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Comprehensive assessments of species’ extinction risks have documented the extinction crisis 1 and underpinned strategies for reducing those risks 2 . Global assessments reveal that, among tetrapods, 40.7% of amphibians, 25.4% of mammals and 13.6% of birds are threatened with extinction 3 . Because global assessments have been lacking, reptiles have been omitted from conservation-prioritization analyses that encompass other tetrapods 4 – 7 . Reptiles are unusually diverse in arid regions, suggesting that they may have different conservation needs 6 . Here we provide a comprehensive extinction-risk assessment of reptiles and show that at least 1,829 out of 10,196 species (21.1%) are threatened—confirming a previous extrapolation 8 and representing 15.6 billion years of phylogenetic diversity. Reptiles are threatened by the same major factors that threaten other tetrapods—agriculture, logging, urban development and invasive species—although the threat posed by climate change remains uncertain. Reptiles inhabiting forests, where these threats are strongest, are more threatened than those in arid habitats, contrary to our prediction. Birds, mammals and amphibians are unexpectedly good surrogates for the conservation of reptiles, although threatened reptiles with the smallest ranges tend to be isolated from other threatened tetrapods. Although some reptiles—including most species of crocodiles and turtles—require urgent, targeted action to prevent extinctions, efforts to protect other tetrapods, such as habitat preservation and control of trade and invasive species, will probably also benefit many reptiles. An extinction-risk assessment of reptiles shows that at least 21.1% of species are threatened by factors such as agriculture, logging, urban development and invasive species, and that efforts to protect birds, mammals and amphibians probably also benefit many reptiles.

With over 3,500 species encompassing a diverse range of morphologies and ecologies, snakes make up 36% of squamate diversity. Despite several attempts at estimating higher-level snake relationships and numerous assessments of generic- or species-level phylogenies, a large-scale species-level phylogeny solely focusing on snakes has not been completed. Here, we provide the largest-yet estimate of the snake tree of life using maximum likelihood on a supermatrix of 1745 taxa (1652 snake species + 7 outgroup taxa) and 9,523 base pairs from 10 loci (5 nuclear, 5 mitochondrial), including previously unsequenced genera (2) and species (61). Increased taxon sampling resulted in a phylogeny with a new higher-level topology and corroborate many lower-level relationships, strengthened by high nodal support values (> 85%) down to the species level (73.69% of nodes). Although the majority of families and subfamilies were strongly supported as monophyletic with > 88% support values, some families and numerous genera were paraphyletic, primarily due to limited taxon and loci sampling leading to a sparse supermatrix and minimal sequence overlap between some closely-related taxa. With all rogue taxa and incertae sedis species eliminated, higher-level relationships and support values remained relatively unchanged, except in five problematic clades. Our analyses resulted in new topologies at higher- and lower-levels; resolved several previous topological issues; established novel paraphyletic affiliations; designated a new subfamily, Ahaetuliinae, for the genera Ahaetulla, Chrysopelea, Dendrelaphis, and Dryophiops; and appointed Hemerophis (Coluber) zebrinus to a new genus, Mopanveldophis. Although we provide insight into some distinguished problematic nodes, at the deeper phylogenetic scale, resolution of these nodes may require sampling of more slowly-evolving nuclear genes.

Background The extant squamates (>9400 known species of lizards and snakes) are one of the most diverse and conspicuous radiations of terrestrial vertebrates, but no studies have attempted to reconstruct a phylogeny for the group with large-scale taxon sampling. Such an estimate is invaluable for comparative evolutionary studies, and to address their classification. Here, we present the first large-scale phylogenetic estimate for Squamata. Results The estimated phylogeny contains 4161 species, representing all currently recognized families and subfamilies. The analysis is based on up to 12896 base pairs of sequence data per species (average = 2497 bp) from 12 genes, including seven nuclear loci (BDNF, c-mos, NT3, PDC, R35, RAG-1, and RAG-2), and five mitochondrial genes (12S, 16S, cytochrome b , ND2, and ND4). The tree provides important confirmation for recent estimates of higher-level squamate phylogeny based on molecular data (but with more limited taxon sampling), estimates that are very different from previous morphology-based hypotheses. The tree also includes many relationships that differ from previous molecular estimates and many that differ from traditional taxonomy. Conclusions We present a new large-scale phylogeny of squamate reptiles that should be a valuable resource for future comparative studies. We also present a revised classification of squamates at the family and subfamily level to bring the taxonomy more in line with the new phylogenetic hypothesis. This classification includes new, resurrected, and modified subfamilies within gymnophthalmid and scincid lizards, and boid, colubrid, and lamprophiid snakes.

