The contribution of developmental palaeontology to extensions of evolutionary theory

Evo‐devo is featuring prominently in current discussion to extend evolutionary theory. Developmental palaeontology, the study of life history evolution and ontogeny in fossils, remains an area of investigation that could benefit from, but also illuminate, the discourse and research agenda of evo‐devo. Understanding how and why evolution proceeds in phenotypic space is an important goal of evo‐devo and one that can be significantly enriched through the examination of development in the fossil record (Palaeo‐evo‐devo). Such an approach permits developmental pathways to be extended into the past, constraining hypotheses of developmental evolution in ways that cannot be predicted by patterns observed from extant taxa alone. The comparison of developmental dynamics among extant and extinct taxa yields a more complete understanding of the temporal persistence of factors that shape evolution in phenotypic space. As more data are compiled that document ‘fossilized ontogenies’, a stage will emerge from which insights into the evolution of development can begin to appraise those phenotypes that are inaccessible to evo‐devo.     

A way forward with eco evo devo: an extended theory of resource polymorphism with postglacial fishes as model systems

A major goal of evolutionary science is to understand how biological diversity is generated and altered. Despite considerable advances, we still have limited insight into how phenotypic variation arises and is sorted by natural selection. Here we argue that an integrated view, which merges ecology, evolution and developmental biology (eco evo devo) on an equal footing, is needed to understand the multifaceted role of the environment in simultaneously determining the development of the phenotype and the nature of the selective environment, and how organisms in turn affect the environment through eco evo and eco devo feedbacks. To illustrate the usefulness of an integrated eco evo devo perspective, we connect it with the theory of resource polymorphism (i.e. the phenotypic and genetic diversification that occurs in response to variation in available resources). In so doing, we highlight fishes from recently glaciated freshwater systems as exceptionally well‐suited model systems for testing predictions of an eco evo devo framework in studies of diversification. Studies on these fishes show that intraspecific diversity can evolve rapidly, and that this process is jointly facilitated by (i) the availability of diverse environments promoting divergent natural selection; (ii) dynamic developmental processes sensitive to environmental and genetic signals; and (iii) eco evo and eco devo feedbacks influencing the selective and developmental environments of the phenotype. We highlight empirical examples and present a conceptual model for the generation of resource polymorphism – emphasizing eco evo devo, and identify current gaps in knowledge.     

寒武纪大爆发——来自贵州的化石证据*

寒武纪展示了生物演化和生态创新最为关键的一段历史, 在此期间发生了后生动物快速的辐射性演化事件, 被称为“寒武纪大爆发”。近四十年来, 基于寒武纪特异埋藏生物群的大量研究为解密寒武纪大爆发具体过程、主要动物类群起源与生态演化作出了重要贡献。贵州素有古生物王国之称, 在寒武系地层中不仅保存了大量解剖学细节精美的化石资源, 也在多个地区产出时间连续的生物组合演化序列, 在探讨动物起源与演化、全球地层对比及群落古生态学等方面具有极其重要的科研价值。近年来, 以小壳动物群、牛蹄塘生物群、杷榔生物群、剑河生物群、凯里生物群等多个生物群在贵州的发现提供了早期后生生物的新信息, 加密了中国乃至全球早期后生生物特异埋藏化石群的演化链, 为全面揭示寒武纪生物群落面貌、早期多门类后生动物的辐射演化和海洋生物群落演替提供了独特的意义, 最终为深入解读寒武纪大爆发的过程与发生机制提供重要实证。本文简要总结了贵州地区在该领域的主要学术贡献, 结合全球研究进展, 对目前存在的问题和未来研究方向提出展望。     

Leaf surface development and the plant fossil record: stomatal patterning in Bennettitales

