Earth sciences
The Museum's vast collections of meteorites, rocks, minerals and fossils support our staff's unique expertise in natural resources, planetary geology and the evolution of life on Earth.
Recent Submissions
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A new species of Nanhsiungchelys (Testudines: Cryptodira: Nanhsiungchelyidae) from the Upper Cretaceous of Nanxiong Basin, ChinaNanhsiungchelyidae are a group of large turtles that lived in Asia and North America during the Cretaceous. Here we report a new species of nanhsiungchelyid, Nanhsiungchelys yangi sp. nov., from the Upper Cretaceous of Nanxiong Basin, China. The specimen consists of a well-preserved skull and lower jaw, as well as the anterior parts of the carapace and plastron. The diagnostic features of Nanhsiungchelys include a large entire carapace length (∼55.5 cm), a network of sculptures consisting of pits and ridges on the surface of the skull and shell, shallow cheek emargination and temporal emargination, deep nuchal emargination, and a pair of anterolateral processes on the carapace. However, Nanhsiungchelys yangi differs from the other species of Nanhsiungchelys mainly in having a triangular-shaped snout (in dorsal view) and wide anterolateral processes on the carapace. Additionally, some other characteristics (e.g., the premaxilla is higher than wide, the maxilla is unseen in dorsal views, a small portion of the maxilla extends posterior and ventral of the orbit, and the parietal is bigger than the frontal) are strong evidence to distinguish Nanhsiungchelys yangi from Nanhsiungchelys wuchingensis. A phylogenetic analysis of nanhsiungchelyids places Nanhsiungchelys yangi and Nanhsiungchelys wuchingensis as sister taxa. Nanhsiungchelys yangi and some other nanhsiungchelyids bear distinct anterolateral processes on the carapace, which have not been reported in any extant turtles and may have played a role in protecting the head. The Nanxiong Basin was extremely hot during the Late Cretaceous, and so we suggest that nanhsiungchelyids might have immersed themselves in mud or water to avoid the heat, similar to some extant tortoises. If they were capable of swimming, our computer simulations of fluid flow suggest the anterolateral processes could have reduced drag during locomotion.
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Quantitative ichnology: a novel framework to determine the producers of locomotory trace fossils with the ichnogenus Gordia as a case studyAbstract: Trace fossils record the interactions between organisms and their surroundings, and can therefore provide unique insights into the coevolution of trace makers and the environment. However, identifying the producers of trace fossils is challenging because different animals can create very similar traces and many ichnotaxa can therefore only be attributed to broad morphological grades. For example, simple horizontal traces like Gordia are generally suggested to have been produced by vermiform organisms, potentially encompassing a range of animal phyla. This uncertainty makes it difficult to decipher their palaeobiological significance through major evolutionary events and episodes of environmental change. We have developed new mathematical approaches for identifying previously unrecognized signatures left by the trace makers of simple marine locomotory traces. We calculated the deviation angle series of self‐crossing traces made by extant isopods, polychaetes, gastropods and nematodes, computing the frequency spectrum and autocorrelation function in each case. The results reveal that each of these taxa left unique markers during the trace‐making process, reflecting differences in their anatomy and locomotory behaviour. We were able to identify the possible trace makers of several early Palaeozoic Gordia specimens, demonstrating that ichnospecies within the same ichnogenus can be created by distantly related animals with very different morphologies and/or behaviours. This novel mathematical framework has great potential for identifying the possible producers of diverse trace fossils through deep time, helping to uncover the earliest evidence of certain animals or behaviours. It also has great potential for quantifying ichnotaxonomy, consolidating the link between ichnology and palaeobiology.
