Temporal diversity patterns have traditionally been analyzed by counting the number of families or genera present over a series of time periods. This approach has been criticized on the grounds that paraphyletic taxa might introduce artifacts. Sepkoski and Kendrick (1993) simulated phylogenetic trees and different classifications of those trees and concluded that paraphyletic taxa need not be rejected. We have reimplemented their model, extended it, and carried out statistical analyses under a variety of experimental conditions. Our results show that the focus on monophyly vs. paraphyly is misplaced. Instead, it appears that the number of groups in the classification and the distribution of the sizes of those groups have dramatic effects on the recovery of diversity information. Furthermore, the influence of these factors depends on whether the fossil record represents a low- or high-frequency sampling of lineages. When sampling is good, the best results are achieved by classifications with large numbers of small taxa. When sampling is poor, however, the best results are achieved by classifications that include some large and medium-sized groups as well as many smaller groups. This suggests that the best estimates of underlying diversity will be achieved by counting (in the same study) taxa assigned to different ranks, so as to best match the inferred quality of the paleontological sample. In practice this will mean abandoning the commitment to counting taxa at a single rank.

A major new inventory of living marine Bivalvia (Mollusca) is based on 29 regional faunas. These again pick out strong latitudinal and longitudinal gradients in taxonomic diversity, but there are indications that the patterns are not so regular as previously thought. There are signs of asymmetry between the Northern and Southern Hemisphere latitudinal gradients, with the former tending to be more regular than the latter. Northern gradients are also characterized by a marked inflection at approximately 30°N, and the three Australian provinces seem to form a distinct “hotspot” in the Southern Hemisphere. The larger of the two tropical high-diversity foci (the southern China-Indonesia-NE Australia one) appears to be much more nearly arcuate in plan view than oval and is closely associated with the world's richest development of coral reefs.

A taxonomic and stratigraphic analysis reveals that the steepest latitudinal gradients are associated with the youngest bivalve clades. The most striking pattern is that shown by the heteroconchs, an essentially infaunal taxon that radiated extensively throughout the Cenozoic era. Steep gradients are also characteristic of the relatively young anomalodesmatan and arcoid clades and, somewhat surprisingly, the predominantly epifaunal pteriomorphs. Although the latter taxon falls within an older (i.e., “late Paleozoic–Jurassic”) group of clades, it is apparent that certain elements within it (and in particular the Pectinidae) radiated extensively in the latest Mesozoic–Cenozoic. A small but significant component of the later stages of the adaptive radiation of the Bivalvia comprised epifaunal taxa.

The presence of the steepest latitudinal gradients in the youngest clades provides further evidence that the Tropics have served as a major center of evolutionary innovation. Even though some sort of retraction mechanism cannot be completely ruled out, these gradients are most likely the product of primary radiations. Clade history can be an important determinant of contemporary large-scale biodiversity patterns. The markedly lower diversity of some bivalve clades, such as the heteroconchs, in the high-latitude and polar regions may simply reflect the fact that they are not yet fully established there. In a way that is reminiscent of the onshore-offshore radiation of certain benthic marine invertebrate taxa, it may take periods of tens or even hundreds of millions of years for bivalve clades to disseminate fully across the earth's surface.

The persistent spread of taxa from low- to high-latitude regions should perhaps come as no great surprise, as the tropical ocean is very much older than either of the polar ones. The late Cretaceous–Cenozoic evolutionary radiation of the Bivalvia was accompanied by a marked deterioration in global climates, and many new groups have yet to be fully assimilated into cool- and cold-water benthic ecosystems.

More than 1600 valves of Late Cretaceous and early Paleocene Northern Atlantic Coastal Plain gryphaeid oysters (Exogyrinae and Pycnodonteinae) were examined for breakage-induced shell repair and morphologic variability to evaluate the hypothesis of escalation. The Exogyrinae show disproportionately higher average repair frequency (0.41) relative to the ecologically and functionally similar unornamented pycnodonts (0.19). An increase in repair frequency (independent evidence of the action of a selective agent, e.g., predation) through the stratigraphic interval supports escalation. Variation in repair frequencies may reflect differences in oyster morphology and in the strength and diversity of shell crushers across an onshore-offshore gradient. Escalation of antipredatory adaptation characterized the evolutionary response of gryphaeid oysters to their durophagous predators. Adaptation generally occurred by the enhancement of existing traits in both oyster lineages. Characters that confer a selective advantage against predators are not all expressed or improved concurrently in both oyster lineages. Morphologic adaptations to minimize shell breakage include the development of expansive, broad commissural shelves, thickened valves, and surface ornamentation (Exogyrinae). Surface ornament in the Exogyrinae gradually increased with time. For some characters, such as thickness, conflicting functional demands (e.g., valve stabilization) may have limited adaptation to predators.

