Expression of the 22 nucleotide let‐7 heterochronic RNA throughout the Metazoa: a role in life history evolution?

The 22 nucleotide let-7 small temporal RNA has been found consistently in samples from diverse bilateria but not from sponge or cnidarians. Here we further examine the phylogenetic distribution of this regulatory RNA by sampling representatives of diverse metazoan lineages. The 22 nucleotide let-7 RNA is detectable in triclad and polyclad platyhelminths, nemertean, and chaetognath but not ctenophore or acoel metazoans. These results support recent arguments that acoels are distinct from other acoelomate platyhelminths. We argue that let-7 is not a bilaterian or triploblast synapomorphy but instead evolved later in metazoan evolution, perhaps in association with complex life history traits.     

The coelom and the origin of the annelid body plan

The biphasic life cycle in annelids is characterized by two completely different types of organisation, i.e. the acoelomate/pseudocoelomate larva and the coelomate adult. Based on this observation the recent literature on the different assumptions on the organisation of the bilaterian stem species with special emphasis on the evolution of the annelid body plan is reviewed. The structure of the coelomic lining ranges between a simple myoepithelium composed of epithelio-muscle cells and a non-muscular peritoneum that covers the body wall muscles. The direction of the evolution of these linings is discussed with respect to coelomogenesis. As the coelom originates from mesodermal cell bands, different assumption on the acoelomate condition in Bilateria can be substantiated. The origin of segmentation in annelids is explained by current hypothesis. Although no final decision can be made concerning the origin of the annelid body plan and the organisation of the bilaterian stem species, this paper elaborates those questions that need to be resolved to unravel the relation between the different body plans.     

The Nemertodermatida are basal bilaterians and not members of the Platyhelminthes

Recent hypotheses on metazoan phylogeny have recognized three main clades of bilaterian animals: Deuterostomia, Ecdysozoa and Lophotrochozoa. The acoelomate and 'pseudocoelomate' metazoans, including the Platyhelminthes, long considered basal bilaterians, have been referred to positions within these clades by many authors. However, a recent study based on ribosomal DNA placed the flatworm group Acoela as the sister group of all other extant bilaterian lineages. Unexpectedly, the nemertodermatid flatworms, usually considered the sister group of the Acoela together forming the Acoelomorpha, were grouped separately from the Acoela with the rest of the Platyhelminthes (the Rhabditophora) within the Lophotrochozoa. To re-evaluate and clarify the phylogenetic position of the Nemertodermatida, new sequence data from 18S ribosomal DNA and mitochondrial genes of nemertodermatid and other bilaterian species were analysed with parsimony and maximum likelihood methods. The analyses strongly support a basal position within the Bilateria for the Nemertodermatida as a sister group to all other bilaterian taxa except the Acoela. Despite the basal position of both Nemertodermatida and Acoela, the clade Acoelomorpha was not retrieved. These results imply that the last common ancestor of bilaterian metazoans was a small, benthic, direct developer without segments, coelomic cavities, nephrida or a true brain. The name Nephrozoa is proposed for the ancestor of all bilaterians excluding the Nemertodermatida and the Acoela, and its descendants.     

Hidden diversity of Acoelomorpha revealed through metabarcoding

Animals with bilateral symmetry comprise the majority of the described species within Metazoa. However, the nature of the first bilaterian animal remains unknown. As most recent molecular phylogenies point to Xenacoelomorpha as the sister group to the rest of Bilateria, understanding their biology, ecology and diversity is key to reconstructing the nature of the last common bilaterian ancestor (Urbilateria). To date, sampling efforts have focused mainly on coastal areas, leaving potential gaps in our understanding of the full diversity of xenacoelomorphs. We therefore analysed 18S rDNA metabarcoding data from three marine projects covering benthic and pelagic habitats worldwide. Our results show that acoels have a greater richness in planktonic environments than previously described. Interestingly, we also identified a putative novel clade of acoels in the deep benthos that branches as sister group to the rest of Acoela, thus representing the earliest-branching acoel clade. Our data highlight deep-sea environments as an ideal habitat to sample acoels with key phylogenetic positions, which might be useful for reconstructing the early evolution of Bilateria.     