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Functional morphology of the Ediacaran organism Tribrachidium heraldicumAbstract: Tribrachidium heraldicum is an Ediacaran body fossil characterized by triradial symmetry. Previous work has suggested that the anatomy of Tribrachidium was conducive to passive suspension feeding; however, these analyses used an inaccurate model and a relatively simple set of simulations. Using computational fluid dynamics, we explore the functional morphology of Tribrachidium in unprecedented detail by gauging how the presence or absence of distinctive anatomical features (e.g., apical pits and arms) affects flow patterns. Additionally, we map particle pathways, quantify deposition rates at proposed feeding sites, and assess gregarious feeding habits to more fully reconstruct the lifestyle of this enigmatic taxon. Our results provide strong support for interpreting Tribrachidium as a macroscopic suspension feeder, with the apical pits representing loci of particle collection (and possibly ingestion) and the triradial arms representing morphological adaptations for interrupting flow and inducing settling. More speculatively, we suggest that the radial grooves may represent ciliated pathways through which food particles accumulating in the wake of the organism were transported toward the apical pits. Finally, our results allow us to generate new functional hypotheses for other Ediacaran taxa with a triradial body plan. This work refines our understanding of the appearance of suspension feeding in shallow-water paleoenvironments, with implications for the radiation of Metazoa across the Ediacaran/Cambrian boundary.
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The genome sequence of the centipede Strigamia acuminata (Leach, 1816)We present a genome assembly from an individual male Strigamia acuminata (centipede; Arthropoda; Chilopoda; Geophilomorpha; Geophilidae; Linotaeniinae). The genome sequence is 237.5 megabases in span. Most of the assembly is scaffolded into 11 chromosomal pseudomolecules, including the X and Y sex chromosomes. The mitochondrial genome has also been assembled and is 15.07 kilobases in length.
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Raptorial appendages of the Cambrian apex predator<i>Anomalocaris canadensis</i>are built for soft prey and speedThe stem-group euarthropod Anomalocaris canadensis is one of the largest Cambrian animals and is often considered the quintessential apex predator of its time. This radiodont is commonly interpreted as a demersal hunter, responsible for inflicting injuries seen in benthic trilobites. However, controversy surrounds the ability of A. canadensis to use its spinose frontal appendages to masticate or even manipulate biomineralized prey. Here, we apply a new integrative computational approach, combining three-dimensional digital modelling, kinematics, finite-element analysis (FEA) and computational fluid dynamics (CFD) to rigorously analyse an A. canadensis feeding appendage and test its morphofunctional limits. These models corroborate a raptorial function, but expose inconsistencies with a capacity for durophagy. In particular, FEA results show that certain parts of the appendage would have experienced high degrees of plastic deformation, especially at the endites, the points of impact with prey. The CFD results demonstrate that outstretched appendages produced low drag and hence represented the optimal orientation for speed, permitting acceleration bursts to capture prey. These data, when combined with evidence regarding the functional morphology of its oral cone, eyes, body flaps and tail fan, suggest that A. canadensis was an agile nektonic predator that fed on soft-bodied animals swimming in a well-lit water column above the benthos. The lifestyle of A. canadensis and that of other radiodonts, including plausible durophages, suggests that niche partitioning across this clade influenced the dynamics of Cambrian food webs, impacting on a diverse array of organisms at different sizes, tiers and trophic levels.
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A new interpretation of Pikaia reveals the origins of the chordate body planOur understanding of the evolutionary origin of Chordata, one of the most disparate and ecologically significant animal phyla, is hindered by a lack of unambiguous stem-group relatives. Problematic Cambrian fossils that have been considered as candidate chordates include vetulicolians (1) Yunnanozoon (2) and the iconic Pikaia (3) However, their phylogenetic placement has remained poorly constrained, impeding reconstructions of character evolution along the chordate stem lineage. Here we reinterpret the morphology of Pikaia, providing evidence for a gut canal and, crucially, a dorsal nerve cord—a robust chordate synapomorphy. The identification of these structures underpins a new anatomical model of Pikaia that shows that this fossil was previously interpreted upside down.We reveal a myomere configuration intermediate between amphioxus and vertebrates and establish morphological links between Yunnanozoon, Pikaia, and uncontroversial chordates. In this light, we perform a new phylogenetic analysis, using a revised, comprehensive deuterostome dataset, and establish a chordate stem lineage. We resolve vetulicolians as a paraphyletic group comprising the earliest diverging stem chordates, subtending a grade of more derived stem-group chordates comprising Yunnanozoon and Pikaia. Our phylogenetic results reveal the stepwise acquisition of characters diagnostic of the chordate crown group. In addition, they chart a phase in early chordate evolution defined by the gradual integration of the pharyngeal region with a segmented axial musculature, supporting classical evolutionary-developmental hypotheses of chordate origins4 and revealing a ‘‘lost chapter’’ in the history of the phylum.