The general allometric equations for the logarithmic helicospiral can fit many extraconical shapes, but the isometric conditions traditionally used limit study only to conical growth. We present evidence to show that in real gastropod shells, the logarithmic helicospiral equations fit the suture. Poor location of the coiling axis and/or an inappropriate pole for the logarithmic helicospiral has often led to the rejection of this model. The differences between the errors associated with measurement or previously available models are discussed. Two methods, based on suture trace measurements, are proposed to locate the coiling axis both in apical and lateral views. The first is a graphical method based on an elementary property of the logarithmic spiral. The second is a computational method based on iterative reprojections of the suture. It is shown that the protoconch and the teleoconch must be treated separately. The precision of the new methods (especially the computing method) enables deviations from logarithmic helicospiral trajectory to be identified and differentiated from irregularities of the shell and sequential growth phases. Application of these methods may be useful not only for other gastropod morphological features, but also for other taxa such as brachiopods and other mollusks.

Hox genes are known from a wide variety of organisms. In arthropods, these genes control segment characteristics. Trilobites, being arthropods, probably contained eight major Hox genes that controlled their segment types. The trilobite Bauplan contains eight regions that are most likely under the influence of one or more of these Hox genes. The cephalon contains the frontal lobe, glabellar, and occipital ring regions; the thorax contains the anterior thoracic and posterior thoracic regions; and the pygidium contains the articulating ring, axial, and terminal piece regions. Changes in character distribution within or between these regions represent homeotic evolution, which may have resulted from the modification of Hox transcription or of downstream regulatory genes. A phylogenetic analysis is used to recognize homeotic evolution in trilobites, leading to the conclusion that homeotic evolution is common among Cambrian trilobites.

Movements of the pelvic girdle have recently been found to contribute to inspiratory airflow in both crocodilians and birds. Although the mechanisms are quite different in birds and crocodilians, participation of the pelvic girdle in the production of inspiration is rare among vertebrates. This raises the possibility that the pelvic musculoskeletal system may have played a role in the ventilation of basal archosaurs. Judging from the mechanism of pelvic aspiration in crocodilians and the structure of gastralia in basal archosaurs, we suggest that an ischiotruncus muscle pulled the medial aspect of the gastralia caudally, and thereby helped to produce inspiration by increasing the volume of the abdominal cavity. From this basal mechanism, several archosaur lineages appear to have evolved specialized gastralia, pelvic kinesis, and/or pelvic mobility. Kinetic pubes appear to have evolved independently in at least two clades of Crocodylomorpha. This convergence suggests that a diaphragmatic muscle may be basal for Crocodylomorpha. The pelvis of pterosaurs was long, open ventrally, and had prepubic elements that resembled the pubic bones of Recent crocodilians. These characters suggest convergence on the pelvic aspiratory systems of both birds and crocodilians. The derived configuration of the pubis, ischium and gastralia of non-avian theropods appears to have enhanced the basal gastral breathing mechanism. Changes in structure of the pelvic musculoskeletal system that were present in both dromaeosaurs and basal birds may have set the stage for a gradual reduction in the importance of gastral breathing and for the evolution of the pelvic aspiration system of Recent birds. Lastly, the structure of the pelvis of some ornithischians appears to have been permissive of pubic and ischial kinesis. Large platelike prepubic processes evolved three times in Ornithischia. These plates are suggested to have been instrumental in an active expansion of the lateral abdominal wall to produce inspiratory flow. Thus, many of the unique features found in the pelvic girdles of various archosaur groups may be related to the function of lung ventilation rather than to locomotion.

Chad is a key region for understanding early hominid geographic expansion in relation to late Miocene and Pliocene environmental changes, owing to its location 2500 km west from the Rift Valley and to the occurrence of sites ranging in age from about 6 to 3 Ma, some of which yield fossil hominids. To reconstruct changes in herbivore paleodiet and therefore changes in the paleoenvironment, we measured the carbon and oxygen isotope composition of 80 tooth-enamel samples from three time horizons for nine families of Perissodactyla, Proboscidea, and Artiodactyla. The absence of significant alteration of in vivo isotopic signatures can be determined for carbon, thus allowing paleodietary and paleoenvironmental interpretations to be made.

While the results generally confirm previous dietary hypotheses, mostly based on relative crown height, there are some notable surprises. The main discrepancies are found among low-crowned proboscideans (e.g., Anancus) and high-crowned rhinocerotids (Ceratotherium). Both species were more opportunistic feeders than it is usually believed. This result confirms that ancient feeding ecology cannot always be inferred from dental morphology or extant relatives.

There is an increase in the average carbon isotope composition of tooth enamel from the oldest unit to the youngest, suggesting that the environment became richer in C₄ plants with time. In turn, more C₄ plants indicate an opening of the plant cover during this period. This increase in carbon isotope composition is also recorded within genera such as Nyanzachoerus, Ceratotherium, and Hexaprotodon, indicating a change from a C₃-dominated to a C₄-dominated diet over time. It appears that, unlike other middle Pliocene hominid sites in eastern and southern Africa, this part of Chad was characterized by very open conditions and that savanna-like grasslands were already dominant when hominids were present in the area.