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The linking of North and South America by the Isthmus of Panama had major impacts on global climate, oceanic and atmospheric currents, and biodiversity, yet the timing of this critical event remains contentious. The Isthmus is traditionally understood to have fully closed by ca. 3.5 million years ago (Ma), and this date has been used as a benchmark for oceanographic, climatic, and evolutionary research, but recent evidence suggests a more complex geological formation. Here, we analyze both molecular and fossil data to evaluate the tempo of biotic exchange across the Americas in light of geological evidence. We demonstrate significant waves of dispersal of terrestrial organisms at approximately ca. 20 and 6 Ma and corresponding events separating marine organisms in the Atlantic and Pacific oceans at ca. 23 and 7 Ma. The direction of dispersal and their rates were symmetrical until the last ca. 6 Ma, when northern migration of South American lineages increased significantly. Variability among taxa in their timing of dispersal or vicariance across the Isthmus is not explained by the ecological factors tested in these analyses, including biome type, dispersal ability, and elevation preference. Migration was therefore not generally regulated by intrinsic traits but more likely reflects the presence of emergent terrain several millions of years earlier than commonly assumed. These results indicate that the dramatic biotic turnover associated with the Great American Biotic Interchange was a long and complex process that began as early as the Oligocene–Miocene transition. Significance The formation of the Isthmus of Panama, which linked North and South America, is key to understanding the biodiversity, oceanography, atmosphere, and climate in the region. Despite its importance across multiple disciplines, the timing of formation and emergence of the Isthmus and the biological patterns it created have been controversial. Here, we analyze molecular and fossil data, including terrestrial and marine organisms, to show that biotic migrations across the Isthmus of Panama began several million years earlier than commonly assumed. An earlier evolution of the Isthmus has broad implications for the mechanisms driving global climate (e.g., Pleistocene glaciations, thermohaline circulation) as well as the rich biodiversity of the Americas.

Valentine and Moores [Valentine JW, Moores EM (1970) Nature 228:657–659] hypothesized that plate tectonics regulates global biodiversity by changing the geographic arrangement of continental crust, but the data required to fully test the hypothesis were not available. Here, we use a global database of marine animal fossil occurrences and a paleogeographic reconstruction model to test the hypothesis that temporal patterns of continental fragmentation have impacted global Phanerozoic biodiversity. We find a positive correlation between global marine invertebrate genus richness and an independently derived quantitative index describing the fragmentation of continental crust during supercontinental coalescence–breakup cycles. The observed positive correlation between global biodiversity and continental fragmentation is not readily attributable to commonly cited vagaries of the fossil record, including changing quantities of marine rock or time-variable sampling effort. Because many different environmental and biotic factors may covary with changes in the geographic arrangement of continental crust, it is difficult to identify a specific causal mechanism. However, cross-correlation indicates that the state of continental fragmentation at a given time is positively correlated with the state of global biodiversity for tens of millions of years afterward. There is also evidence to suggest that continental fragmentation promotes increasing marine richness, but that coalescence alone has only a small negative or stabilizing effect. Together, these results suggest that continental fragmentation, particularly during the Mesozoic breakup of the supercontinent Pangaea, has exerted a first-order control on the long-term trajectory of Phanerozoic marine animal diversity.

Ediacaran-age sedimentary rocks (635–538.8 million years ago) contain the oldest animal fos sils that are visible to the naked eye. Several explanations have been suggested for the origins o animals in the Ediacaran, their disappearance at the end of the Ediacaran, and the followin Cambrian explosion of animals (538.8–485.4 million years ago). For this study, we examine Ediacaran–Cambrian evolutionary patterns and how fossils (data from the Paleobiolog Database) are related to the amount of sedimentary rock (data from Macrostrat) from th same time. Amounts of Cambrian rock increase to more than five times the amount o rock in the Ediacaran. The number of fossils increases in an equally dramatic manner from the Ediacaran to the Cambrian, and there are strong positive correlations between the amoun of rock and the number of fossils. It is well known that in the Cambrian, sea level rose, leadin to the flooding of the North American continent. This relative rise in sea level would hav increased the amount of rock deposited on the continent. Cambrian flooding of the continen would have also provided a wider variety of shallow-marine environments for Cambrian ani mals to expand into, providing at least a partial explanation for the dramatic increase in th number and physical diversity of Cambrian fossils. A smaller flooding event during th Ediacaran may have enabled early fossil animals to develop evolutionary traits for shallow marine environments that allowed them to rapidly evolve during the larger flooding in th Cambrian. The results of this study demonstrate that relative sea-level rise and associated con tinental-scale flooding known to influence the amount of rock may have played a role in shap ing evolutionary patterns of Earth's earliest animals. Strata of the Ediacaran Period (635–538.8 Ma) yield the oldest known fossils of complex, macroscopic organisms in the geologic record. These “Ediacaran-type” macrofossils (known as the Ediacaran biota) first appear in mid-Ediacaran strata, experience an apparent decline through the terminal Ediacaran, and directly precede the Cambrian (538.8–485.4 Ma) radiation of animals. Existing hypotheses for the origin and demise of the Ediacaran biota include: changing oceanic redox states, biotic replacement by succeeding Cambrian-type fauna, and mass extinction driven by environmental change. Few studies frame trends in Ediacaran and Cambrian macroevolution from the perspective of the sedimentary rock record, despite well-documented Phanerozoic covariation of macroevolutionary patterns and sedimentary rock quantity. Here we present a quantitative analysis of North American Ediacaran–Cambrian rock and fossil records from Macrostrat and the Paleobiology Database. Marine sedimentary rock quantity increases nearly monotonically and by more than a factor of five from the latest Ediacaran to the late Cambrian. Ediacaran–Cambrian fossil quantities exhibit a comparable trajectory and have strong (rs > 0.8) positive correlations with marine sedimentary area and volume flux at multiple temporal resolutions. Even so, Ediacaran fossil quantities are dramatically reduced in comparison to the Cambrian when normalized by the quantity of preserved marine rock. Although aspects of these results are consistent with the expectations of a simple fossil preservation–induced sampling bias, together they suggest that transgression–regression and a large expansion of marine shelf environments coincided with the diversification of animals during a dramatic transition that is starkly evident in both the sedimentary rock and fossil records.