Stomata play a critical ecological role as an interface between the plant and its environment. Although the guard‐cell pair is highly conserved in land plants, the development and patterning of surrounding epidermal cells follow predictable pathways in different taxa that are increasingly well understood following recent advances in the developmental genetics of the plant epidermis in model taxa. Similarly, other aspects of leaf development and evolution are benefiting from a molecular–genetic approach. Applying this understanding to extinct taxa known only from fossils requires use of extensive comparative morphological data to infer ‘fossil fingerprints’ of developmental evolution (a ‘palaeo‐evo‐devo’ perspective). The seed‐plant order Bennettitales, which flourished through the Mesozoic but became extinct in the Late Cretaceous, displayed a consistent and highly unusual combination of epidermal traits, despite their diverse leaf morphology. Based on morphological evidence (including possession of flower‐like structures), bennettites are widely inferred to be closely related to angiosperms and hence inform our understanding of early angiosperm evolution. Fossil bennettites – even purely vegetative material – can be readily identified by a combination of epidermal features, including distinctive cuticular guard‐cell thickenings, lobed abaxial epidermal cells (‘puzzle cells’), transverse orientation of stomata perpendicular to the leaf axis, and a pair of lateral subsidiary cells adjacent to each guard‐cell pair (termed paracytic stomata). Here, we review these traits and compare them with analogous features in living taxa, aiming to identify homologous – and hence phylogenetically informative – character states and to increase understanding of developmental mechanisms in land plants. We propose a range of models addressing different aspects of the bennettite epidermis. The lobed abaxial epidermal cells indicate adaxial–abaxial leaf polarity and associated differentiated mesophyll that could have optimised photosynthesis. The typical transverse orientation of the stomata probably resulted from leaf expansion similar to that of a broad‐leaved monocot such as Lapageria, but radically different from that of broad‐leafed eudicots such as Arabidopsis. Finally, the developmental origin of the paired lateral subsidiary cells – whether they are mesogene cells derived from the same cell lineage as the guard‐mother cell, as in some eudicots, or perigene cells derived from an adjacent cell lineage, as in grasses – represents an unusually lineage‐specific and well‐characterised developmental trait. We identify a close similarity between the paracytic stomata of Bennettitales and the ‘living fossil’ Gnetum, strongly indicating that (as in Gnetum) the pair of lateral subsidiary cells of bennettites are both mesogene cells. Together, these features allow us to infer development in this diverse and relatively derived lineage that co‐existed with the earliest recognisable angiosperms, and suggest that the use of these characters in phylogeny reconstruction requires revision.     

The Precambrian emergence of animal life: a geobiological perspective

The earliest record of animals (Metazoa) consists of trace and body fossils restricted to the last 35 Myr of the Precambrian. It has been proposed that animals arose much earlier and underwent significant evolution as a cryptic fauna; however, the need for any unrecorded prelude of significant duration has been disputed. In this context, we consider recent published research on the nature and chronology of the earliest fossil record of metazoans and on the molecular‐based analysis that yielded older dates for the appearance of major animal groups. We review recent work on the climatic, geochemical, and ecological events that preceded animal fossils and consider their portent for metazoan evolution. We also discuss inferences about the physiology and gene content of the last common ancestor of animals and their closest unicellular relatives. We propose that the recorded Precambrian evolution of animals includes three intervals of advancement that begin with sponge‐grade organisms, and that any preceding cryptic fauna would be no more complex than sponges. The molecular data do not require that more complex animals appeared well before the recognized fossil record; nor, however, do they rule the possibility out, particularly if the interval of simpler metazoan ancestors lasted no more than about 100 or 200 Myr. The geological record of abrupt changes in climate, biogeochemistry, and phytoplankton diversity can be taken to be the result of changes in the carbon cycle triggered by the appearance and diversification of metazoans in an organic carbon‐rich ocean, but as yet no compelling evidence exists for this interpretation. By the end of this cryptic period, animals would already have possessed sophisticated systems of cell–cell signalling, adhesion, apoptosis, and segregated germ cells, possibly with a rudimentary body plan based on anterior–posterior organization. The controls on the timing and tempo of the earliest steps in metazoan evolution are unknown, but it seems likely that oxygen was a key factor in later diversification and increase in body size. We consider several recent scenarios describing how oxygen increased near the end of the Precambrian and propose that grazing and filter‐feeding animals depleted a marine reservoir of suspended organic matter, releasing a microbial ‘clamp’ on atmospheric oxygen.     