Protonephridia and Metanephridia - their relation within the Bilateria

Two different kinds of nephridia occur within the Bilateria, protonephridia closed up by a terminal cell and metanephridia opening into the coelomic cavity. Both initially filter and subsequently modify intercellular fluids. Whereas metanephridia are strictly correlated to a coelom, proto-nephria occur in acoelomate as well as in coelomate organisms. Protonephridia of different bilaterian taxa correspond to each other in several structural features. Therefore, it is hypothesized that protonephridia are homologous organs throughout the Bilateria. They must have evolved once as one pair of monociliated organs orinatinng from the ectoderm and consistin of one terminal, one duct and one nephropore cell In the ground pattern of the Bilateria the cilium of the terminal cell has only one rootlet and is surrounded by resumably eight strengthened and elongated microvilli. Cilium and microvilli extend into the hollow cyinder of the terminal cell, which is oriented distally and is attached to the adjacent duct cell by desmosomes. This cylinder is perforated by clefts and represents the supporting structure of the filtration barrier consisting of extracellular matrix. In the Annelida and Phoronida, the metanehridia at the postlarval stages are ontogenetically preceded by protonephridia in the larva, but far reaching structural and developmental differ ences exist between the metanephridia of both. In horonids the rotonephrdial duct of the larva is retained in the postlarva and acquires a coelothelially derived funnel, whereas in annelids the metanephridia are uniform organs orihating from a solid anlage, which is a repetition of the protonehridial anlage of the larva. The differences contradict a homology of the metanephridia in Annegda and Phoronida. We therefore have to conclude that metanephridia must have evolved indeendently, at least two times. The comparative analysis of nephridia in the Bilateria allows the following hyothesis: Pro tonephridia were evolved in a monohasic acoelomate organism in the stem fineage of the Bilateria. During the evolution of biphasic life cycles consisting of an acoelomate larva and a coelomate adult, the information about the differentiation of protonephridia has been preserved in the early acoelomate developmental (larval) stages. During postlarval development and the formation of a coelom the protonephridia have either been retained or modified into meta nephridia. Accordin to the differences between the metanehridia of phoronids and annelids, we emphasize that. tiere is no possibility to trace back all bilaterian taxa with a coelom to a common stem species.     

Mesodermal Gene Expression in the Acoel Isodiametra pulchra Indicates a Low Number of Mesodermal Cell Types and the Endomesodermal Origin of the Gonads

Acoelomorphs are bilaterally symmetric small marine worms that lack a coelom and possess a digestive system with a single opening. Two alternative phylogenetic positions of this group within the animal tree are currently debated. In one view, Acoelomorpha is the sister group to all remaining Bilateria and as such, is a morphologically simple stepping stone in bilaterian evolution. In the other, the group is a lineage within the Deuterostomia, and therefore, has derived a simple morphology from a more complex ancestor. Acoels and the closely related Nemertodermatida and Xenoturbellida, which together form the Acoelomorpha, possess a very limited number of cell types. To further investigate the diversity and origin of mesodermal cell types we describe the expression pattern of 12 orthologs of bilaterian mesodermal markers including Six1/2, Twist, FoxC, GATA4/5/6, in the acoel Isodiametra pulchra. All the genes are expressed in stem cells (neoblasts), gonads, and at least subsets of the acoel musculature. Most are expressed in endomesodermal compartments of I. pulchra developing embryos similar to what has been described in cnidarians. Our molecular evidence indicates a very limited number of mesodermal cell types and suggests an endomesodermal origin of the gonads and the stem cell system. We discuss our results in light of the two prevailing phylogenetic positions of Acoelomorpha.     