Fossil fuel combustion and agriculture result in atmospheric deposition of 0.8 Tmol/yr reactive sulfur and 2.7 Tmol/yr nitrogen to the coastal and open ocean near major source regions in North America, Europe, and South and East Asia. Atmospheric inputs of dissociation products of strong acids (HNO₃ and H2SO₄) and bases (NH₃) alter surface seawater alkalinity, pH, and inorganic carbon storage. We quantify the biogeochemical impacts by using atmosphere and ocean models. The direct acid/base flux to the ocean is predominately acidic (reducing total alkalinity) in the temperate Northern Hemisphere and alkaline in the tropics because of ammonia inputs. However, because most of the excess ammonia is nitrified to nitrate (NO[Formula: see text]) in the upper ocean, the effective net atmospheric input is acidic almost everywhere. The decrease in surface alkalinity drives a net air-sea efflux of CO₂, reducing surface dissolved inorganic carbon (DIC); the alkalinity and DIC changes mostly offset each other, and the decline in surface pH is small. Additional impacts arise from nitrogen fertilization, leading to elevated primary production and biological DIC drawdown that reverses in some places the sign of the surface pH and air-sea CO₂ flux perturbations. On a global scale, the alterations in surface water chemistry from anthropogenic nitrogen and sulfur deposition are a few percent of the acidification and DIC increases due to the oceanic uptake of anthropogenic CO₂. However, the impacts are more substantial in coastal waters, where the ecosystem responses to ocean acidification could have the most severe implications for mankind.

Changes in ocean chemistry promoted during the formation of the Great Unconformity, a stratigraphic surface that separates continental basement rock from younger marine sedimentary deposits, are proposed as the cause of the Cambrian explosion of marine animals. A life-changing geological event The 'Great Unconformity' is a worldwide stratigraphic feature marking a divide between continental crystalline basement rock and younger shallow marine sedimentary deposits. Occasionally — in the Grand Canyon, for example — it is exposed on Earth's surface to dramatic effect. Geologists have been debating the origins and the global impact of the Great Unconformity ever since the term was coined in 1869. Shanan Peters and Robert Gaines now present a new analysis of stratigraphic and lithologic data from 830 locations in North America, together with petrologic and geochemical data. They find evidence that the formation of the Great Unconformity caused enhanced continental weathering and increased oceanic alkalinity and ionic strength in expanding shallow seas, which in turn triggered biomineralization and the Cambrian explosion of marine animals. The transition between the Proterozoic and Phanerozoic eons, beginning 542 million years (Myr) ago, is distinguished by the diversification of multicellular animals and by their acquisition of mineralized skeletons during the Cambrian period 1 . Considerable progress has been made in documenting and more precisely correlating biotic patterns in the Neoproterozoic–Cambrian fossil record with geochemical and physical environmental perturbations 2 , 3 , 4 , 5 , but the mechanisms responsible for those perturbations remain uncertain 1 , 2 . Here we use new stratigraphic and geochemical data to show that early Palaeozoic marine sediments deposited approximately 540–480 Myr ago record both an expansion in the area of shallow epicontinental seas and anomalous patterns of chemical sedimentation that are indicative of increased oceanic alkalinity and enhanced chemical weathering of continental crust. These geochemical conditions were caused by a protracted period of widespread continental denudation during the Neoproterozoic followed by extensive physical reworking of soil, regolith and basement rock during the first continental-scale marine transgression of the Phanerozoic. The resultant globally occurring stratigraphic surface, which in most regions separates continental crystalline basement rock from much younger Cambrian shallow marine sedimentary deposits, is known as the Great Unconformity 6 . Although Darwin and others have interpreted this widespread hiatus in sedimentation on the continents as a failure of the geologic record, this palaeogeomorphic surface represents a unique physical environmental boundary condition that affected seawater chemistry during a time of profound expansion of shallow marine habitats. Thus, the formation of the Great Unconformity may have been an environmental trigger for the evolution of biomineralization and the ‘Cambrian explosion’ of ecologic and taxonomic diversity following the Neoproterozoic emergence of animals.