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Ediacaran marine animal forests and the ventilation of the oceansThe rise of animals across the Ediacaran–Cambrian transition marked a step-change in the history of life, from a microbially dominated world to the complex macroscopic biosphere we see today.1,2,3 While the importance of bioturbation and swimming in altering the structure and function of Earth systems is well established,4,5,6 the influence of epifaunal animals on the hydrodynamics of marine environments is not well understood. Of particular interest are the oldest “marine animal forests,”7 which comprise a diversity of sessile soft-bodied organisms dominated by the fractally branching rangeomorphs.8,9 Typified by fossil assemblages from the Ediacaran of Mistaken Point, Newfoundland,8,10,11 these ancient communities might have played a pivotal role in structuring marine environments, similar to modern ecosystems,7,12,13 but our understanding of how they impacted fluid flow in the water column is limited. Here, we use ecological modeling and computational flow simulations to explore how Ediacaran marine animal forests influenced their surrounding environment. Our results reveal how organism morphology and community structure and composition combined to impact vertical mixing of the surrounding water. We find that Mistaken Point communities were capable of generating high-mixing conditions, thereby likely promoting gas and nutrient transport within the “canopy.” This mixing could have served to enhance local-scale oxygen concentrations and redistribute resources like dissolved organic carbon. Our work suggests that Ediacaran marine animal forests may have contributed to the ventilation of the oceans over 560 million years ago, well before the Cambrian explosion of animals.
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A fungal plant pathogen discovered in the Devonian Rhynie ChertAbstract: Fungi are integral to well-functioning ecosystems, and their broader impact on Earth systems is widely acknowledged. Fossil evidence from the Rhynie Chert (Scotland, UK) shows that Fungi were already diverse in terrestrial ecosystems over 407-million-years-ago, yet evidence for the occurrence of Dikarya (the subkingdom of Fungi that includes the phyla Ascomycota and Basidiomycota) in this site is scant. Here we describe a particularly well-preserved asexual fungus from the Rhynie Chert which we examined using brightfield and confocal microscopy. We document Potteromyces asteroxylicola gen. et sp. nov. that we attribute to Ascomycota incertae sedis (Dikarya). The fungus forms a stroma-like structure with conidiophores arising in tufts outside the cuticle on aerial axes and leaf-like appendages of the lycopsid plant Asteroxylon mackiei. It causes a reaction in the plant that gives rise to dome-shaped surface projections. This suite of features in the fungus together with the plant reaction tissues provides evidence of it being a plant pathogenic fungus. The fungus evidently belongs to an extinct lineage of ascomycetes that could serve as a minimum node age calibration point for the Ascomycota as a whole, or even the Dikarya crown group, along with some other Ascomycota previously documented in the Rhynie Chert.
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Revisions to the Eocene carpoflora of Anjou, western France, with new data from X-ray tomographySelected fruits and seeds preserved as molds and casts in sediments from the Anjou flora of Maine-et-Loire have been reexamined with the aid of X-ray tomography. Virtual casts and surface renderings from micro-CT scanning data reveal external and internal morphological characters that were not visible by standard reflected light microscopy. Application of this methodology leads to a revision of the fruit formerly treated as Juglandicarya. It is a 5-valved capsule of likely sapindalean affnity, and is placed in Vaudoisia gruetii (Vaudois-Miéja) gen. et. comb. nov. A seed with the characteristic rumination of Anonaspermum is also recognized for the #rst time, as are capsular fruits of Ericaceae. We note that many disseminules are hidden from optical viewing because they are buried within the hand samples. A more extensive micro-CT scan investigation of more samples, including those showing only fossil leaf impressions at the surface, may be expected to yield a wealth of new information on this classic flora.
