10.1073/pnas.1204609109openalex-snapshot
Metazoan opsin evolution reveals a simple route to animal vision
inferred← citeshttps://doi.org/10.1080/00048670903270506openalex-snapshot
Evolution of human brain functions: the functional structure of human consciousness
inferred← citeshttps://doi.org/10.1083/jcb.201109041openalex-snapshot
The evolution of metazoan extracellular matrix
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780199682201.003.0005openalex-snapshot
Cnidaria
inferred← citeshttps://doi.org/10.1093/bib/bbq079openalex-snapshot
Result verification, code verification and computation of support values in phylogenetics
inferred← citeshttps://doi.org/10.1093/biosci/biu099openalex-snapshot
Macroevolution of Animal Body Plans: Is There Science after the Tree?
inferred← citeshttps://doi.org/10.1093/gbe/evaf073openalex-snapshot
Whole Genome Duplication in the Genomics Era: The Hidden Gems in Invertebrates?
inferred← citeshttps://doi.org/10.1093/gbe/evt036openalex-snapshot
Bacterial DNA Sifted from the Trichoplax adhaerens (Animalia: Placozoa) Genome Project Reveals a Putative Rickettsial Endosymbiont
inferred← citeshttps://doi.org/10.1093/gbe/evv091openalex-snapshot
The Rise and Fall of TRP-N, an Ancient Family of Mechanogated Ion Channels, in Metazoa
inferred← citeshttps://doi.org/10.1093/icb/ict008openalex-snapshot
Novel Scenarios of Early Animal Evolution--Is It Time to Rewrite Textbooks?
inferred← citeshttps://doi.org/10.1093/jhered/est084openalex-snapshot
The Global Invertebrate Genomics Alliance (GIGA): Developing Community Resources to Study Diverse Invertebrate Genomes
inferred← citeshttps://doi.org/10.1093/molbev/msaa181openalex-snapshot
Is Phylotranscriptomics as Reliable as Phylogenomics?
inferred← citeshttps://doi.org/10.1093/molbev/msp042openalex-snapshot
Multiple Dicer Genes in the Early-Diverging Metazoa
inferred← citeshttps://doi.org/10.1093/molbev/msp148openalex-snapshot
Phylogenetic-Signal Dissection of Nuclear Housekeeping Genes Supports the Paraphyly of Sponges and the Monophyly of Eumetazoa
inferred← citeshttps://doi.org/10.1093/molbev/msp167openalex-snapshot
Dynamic Evolution of Immune System Regulators: The History of the Interferon Regulatory Factor Family
inferred← citeshttps://doi.org/10.1093/molbev/msp263openalex-snapshot
Large-Scale Parsimony Analysis of Metazoan Indels in Protein-Coding Genes
inferred← citeshttps://doi.org/10.1093/molbev/msq089openalex-snapshot
Improved Phylogenomic Taxon Sampling Noticeably Affects Nonbilaterian Relationships
inferred← citeshttps://doi.org/10.1093/molbev/msr115openalex-snapshot
Tracking the Ancestry of a Deeply Conserved Eumetazoan SINE Domain
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/msr230openalex-snapshot
Testing Hypotheses about the Sister Group of the Passeriformes Using an Independent 30-Locus Data Set
inferred← citeshttps://doi.org/10.1093/molbev/msr285openalex-snapshot
A Consistent Phylogenetic Backbone for the Fungi
inferred← citeshttps://doi.org/10.1093/molbev/msr317openalex-snapshot
Phylo-MCOA: A Fast and Efficient Method to Detect Outlier Genes and Species in Phylogenomics Using Multiple Co-inertia Analysis
inferred← citeshttps://doi.org/10.1093/molbev/mss134openalex-snapshot
Molecular Signatures of the Three Stem Cell Lineages in Hydra and the Emergence of Stem Cell Function at the Base of Multicellularity
inferred← citeshttps://doi.org/10.1093/molbev/mss208openalex-snapshot