Early evolution of the bilateria

The phylogeny of the Bilateria and especially the early steps in the evolution of the bilaterian bauplan are still a controversial topic. In this context the relationships of the platyhelminths and the nematodes play a crucial role. Previous molecular studies of the relationships of these groups, which were based on 18S ribosomal DNA sequences, yielded conflicting results. In the present study a new framework is developed for the phylogenetic analysis of bilaterian relationships, using concatenated amino acid sequences of several nuclear genes. In this analysis, the rhabditophoran platyhelminths are probably the sister group of all other analyzed Bilateria, the Eubilateria, which are characterized by a one-way intestine with an anus. The Eubilateria are split into the nematode lineage and the coelomates. The phylogenetic results of the present study indicate that genetic features found in the model organisms Caenorhabditis and Drosophila might be found in all Eubilateria. Estimations of the divergence times show that the major bilaterian phyla did not originate in an explosive radiation during the Cambrian but rather that the Bilateria have a several hundred million years long Precambrian history.     

The Biphasic Life Cycle--A Central Theme of Metazoan Evolution

SYNOPSIS. A life cycle alternating between a microscopic larva(mmsized) and macroscopic adult (cm-sized) occurs commonly amonginvertebrates. The pattern of occurrence of such a biphasiclife cycle among lower metazoans like the Porifera and Cnidaria,as well as ultrastructure of larva and adults of many invertebrates,suggests that the earliest phases of metazoan evolution alsohad such a cycle. Only the dispersive larvae in the originalmetazoans could be characterized as "small and mobile" if wefollow this model to its logical conclusion; the adults, bycontrast, evolved into larger-bodied organisms to maximize reproductionand were non-motile filter feeders for the most part. The biphasiclife cycle arose early in evolution, then, shortly after thefirst multicellular organisms evolved as clones of flagellatedcells linked together by interactions through ECM; selectivepressures acting independently on the two phases of the lifecycle led to the origin of the different metazoan tissue types—epithelial,connective, nervous, and muscle tissues. For the Bilateria,this suggests that extant acoelomate and pseudocoelomate formsevolved through progenesis of larvae and juveniles in a mannerlike that known for the radiation of the interstitial annelids.A better understanding of larval biology and of mechanisms forheterochrony is crucial for hypotheses of metazoan evolution.     

Review of data for a morphological look on Xenacoelomorpha (Bilateria incertae sedis)

Recent investigations by means of high-tech morphology, evo-devo studies and molecular data suggest that the taxon Xenacoelomorpha (Nemertodermatida and Acoela plus Xenoturbella), formerly considered as primitive flatworms (Plathelminthes) or even bivalve Mollusca, represents either a quite plesiomorphic grouping as the earliest bilaterian offshoot or but is a substantially reduced and simplified sidebranch of ambulacralian Deuterostomia. Herein, I provide a compilation and review of the current morphological data and possible interpretations of the various character states. Phenotypic and genotypic data suggest monophyly of Xenacoelomorpha. There is no specific similarity between xenacoelmorphs and deuerostome larvae, and reduction appears improbable in free-living and predatory animals. Accordingly, Xenacoelomorpha are more likely similar to Urbilateria rather than degenerated and simplified coelomate deuterostomes. If so, the ground pattern of Bilateria has been retained only partially in the remaining main bilaterian clades (Nephrozoa) after the deviation of the Xenacoelomorpha, namely the nervous system in the Deuterostomia and the body cavity conditions in the acoelomate Lophotrochozoa (particularly Platyzoa), Gastrotricha and cycloneuralian Ecdysozoa.     

Hox and ParaHox Genes in Flatworms: Characterization and Expression

Flatworms (phylum Platyhelminthes) are favourite organisms inDevelopmental Biology and Zoology because of their extraordinarypowers of regeneration and because they may hold a pivotal placein the origin and evolution of the Bilateria. Hox genes playkey roles in both processes: setting up the new anteroposteriorpattern in the former, and as qualitative markers of phylogeneticaffinities among bilaterian phyla in the latter. We have searchedfor Hox and ParaHox genes in several flatworm groups spanningfrom freshwater triclads to marine polyclads and, more recently,in the acoels, the likely earliest extant bilaterian. We haveisolated and sequenced eight Hox genes from the freshwater tricladGirardia tigrina and three Hox and two ParaHox genes from thepolyclad Discocelis tigrina. Data from the acoels Paratomellarubra and Convoluta roscoffensis is also reported. FlatwormHox sequences and 18S rDNA sequence data support clear affinitiesof Platyhelminthes to spiralian lophotrochozoans. The basalposition of acoel flatworms supported from recent 18S rDNA data,remains still uncertain. Expression of Hox genes in intact andregenerating adult organisms show nested patterns with gradedanterior expression boundaries, or ubiquitous expression. Newapproaches to study the function of Hox genes in flatworms,such as RNA interference are briefly discussed.     