Eggs and embryos from the Cambrian

The early evolution of metazoans is a major focus of biological attention, but is the historical record revealed in the Cambrian “explosion” an accurate reflection of original events? The key questions concern the nature of the earliest animals and when they originated. One widely-mooted suggestion is that planktotrophic larvae, typified by the annelidan trochophore and echinoid pluteus, existed long before the metazoan radiations evident in the Cambrian fossil record. This idea could be consistent for recent evidence of divergence times, based on molecular “clocks,” of phyla appearing well before the Cambrian. Now a surprising new discovery of eggs with blastomeres and embryos with well-defined anatomy from the Cambrian (c.530 Myr ago) of China and Siberia promises to extend the arena of debate. In one case a convincing ontogeny can be traced from eggs to adult tube-dwelling cnidarians. In the other example a possible protostome, unhatched and wrapped around the egg, shows segmentation and possibly nascent sclerites. In both, these cases development is direct, i.e., there is no evidence for any planktotrophic larval stage. The implications for our perceptions of both the Cambrian ‘explosion’ and metazoan phylogeny could be considerable. BioEssays 20 :676–682, 1998.© 1998 John Wiley & Sons Inc.     

Fossils and phylogenies: integrating multiple lines of evidence to investigate the origin of early major metazoan lineages

Understanding the nature and timing of metazoan origins is oneof the most important, yet elusive, questions in evolutionarybiology. Fossil data provide the most tangible evidence forthe origin of early animal lineages, although additional evidencefrom molecular phylogenetics, molecular clock studies, and developmenthas contributed to our current understanding. We review severallines of evidence to explore the nature and timing of earlymetazoan evolution and discuss how these data, when consideredtogether, provide a more cohesive picture of the origin of animaldiversity. We discuss how trace fossils and biomarkers providecompelling evidence for the origins of Bilateria and siliceoussponges. Using a molecular phylogenetic framework for metazoans,we discuss how fossils can be used to date the origin of clades.We use these fossil dates to perform a relaxed molecular clockanalysis for estimating dates of nodes when no fossils are available.We also discuss current data from developmental biology thatsuggest that early metazoans possessed a sophisticated moleculartoolkit for building complex body plans. We conclude that thebest evidence for the origin of major metazoan lineages liesin the careful interpretation of the fossil record and thatthese data, when considered with phylogenetic and developmentalevidence, support the notion that the Cambrian radiation isa real phenomenon that marks a critically important time inthe history of life.     

Does resource availability help determine the evolutionary route to multicellularity?

Genetic heterogeneity and homogeneity are associated with distinct sets of adaptive advantages and bottlenecks, both in developmental biology and population genetics. Whereas populations of individuals are usually genetically heterogeneous, most multicellular metazoans are genetically homogeneous. Observing that resource scarcity fuels genetic heterogeneity in populations, we propose that monoclonal development is compatible with the resource‐rich and stable internal environments that complex multicellular bodies offer. In turn, polyclonal development persists in tumors and in certain metazoans, both exhibiting a closer dependence on external resources. This eco‐evo‐devo approach also suggests that multicellularity may originally have emerged through polyclonal development in early metazoans, because of their reduced shielding from environmental fluctuations.     

埃迪卡拉纪至寒武纪苗岭世刺细胞动物化石研究现状与展望

刺细胞动物是一类具有刺细胞的水生无脊椎动物,分布在世界各地的海洋和淡水中.作为后生动物最早分化出的一支,刺细胞动物对研究后生动物的起源和早期演化具有极其重要的意义,也为研究后生动物系统发育、地层对比和古地理恢复等方面提供了重要的科研线索.本文简要介绍了刺细胞动物早期(埃迪卡拉纪至寒武纪苗岭世)的化石记录和研究现状,将刺...     

Promises and limits of an agency perspective in evolutionary developmental biology

An agent-based perspective in the study of complex systems is well established in diverse disciplines, yet is only beginning to be applied to evolutionary developmental biology. In this essay, we begin by defining agency and associated terminology formally. We then explore the assumptions and predictions of an agency perspective, apply these to select processes and key concept areas relevant to practitioners of evolutionary developmental biology, and consider the potential epistemic roles that an agency perspective might play in evo devo. Throughout, we discuss evidence supportive of agential dynamics in biological systems relevant to evo devo and explore where agency thinking may enrich the explanatory reach of research efforts in evolutionary developmental biology.     

Palaeodiversity and formation counts: redundancy or bias?