Rotifera is a Phylum of primary freshwater Metazoa containing two major groups: the heterogonic Monogononta and the exclusively parthenogenetic Bdelloidea. Monogononta contains 1,570 species-level taxa, of which a majority (1,488) are free-living fresh or inland water taxa. Bdelloidea contains 461 “species,” only one of which is marine, but with many limnoterrestrial representatives or animals of unknown ecology. Actual numbers may be much higher, considering the occurrence of cryptic speciation in Monogononta and the unsatisfactory nature of taxonomic knowledge. Rotifers, mostly monogononts, occur in all types of water bodies, worldwide. They are particularly diverse in the littoral zone of stagnant waterbodies with soft, slightly acidic water and under oligo- to mesotrophic conditions. The rotifer record is highest in the Northern hemisphere, which may be due to the concentration of studies in those regions. Diversity is highest in the (sub)tropics; hotspots are northeast North America, tropical South America, Southeast Asia, Australia, and Lake Baikal, endemicity is low in Africa (including Madagascar), Europe, the Indian subcontinent, and Antarctica. Although the lack of fossil evidence and of molecular phylogenetic studies are major hindrances, contrasting hypotheses on the origin and evolutionary history of Brachionus, Macrochaetus, and Trichocerca are presented.

Little is known about long-term changes in coral reef fish communities. Here we present a new technique that leverages fish otoliths in reef sediments to reconstruct coral reef fish communities. We found over 5,400 otoliths in 169 modern and mid-Holocene bulk samples from Caribbean Panama and Dominican Republic mid-Holocene and modern reefs, demonstrating otoliths are abundant in reef sediments. With a specially-built reference collection, we were able to assign over 4,400 otoliths to one of 56 taxa (35 families) though mostly at genus and family level. Many otoliths were from juvenile fishes for which identification is challenging. Richness (by rarefaction) of otolith assemblages was slightly higher in modern than mid-Holocene reefs, but further analyses are required to elucidate the underlying causes. We compared the living fish communities, sampled using icthyocide, with the sediment otolith assemblages on four reefs finding the otolith assemblages faithfully capture the general composition of the living fish communities. Radiocarbon dating performed directly on the otoliths suggests that relatively little mixing of sediment layers particularly on actively accreting branching coral reefs. All otolith assemblages were strongly dominated by small, fast-turnover fish taxa and juvenile individuals, and our exploration on taxonomy, functional ecology and taphonomy lead us to the conclusion that intense predation is likely the most important process for otolith accumulation in reef sediments. We conclude that otolith assemblages in modern and fossil reef sediments can provide a powerful tool to explore ecological changes in reef fish communities over time and space.

The biotic recovery from Earth’s most severe extinction event at the Permian-Triassic boundary largely reestablished the preextinction structure of marine trophic networks, with marine reptiles assuming the predator roles. However, the highest trophic level of today's marine ecosystems, i.e., macropredatory tetrapods that forage on prey of similar size to their own, was thus far lacking in the Paleozoic and early Mesozoic. Here we report a top-tier tetrapod predator, a very large (>8.6 m) ichthyosaur from the early Middle Triassic (244 Ma), of Nevada. This ichthyosaur had a massive skull and large labiolingually flattened teeth with two cutting edges indicative of a macropredatory feeding style. Its presence documents the rapid evolution of modern marine ecosystems in the Triassic where the same level of complexity as observed in today’s marine ecosystems is reached within 8 My after the Permian-Triassic mass extinction and within 4 My of the time reptiles first invaded the sea. This find also indicates that the biotic recovery in the marine realm may have occurred faster compared with terrestrial ecosystems, where the first apex predators may not have evolved before the Carnian.

Selectivity patterns provide insights into the causes of ancient extinction events. The Late Ordovician mass extinction was related to Gondwanan glaciation; however, it is still unclear whether elevated extinction rates were attributable to record failure, habitat loss, or climatic cooling. We examined Middle Ordovician-Early Silurian North American fossil occurrences within a spatiotemporally explicit stratigraphic framework that allowed us to quantify rock record effects on a per-taxon basis and assay the interplay of macrostratigraphic and macroecological variables in determining extinction risk. Genera that had large proportions of their observed geographic ranges affected by stratigraphic truncation or environmental shifts at the end of the Katian stage were particularly hard hit. The duration of the subsequent sampling gaps had little effect on extinction risk, suggesting that this extinction pulse cannot be entirely attributed to rock record failure; rather, it was caused, in part, by habitat loss. Extinction risk at this time was also strongly influenced by the maximum paleolatitude at which a genus had previously been sampled, a macroecological trait linked to thermal tolerance. A model trained on the relationship between 16 explanatory variables and extinction patterns during the early Katian interval substantially underestimates the extinction of exclusively tropical taxa during the late Katian interval. These results indicate that glacioeustatic sea-level fall and tropical ocean cooling played important roles in the first pulse of the Late Ordovician mass extinction in Laurentia.