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Towards the analysis of coral skeletal density-banding using deep learningAbstract: X-ray micro–computed tomography (µCT) is increasingly used to record the skeletal growth banding of corals. However, the wealth of data generated is time consuming to analyse for growth rates and colony age. Here we test an artificial intelligence (AI) approach to assist the expert identification of annual density boundaries in small colonies of massive Porites spanning decades. A convolutional neural network (CNN) was trained with µCT images combined with manually labelled ground truths to learn banding-related features. The CNN successfully predicted the position of density boundaries in independent images not used in training. Linear extension rates derived from CNN-based outputs and the traditional method were consistent. In the future, well-resolved 2D density boundaries from AI can be used to reconstruct density surfaces and enable studies focused on variations in rugosity and growth gradients across colony 3D space. We recommend the development of a community platform to share annotated images for AI.
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Microstructure and crystallographic texture data in modern giant clam shells (Tridacna squamosa and Hippopus hippopus)This article provides novel data on the microstructure and crystallographic texture of modern giant clam shells (Tridacna squamosa and Hippopus hippopus) from the Coral Triangle region of northeast Borneo. Giant clams have two aragonitic shell layers—the inner and outer shell layer. This dataset focuses on the inner shell layer as this is well preserved and not affected by diagenetic alteration. To prepare samples for analysis, shells were cut longitudinally at the axis of maximum growth and mounted onto thin sections. Data collection involved scanning electron microscopy (SEM) to determine microstructure and SEM based electron backscatter diffraction (EBSD) for quantitative measurement of crystallographic orientation and texture. Post-acquisition reanalysis of saved EBSD patterns to optimize data quality included changing the number of reflectors and band detection mode. We provide EBSD data as band contrast images and colour-coded orientation maps (inverse pole figure maps). Crystallographic co-orientation strength obtained with multiple of uniform density (MUD) values are derived from density distributed pole figures of indexed EBSD points. Raw EBSD data files are also given to ensure repeatability of the steps provided in this article and to allow extraction of further crystallographic properties for future researchers. Overall, this dataset provides 1. a better understanding of shell growth and biomineralization in giant clams and 2. important steps for optimizing data collection with EBSD analyses in biogenic carbonates.
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Hapalosiphonacean cyanobacteria (Nostocales) thrived amid emerging embryophytes in an early Devonian (407-million-year-old) landscapeCyanobacteria have a long evolutionary history, well documented in marine rocks. They are also abundant and diverse in terrestrial environments; however, although phylogenies suggest that the group colonized land early in its history, paleontological documentation of this remains limited. The Rhynie chert (407 Ma), our best preserved record of early terrestrial ecosystems, provides an opportunity to illuminate aspects of cyanobacterial diversity and ecology as plants began to radiate across the land surface. We used light microscopy and super-resolution confocal laser scanning microscopy to study a new population of Rhynie cyanobacteria; we also reinvestigated previously described specimens that resemble the new fossils. Our study demonstrates that all are part of a single fossil species belonging to the Hapalosiphonaceae (Nostocales). Along with other Rhynie microfossils, these remains show that the accommodation of morphologically complex cyanobacteria to terrestrial ecosystems transformed by embryophytes was well underway more than 400 million years ago.