We report on tanystropheids from the Late Triassic (middle Norian) Hayden Quarry of northern New Mexico (Chinle Formation, Hayden Quarry). These elements, consisting of isolated vertebrae and appendicular bones, represent the first unambiguously identified tanystropheid from western North America and likely the latest occurrence of the group, postdating Tanytrachelos in the eastern United States. A new phylogenetic analysis of early saurians identifies synapomorphies of tanystropheid subclades, which are recognized in the recovered vertebrae and a calcaneum. The femora are consistent with referral to Tanystropheidae. There is no clear association of the remains, however, so we refrain from erecting a new taxon. The analysis also indicates that the Hayden Quarry tanystropheid fossils belong to a newly recognized clade including the Late Triassic taxa Langobardisaurus and Tanytrachelos. Because most tanystropheid specimens are twodimensionally crushed skeletons, the Hayden Quarry tanystropheid fossils provide valuable insights into the threedimensional osteology of derived tanystropheids. The most striking feature of the Hayden vertebrae is a rugose, flattened expansion of the neural spines in the dorsal, sacral, and caudal regions, probably linked to a ligamentous bracing system. These fossils and others from Late Triassic sites in the American West suggest that tanystropheids underwent a previously unrecognized radiation in North America just prior to their extinction.

The Turtles of Mexico is the first comprehensive guide to the biology, ecology, evolution, and distribution of more than fifty freshwater and terrestrial turtle taxa found in Mexico. Legler and Vogt draw on more than fifty years of fieldwork to elucidate the natural history of these species. The volume includes an extensive introduction to turtle anatomy, taxonomy, phylogeny, biogeography, and physiology. A key to the turtles of Mexico is included along with individual species accounts featuring geographic distribution maps and detailed color illustrations. Specific topics discussed for each species include habitat, diet, feeding behavior, reproduction, predators, parasites, growth and ontogeny, sexual dimorphism, growth rings, economic use, conservation, legal protection, and taxonomic studies. This book is a complete reference for scientists, conservationists, and professional and amateur enthusiasts who wish to study Mexican turtles.

Translocations are important tools in the field of conservation. Despite increased use over the last few decades, the appropriateness of translocations for amphibians and reptiles has been debated widely over the past 20 years. To provide a comprehensive evaluation of the suitability of amphibians and reptiles for translocation, we reviewed the results of amphibian and reptile translocation projects published between 1991 and 2006. The success rate of amphibian and reptile translocations reported over this period was twice that reported in an earlier review in 1991. Success and failure rates were independent of the taxonomic class (Amphibia or Reptilia) released. Reptile translocations driven by human-wildlife conflict mitigation had a higher failure rate than those motivated by conservation, and more recent projects of reptile translocations had unknown outcomes. The outcomes of amphibian translocations were significantly related to the number of animals released, with projects releasing over 1000 individuals being most successful. The most common reported causes of translocation failure were homing and migration of introduced individuals out of release sites and poor habitat. The increased success of amphibian and reptile translocations reviewed in this study compared with the 1991 review is encouraging for future conservation projects. Nevertheless, more preparation, monitoring, reporting of results, and experimental testing of techniques and reintroduction questions need to occur to improve translocations of amphibians and reptiles as a whole.

The Eulert pliosaurid remains (FHSM VP-321) housed at the Sternberg Museum of Natural History (Kansas, U.S.A.) include one of the world's best examples of a Cretaceous pliosaurid plesiosaur skull. The specimen's original assignment to Brachauchenius lucasi was based solely upon the skull (dorsal surface) and left lower jaw (lateral view) because the specimen was embedded in a plaster mount. The history of B. lucasi is similarly problematic, because the type and a referred skull were formerly visible only in ventral and dorsal views, respectively. Further preparation and comparison of these specimens reveal new data about the arrangement of cranial elements. The Eulert pliosaurid bears several distinct autapomorphies as compared with B. Lucasi, including cranial proportions (pretemporal length of palate longer, shorter temporal fenestrae), configuration of skull roof elements (frontals participate in premaxilla-parietal suture, suture occurs further forward), and configuration of the palate (posterior vomers not masked by medial alar extensions of the palatines, caudal vomerian fenestrae positioned further posterior, long slit-like anterior pteryoid vacuity present). Furthermore, FHSM VP-321 possesses double-headed cervical ribs, a feature previously unknown in Cretaceous pliosaurids. This combination of characters merits separation of the Eulert pliosaurid and a referred specimen to a new taxon, Megacephalosauris eulerti. The type and paratype skulls of M. eulerti are 1.5 m and 1.75 m in length, respectively, and thus 50% and 75% larger than the known 1-m-long skulls of B. lucasi, suggesting that M. eulerti may attain larger size than B. lucasi.