Impact of Missing Data on Phylogenies Inferred from Empirical Phylogenomic Data Sets
inferred← citeshttps://doi.org/10.1093/molbev/msu235openalex-snapshot
Phylogenomic Interrogation of Arachnida Reveals Systemic Conflicts in Phylogenetic Signal
inferred← citeshttps://doi.org/10.1093/molbev/msv260openalex-snapshot
Evolution ofPrdmGenes in Animals: Insights from Comparative Genomics
inferred← citeshttps://doi.org/10.1093/molbev/msz025openalex-snapshot
“Dorsal–Ventral” Genes Are Part of an Ancient Axial Patterning System: Evidence from Trichoplax adhaerens (Placozoa)
inferred← citeshttps://doi.org/10.1093/nar/gkn1084openalex-snapshot
Non-coding RNA annotation of the genome of Trichoplax adhaerens
inferred← citeshttps://doi.org/10.1093/sysbio/syaa038openalex-snapshot
Morphological Characters Can Strongly Influence Early Animal Relationships Inferred from Phylogenomic Data Sets
inferred← citeshttps://doi.org/10.1093/sysbio/sys067openalex-snapshot
Ratite Nonmonophyly: Independent Evidence from 40 Novel Loci
inferred← citeshttps://doi.org/10.1093/sysbio/syv041openalex-snapshot
Can We Identify Genes with Increased Phylogenetic Reliability?
inferred← citeshttps://doi.org/10.1093/sysbio/syy013openalex-snapshot
Variation Across Mitochondrial Gene Trees Provides Evidence for Systematic Error: How Much Gene Tree Variation Is Biological?
inferred← citeshttps://doi.org/10.1098/rspb.2009.0896openalex-snapshot
Assessing the root of bilaterian animals with scalable phylogenomic methods
inferred← citeshttps://doi.org/10.1098/rstb.2009.0248openalex-snapshot
The initiation of metamorphosis as an ancient polyphenic trait and its role in metazoan life-cycle evolution
inferred← citeshttps://doi.org/10.1098/rstb.2009.0253openalex-snapshot
Indirect development, transdifferentiation and the macroregulatory evolution of metazoans
inferred← citeshttps://doi.org/10.1101/2024.06.14.598964openalex-snapshot
Targeting the paralog protein for degradation accounts for the opposite roles of NRBP1 and NRBP2 in regulating LINE1 retrotransposition
inferred← citeshttps://doi.org/10.1101/283549openalex-snapshot
Genome-wide features of introns are evolutionary decoupled among themselves and from genome size throughout Eukarya
inferred← citeshttps://doi.org/10.1101/cshperspect.a007922openalex-snapshot
The Evolution of the Wnt Pathway
inferred← citeshttps://doi.org/10.1101/cshperspect.a008649openalex-snapshot
Evolution of the Animal Apoptosis Network
inferred← citeshttps://doi.org/10.1101/sqb.2009.74.042openalex-snapshot
An Integrated View of Precambrian Eumetazoan Evolution
inferred← citeshttps://doi.org/10.1111/cla.12132openalex-snapshot
Plesiomorphic character states cause systematic errors in molecular phylogenetic analyses: a simulation study
inferred← citeshttps://doi.org/10.1111/cla.12615openalex-snapshot
Morphological data, phylogenomics and recalcitrant nodes
inferred← citeshttps://doi.org/10.1111/ivb.12028openalex-snapshot
Quantitative measures of gastrovascular flow in octocorals and hydroids: toward a comparative biology of transport systems in cnidarians
inferred← citeshttps://doi.org/10.1111/j.1096-0031.2009.00295.xopenalex-snapshot
Unringing a bell: metazoan phylogenomics and the partition bootstrap
inferred← citeshttps://doi.org/10.1111/j.1096-0031.2012.00418.xopenalex-snapshot
Plastid genomes and deep relationships among the commelinid monocot angiosperms
