Genome-wide signatures of complex introgression and adaptive evolution in the big cats.

The great cats of the genus Panthera comprise a recent radiation whose evolutionary history is poorly understood. Their rapid diversification poses challenges to resolving their phylogeny while offering opportunities to investigate the historical dynamics of adaptive divergence. We report the sequence, de novo assembly, and annotation of the jaguar (Panthera onca) genome, a novel genome sequence for the leopard (Panthera pardus), and comparative analyses encompassing all living Panthera species. Demographic reconstructions indicated that all of these species have experienced variable episodes of population decline during the Pleistocene, ultimately leading to small effective sizes in present-day genomes. We observed pervasive genealogical discordance across Panthera genomes, caused by both incomplete lineage sorting and complex patterns of historical interspecific hybridization. We identified multiple signatures of species-specific positive selection, affecting genes involved in craniofacial and limb development, protein metabolism, hypoxia, reproduction, pigmentation, and sensory perception. There was remarkable concordance in pathways enriched in genomic segments implicated in interspecies introgression and in positive selection, suggesting that these processes were connected. We tested this hypothesis by developing exome capture probes targeting ~19,000 Panthera genes and applying them to 30 wild-caught jaguars. We found at least two genes (DOCK3 and COL4A5, both related to optic nerve development) bearing significant signatures of interspecies introgression and within-species positive selection. These findings indicate that post-speciation admixture has contributed genetic material that facilitated the adaptive evolution of big cat lineages

Relation between the level of self-mutilation and the concentration of fecal metabolites of glucocorticoids in captive chimpanzees (Pan troglodytes)

The influence of stress in an environment, according with the behavioral and endocrine variables of primates, are increasingly being studied by a diversity of authors, and have shown that abnormal behaviors associated with increased glucocorticoids may be directly related with the impairment of their well-being. In this work were used 22 adult chimpanzees (Pan troglodytes), 11 males and 11 females, kept in captivity in three different institutions. All animals had their behavior registered by focal session using a 30 seconds sample interval, during six months, totaling 4,800 registries per each animal. During this period, fecal samples were collected 3 times a week for the extraction and measurement of the concentration of fecal metabolites of glucocorticoid by radioimmunoassay. Of the total observed, stereotypical behaviors represented 13,45 +/- 2.76%, and among them, self-mutilation represented 38.28 +/- 3.98 %. The animals were classified into three different scores, according with the percentage of body surface with alopecia due to self-mutilation. It was found a positive correlation of high intensity between the scores of alopecia due to the observed mutilation and the average concentrations of fecal metabolites of glucocorticoids. This result strongly suggests that this measurement of self-mutilation in a chimpanzee can be used as an important auxiliary tool to evaluate de conditions of adaptation of an animal in captivity, functioning as a direct indicator of the presence of chronic stress.A influência do estresse de um ambiente nas variáveis endócrino-comportamentais de primatas vem sendo cada vez mais estudada por diversos autores, e mostram que comportamentos anormais associados a aumentos de glicocorticóides podem estar diretamente relacionados ao comprometimento do bem-estar. Neste trabalho foram utilizados 22 chimpanzés (Pan troglodytes) adultos, sendo 11 machos e 11 fêmeas mantidos em cativeiro de três instituições diferentes. Todos os animais tiveram seus comportamentos registrados pelo método de amostragem focal por intervalo de tempo, durante seis meses, totalizando 4800 registros para cada animal. Amostras fecais foram coletadas três vezes por semana, durante este período, para extração e dosagem de metabólitos fecais de glicocorticoides por radioimunoensaio. Os comportamentos estereotipados representaram 13,45+2,76% do total observado, sendo que dentre estes comportamentos a automutilação representou 38,28+3,98%. Os animais foram classificados em três graus diferentes, de acordo com o percentual da superfície corpórea com alopecia decorrente da automutilação. Foi encontrada uma correlação positiva de intensidade forte entre os graus de alopecia decorrentes de mutilação observados e as médias de concentrações de metabólitos fecais de glicocorticoides. Este resultado sugere fortemente que esta graduação de automutilação de um chimpanzé possa ser utilizada como uma ferramenta auxiliar importante nas avaliações das condições de adaptação do animal ao cativeiro, atuando como um indicador indireto da presença de estresse crônico.Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP

