The PREDICTS project—Projecting Responses of Ecological Diversity In Changing Terrestrial Systems (www.predicts.org.uk)—has collated from published studies a large, reasonably representative database of comparable samples of biodiversity from multiple sites that differ in the nature or intensity of human impacts relating to land use. We have used this evidence base to develop global and regional statistical models of how local biodiversity responds to these measures. We describe and make freely available this 2016 release of the database, containing more than 3.2 million records sampled at over 26,000 locations and representing over 47,000 species. We outline how the database can help in answering a range of questions in ecology and conservation biology. To our knowledge, this is the largest and most geographically and taxonomically representative database of spatial comparisons of biodiversity that has been collated to date; it will be useful to researchers and international efforts wishing to model and understand the global status of biodiversity.

Yellow fever (YF) is an acute viral disease, affecting humans and non-human primates (NHP), caused by the yellow fever virus (YFV). Despite the existence of a safe vaccine, YF continues to cause morbidity and mortality in thousands of people in Africa and South America. Since 2016, massive YF outbreaks have taken place in Brazil, reaching YF-free zones, causing thousands of deaths of humans and NHP. Here we reviewed the main epidemiological aspects, new clinical findings in humans, and issues regarding YFV infection in vectors and NHP in Brazil. The 2016-2019 YF epidemics have been considered the most significant outbreaks of the last 70 years in the country, and the number of human cases was 2.8 times higher than total cases in the previous 36 years. A new YFV lineage was associated with the recent outbreaks, with persistent circulation in Southeast Brazil until 2019. Due to the high number of infected patients, it was possible to evaluate severity and death predictors and new clinical features of YF. Haemagogus janthinomys and Haemagogus leucocelaenus were considered the primary vectors during the outbreaks, and no human case suggested the occurrence of the urban transmission cycle. YFV was detected in a variety of NHP specimens presenting viscerotropic disease, similar to that described experimentally. Further studies regarding NHP sensitivity to YFV, YF pathogenesis, and the duration of the immune response in NHP could contribute to YF surveillance, control, and future strategies for NHP conservation.

Novel members of the subfamily Gammaherpesvirinae, hosted by eight mammalian species from six orders (Primates, Artiodactyla, Perissodactyla, Carnivora, Scandentia, and Eulipotyphla), were discovered using PCR with pan-herpesvirus DNA polymerase (DPOL) gene primers and genus-specific glycoprotein B (gB) gene primers. The gB and DPOL sequences of each virus species were connected by long-distance PCR, and contiguous sequences of approximately 3.4 kbp were compiled. Six additional gammaherpesviruses from four mammalian host orders (Artiodactyla, Perissodactyla, Primates, and Proboscidea), for which only short DPOL sequences were known, were analyzed in the same manner. Together with available corresponding sequences for 31 other gammaherpesviruses, alignments of encoded amino acid sequences were made and used for phylogenetic analyses by maximum-likelihood and Bayesian Monte Carlo Markov chain methods to derive a tree which contained two major loci of unresolved branching details. The tree was rooted by parallel analyses that included alpha-and betaherpesvirus sequences. This gammaherpesvirus tree contains 11 major lineages and presents the widest view to date of phylogenetic relationships in any subfamily of the Herpesviridae, as well as the most complex in the number of deep lineages. The tree's branching pattern can be interpreted only in part in terms of the cospeciation of virus and host lineages, and a substantial incidence of the interspecies transfer of viruses must also be invoked.PCR assays with degenerate primers have been used for over a decade for the amplification of unknown herpesvirus DNA polymerase (DPOL) gene sequences. These methods have the potential to detect virtually every mammalian, avian, or reptilian herpesvirus (7, 31). In fact, more than 100 novel herpesviruses have been discovered with the help of such universal PCR methods (4, 5, 8-11, 14, 17, 19, 27, 28, 33), and new phylogenetic herpesvirus lineages within the Alphaherpesvirinae, Betaherpesvirinae, and Gammaherpesvirinae subfamilies of the Herpesviridae have emerged (21-24). In addition, previous studies with great apes revealed evidence for two lymphocryptovirus (LCV) lineages and two rhadinovirus (RHV) lineages in the Lymphocryptovirus and Rhadinovirus genera of the Gammaherpesvirinae, leading to speculations that a second human LCV related to EpsteinBarr virus (9) and a second human RHV related to human herpesvirus 8 (HHV-8) (14) may exist.Despite the tremendous accumulation of knowledge on the existence of hitherto unknown herpesviruses, only limited sequence information (i.e., a few hundred base pairs) became available in most of the cases. This information is sufficient to assess whether a virus is already known or novel and allows for assignment to a herpesvirus subfamily. However, a more precise phylogenetic analysis is often not possible, and more extensive sequence data are therefore desirable.In the present study, we wanted to further extend insight into gammaherpesvirus (GHV) evolution by analyzing mammalian hosts from d...

