Rates of phenotypic evolution are central to many issues in paleontology, but traditional rate metrics such as darwins or haldanes are seldom used because of their strong dependence on interval length. In this paper, I argue that rates are usefully thought of as model parameters that relate magnitudes of evolutionary divergence to elapsed time. Starting with models of directional evolution, random walks, and stasis, I derive for each a reasonable rate metric. These metrics can be linked to existing approaches in evolutionary biology, and simulations show that they can be estimated accurately at any temporal resolution via maximum likelihood, but only when that metric's underlying model is true.

The estimation of generational rates of a random walk under realistic paleontological conditions is compared with simulations to that of a prominent alternative approach, Gingerich's LRI (log-rate, log-interval) method. Generational rates are estimated poorly by LRI; they often reflect sampling error more than the actual pace of change. Further simulations show that under some realistic conditions, it is simply not possible to infer generational rates from coarsely sampled populations.

These modeling results indicate a complex dependence between evolutionary mode and the measurement of evolutionary rates, and that there is unlikely to be a rate metric that works well for all traits and time scales. Compilations of paleontological and phylogenetic data indicate that all of the three rate metrics derived here show some relationship with interval length. Although there is no perfect rate metric, at present the most practical choices derive from the parameters of the stasis and random walk models. The latter, called the step variance, is particularly promising as a rate metric in paleontology and comparative biology.

The carbon stable isotope (δ13C) composition of the calcitic tests of planktonic foraminifera has an important role as a geochemical tracer of ocean carbon system changes associated with the Cretaceous/Paleogene (K/Pg) mass extinction event and its aftermath. Questions remain, however, about the extent of δ13C isotopic disequilibrium effects and the impact of depth habitat evolution on test calcite δ13C among rapidly evolving Paleocene species, and the influence this has on reconstructed surface-to-deep ocean dissolved inorganic carbon (DIC) gradients. A synthesis of new and existing multispecies data, on the relationship between δ13C and δ18O and test size, sheds light on these issues. Results suggest that early Paleocene species quickly radiated into a range of depths habitats in a thermally stratified water column. Negative δ18O gradients with increasing test size in some species of Praemurica suggest either ontogenetic or ecotypic dependence on calcification temperature that may reflect depth/light controlled variability in symbiont photosynthetic activity. The pattern of positive δ13C test-size correlations allows us to (1) identify metabolic disequilibrium δ13C effects in small foraminifera tests, as occur in the immediate aftermath of the K/Pg event, (2) constrain the timing of evolution of foraminiferal photosymbiosis to 63.5 Ma, ∼0.9 Myr earlier than previously suggested, and (3) identify the apparent loss of symbiosis in a late-ranging morphotype of Praemurica. These findings have implications for interpreting δ13C DIC gradients at a resolution appropriate for incoming highly resolved K/Pg core records.

The silicoflagellates are a class of enigmatic chrysophytes characterized by netlike skeletons composed of opaline silica. Other major groups of siliceous plankton—the diatoms and radiolarians—exhibit evidence of decreasing size or silicification over the Cenozoic. We investigated trends in the silicoflagellate fossil record by constructing a species-level database of diversity and morphological metrics. This new database reveals a proliferation of silicoflagellate species with spined skeletons along with an increase in the mean number of spines per species over the Cenozoic. Although there is little change in skeleton size or silicification among species with spines, those without spines are larger than species with spines and exhibit a decrease in size toward the present. Increased grazing pressure combined with declining surface silicate availability may have shifted the costs and benefits of silicification, causing divergent responses in skeletal morphology between these different morphological lineages of silicoflagellates over time. We postulate that diminishing Cenozoic surface silicic acid availability may have predisposed large spineless silicoflagellate species to extinction, whereas increased grazing pressure may have contributed to the extinction of all remaining spineless species within the edible size range of grazers.

Evolutionary rates and selection intensities in eight cladistically defined species-level evolutionary sequences of the Middle and Upper Ordovician bryozoan genus Peronopora were calculated for comparison with values published for fossil and living taxa. Calculations were restricted to statistically significant unidirectional segments of anagenetic series to minimize the mixing of different modes, directions, and rates of evolutionary change.

Rates and selection intensities ranged from 10−7 to 10−6 darwins and from 10−6 to 10−5 haldanes. Across characters, the weighted mean evolutionary rate equaled 5.86 × 10−7 darwins and the mean selection intensity was 6.44 × 10−7. Mean rates of 2.15 × 10−6, 4.31 × 10−6, and 8.61 × 10−6 haldanes, and corresponding mean selection intensities equaling 2.39 × 10−6, 4.78 × 10−6, and 9.56 × 10−6, were calculated for generation lengths of 0.5, 1, and 2 years, respectively.

The magnitudes of positive and negative evolutionary rates and selection intensities do not differ statistically, individual characters display no consistent pattern of positive or negative values, and no character complexes were detectable. A mosaic pattern of change occurs across characters in evolutionary sequences.

Eighty percent of analyzed evolutionary series were multispecies lineages. Both individual and mean values provide direct estimates of the rates of evolution within those lineages at the moment of speciation.