inferred← citeshttps://doi.org/10.1111/j.1365-294x.2010.04617.xopenalex-snapshot
The phylogeography of the Placozoa suggests a taxon-rich phylum in tropical and subtropical waters
inferred← citeshttps://doi.org/10.1111/j.1365-294x.2010.04618.xopenalex-snapshot
Putting placozoans on the (phylogeographic) map
inferred← citeshttps://doi.org/10.1111/j.1365-3121.2009.00909.xopenalex-snapshot
Sponges (Porifera) as living metazoan witnesses from the Neoproterozoic: biomineralization and the concept of their evolutionary success
inferred← citeshttps://doi.org/10.1111/j.1460-9568.2011.07829.xopenalex-snapshot
A two‐step process in the emergence of neurogenesis
inferred← citeshttps://doi.org/10.1111/j.1525-142x.2010.00436.xopenalex-snapshot
The genome of the sponge Amphimedon queenslandica provides new perspectives into the origin of Toll‐like and interleukin 1 receptor pathways
inferred← citeshttps://doi.org/10.1111/j.1525-142x.2010.00438.xopenalex-snapshot
The rise of genomics sheds light on the dawn of animals
inferred← citeshttps://doi.org/10.1111/j.1525-142x.2010.00445.xopenalex-snapshot
Origin of animal epithelia: insights from the sponge genome
inferred← citeshttps://doi.org/10.1111/j.1525-142x.2011.00518.xopenalex-snapshot
R ussian comparative embryology takes form: a conceptual metamorphosis toward “evo‐devo”
inferred← citeshttps://doi.org/10.1111/j.1558-5646.2009.00908.xopenalex-snapshot
THE IMPORTANCE OF PREADAPTED GENOMES IN THE ORIGIN OF THE ANIMAL BODYPLANS AND THE CAMBRIAN EXPLOSION
inferred← citeshttps://doi.org/10.1111/j.1744-7410.2010.00193.xopenalex-snapshot
Evolutionary emergence of synaptic nervous systems: what can we learn from the non‐synaptic, nerveless Porifera?
inferred← citeshttps://doi.org/10.1111/j.1749-4877.2009.00167.xopenalex-snapshot
Origin of the neuro‐sensory system: new and expected insights from sponges
inferred← citeshttps://doi.org/10.1117/12.832049openalex-snapshot
Panspermia and horizontal gene transfer
inferred← citeshttps://doi.org/10.1126/sciadv.1500092openalex-snapshot
A vanished history of skeletonization in Cambrian comb jellies
inferred← citeshttps://doi.org/10.1126/science.1242592openalex-snapshot
The Genome of the Ctenophore Mnemiopsis leidyi and Its Implications for Cell Type Evolution
inferred← citeshttps://doi.org/10.1126/science.1250463openalex-snapshot
Statistical binning enables an accurate coalescent-based estimation of the avian tree
inferred← citeshttps://doi.org/10.1134/s0006297922030075openalex-snapshot
Studying of Molecular Regulation of Developmental Processes of Lower Metazoans Exemplified by Cnidaria Using High-Throughput Sequencing
inferred← citeshttps://doi.org/10.1134/s2079086415050084openalex-snapshot
The early history of the metazoa—a paleontologist’s viewpoint
inferred← citeshttps://doi.org/10.1139/gen-2012-0122openalex-snapshot
A first exploration of genome size diversity in sponges
inferred← citeshttps://doi.org/10.1146/annurev-genet-111212-133456openalex-snapshot
The Genomic and Cellular Foundations of Animal Origins
inferred← citeshttps://doi.org/10.1155/2013/621604openalex-snapshot
Evaluating Phylogenetic Informativeness as a Predictor of Phylogenetic Signal for Metazoan, Fungal, and Mammalian Phylogenomic Data Sets
inferred← citeshttps://doi.org/10.11606/t.42.2016.tde-08112016-162202openalex-snapshot
Análise e anotação do genoma de Epicoccum nigrum e metabolismo secundário.