Epidemiologia da leptospirose no Zoológico de Sorocaba, Estado de São Paulo, Sudeste do Brasil

A leptospirose é considerada uma zoonose de distribuição mundial, causada por bactérias do gênero Leptospira spp. Uma vez que muitas espécies de animais selvagens são consideradas como reservatórios, o objetivo do presente estudo foi conhecer a epidemiologia da leptospirose no Zoológico de Sorocaba, sudeste do Brasil. Amostras de soro de mamíferos selvagens cativos das ordens Artiodactyla, Carnivora, Didelphimorphia, Diprotodontia, Perissodactyla, Pilosa, Primates, Proboscidea e Rodentia, assim como dos funcionários do zoo foram analisados pela soroaglutinação microscópica (SAM). Sangue total, urina e amostras de tecidos dos animais selvagens e sinantrópicos foram analisados pela reação em cadeia pela polimerase (PCR). Um questionário epidemiológico foi aplicado para se avaliar os fatores de risco de infecção por leptospira dos animais e também para avaliar o grau de conhecimento dos funcionários do parque sobre a leptospirose. Um total de 13/229 (5,68%; CI95% 3.37-9.47%) amostras de soro dos mamíferos selvagens foram reagentes na SAM. A sorologia dos animais sinantrópicos, funcionários do zoológico e a análise molecular lograram-se negativas. O conhecimento dos funcionários sobre a leptospirose foi considerado médio. em conclusão, a infecção leptospírica ocorre no parque zoológico estudado, porém devido à baixa ocorrência encontrada, a menor descrita na literatura, os mamíferos cativos não desempenham um papel de fonte de infecção para outros animais e para o homem.Leptospirosis is considered a worldwide distributed zoonosis, caused by the bacteria Leptospira spp. Since several species of wildlife animals are reportedly reservoirs, the aim of the present study was to know the epidemiology of leptospirosis at the Sorocaba Zoo, Southern Brazil. Serum samples of wild mammals from Artiodactyla, Carnivora, Didelphimorphia, Diprotodontia, Perissodactyla, Pilosa, Primates, Proboscidea and Rodentia orders, kept in captivity as well as from zoological staff were assayed by microscopic agglutination test (MAT). Whole blood, urine and tissue samples from wild mammals and synanthropic animals were assayed by polymerase chain reaction (PCR). An epidemiological survey was applied to evaluate the risk factors for animal infection and staff level of knowledge on leptospirosis. A total of 13/229 (5.68%; CI95% 3.37-9.47%) serum samples from wild mammals were reagent on MAT. Serology from synanthropic animals, zoo staff and molecular analysis of animal samples were all negative. Leptospirosis knowledge of zoo park staff was considered medium. In conclusion, leptospiral infection occurs at the studied zoo but due to the low occurrence found, the lowest reported in literature, wild captive mammals do not act as source of infection of leptospirosis to other animals and human beings

Hematologic and Plasma Biochemical Values of Hyacinth Macaws (Anodorhynchus hyacinthinus)

The hyacinth macaw (Anodorhyncus hyacinthinus), considered the largest psittacine bird species in the world, is an endangered species, with a remaining population of approximately 6500 birds in the wild. To establish hematologic and plasma biochemical reference ranges and to verify differences related to sex, samples from 29 hyacinth macaws (14 males. 15 females) were obtained from birds apprehended from illegal wildlife trade and subsequently housed at the Sorocaba Zoo, Brazil. No significant differences in hematologic or plasma biochemical values were found between females and males. Compared with published reference values, differences were found in mean concentrations of total red blood cell count, corpuscular volume, corpuscular hemoglobin level, total white blood cell count, aspartate aminotransferase level, creatine kinase concentration, alkaline phosphatase concentration, and phosphorus level. Baseline hematologic and plasma biochemical ranges were established, which may be useful as reference values for clinicians working with this endangered species in captivity or rehabilitation centers.Fundacao de Amparo a Pesquisa do Estado de Sao PauloFundacao de Amparo a Pesquisa do Estado de Sao PauloConselho Nacional de Desenvolvimento Cientifico e Tecnologico, Lago Sul-Brasilia-DF-BrazilConselho Nacional de Desenvolvimento Cientifico e Tecnologico, Lago SulBrasiliaDFBrazi