A key question in palaeontology is whether the fossil record taken at face value is adequate to represent true patterns of diversity through time. Some methods of assessing data quality have depended on the commonly observed covariation of palaeodiversity and fossiliferous formation counts through time, based on the assumption that the count of formations containing fossils, to a greater or lesser extent, drives diversity; but what if diversity drives formations? Close study of two fossil records, early tetrapods (Devonian–Jurassic) and dinosaurs, shows how the relationship between new taxa and new fossiliferous formations varies through research time. Initially, each new find represents a new fossiliferous formation and discovery follows the ‘bonanza’ model (fossils drive formations). In unexplored parts of the world, new taxa are identified frequently in new regions/formations. Only after time, in well‐explored continents such as Europe and North America, does collecting style switch to a mix of exploration for new formations and re‐sampling of known fossiliferous formations. Data are most striking for dinosaurs, where the Triassic–Jurassic record largely comprises finds from Europe and North America, where new formation discoveries reached their half‐life in 1914. This contrasts with the Cretaceous, which is dominated by rapidly rising discoveries from regions outside Europe and North America and the formation half‐life for these ‘new’ lands is 1986, showing that 50% of new Cretaceous dinosaur‐bearing formations were identified only in the past 30 years. The relationship between dinosaur‐bearing formations and palaeodiversity then combines three signals in variable amounts, reflecting the original diversity (relative abundances of particular taxa in different formations), redundancy (new fossiliferous formations accruing because of new fossil finds) and sampling (intensity of exploration for new fossiliferous formations, and of search within already‐sampled formations). For fossil vertebrates at least, formation counts of various kinds are poor predictors of sampling, missing, for example, the bonanza samples of Lagerstätten such as the Yixian Formation in China: thousands of specimens, dozens of species, but counted as one formation. These observations suggest that formation count cannot be regarded as an unbiased metric of sampling.     

Integrin and cadherin clusters: A robust way to organize adhesions for cell mechanics

The evolutionary emergence of animals is one of the most significant episodes in the history of life, but its timing remains poorly constrained. Molecular clocks estimate that animals originated and began diversifying over 100 million years before the first definitive metazoan fossil evidence in the Cambrian. However, closer inspection reveals that clock estimates and the fossil record are less divergent than is often claimed. Modern clock analyses do not predict the presence of the crown‐representatives of most animal phyla in the Neoproterozoic. Furthermore, despite challenges provided by incomplete preservation, a paucity of phylogenetically informative characters, and uncertain expectations of the anatomy of early animals, a number of Neoproterozoic fossils can reasonably be interpreted as metazoans. A considerable discrepancy remains, but much of this can be explained by the limited preservation potential of early metazoans and the difficulties associated with their identification in the fossil record. Critical assessment of both records may permit better resolution of the tempo and mode of early animal evolution.     

Human evolution

The common ancestor of modern humans and the great apes is estimated to have lived between 5 and 8 Myrs ago, but the earliest evidence in the human, or hominid, fossil record is Ardipithecus ramidus, from a 4.5 Myr Ethiopian site. This genus was succeeded by Australopithecus, within which four species are presently recognised. All combine a relatively primitive postcranial skeleton, a dentition with expanded chewing teeth and a small brain. The most primitive species in our own genus, Homo habilis and Homo rudolfensis, are little advanced over the australopithecines and with hindsight their inclusion in Homo may not be appropriate. The first species to share a substantial number of features with later Homo is Homo ergaster, or ‘early African Homo erectus’, which appears in the fossil record around 2.0 Myr. Outside Africa, fossil hominids appear as Homo erectus-like hominids, in mainland Asia and in Indonesia close to 2 Myr ago; the earliest good evidence of ‘archaic Homo’ in Europe is dated at between 600–700 Kyr before the present. Anatomically modern human, or Homo sapiens, fossils are seen first in the fossil record in Africa around 150 Kyr ago. Taken together with molecular evidence on the extent of DNA variation, this suggests that the transition from ‘archiac’ to ‘modern’ Homo may have taken place in Africa.     

Pelagiella exigua,an early Cambrian stem gastropod with chaetae: lophotrochozoan heritage and conchiferan novelty