Axial patterning and diversification in the cnidaria predate the Hox system

Across the animal kingdom, Hox genes are organized in clusters whose genomic organization reflects their central roles in patterning along the anterior/posterior (A/P) axis . While a cluster of Hox genes was present in the bilaterian common ancestor, the origins of this system remain unclear (cf. ). With new data for two representatives of the closest extant phylum to the Bilateria, the sea anemone Nematostella and the hydromedusa Eleutheria, we argue here that the Cnidaria predate the evolution of the Hox system. Although Hox-like genes are present in a range of cnidarians, many of these are paralogs and in neither Nematostella nor Eleutheria is an equivalent of the Hox cluster present. With the exception of independently duplicated genes, the cnidarian genes are unlinked and in several cases are flanked by non-Hox genes. Furthermore, the cnidarian genes are expressed in patterns that are inconsistent with the Hox paradigm. We conclude that the Cnidaria/Bilateria split occurred before a definitive Hox system developed. The spectacular variety in morphological and developmental characteristics shown by extant cnidarians demonstrates that there is no obligate link between the Hox system and morphological diversity in the animal kingdom and that a canonical Hox system is not mandatory for axial patterning.     

Acoel flatworms are not platyhelminthes: evidence from phylogenomics

Acoel flatworms are small marine worms traditionally considered to belong to the phylum Platyhelminthes. However, molecular phylogenetic analyses suggest that acoels are not members of Platyhelminthes, but are rather extant members of the earliest diverging Bilateria. This result has been called into question, under suspicions of a long branch attraction (LBA) artefact. Here we re-examine this problem through a phylogenomic approach using 68 different protein-coding genes from the acoel Convoluta pulchra and 51 metazoan species belonging to 15 different phyla. We employ a mixture model, named CAT, previously found to overcome LBA artefacts where classical models fail. Our results unequivocally show that acoels are not part of the classically defined Platyhelminthes, making the latter polyphyletic. Moreover, they indicate a deuterostome affinity for acoels, potentially as a sister group to all deuterostomes, to Xenoturbellida, to Ambulacraria, or even to chordates. However, the weak support found for most deuterostome nodes, together with the very fast evolutionary rate of the acoel Convoluta pulchra, call for more data from slowly evolving acoels (or from its sister-group, the Nemertodermatida) to solve this challenging phylogenetic problem.     

Poriferan mtDNA and animal phylogeny based on mitochondrial gene arrangements

Phylogenetic relationships among the metazoan phyla are the subject of an ongoing controversy. Analysis of mitochondrial gene arrangements is a powerful tool to investigate these relationships; however, its previous application outside of individual animal phyla has been hampered by the lack of informative out-group data. To address this shortcoming, we determined complete mitochondrial DNA sequences for the demosponges Geodia neptuni and Tethya actinia, two representatives of the most basal animal phylum, the Porifera. With sponges as an outgroup, we investigated phylogenetic relationships of nine bilaterian phyla using both breakpoint analysis of global mitochondrial gene arrangements and maximum parsimony analysis of mitochondrial gene adjacencies. Our results provide strong support for a group that includes protostome (but not deuterostome) coelomate, pseudocoelomate, and acoelomate animals, thus clearly rejecting the Coelomata hypothesis. Two other groups of bilaterian animals, Lophotrochozoa and Ambulacraria, are also supported by our analyses. However, due to the remarkable stability of mitochondrial gene arrangements in Deuterostomia and the Ecdysozoa, conclusions on their evolutionary history cannot be drawn.     