TAM and CD44 in medullary thyroid carcinoma

Universidade Federal de São Paulo, São Paulo, BrazilHosp Amaral Carvalho, Jau, BrazilUniversidade Federal de São Paulo, São Paulo, BrazilWeb of Scienc

Genome-wide signatures of complex introgression and adaptive evolution in the big cats.

The great cats of the genus Panthera comprise a recent radiation whose evolutionary history is poorly understood. Their rapid diversification poses challenges to resolving their phylogeny while offering opportunities to investigate the historical dynamics of adaptive divergence. We report the sequence, de novo assembly, and annotation of the jaguar (Panthera onca) genome, a novel genome sequence for the leopard (Panthera pardus), and comparative analyses encompassing all living Panthera species. Demographic reconstructions indicated that all of these species have experienced variable episodes of population decline during the Pleistocene, ultimately leading to small effective sizes in present-day genomes. We observed pervasive genealogical discordance across Panthera genomes, caused by both incomplete lineage sorting and complex patterns of historical interspecific hybridization. We identified multiple signatures of species-specific positive selection, affecting genes involved in craniofacial and limb development, protein metabolism, hypoxia, reproduction, pigmentation, and sensory perception. There was remarkable concordance in pathways enriched in genomic segments implicated in interspecies introgression and in positive selection, suggesting that these processes were connected. We tested this hypothesis by developing exome capture probes targeting ~19,000 Panthera genes and applying them to 30 wild-caught jaguars. We found at least two genes (DOCK3 and COL4A5, both related to optic nerve development) bearing significant signatures of interspecies introgression and within-species positive selection. These findings indicate that post-speciation admixture has contributed genetic material that facilitated the adaptive evolution of big cat lineages

NEOTROPICAL CARNIVORES: a data set on carnivore distribution in the Neotropics

Mammalian carnivores are considered a key group in maintaining ecological health and can indicate potential ecological integrity in landscapes where they occur. Carnivores also hold high conservation value and their habitat requirements can guide management and conservation plans. The order Carnivora has 84 species from 8 families in the Neotropical region: Canidae; Felidae; Mephitidae; Mustelidae; Otariidae; Phocidae; Procyonidae; and Ursidae. Herein, we include published and unpublished data on native terrestrial Neotropical carnivores (Canidae; Felidae; Mephitidae; Mustelidae; Procyonidae; and Ursidae). NEOTROPICAL CARNIVORES is a publicly available data set that includes 99,605 data entries from 35,511 unique georeferenced coordinates. Detection/non-detection and quantitative data were obtained from 1818 to 2018 by researchers, governmental agencies, non-governmental organizations, and private consultants. Data were collected using several methods including camera trapping, museum collections, roadkill, line transect, and opportunistic records. Literature (peer-reviewed and grey literature) from Portuguese, Spanish and English were incorporated in this compilation. Most of the data set consists of detection data entries (n = 79,343; 79.7%) but also includes non-detection data (n = 20,262; 20.3%). Of those, 43.3% also include count data (n = 43,151). The information available in NEOTROPICAL CARNIVORES will contribute to macroecological, ecological, and conservation questions in multiple spatio-temporal perspectives. As carnivores play key roles in trophic interactions, a better understanding of their distribution and habitat requirements are essential to establish conservation management plans and safeguard the future ecological health of Neotropical ecosystems. Our data paper, combined with other large-scale data sets, has great potential to clarify species distribution and related ecological processes within the Neotropics. There are no copyright restrictions and no restriction for using data from this data paper, as long as the data paper is cited as the source of the information used. We also request that users inform us of how they intend to use the data