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The Carboniferous (Serpukhovian) macroflora from the “Coteaux du Pont Barré”, Beaulieu-sur-Layon (Maine-et-Loire), South of the Armorican Massif, FranceThe “Coteaux du Pont Barré” in Beaulieu-sur-Layon is a Regional Natural Reserve which is home to exceptional flora and fauna. Recently fossil plants have been discovered at the site adding to its natural heritage significance. The exposure which is part of the “Sillon Houiller de la Basse-Loire” contains Serpukhovian-age (330–320 Ma) remains of sphenophytes, ferns, and lyginopteridopsid and cycadopsid pteridosperms, which are described for the first time as well as the geology of the site. Most Carboniferous macroflora previously described from the Maine-et-Loire has been based on ex situ specimens from now abandoned and inaccessible coal mines. The newly described macroflora shows evidence of in situ remains and differs somewhat in composition from those reported from the coal workings, especially in the total absence of lycopsids and Calymmotheca pteridosperms, and instead having abundant medullosalean foliage (Neuralethopteris). The co-occurrence of Sphenopteris elegans and Neuralethopteris densifolia suggests a slightly younger age compared to the macrofloras documented from the coal-bearing deposits. However, this could be an ecological consequence of the flora growing in better-drained substrate habitats.
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Reconstructing the feeding ecology of Cambrian sponge reefs: the case for active suspension feeding in ArchaeocyathaSponge-grade Archaeocyatha were early Cambrian biomineralizing metazoans that constructed reefs globally. Despite decades of research, many facets of archaeocyath palaeobiology remain unclear, making it difficult to reconstruct the palaeoecology of Cambrian reef ecosystems. Of specific interest is how these organisms fed; previous experimental studies have suggested that archaeocyaths functioned as passive suspension feeders relying on ambient currents to transport nutrient-rich water into their central cavities. Here, we test this hypothesis using computational fluid dynamics (CFD) simulations of digital models of select archaeocyath species. Our results demonstrate that, given a range of plausible current velocities, there was very little fluid circulation through the skeleton, suggesting obligate passive suspension feeding was unlikely. Comparing our simulation data with exhalent velocities collected from extant sponges, we infer an active suspension feeding lifestyle for archaeocyaths. The combination of active suspension feeding and biomineralization in Archaeocyatha may have facilitated the creation of modern metazoan reef ecosystems. The attached file is the published version of the article.
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Origin and Early Evolution of EchinodermsEchinoderms are a major group (phylum) of invertebrate animals with a rich fossil record stretching back to the Cambrian period, approximately 518 million years ago. While all modern species are characterized by pentaradial (i.e., fivefold) symmetry, Cambrian echinoderms also include taxa with different types of symmetry (e.g., bilateral symmetry). These distinct forms were present from very early in the phylum's history, demonstrating that the initial diversification of echinoderm body plans was extremely rapid. The phylogenetic relationships of Cambrian echinoderms have long been debated, hindering efforts to reconstruct the evolution of the phylum, but recent analyses have consistently recovered bilaterally symmetrical forms as the earliest-diverging echinoderms. This reveals the sequence of character acquisition in echinoderm evolution, indicating that radial symmetry is a derived character of the group, which evolved after the acquisition of a mineralized skeleton. Cambrian echinoderms were adapted to diverse modes of life, with ecology an important factor shaping their early evolution. However, the reasons why echinoderms evolved their unique pentaradial body plan remain unclear. ▪ The Cambrian fossil record provides valuable insights into the origin and early evolution of echinoderms over half a billion years ago. ▪ Cambrian echinoderms were morphologically diverse, with several extinct groups exhibiting character combinations that distinguish them from living species. ▪ Phylogenetic analyses of bilateral, asymmetrical, triradial, and pentaradial fossils have allowed us to decipher the assembly of the modern echinoderm body plan. ▪ Echinoderms became ecologically diverse early in their history, with varied modes of feeding, locomotion, and attachment. Expected final online publication date for the Annual Review of Earth and Planetary Sciences, Volume 52 is May 2024. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.