The Development of Radial and Biradial Symmetry: The Evolution of Bilaterality

SYNOPSIS. Understanding the evolutionary origin of novel metazoanbody plans continues to be one of the most sought after answersin biology. Perhaps the most profound change that may have occurredin the Metazoa is the appearance of bilaterally symmetricalforms from a presumably radially symmetrical ancestor. The symmetryproperties of bilaterally symmetrical larval and adult metazoansare generally set up during the cleavage period while most "radially"symmetrical cnidarians do not display a stereotyped cleavageprogram. Ctenophores display biradial symmetry and may representone intermediate form in the transition to bilateral symmetry.The early development of cnidarians and ctenophores is comparedwith respect to the timing and mechanisms of axial determination.The origin of the dorsal-ventral axis, and indeed the relationshipsof the major longitudinal axes, in cnidarians, ctenophores,and bilaterian animals are far from certain. The realizationthat many of the molecular mechanisms of axial determinationare conserved throughout the Bilateria allows one to formulatea set of predictions as to their possible role in the originsof bilaterian ancestors.     

Animal phylogeny and the ancestry of bilaterians: inferences from morphology and 18S rDNA gene sequences

SUMMARY Insight into the origin and early evolution of the animal phyla requires an understanding of how animal groups are related to one another. Thus, we set out to explore animal phylogeny by analyzing with maximum parsimony 138 morphological characters from 40 metazoan groups, and 304 18S rDNA sequences, both separately and together. Both types of data agree that arthropods are not closely related to annelids: the former group with nematodes and other molting animals (Ecdysozoa), and the latter group with molluscs and other taxa with spiral cleavage. Furthermore, neither brachiopods nor chaetognaths group with deuterostomes; brachiopods are allied with the molluscs and annelids (Lophotrochozoa), whereas chaetognaths are allied with the ecdysozoans. The major discordance between the two types of data concerns the rooting of the bilaterians, and the bilaterian sister-taxon. Morphology suggests that the root is between deuterostomes and protostomes, with ctenophores the bilaterian sister-group, whereas 18S rDNA suggests that the root is within the Lophotrochozoa with acoel flatworms and gnathostomulids as basal bilaterians, and with cnidarians the bilaterian sister-group. We suggest that this basal position of acoels and gnathostomulids is artifactal because for 1000 replicate phylogenetic analyses with one random sequence as outgroup, the majority root with an acoel flatworm or gnathostomulid as the basal ingroup lineage. When these problematic taxa are eliminated from the matrix, the combined analysis suggests that the root lies between the deuterostomes and protostomes, and Ctenophora is the bilaterian sister-group. We suggest that because chaetognaths and lophophorates, taxa traditionally allied with deuterostomes, occupy basal positions within their respective protostomian clades, deuterostomy most likely represents a suite of characters plesiomorphic for bilaterians.     

Larval Planktotrophy—A Primitive Trait in the Bilateria?

The concept of Gösta Jägersten of a primary biphasic metazoan life-cycle, consisting of a planktotrophic larva and a benthic adult, forms the basis for several theories on metazoan phylogeny. In this paper the assumed planktotrophic life-style of the larva is critically analyzed and reconsidered. It is shown, in particular for the Mollusca, that a biphasic life-cycle with a lecithotrophic larva is probably the plesiomorphic condition. Character distribution and structural data suggest a parallel evolution of the downstream collecting system used in planktotrophic larvae or filter-feeding adults of gastropods, bivalves and other spiralian or aschelminth taxa. In the basic metazoans (Parazoa, Placozoa, coelenterates) direct or lecithotrophic development dominates by far. For the acoelomate (Platyhelminthes, Gnathostomulida) and pseudocoelomate taxa direct development is probably the plesiomorphic condition. The structural similarities of the upstream collecting system in tentaculate and deuterostome phyla may also be explained by parallel events of heterochrony out of an ancestor with adult filter-feeding. The main conclusion of this survey is that larval planktotrophy is likely to be secondary and not a plesiomorphic condition among the Bilateria. Accordingly, theories which are based on the assumed plesiomorphy of larval planktotrophy of the Bilateria, need careful reevaluation.     