Statistical and spatial analyses of both historical time series and remotely sensed data show a link between the spatial distribution and growth of gold production across the Guiana Shield in northeast Amazonia. Results indicate that an exponential rise in production across an expanding area is primarily a delayed response to the 1971-1978 market flotation of international gold prices. The subsequent 10-fold (2-fold) average nominal (real) price increase has provided a compelling economic incentive to mass exploitation of lower-grade gold deposits. The ground-based and remotely sensed distributions of mining activity are strongly attached to these deposits that dominate the region's gold geology. The presence of these gold-bearing formations in conservation and sustainable timber zones has sparked social conflict and environmental degradation across the region. Left unmanaged, more than a quarter-million square-kilometer area of tropical forest zoned for protection and sustainable management could ultimately be compromised by the price-driven boom in gold mining through poorly integrated resource use planning, lack of reclamation effort, and control of illegal operations. Serious public health issues propagated through the unregulated mining environment further erode the financial benefits achieved through gold extraction. This study demonstrates in part how international economic policies successfully stabilizing more conspicuous centers of the global economy can have unintended but profound environmental and social impacts on remote commodity frontiers.

Monkey blood samples were collected from 214 monkeys relocated as part of the wildlife rescue organized in French Guiana during the filling of the Petit Saut Dam on the Sinnamary River. These samples were tested for malaria parasites by microscopy of thick blood filsm and by nested PCR for small subunit rRNA genes (SSUrRNA). Parasitic blood forms similar to Plasmodium brasilianum were detected in 4 monkey species: Alouatta seniculus macconnelli, Saguinus midas midas, Pithecia pithecia and Ateles paniscus paniscus, with the highest prevalence in Alouatta monkeys. PCR was more sensitive than the conventional method for detecting low-grade parasitaemia in positive monkeys. The examination of blood films indicated that 5.6% of the animals carried parasites whereas the nested PCR for ribosomal DNA indicated a prevalence of 11.3%. The P. brasilianum SSUrRNA gene sequence was analysed and aligned with those from P. malariae, P. falciparum and P. vivax. This suggested that P. brasilianum and P. malariae are very closely related. Similar results were obtained from analysis of the sequences in P. malariae and P. brasilianum isolates of a polymorphic gene fragment analogous to the merozoite surface protein-1 (MSP-1) gene of P. falciparum. The P. brasilianum/P. malariae sequences were more similar to those of P. vivax than to those of P. falciparum, at least in the gene region examined. The high degree of DNA homology in the sequences of the SSUrRNA and msp1-like genes is consistent with other characterizations demonstrating a taxonomic relationship between P. brasilianum and P. malariae species. Our results provide further evidence that P. brasilianum and P. malariae are virtually identical and should probably be considered to be a single malaria species. This raises the question as to whether monkeys living in the rainforest are natural reservoirs for both simian and human malaria. These results have implications for the interpretation of the current epidemiological situation in French Guiana.