Discovery of novel anelloviruses in small mammals expands the host range and diversity of the Anelloviridae

The Anelloviridae comprises single-stranded DNA viruses currently grouped in sixty-eight species classified in twelve genera. They have been found in many vertebrate hosts including primates. In this study, we describe the application of the high-throughput sequencing to examine the frequency and diversity of anelloviruses in rodents, bats and opossums captured in São Paulo State, Brazil. We report a total of twenty-six anelloviruses with sixteen nearly complete genomes and ten partial genomes, which include eleven potential novel species identified in rodents (Cricetidae), bats (Molossidae and Phyllostomidae), and opossums (Didelphidae). We also propose the inclusion of two potential new genera within the Anelloviridae family, provisionally named Omegatorquevirus and Sigmatorquevirus, including six and three novel species of anelloviruses, respectively. In summary, this study expands the diversity and the host range of the known anelloviruses

Remoção de capivaras (Hydrochoerus hydrochaeris) como ação para controle da população de carrapatos Amblyomma e redução do risco de transmissão da Febre Maculosa Brasileira em um Condomínio Residencial em Bragança Paulista (SP, Brasil) – Estudo de Caso

Este estudo relata os fatores que levaram um Residencial localizado em Bragança Paulista (SP, Brasil), área não-endêmica para Febre Maculosa Brasileira (FMB), a ser classificado como Área de Risco para a doença, mostrando que uma crescente população residente de capivaras (Hydrochoerus hydrochaeris) na área era a provável responsável por uma proliferação de carrapatos Amblyomma sculptum e estava atuando como hospedeiro amplificador da bactéria Rickettsia rickettsii, principal agente etiológico da FMB. Relatamos as ações de manejo ambiental propostas para controlar a quantidade de carrapatos no local e reduzir o risco de transmissão da doença, incluindo medidas para o controle de populações de carrapatos parasíticas e no ambiente e a eliminação da população residente de capivaras. Análises de dados populacionais de carrapatos e testes serológicos para R. rickettsii indicaram que as medidas tomadas foram efetivas, causando grande redução da população de carrapatos no ambiente e reduzindo o risco de transmissão de FMB na área.This study reports the factors which led a gated community located in Bragança Paulista (SP, Brazil), a non-endemic area for Brazilian Spotted Fever (BSF), to be classified as a Risk Area for transmission of this disease, showing that an increasing resident population of capybaras (Hydrochoerus hydrochaeris) in the area was likely responsible for a proliferation of Amblyomma sculptum ticks and acted as an amplifying host for Rickettsia rickettsii, the main etiologic agent of BSF. We report management actions proposed to control the local tick burden and reduce BSF risk, including measures to control parasitic and free-living tick populations and exclusion of the resident capybara population. Analyses of tick population data and R. rickettsii serology tests indicate that these measures were effective, greatly reducing the environmental burden of Amblyomma sculptum ticks and reducing the BSF transmission risk at the area

Survey of Leishmania sp in sandflies and mammals in forest fragments in the Pontal of Paranapanema region, SP