Rates of anagenetic evolution in Peronopora were low and similar to published rates for a variety of fossil protists, invertebrates, and vertebrates. However, earlier rate calculations did not isolate the effect of unidirectional anagenesis from that of stasis, random walks, trend reversals, or rate variations. Eight percent of characters in Peronopora produced anagenetic series that were statistically significant, a percentage similar to the 5% calculated in a study of 251 sequences of evolving traits in 53 fossil lineages (Hunt 2007). Stasis and mutation-drift are the most common patterns detectable in the fossil record, although anagenesis remains a potentially important force in shaping the course of both micro- and macroevolution.

The Westermann Morphospace method displays fundamental morphotypes and hypothesized life modes of measured ammonoid fossils in a ternary diagram. It quantitatively describes shell shape, without assumption of theoretical coiling laws, in a single, easy-to-read diagram. This allows direct comparison between data sets presented in Westermann Morphospace, making it an ideal tool to communicate morphology. By linking measured shells to hypothesized life modes, the diagram estimates ecospace occupation of the water column. Application of this new method is demonstrated with Mesozoic data sets from monographs. Temporal variation, intraspecies variation, and ontogenetic variation are considered. This method can address hypothetical ecospace occupation in collections with tight stratigraphic, lithologic, and abundance control, even when taxonomy is in dispute.

Electron microprobe analyses of platform (pectiniform Pa) elements of Permian conodonts reveal detailed and systematic chemical element distributions. The crown of the conodont element is more densely mineralized than the basal body and shows evidence of less dense mineralization in areas of rapid growth. Patterns in sodium and sulfur concentrations indicate oral to aboral differentiation within conodont elements. These chemical element patterns support oral exposure during life and functional use as a tooth, and they approximate the erupted and embedded positions of the conodont tooth when the animal was alive. Previously unrecognized spatial distributions of geochemically important chemical elements warrant consideration in future geochemical studies of conodonts.

The potential of the ichnofossil record for exploring the evolution of behavior has never been fully realized. Some of this is due to the nature of the trace fossil record itself. Equally responsible is the separation of ichnology from the relevant areas of modern behavioral biology. The two disciplines have virtually no concepts, methods, or literature in common. The study of animal behavior and its evolution is thus bereft of the rich data and insights of ichnologists.

One potential pathway forward is for ichnologists to adopt and adapt the movement ecology paradigm proposed several years ago by Ran Nathan and colleagues. This approach views movement as resulting from interactions of the organism's internal state, its movement abilities, and its sensory capabilities with each other and with the external environment. These interactions produce a movement path. The adoption of this paradigm would place trace fossil studies in a far wider common context for the study of movement, while providing the dimension of the evolution of movement behavior in deep time to neontological studies.

A second component of this integration would be for paleontologists to develop a taphonomy of behavior that places in a phylogenetic context the range of possible behaviors that organisms can carry out and assesses the potential of each of these behaviors in leaving a diagnostic trace. Parallel to other taphonomic concepts, this approach assesses the preservation potential of particular behaviors; behavioral fidelity is the extent to which trace fossils preserve these original behavioral signals.

Bipedalism evolved more than twice among archosaurs, and it is a characteristic of basal dinosaurs and a prerequisite for avian flight. Nevertheless, the reasons for the evolution of bipedalism among archosaurs have barely been investigated. Comparative analysis using phylogenetically independent contrasts showed a significant correlation between bipedality (relative length of forelimb) and cursoriality (relative length of metatarsal III) among Triassic archosaurs. This result indicates that, among Triassic archosaurs, bipeds could run faster than quadrupeds. Bipedalism is probably an adaptation for cursoriality among archosaurs, which may explain why bipedalism evolved convergently in the crocodilian and bird lineages. This result also indicates that the means of acquiring cursoriality may differ between archosaurs and mammals.

We investigate whether musculoskeletal anatomy and three-dimensional (3-D) body proportions were modified during the evolution of large (>6000 kg) body size in Allosauroidea (Dinosauria: Theropoda). Three adaptations for maintaining locomotor performance at large body size, related to muscle leverage, mass, and body proportions, are tested and all are unsupported in this analysis. Predictions from 3-D musculoskeletal models of medium-sized (Allosaurus) and large-bodied (Acrocanthosaurus) allosauroids suggest that muscle leverage scaled close to isometry, well below the positive allometry required to compensate for declining muscle cross-sectional area with increasing body size. Regression analyses on a larger allosauroid data set finds slight positive allometry in the moment arms of major hip extensors, but isometry is included within confidence limits. Contrary to other recent studies of large-bodied theropod clades, we found no compelling evidence for significant positive allometry in muscle mass between exemplar medium- and large-bodied allosauroids. Indeed, despite the uncertainty in quantitative soft tissue reconstruction, we find strong evidence for negative allometry in the caudofemoralis longus muscle, the single largest hip extensor in non-avian theropods. Finally, we found significant inter-study variability in center-of-mass predictions for allosauroids, but overall observe that consistently proportioned soft tissue reconstructions produced similar predictions across the group, providing no support for a caudal shift in the center of mass in larger taxa that might otherwise reduce demands on hip extensor muscles during stance. Our data set provides further quantitative support to studies that argue for a significant decline in locomotor performance with increasing body size in non-avian theropods. However, although key pelvic limb synapomorphies of derived allosauroids (e.g., dorsomedially inclined femoral head) evolved at intermediate body sizes, they may nonetheless have improved mass support.