Origin of bilateral-symmetrical animals (Bilateria)

The paper is an attempt to attack the old problem of the origin of Bilateria by the methods of evolutionary tetrad (i.e. combination of comparative anatomy, comparative embryology, paleontology, and molecular biology). Three groups of theories of classical comparative anatomy (planulod-turbellarian, archicoelomate, and metameric) are discussed. Comparative embryology brings out clearly that the ventral side of embryo comes from the blastoporal region in all groups of Bilateria (except Chordata, where the blastoporal region corresponds to the dorsal side that is come out of the upside-down morphology of chordates) and mouth and anus comes from the anterior and posterior ends of elongated blastopore. From the point of view of paleontology, some of vendian metazoans demonstrate transitional conditions between the Radiata and Bilateria. Vendian bilaterians are metameric organisms with normal or asymmetric position of segments and could be pictured as "bilateral coelenterates" creeping on the oral surface. In Cnidaria, the expression of homologues of "Brachyury", "goosecoid", and "fork head" genes are revealed in the circular region around the mouth. In Bilateria, these genes are expressed along the elongated blastopore and around the mouth and anus. These results support the old conception on the amphistomic origin of mouth and anus as well as the homology between the oral disc of cnidarians and ventral side of Bilateria. The combination of four mentioned approaches enables us to propose the conception of the origin of Bilateria from vendian bilateral coelenterates with numerous metameric pouches of gastral cavity. Bilaterian ancestors crawled on the oral disc (= ventral side). These ancestors gave rise to both phanerosoic cnidarians and triploblastic bilaterians. Cnidarian ancestors attached to bottom by the aboral pole with the resulting degradation of aboral nerve ganglion. Bilateral symmetry of anthozoans is considered to be primitive feature for cnidarians. In case of triploblastic Bilateria, the elongated blastopore closed in the middle and subdivided into mouth and anus (amphistomy) and gastral pouches separated from the central part of gastral cavity and transformed to metameric coelomic chambers. The primary bilaterians are supposed to be complicated organisms having coelom and segmentation. The complexity of primary Bilateria provides an explanation for the abundance of highly organized organisms (arthropods, mollusks etc.) in Cambrian time. It is postulated that Ctenophora is the only group recent eumetazoans with primary axial symmetry.     

Precambrian trace fossils and the rise of bilaterian animals

In this attempt to synthesize present knowledge into a coherent story, the Cambrian explosion is interpreted to represent a true adaptive radiation, an event similar to Phanerozoic radiation events in principle but unique in its possibilities. A model of bilaterian evolution helps explain how this particular event involved the sudden initiation of major coelomate phyla. In many of these groups, preservable skeletons are part of the basic body plan. Biochemical‐sequence analyses indicate that acoelomates and pseudocoelomates branched off long before the coelomate radiation. The great differences between Vendian and Cambrian ichnofaunas, therefore, may be the result of a major shift in composition from Vendian acoelomate‐pseudocoelomate‐procoelomate faunas to Phanerozoic faunas dominated by new coelomate groups.     

Dismissal of Acoelomorpha: Acoela and Nemertodermatida are separate early bilaterian clades

We used new 18S and 28S rRNA sequences analysed with parsimony, maximum likelihood and Bayesian methods of phylogenetic reconstruction to show that Nemertodermatida, generally classified as the sister group of Acoela within the recently proposed Phylum Acoelomorpha, are a separate basal bilaterian lineage. We used several analytical approaches to control for possible long branch attraction (LBA) artefacts in our results. Parsimony and the model based phylogenetic reconstruction methods that incorporate 'corrections' for substitution rate heterogenities yielded concordant results. When putative long branch taxa were experimentally removed the resulting topologies were consistent with our total evidence analysis. Deletion of fast-evolving nucleotide sites decreased resolution and clade support, but did not support a topology conflicting with the total evidence analysis. Establishment of Acoela and Nemertodermatida as two early lineages facilitates reconstruction of ancestral bilaterian features. The ancestor of extant Bilateria was a small, benthic direct developer without coelom or a planktonic larval stage. The previously proposed Phylum Acoelomorpha is dismissed as paraphyletic.