As alterações ambientais antrópicas são os principais fatores de emergência ou reemergência de doenças infecciosas. A leishmaniose cutânea é uma doença que está relacionada, em caráter epidêmico, com episódios de desmatamento. No entanto, o caráter endêmico da doença ocorre quando o homem se encontra próximo de áreas florestais já colonizadas. O Pontal do Paranapanema é uma área onde ocorreu intenso desmatamento e a mata nativa remanescente está representada pelo Parque Estadual Morro do Diabo e alguns fragmentos florestais. Casos de leishmaniose cutânea em humanos são comuns na região, principalmente em áreas marginais de floresta. O objetivo deste trabalho foi realizar um levantamento da fauna flebotomínica e de mamíferos silvestres potencialmente reservatórios no Parque Estadual Morro do Diabo e alguns fragmentos da região, buscando avaliar se o tamanho do fragmento tem influência na ocorrência das espécies e na freqüência de Leishmania sp, através da técnica da PCR. Foram capturadas 26 espécies de flebótomos e sete espécies de mamíferos silvestres. O gênero Brumptomyia foi predominante em quase todas as áreas florestais, com exceção da borda do Parque, que apresentou dominância de Nyssomyia neivai. Os resultados das análises da PCR demonstraram quatro espécies de mamíferos portadores de Leishmania sp, Akodon cursor, Dasyprocta azarae, Didelphis albiventris e Oligoryzomys sp. As amostras de pools de flebotomíneos apresentaram resultados negativos. Não foi observada diferença significativa na freqüência de mamíferos infectados em relação ao tamanho da área florestal.Anthropogenic environmental changes are the main factors of emergence or reemergence of infectious diseases. Cutaneous leishmaniasis is a disease that is related, in an epidemic form, with episodes of deforestation. However, the endemicity of the disease occurs when the man is close to forest areas already colonized. The Pontal of Paranapanema is an area where massive deforestation has occurred and the remaining native forest is represented by the Morro do Diabo State Park and a few forest fragments. Cases of cutaneous leishmaniasis in humans are common in the region, especially in marginal areas of forest. The aim of this study was a survey of sand flies and mammals potentially reservoirs, in Morro do Diabo State Park and some fragments of the region, seeking to assess whether the fragment size has an influence on species occurrence and frequency of Leishmania, through the PCR technique. We captured 26 species of sandflies and seven species of wild mammals. The genus Brumptomyia was prevalent in almost all forest areas, except the edge of the park, which showed dominance of Nyssomyia neivai. The results of PCR analysis revealed four species of mammals suffering from Leishmania, Akodon cursor, Dasyprocta azarae, Didelphis albiventris and Oligoryzomys sp. Samples of sandfly pools tested negative. There was no significant difference in the frequency of infected mammals in relation to the size of the forest

Survey of Leishmania sp in sandflies and mammals in forest fragments in the Pontal of Paranapanema region, SP

As alterações ambientais antrópicas são os principais fatores de emergência ou reemergência de doenças infecciosas. A leishmaniose cutânea é uma doença que está relacionada, em caráter epidêmico, com episódios de desmatamento. No entanto, o caráter endêmico da doença ocorre quando o homem se encontra próximo de áreas florestais já colonizadas. O Pontal do Paranapanema é uma área onde ocorreu intenso desmatamento e a mata nativa remanescente está representada pelo Parque Estadual Morro do Diabo e alguns fragmentos florestais. Casos de leishmaniose cutânea em humanos são comuns na região, principalmente em áreas marginais de floresta. O objetivo deste trabalho foi realizar um levantamento da fauna flebotomínica e de mamíferos silvestres potencialmente reservatórios no Parque Estadual Morro do Diabo e alguns fragmentos da região, buscando avaliar se o tamanho do fragmento tem influência na ocorrência das espécies e na freqüência de Leishmania sp, através da técnica da PCR. Foram capturadas 26 espécies de flebótomos e sete espécies de mamíferos silvestres. O gênero Brumptomyia foi predominante em quase todas as áreas florestais, com exceção da borda do Parque, que apresentou dominância de Nyssomyia neivai. Os resultados das análises da PCR demonstraram quatro espécies de mamíferos portadores de Leishmania sp, Akodon cursor, Dasyprocta azarae, Didelphis albiventris e Oligoryzomys sp. As amostras de pools de flebotomíneos apresentaram resultados negativos. Não foi observada diferença significativa na freqüência de mamíferos infectados em relação ao tamanho da área florestal.Anthropogenic environmental changes are the main factors of emergence or reemergence of infectious diseases. Cutaneous leishmaniasis is a disease that is related, in an epidemic form, with episodes of deforestation. However, the endemicity of the disease occurs when the man is close to forest areas already colonized. The Pontal of Paranapanema is an area where massive deforestation has occurred and the remaining native forest is represented by the Morro do Diabo State Park and a few forest fragments. Cases of cutaneous leishmaniasis in humans are common in the region, especially in marginal areas of forest. The aim of this study was a survey of sand flies and mammals potentially reservoirs, in Morro do Diabo State Park and some fragments of the region, seeking to assess whether the fragment size has an influence on species occurrence and frequency of Leishmania, through the PCR technique. We captured 26 species of sandflies and seven species of wild mammals. The genus Brumptomyia was prevalent in almost all forest areas, except the edge of the park, which showed dominance of Nyssomyia neivai. The results of PCR analysis revealed four species of mammals suffering from Leishmania, Akodon cursor, Dasyprocta azarae, Didelphis albiventris and Oligoryzomys sp. Samples of sandfly pools tested negative. There was no significant difference in the frequency of infected mammals in relation to the size of the forest

Loss of genetic diversity and isolation by distance and by environment in populations of a keystone ungulate species