inferred← citeshttps://doi.org/10.1186/1471-2148-10-34openalex-snapshot
The backbone of the post-synaptic density originated in a unicellular ancestor of choanoflagellates and metazoans
inferred← citeshttps://doi.org/10.1186/1471-2148-10-73openalex-snapshot
A non-tree-based comprehensive study of metazoan Hox and ParaHox genes prompts new insights into their origin and evolution
inferred← citeshttps://doi.org/10.1186/1471-2148-10-93openalex-snapshot
Evolution of the MAGUK protein gene family in premetazoan lineages
inferred← citeshttps://doi.org/10.1186/1471-2148-9-150openalex-snapshot
On the phylogenetic position of Myzostomida: Can 77 genes get it wrong?
inferred← citeshttps://doi.org/10.1186/1471-2148-9-249openalex-snapshot
Origin and evolution of the Notch signalling pathway: an overview from eukaryotic genomes
inferred← citeshttps://doi.org/10.1186/1471-2148-9-94openalex-snapshot
Insights into the evolution of the snail superfamily from metazoan wide molecular phylogenies and expression data in annelids
inferred← citeshttps://doi.org/10.1186/1472-6750-11-67openalex-snapshot
RNA interference in marine and freshwater sponges: actin knockdown in Tethya wilhelma and Ephydatia muelleriby ingested dsRNA expressing bacteria
inferred← citeshttps://doi.org/10.1186/1478-811x-7-22openalex-snapshot
Function, regulation and pathological roles of the Gab/DOS docking proteins
inferred← citeshttps://doi.org/10.1186/1741-7007-8-4openalex-snapshot
Early evolution of the LIM homeobox gene family
inferred← citeshttps://doi.org/10.1186/1741-7007-8-66openalex-snapshot
Phylostratigraphic tracking of cancer genes suggests a link to the emergence of multicellularity in metazoa
inferred← citeshttps://doi.org/10.1186/1745-6150-5-18openalex-snapshot
Genome-wide analysis of transposable elements and tandem repeats in the compact placozoan genome
inferred← citeshttps://doi.org/10.1186/1745-6150-7-22openalex-snapshot
The manoeuvrability hypothesis to explain the maintenance of bilateral symmetry in animal evolution
inferred← citeshttps://doi.org/10.1186/2041-9139-1-10openalex-snapshot
Genomic insights into Wnt signaling in an early diverging metazoan, the ctenophore Mnemiopsis leidyi
inferred← citeshttps://doi.org/10.1186/2041-9139-2-12openalex-snapshot
Multiple Sox genes are expressed in stem cells or in differentiating neuro-sensory cells in the hydrozoan Clytia hemisphaerica
inferred← citeshttps://doi.org/10.1186/2041-9139-2-3openalex-snapshot
Nuclear receptors from the ctenophore Mnemiopsis leidyi lack a zinc-finger DNA-binding domain: lineage-specific loss or ancestral condition in the emergence of the nuclear receptor superfamily?
inferred← citeshttps://doi.org/10.1186/2041-9139-5-15openalex-snapshot
Expression of multiple Sox genes through embryonic development in the ctenophore Mnemiopsis leidyi is spatially restricted to zones of cell proliferation
inferred← citeshttps://doi.org/10.1186/2041-9139-6-1openalex-snapshot
The phylogenetic position of ctenophores and the origin(s) of nervous systems
inferred← citeshttps://doi.org/10.1186/gb-2009-10-11-r126openalex-snapshot
Construction of a high-resolution genetic linkage map and comparative genome analysis for the reef-building coral Acropora millepora
inferred← citeshttps://doi.org/10.1186/gb-2013-14-2-r15openalex-snapshot
Premetazoan genome evolution and the regulation of cell differentiation in the choanoflagellate Salpingoeca rosetta
inferred← citeshttps://doi.org/10.1186/s12864-015-1588-zopenalex-snapshot
Deep developmental transcriptome sequencing uncovers numerous new genes and enhances gene annotation in the sponge Amphimedon queenslandica
inferred← citeshttps://doi.org/10.1186/s12864-015-2146-4openalex-snapshot
Extracting phylogenetic signal and accounting for bias in whole-genome data sets supports the Ctenophora as sister to remaining Metazoa
inferred← citeshttps://doi.org/10.1186/s12915-017-0391-5openalex-snapshot
Non-model model organisms
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