Species tree estimation for a deep phylogenetic divergence in the New World monkeys (Primates: Platyrrhini).

The estimation of a robust phylogeny is a necessary first step in understanding the biological diversification of the platyrrhines. Although the most recent phylogenies are generally robust, they differ from one another in the relationship between Aotus and other genera as well as in the relationship between Pitheciidae and other families. Here, we used coding and non-coding sequences to infer the species tree and embedded gene trees of the platyrrhine genera using the Bayesian Markov chain Monte Carlo method for the multispecies coalescent (*BEAST) for the first time and to compared the results with those of a Bayesian concatenated phylogenetic analysis. Our species tree, based on all available sequences, shows a closer phylogenetic relationship between Atelidae and Cebidae and a closer relationship between Aotus and the Cebidae clade. The posterior probabilities are lower for these conflictive tree nodes compared to those in the concatenated analysis; this finding could be explained by some gene trees showing no concordant topologies between Aotus and the other genera. Moreover, the topology of our species tree also differs from the findings of previous molecular and morphological studies regarding the position of Aotus. The existence of discrepancies between morphological data, gene trees and the species tree is widely reported and can be related to processes such as incomplete lineage sorting or selection. Although these processes are common in species trees with low divergence, they can also occur in species trees with deep and rapid divergence. The sources of the inconsistency of morphological and molecular traits with the species tree could be a main focus of further research on platyrrhines.

Sexual dimorphism and allometry in malacophagus snakes (Dipsadidae: Dipsadinae).

Sexual dimorphism in snakes is generally described in association with body or tail size and scale counts, with relatively few studies addressing intrasexual divergence in the skull. Here, we analyzed sexual dimorphism in the size and shape of skull and body in three malacophagous dipsadine snakes, Dipsas mikanii, Dipsas neuwiedi and Dipsas turgida, as well as allometric effect on these components. We used linear and geometric analysis to assess: (1) if there is sexual dimorphism in cranial components; (2) if there are differences between the sexes regarding body and tail size, number of ventral and subcaudal scales; (3) whether there is covariation between cranial components and body size; (4) if there are changes in cranial shape associated with increased size; and (5) whether there is an allometric relationship between body and tail size. Our results showed that all three species are dimorphic in cranial shape and size (except D. turgida for cranial size), with females having longer and thinner skulls than males. In the three species, the female skull was negatively allometric, whereas the male skull was isometric. Allometry related to cranial shape was significant only in males of D. turgida, which showed greater snout robustness and eye size associated with enlargement of the skull. Females of D. mikanii and D. neuwiedi were significantly larger than males. Only males of D. neuwiedi showed positive allometry for the tail, while dimorphism related to scale counts followed the pattern found in most snakes, with females having a greater number of ventrals and males subcaudals (except D. neuwiedi in the latter case). Based on our results, we hypothesize that patterns of sexual dimorphism and skull allometry in malacophagous snakes may be explained both by aspects related to diet and reproduction. Meanwhile, patterns associated with body size reflect advantages related to fecundity favoring greater reproductive success of females.

Effects of incubation temperature on development, morphology, and thermal physiology of the emerging Neotropical lizard model organism Tropidurus torquatus.

Incubation temperature is among the main phenotypic trait variation drivers studied since the developmental trajectory of oviparous animals is directly affected by environmental conditions. In the last decades, global warming predictions have aroused interest in understanding its impacts on biodiversity. It is predicted that the effects of direct warming will be exacerbated by other anthropogenic factors, such as microclimatic edge effects. Although the Brazilian Cerrado biome is one of the most affected by these issues, little is known about the aforementioned effects on its biodiversity. Therefore, the aim of our study is to investigate the influence of incubation temperature on developmental parameters, morphology and thermal physiology traits of the collared lizard (Tropidurus torquatus). Furthermore, we discuss our findings regarding lizard developmental biology and the climate change paradigm. Therefore, we incubated T. torquatus eggs under five temperature regimes ranging from artificial nest temperature (28.7 °C) to 35.0 °C. We found that elevated incubation temperatures affect several investigated traits: egg mass gain is positively affected, without any influence in newborn mass; incubation period is broadly reduced with temperature increase; survival rate is negatively affected by temperature, constant 35.0 °C regime is confirmed as a lethal incubation temperature, and the sex ratio is affected at 30.0 °C, with a prevailing outbreak of females. Increased incubation temperature also affects body and head size but has no effect on limb size. Newborn thermoregulation and the critical thermal maximum (CTmax) are not affected by incubation temperature. On the other hand, basal body temperature (Tbb) and the critical thermal minimum (CTmin) were positively affected. Thermal physiology was also affected by age, with newborns differing from adults for all analyzed thermal traits. Our findings indicate that future modifications in incubation temperature regimes at nesting sites caused by warming may affect several features of the development, morphology, and thermal physiology of newborns of this species. Laboratory experiments have pointed to possible drastic effects of warming on lizard survival rates, also affecting aspects of its natural history and population distribution. Moreover, in addition to being more vulnerable than adults in aspects such as predation and feeding, T. torquatus newborns are also more vulnerable regarding thermal physiological traits.