Exceptionally well-preserved impressions of two bundles of bristles protrude from the apertures of small, spiral shells of Pelagiella exigua, recovered from the Kinzers Formation (Cambrian, Stage 4, ‘Olenellus Zone’, c. 512 Ma) of Pennsylvania. These impressions are inferred to represent clusters of chitinous chaetae, comparable to those borne by annelid parapodia and some larval brachiopods. They provide an affirmative test in the early metazoan fossil record of the inference, from phylogenetic analyses of living taxa, that chitinous chaetae are a shared early attribute of the Lophotrochozoa. Shells of Pelagiella exhibit logarithmic spiral growth, microstructural fabrics, distinctive external sculptures and muscle scars characteristic of molluscs. Hence, Pelagiella has been regarded as a stem mollusc, a helcionelloid expressing partial torsion, an untorted paragastropod, or a fully torted basal member of the gastropod crown group. The inference that its chaeta-bearing appendages were anterior–lateral, based on their probable functions, prompts a new reconstruction of the anatomy of Pelagiella, with a mainly anterior mantle cavity. Under this hypothesis, two lateral–dorsal grooves, uniquely preserved in Pelagiella atlantoides, are interpreted as sites of attachment for a long left ctenidium and a short one, anteriorly on the right. The orientation of Pelagiella and the asymmetry of its gills, comparable to features of several living vetigastropods, nominate it as the earliest fossil mollusc known to exhibit evidence of the developmental torsion characteristic of gastropods. This key adaptation facilitated an evolutionary radiation, slow at first and rapid during the Ordovician, that gave rise to the remarkable diversification of the Gastropoda.     

Russian comparative embryology takes form: a conceptual metamorphosis toward “evo‐devo”

This essay recapitulates major paths followed by the Russian tradition of what we refer to today as evolutionary developmental biology (“evo‐devo”). The article addresses several questions regarding the conceptual history of evolutionary embryological thought in its particularly Russian perspective: (1) the assertion by the St. Petersburg academician Wolff regarding the possible connections between environmental modifications during morphogenesis and the “transformation” of species, (2) the discovery of shared “principles” underlying animal development by von Baer, (3) the experimental expression of Baer's principles by Kowalevsky and Mechnikoff, (4) Severtsov's theory of phylembryogenesis, (5) Filatov's approach to the study of evolution using comparative “developmental mechanics”, and (6) Shmalgausen's concept of “stabilizing” selection as an attempt to elucidate the evolution of developmental mechanisms. The focus on comparative evolutionary embryology, which was established by Kowalevsky and Mechnikoff, still continues to be popular in present‐day “evo‐devo” research in Russia.     

Variable preservation potential and richness in the fossil record of vertebrates

Variation in preservation and sampling probability clouds our estimates of past biodiversity. The most extreme examples are Lagerstätten faunas and floras. Although such deposits provide a wealth of information and represent true richness better than other deposits, they can create misleading diversity peaks because of their species richness. Here, we investigate how Lagerstätten formations add to time series of vertebrate richness in the UK, Germany and China. The first two nations are associated with well-studied fossil records and the last is a country where palaeontology has a much shorter history; all three nations include noted Lagerstätten in their fossil records. Lagerstätten provide a larger proportion of China's sampled richness than in Germany or the UK, despite comprising a smaller proportion of its fossiliferous deposits. The proportions of taxa that are unique to Lagerstätten vary through time and between countries. Further, in all regions, we find little overlap between the taxa occurring in Lagerstätten and in ‘ordinary’ formations within the same time bin, indicating that Lagerstätten preserve unusual faunas. As expected, fragile taxa make up a greater proportion of richness in Lagerstätten than the remainder of the fossil record. Surprisingly, we find that Lagerstätten account for a minority of peaks in the palaeodiversity curves of all vertebrates (18% in the UK; 36% in Germany and China), and Lagerstätten count is generally not a good overall predictor of the palaeodiversity signal. Vastly different sampling probabilities through taxa, locations and time require serious consideration when analysing palaeodiversity curves.     

Darwin and palaeontology: a re-evaluation of his interpretation of the fossil record

Charles Darwin's empirical research in palaeontology, especially on fossil invertebrates, has been relatively neglected as a source of insight into his thinking, other than to note that he viewed the fossil record as very incomplete. During the Beagle voyage, Darwin gained extensive experience with a wide diversity of fossil taxa, and he thought deeply about the nature of the fossil record. That record was, for him, a major source of evidence for large-scale transmutation, but much less so for natural selection or single lineages. Darwin's interpretation of the fossil record has been criticised for its focus on incompleteness, but the record as he knew it was extremely incomplete. He was compelled to address this in arguing for descent with modification, which was likely his primary goal. Darwin's gradualism has been both misrepresented and exaggerated, and has distracted us from the importance of the fossil record in his thinking, which should be viewed in the context of the multiple, sometimes competing demands of the multifaceted argument he presented in the Origin of Species.