Paúl M. Velazco

Integrating Incomplete Fossils by Isolating Conflicting Signal in Saturated and Non-Independent Morphological Characters

Morphological characters are indispensable in phylogenetic analyses for understanding the pattern, process, and tempo of evolution. If characters are independent and free of systematic errors, then combining as many different kinds of characters as are available will result in the best-supported phylogenetic hypotheses. But since morphological characters are subject to natural selection for function and arise from the expression of developmental pathways, they may not be independent, a situation that may amplify any underlying homoplasy. Here, we use new dental and multi-locus genetic data from bats (Mammalia: Chiroptera) to quantify saturation and similarity in morphological characters and introduce two likelihood-based approaches to identify strongly conflicting characters and integrate morphological and molecular data. We implement these methods to analyze the phylogeny of incomplete Miocene fossils in the radiation of Phyllostomidae (New World Leaf-nosed Bats), perhaps the most ecologically diverse family of living mammals. Morphological characters produced trees incongruent with molecular phylogenies, were saturated, and showed rates of change higher than most molecular substitution rates. Dental characters encoded variation similar to that in other morphological characters, while molecular characters encoded highly dissimilar variation in comparison. Saturation and high rates of change indicate randomization of phylogenetic signal in the morphological data, and extensive similarity suggests characters are non-independent and errors are amplified. To integrate the morphological data into tree building while accounting for homoplasy, we used statistical molecular scaffolds and combined phylogenetic analyses excluding a small subset of strongly conflicting dental characters. The phylogenies revealed the Miocene nectar-feeding †Palynephyllum nests within the crown nectar-feeding South American subfamily Lonchophyllinae, while the Miocene genus †Notonycteris is sister to the extant carnivorous Vampyrum. These relationships imply new calibration points for timing of radiation of the ecologically diverse Phyllostomidae. [Chiroptera; conflict; dentition; morphology; Phyllostomidae; saturation; scaffold; systematic error.].

Mammals of the Manu Biosphere Reserve

MammalsoccurringintheManuBiosphereReserve.Newadditionstothefaunallistaredenotedbyasterisks;commonnamesnotusedbycontributorstoWilsonandReeder(2005)aredenotedbycarets.Records documented during recent NSF-funded surveys of the reserve are in boldface, first listingthosewithmuseumvouchers,whilesight,sound,orsignrecordsappearinparentheses.Localitycodesand their locations are listed in the Gazetteer and shown in Figure 4. Minimum and maximumelevationsalongtheManutransectareinmeters.

Next-generation phenomics for the Tree of Life

The phenotype represents a critical interface between the genome and the environment in which organisms live and evolve. Phenotypic characters also are a rich source of biodiversity data for tree building, and they enable scientists to reconstruct the evolutionary history of organisms, including most fossil taxa, for which genetic data are unavailable. Therefore, phenotypic data are necessary for building a comprehensive Tree of Life. In contrast to recent advances in molecular sequencing, which has become faster and cheaper through recent technological advances, phenotypic data collection remains often prohibitively slow and expensive. The next-generation phenomics project is a collaborative, multidisciplinary effort to leverage advances in image analysis, crowdsourcing, and natural language processing to develop and implement novel approaches for discovering and scoring the phenome, the collection of phentotypic characters for a species. This research represents a new approach to data collection that has the potential to transform phylogenetics research and to enable rapid advances in constructing the Tree of Life. Our goal is to assemble large phenomic datasets built using new methods and to provide the public and scientific community with tools for phenomic data assembly that will enable rapid and automated study of phenotypes across the Tree of Life.

Two new species of yellow-shouldered bats, genus Sturnira Gray, 1842 (Chiroptera, Phyllostomidae) from Costa Rica, Panama and western Ecuador

Abstract Two new species of yellow-shouldered bats Sturnira Gray, 1842 (Chiroptera, Phyllostomidae) from Central America and western South America are described using molecular and morphological data. The two new species, which occur in Costa Rica and Panama and in western Ecuador, were previously confused with S. ludovici, and S. lilium and S. luisi, respectively. Sturnira now includes 22 described species, making it the most speciose genus in the Neotropical family Phyllostomidae.