Molecular phylogenetic relationships and phenotypic diversity in miniaturized toadlets, genus Brachycephalus (Amphibia: Anura: Brachycephalidae).

Toadlets of the genus Brachycephalus are endemic to the Atlantic rainforests of southeastern and southern Brazil. The 14 species currently described have snout-vent lengths less than 18 mm and are thought to have evolved through miniaturization: an evolutionary process leading to an extremely small adult body size. Here, we present the first comprehensive phylogenetic analysis for Brachycephalus, using a multilocus approach based on two nuclear (Rag-1 and Tyr) and three mitochondrial (Cyt b, 12S, and 16S rRNA) gene regions. Phylogenetic relationships were inferred using a partitioned Bayesian analysis of concatenated sequences and the hierarchical Bayesian method (BEST) that estimates species trees based on the multispecies coalescent model. Individual gene trees showed conflict and also varied in resolution. With the exception of the mitochondrial gene tree, no gene tree was completely resolved. The concatenated gene tree was completely resolved and is identical in topology and degree of statistical support to the individual mtDNA gene tree. On the other hand, the BEST species tree showed reduced significant node support relative to the concatenate tree and recovered a basal trichotomy, although some bipartitions were significantly supported at the tips of the species tree. Comparison of the log likelihoods for the concatenated and BEST trees suggests that the method implemented in BEST explains the multilocus data for Brachycephalus better than the Bayesian analysis of concatenated data. Landmark-based geometric morphometrics revealed marked variation in cranial shape between the species of Brachycephalus. In addition, a statistically significant association was demonstrated between variation in cranial shape and genetic distances estimated from the mtDNA and nuclear loci. Notably, B. ephippium and B. garbeana that are predicted to be sister-species in the individual and concatenated gene trees and the BEST species tree share an evolutionary novelty, the hyperossified dorsal plate.

Are hemipenial traits under sexual selection in Tropidurus lizards? Hemipenial development, male and female genital morphology, allometry and coevolution in Tropidurus torquatus (Squamata: Tropiduridae).

Male genitalia show considerable morphological variation among animals with internal fertilization and exhibit a high level of evolvability in lizards. Studies have suggested that sexual selection may be driving hemipenial evolution against natural selection and pleiotropy. Given the direct interaction of male and female genitals, coevolution of the aforementioned is posited by several hypotheses of genital evolution. However, there are only a few studies on female genitalia morphology, resulting in a lack of coevolution description and understanding. Studies of allometric patterns have filled some gaps by answering questions about male genital evolution and could prove a powerful tool in clarifying coevolution between male and female genitals. Here, we studied the genital morphology of Tropidurus torquatus. This Tropidurus lizard species is an emerging Neotropical lizard model organism notable for having enlarged hemipenial lobes in contrast with other tropidurid species. In this study, we analyzed hemipenial development in early and late stages, describing both morphological variation and ontogenetic allometric pattern. We used quantitative traits to describe male and female genital morphology, examining their static allometric patterns and correspondence. Our study provides a quantitative discussion on the evolution of lizard genitals, suggesting that sexual selection plays an important role in genital evolution in Tropidurus lizards.

Are Diet Preferences Associated to Skulls Shape Diversification in Xenodontine Snakes?

Snakes are a highly successful group of vertebrates, within great diversity in habitat, diet, and morphology. The unique adaptations for the snake skull for ingesting large prey in more primitive macrostomatan snakes have been well documented. However, subsequent diversification in snake cranial shape in relation to dietary specializations has rarely been studied (e.g. piscivory in natricine snakes). Here we examine a large clade of snakes with a broad spectrum of diet preferences to test if diet preferences are correlated to shape variation in snake skulls. Specifically, we studied the Xenodontinae snakes, a speciose clade of South American snakes, which show a broad range of diets including invertebrates, amphibians, snakes, lizards, and small mammals. We characterized the skull morphology of 19 species of xenodontine snakes using geometric morphometric techniques, and used phylogenetic comparative methods to test the association between diet and skull morphology. Using phylogenetic partial least squares analysis (PPLS) we show that skull morphology is highly associated with diet preferences in xenodontine snakes.