Adaptive genetic and neutral variations are essential for maintaining population viability in changing environmental conditions. Habitat loss and fragmentation can be reflected in the patterns of genetic variation in the populations. White-lipped peccaries (WLPs, Tayassu pecari) are wide-ranging Neotropical ungulates with important ecological roles in the ecosystem suffering local extinctions worldwide. Here, we used a RAD-seq protocol to genotype 192 individuals. After filtering, we identified sets of SNP markers (ranging from 147 to 151,792 SNPs) to assess the genetic diversity and population structure of WLPs from Pantanal, Cerrado, and Atlantic Forest in Brazil. We found signals of loss (θw < θπ) and lower genetic diversity (allelic richness, nucleotide diversity, and observed and expected heterozygosities) in the Central Cerrado and Atlantic Forest populations. Principal Component Analysis (PCA) and admixture analyses (NGSAdmix) using genome-wide and neutral SNP data sets showed three major genetic clusters according to the biomes. Multiple matrix regression with randomization (MMRR) analysis found an isolation-by-distance pattern explaining the neutral genetic differentiation. We used Latent Factor Mixed Models (LFMM) and Redundancy Analysis (RDA) to identify candidate SNPs involved in different biological processes, such as metabolism and immune and neuronal responses, mainly associated with temperature and precipitation variables. We found an adaptive population genetic structure, suggesting three adaptive units with significant patterns of isolation-by-distance and isolation-by-environment. Our results highlighted the importance of conservation strategies for maintaining the genetic diversity of WLP populations. Furthermore, conservation plans and translocation programs should preserve and consider the adaptive variation.This work was funded by FAPESP (Grant number 2015/20133-0), CNPq (Grant number 479760/2012-8), Fundação Manoel Barros, Pantanal and Cerrado ranchers, and Earthwatch Institute volunteers. Author F.G.M. has received support from CAPES (Grant numbers PhD – Funding code 001 and PDSE – 88881.134372/2016-01)

Edwardsiella tarda outbreak affecting fishes and aquatic birds in Brazil

Background: Edwardsiella tarda infections are frequent causes of severe outbreaks in the fish farming industry besides representing possible zoonotic risks. However, naturally occurring outbreaks that affect various species besides fishes are seldom described. Aim: To report an outbreak of acute mortality caused by E. tarda affecting multiple species that inhabited a natural pond in the state of São Paulo, Brazil. Materials and methods: Three adult tilapias, three Mallard ducks and one Snow egret were necropsied and subjected to further microbiological tests. Gross and microscopic lesions were documented. The antibiotic susceptibility and phylogenetic similarities among fish and avian strains were also determined. The E. tarda species was confirmed through MALDI-TOF, partial sodB sequencing and phylogenetic analysis. Results: Macroscopical findings between the three species included intestinal dilatation, mucosal hyperaemia and mucous to liquid contents. Common histopathology findings included acute enteritis, increased number of intraepithelial lymphocytes with bacteria adhered to the intestinal epithelium and lymphoid depletion in the spleen. E. tarda was isolated from several organs from all affected species. The phylogeny employing amplified fragment length polymorphism (AFLP) of eleven strains revealed high similarity (>90%) among the isolates regardless of the affected species or sampled organs. Ten isolates of E. tarda showed susceptibility to all tested antibiotics. Conclusions: E. tarda was identified as the cause of death of the species examined. Further studies would be necessary to determine the virulence of these strains and the possible risks regarding public health

Serological Survey of Hantavirus in Inhabitants from Tropical and Subtropical Areas of Brazil

Brazil has reported more than 1,600 cases of hantavirus cardiopulmonary syndrome (HPS) since 1993, with a 39% rate of reported fatalities. Using a recombinant nucleocapsid protein of Araraquara virus, we performed ELISA to detect IgG antibodies against hantavirus in human sera. The aim of this study was to analyze hantavirus antibody levels in inhabitants from a tropical area (Amazon region) in Rondônia state and a subtropical (Atlantic Rain Forest) region in São Paulo state, Brazil. A total of 1,310 serum samples were obtained between 2003 and 2008 and tested by IgG-ELISA, and 82 samples (6.2%), of which 62 were from the tropical area (5.8%) and 20 from the subtropical area (8.3%), tested positive. Higher levels of hantavirus antibody were observed in inhabitants of the populous subtropical areas compared with those from the tropical areas in Brazil