A new species of Platyrrhinus (Chiroptera: Phyllostomidae) from western Colombia and Ecuador, with emended diagnoses of P. aquilus, P. dorsalis, and P. umbratus

Abstract The Neotropical bat genus Platyrrhinus (Chiroptera: Phyllostomidae: Stenodermatinae) currently comprises 15 species. Our morphological and morphometric analysis of large and medium-sized Platyrrhinus revealed a distinctive undescribed species from western South America. We also recognize P. aquilus (Handley & Ferris 1972) and P. umbratus (Lyon 1902) as valid species. We describe P. nitelinea sp. nov. from western Colombia and Ecuador and provide emended diagnoses along with descriptions of P. aquilus, P. dorsalis, and P. umbratus. Phylogenetic analysis of Platyrrhinus based on morphological characters indicates that P. aquilus is closely related to P. aurarius and P. nigellus, P. umbratus to P. chocoensis, and P. nitelinea to P. vittatus.

Extraordinary Local Diversity of Disk-Winged Bats (Thyropteridae: Thyroptera) in Northeastern Peru, with the Description of a New Species and Comments on Roosting Behavior

ABSTRACT Species of Thyroptera are insectivorous foliage-roosting bats that inhabit lowland moist forests (including gallery formations in savanna landscapes) from Mexico to southeastern Brazil. Although four species are currently recognized, only one or two species were previously known to occur at most localities. Recent inventory work in northeastern Peru has documented the local cooccurrence of four species of Thyroptera, one of which is here described as new. The new species (T. wynneae), which also occurs in Brazil, can easily be recognized by a combination of diagnostic morphological traits. The latter include small size, tricolored ventral pelage, long and woolly hairs between the shoulders, a uropatagium with the proximal half densely covered by long hairs, wing tips sparsely covered by long hairs, a calcar with two lappets and five tiny skin projections between the foot disk and the proximal lappet, a rostrum considerably shorter than the braincase, third lower incisors that are subequal in height to the first and second lower incisors, and third lower incisors with two well-developed accessory cusps. We illustrate the crania of all five known species of Thyroptera and provide a key based on craniodental and external characters. Unexpectedly high local diversity of these elusive bats poses a challenge for future inventory research and raises interesting questions about ecological-niche partitioning in Neotropical bat communities and the evolutionary history of thyropterids.

Systematics of Vampyressa melissa Thomas, 1926 (Chiroptera, Phyllostomidae), with descriptions of two new species of Vampyressa

ABSTRACT Vampyressa melissa is a poorly known phyllostomid bat listed as vulnerable by the International Union for Conservation of Nature (IUCN). Since its description in 1926, fewer than 40 V melissa have been reported in the literature, and less than half of these may have been correctly identified. During revisionary studies of Vampyressa, we uncovered two previously unrecognized species related to V. melissa, all associated with higher elevation habitats (>1400 m), one from the Andes of Colombia (Vampyressa sinchi, new species) and the other from western Panama (Vampyressa elisabethae, new species) revealing that V. melissa, as traditionally defined, is a composite of at least three species. In this paper, we provide a restricted diagnosis for the genus Vampyressa, an emended diagnosis of V. melissa, and descriptions of the two new species. The separation of these frugivorous bats, previously identified as V. melissa, into three isolated upper-elevation species, each having restricted distributions further highlights their fragile conservation status.

Roosting Ecology of Amazonian Bats: Evidence for Guild Structure in Hyperdiverse Mammalian Communities