Targeted sequence capture is becoming a widespread tool for generating large phylogenomic data sets to address difficult phylogenetic problems. However, this methodology often generates data sets in which increasing the number of taxa and loci increases amounts of missing data. Thus, a fundamental (but still unresolved) question is whether sampling should be designed to maximize sampling of taxa or genes, or to minimize the inclusion of missing data cells. Here, we explore this question for an ancient, rapid radiation of lizards, the pleurodont iguanians. Pleurodonts include many well-known clades (e.g., anoles, basilisks, iguanas, and spiny lizards) but relationships among families have proven difficult to resolve strongly and consistently using traditional sequencing approaches. We generated up to 4921 ultraconserved elements with sampling strategies including 16, 29, and 44 taxa, from 1179 to approximately 2.4 million characters per matrix and approximately 30% to 60% total missing data. We then compared mean branch support for interfamilial relationships under these 15 different sampling strategies for both concatenated (maximum likelihood) and species tree (NJst) approaches (after showing that mean branch support appears to be related to accuracy). We found that both approaches had the highest support when including loci with up to 50% missing taxa (matrices with ~40-55% missing data overall). Thus, our results show that simply excluding all missing data may be highly problematic as the primary guiding principle for the inclusion or exclusion of taxa and genes. The optimal strategy was somewhat different for each approach, a pattern that has not been shown previously. For concatenated analyses, branch support was maximized when including many taxa (44) but fewer characters (1.1 million). For species-tree analyses, branch support was maximized with minimal taxon sampling (16) but many loci (4789 of 4921). We also show that the choice of these sampling strategies can be critically important for phylogenomic analyses, since some strategies lead to demonstrably incorrect inferences (using the same method) that have strong statistical support. Our preferred estimate provides strong support for most interfamilial relationships in this important but phylogenetically challenging group.

1. Recent evidence of the important role of emerging diseases in amphibian population declines makes it increasingly important to understand how environmental changes affect amphibian immune systems. 2. Temperature-dependent immunity may be particularly important to amphibian disease dynamics, especially in temperate regions. Changes in temperature are expected to cause deviations away from optimal levels of immunity until the immune system can respond. 3. To test whether temperature changes cause deviations from optimal immunity under natural conditions, we conducted a seasonal survey of adult Red-Spotted Newts and measured basal levels of several immunological variables. 4. We then examined these findings in relation to: (1) the lag hypothesis, which predicts that changes in temperature-dependent immune parameters lag behind short-term temperature changes, and (2) the seasonal acclimation hypothesis, which predicts that immune cell production declines during long-term temperature decreases until amphibians can fully acclimate to winter conditions. 5. Our results supported both hypotheses, showing a spring lag effect on lymphocyte levels and an even stronger seasonal acclimation effect on lymphocytes, neutrophils and eosinophils in the autumn. Our findings suggest that temperature variability causes increased susceptibility of amphibians to infection, and they have implications for the emergence of disease and the potential for climate change to exacerbate amphibian decline.

Fatal amphibian chytridiomycosis has typically been associated with the direct costs of infection. However the relationship between exposure to the pathogen, infection and mortality may not be so straightforward. Using results from both field work and experiments we report how exposure of common toads to Batrachochytrium dendrobatidis influences development and survival and how developmental stage influences host responses. Our results show that costs are accrued in a dose dependent manner during the larval stage and are expressed at or soon after metamorphosis. Exposure to B. dendrobatidis always incurs a growth cost for tadpoles and can lead to larval mortality before or soon after metamorphosis even when individuals do not exhibit infection at time of death. In contrast, exposure after metamorphosis almost always results in infection, but body size dictates survival to a greater extent than does dose. These data show that amphibian survival in the face of challenge by an infectious agent is dependent on host condition as well as life history stage. Under current models of climate change, many species of amphibia are predicted to increasingly occur outside their environmental optima. In this case, condition-dependent traits such as we have demonstrated may weigh heavily on species survival.