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Cambrian stem-group ambulacrarians and the nature of the ancestral deuterostomeDeuterostomes are characterized by some of the most widely divergent body plans in the animal kingdom. These striking morphological differences have hindered efforts to predict ancestral characters, with the origin and earliest evolution of the group remaining ambiguous. Several iconic Cambrian fossils have been suggested to be early deuterostomes and hence could help elucidate ancestral character states. However, their phylogenetic relationships are controversial. Here, we describe new, exceptionally preserved specimens of the discoidal metazoan Rotadiscus grandis from the early Cambrian Chengjiang biota of China. These reveal a previously unknown double spiral structure, which we interpret as a chordate-like covering to a coelomopore, located adjacent to a horseshoe-shaped tentacle complex. The tentacles differ in key aspects from those seen in lophophorates and are instead more similar to the tentacular systems of extant pterobranchs and echinoderms. Thus, Rotadiscus exhibits a chimeric combination of ambulacrarian and chordate characters. Phylogenetic analyses recover Rotadiscus and closely related fossil taxa as stem ambulacrarians, filling a significant morphological gap in the deuterostome tree of life. These results allow us to reconstruct the ancestral body plans of major clades of deuterostomes, revealing that key traits of extant forms, such as a post-analregion, gillbars, and a U-shaped gut, evolved through convergence.
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Current Methods, Common Practices, and Perspectives in Tracking and Monitoring Bioinoculants in Soil<jats:p>Microorganisms promised to lead the bio-based revolution for a more sustainable agriculture. Beneficial microorganisms could be a valid alternative to the use of chemical fertilizers or pesticides. However, the increasing use of microbial inoculants is also raising several questions about their efficacy and their effects on the autochthonous soil microorganisms. There are two major issues on the application of bioinoculants to soil: (i) their detection in soil, and the analysis of their persistence and fate; (ii) the monitoring of the impact of the introduced bioinoculant on native soil microbial communities. This review explores the strategies and methods that can be applied to the detection of microbial inoculants and to soil monitoring. The discussion includes a comprehensive critical assessment of the available tools, based on morpho-phenological, molecular, and microscopic analyses. The prospects for future development of protocols for regulatory or commercial purposes are also discussed, underlining the need for a multi-method (polyphasic) approach to ensure the necessary level of discrimination required to track and monitor bioinoculants in soil.</jats:p>
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Microbial-Based Products to Control Soil-Borne Pathogens: Methods to Improve Efficacy and to Assess Impacts on MicrobiomeMicrobial-based products (either as biopesticide or biofertilizers) have a long history of application, though their use is still limited, mainly due to a perceived low and inconsistent efficacy under field conditions. However, their efficacy has always been compared to chemical products, which have a completely different mechanism of action and production process, following the chemical paradigm of agricultural production. This paradigm has also been applied to regulatory processes, particularly for biopesticides, making the marketing of microbial-based formulations difficult. Increased knowledge about bioinocula behavior after application to the soil and their impact on soil microbiome should foster better exploitation of microbial-based products in a complex environment such as the soil. Moreover, the multifunctional capacity of microbial strains with regard to plant growth promotion and protection should also be considered in this respect. Therefore, the methods utilized for these studies are key to improving the knowledge and understanding of microbial-based product activity and improving their efficacy, which, from farmers’ point of view, is the parameter to assess the usefulness of a treatment. In this review, we are thus addressing aspects related to the production and formulation process, highlighting the methods that can be used to evaluate the functioning and impact of microbial-based products on soil microbiome, as tools supporting their use and marketing.
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The rangeomorph Pectinifrons abyssalis: Hydrodynamic function at the dawn of animal lifeRangeomorphs are among the oldest putative eumetazoans known from the fossil record. Establishing how they fed is thus key to understanding the structure and function of the earliest animal ecosystems. Here, we use computational fluid dynamicstotesthypothesizedfeedingmodesforthefence-likerangeomorphPectinifrons abyssalis, comparing this to the morphologically similar extant carnivorous sponge Chondrocladia lyra. Our results reveal complex patterns of flow around P. abyssalis unlike those previously reconstructed for any other Ediacaran taxon. Comparisons with C. lyra reveal substantial differences between the two organisms, suggesting they converged on a similar fence-like morphology for different functions. We argue that the flow patterns recovered for P. abyssalis do not support either a suspension feeding or osmotrophic feeding habit. Instead, our results indicate that rangeomorph fronds may represent organs adapted for gas exchange. If correct, this interpretation could require a dramatic reinterpretation of the oldest macroscopic animals.