ABSTRACT The ecological mechanisms that sustain high species richness in Neotropical bat communities have attracted research attention for several decades. Although many ecologists have studied the feeding behavior and diets of Neotropical bats on the assumption that food is a limiting resource, other resource axes that might be important for species coexistence are often ignored. Diurnal refugia, in particular, are a crucial resource for bats, many of which exhibit conspicuous morphological or behavioral adaptations to the roost environment. Here we report and analyze information about roost occupancy based on >500 field observations of Amazonian bats. Statistical analyses of these data suggest the existence of distinct groups of species roosting (1) in foliage, (2) exposed on the trunks of standing trees, (3) in cavities in standing trees, (4) in or under fallen trees, (5) beneath undercut earth banks, and (6) in arboreal insect nests; additionally, we recognize other groups that roost (7) in animal burrows, and (8) in rocks or caves. Roosting-guild membership is hypothesized to have a filtering effect on Amazonian bat community composition because some types of roosts are absent or uncommon in certain habitats. Among other applications of our results, cross-classifying bat species by trophic and roosting guilds suggests that the often-reported deficit of gleaning animalivores in secondary vegetation by comparison with primary forest might reflect habitat differences in roost availability rather than food resources. In general, ecological and evolutionary studies of Neotropical bats would be enhanced by considering both trophic- and roosting-guild membership in future analyses, but additional fieldwork will be required to determine the roosting behavior of many data-deficient species. Kuesban utsi-utsiek ikek. Kuesban kuëte tëdion uzhek. Kuesban mani padan uzhek. Kuesban meçhodon uzhek. Kuesban tazhodo tëdion uzhek. Kuesban kuëte tanunkiokkid dadiadek. Kuesban kuëtedapa tëdion kodotanaknombo kuesban utsi ikkid. Padnubi zhëkuëdapambik utsi tëmpadapa zhëkuëdapan. Kuesban dadpenkiozhë ikek. (Bats exist in different ways. Bats sleep under trees. Bats sleep in wild banana plants. Bats sleep in termite nests. Bats sleep under buttress roots. Bats hang on the trunks of very dry trees. Other bats are under big fallen trees, where the tree is twisted. Also, others are in big hollows, in big hollows of big tëmpa trees. There are very, very many kinds of bats.) —Antonio Manquid Jiménez Tajur4

Quaternary Bat Diversity in the Dominican Republic

ABSTRACT The fossil record of bats is extensive in the Caribbean, but few fossils have previously been reported from the Dominican Republic. In this paper, we describe new collections of fossil bats from two flooded caves in the Dominican Republic, and summarize previous finds from the Island of Hispaniola. The new collections were evaluated in the context of extant and fossil faunas of the Greater Antilles to provide information on the evolution of the bat community of Hispaniola. Eleven species were identified within the new collections, including five mormoopids (Mormoops blainvillei, †Mormoops magna, Pteronotus macleayii, P. parnellii, and P. quadridens), five phyllostomids (Brachyphylla nana, Monophyllus redmani, Phyllonycteris poeyi, Erophylla bombifrons, and Phyllops falcatus), and one natalid (Chilonatalus micropus). All of these species today inhabitant Hispaniola with the exception of †Mormoops magna, an extinct species previously known only from the Quaternary of Cuba, and Pteronotus macleayii, which is currently known only from extant populations in Cuba and Jamaica, although Quaternary fossils have also been recovered in the Bahamas. Differences between the fossil faunas and those known from the island today suggest that dispersal and extirpation events, perhaps linked to climate change or stochastic events such as hurricanes, may have played roles in structuring the modern fauna of Hispaniola.

Systematics and Taxonomy of Great Striped-Faced Bats of the Genus Vampyrodes Thomas, 1900 (Chiroptera: Phyllostomidae)

ABSTRACT The Neotropical bat genus Vampyrodes (Chiroptera: Phyllostomidae: Stenodermatinae) is widely distributed from southern Mexico to southeastern Brazil. Long thought to be monotypic, V. caraccioli Thomas, 1889, was recognized by previous authors as including two subspecies with the nominate form inhabiting South America south and east of the Andes, and another subspecies, V. c. major Allen, 1908, occurring west and north of the Andes. Reexamination of these forms using molecular and morphological methods supports recognition of these lineages as distinct at the species level. We here provide amended descriptions and diagnoses for these taxa. We also report for the first time an example of perikymata (incremental growth lines that appear on the surface of dental enamel as a series of grooves) in Chiroptera. Presence of distinct perikymata is a synapomorphy of the genus Vampyrodes.