scholarly journals Genomic Surveillance of Yellow Fever Virus Epizootic in São Paulo, Brazil, 2016 – 2018

2019 ◽  
Author(s):  
S. C. Hill ◽  
R. P. de Souza ◽  
J. Thézé ◽  
I. Claro ◽  
R. S. Aguiar ◽  
...  

AbstractSão Paulo (SP), a densely inhabited state in southeast Brazil that contains the fourth most populated city in the world, recently experienced its largest yellow fever virus (YFV) outbreak in decades. YFV does not normally circulate extensively in SP, so most people were unvaccinated when the outbreak began. Surveillance in non-human primates (NHPs) is important for determining the magnitude and geographic extent of an epizootic, thereby helping to evaluate the risk of YFV spillover to humans. Data from infected NHPs can give more accurate insights into YFV spread than when using data from human cases alone. To contextualise human cases, identify epizootic foci and uncover the rate and direction of YFV spread in SP, we generated and analysed virus genomic data and epizootic case data from NHP in SP. We report the occurrence of three spatiotemporally distinct phases of the outbreak in SP prior to February 2018. We generated 51 new virus genomes from YFV positive cases identified in 23 different municipalities in SP, mostly sampled from non-human primates between October 2016 and January 2018. Although we observe substantial heterogeneity in lineage dispersal velocities between phylogenetic branches, continuous phylogeographic analyses of generated YFV genomes suggest that YFV lineages spread in São Paulo state at a mean rate of approximately 1km per day during all phases of the outbreak. Viral lineages from the first epizootic phase in northern São Paulo subsequently dispersed towards the south of the state to cause the second and third epizootic phases there. This alters our understanding of how YFV was introduced into the densely populated south of SP state. Our results shed light on the sylvatic transmission of yellow fever in highly fragmented forested regions in SP state and highlight the importance of continued surveillance of zoonotic pathogens in sentinel species.Author’s SummarySince July 2016, the southeast region of Brazil has experienced the largest yellow fever virus (YFV) outbreak in decades. São Paulo is the most densely populated state in southeast Brazil. The outbreak has caused serious public health concern in the state, as YFV does not normally circulate widely there and most of the 21 million inhabitants were correspondingly unvaccinated against YFV when the outbreak began. In Brazil, YFV typically circulates among non-human primates, and human cases represent isolated spillover events from this predominantly sylvatic cycle. Understanding the epidemiological dynamics and spread of YFV in non-human primates is therefore critical for contextualising human cases, and guiding vaccination strategies that can better protect local human populations. Here, we aim to contextualise human cases, identify epizootic foci and uncover the rate and direction of YFV spread in SP. We analyse the geographic and temporal distribution of observed cases of YFV in non-human primates in São Paulo state, and identify three distinct phases of the epizootic. We generate sequence data from 51 YFV-positive cases and perform phylogenetic and phylogeographic analyses aimed at understanding the spatial spread of YFV in São Paulo state. Analyses of these data indicate that YFV spread from the north of São Paulo state into more densely populated southern regions. Although we observe substantial heterogeneity in the rate at which different sampled YFV lineages spread, the typical rate of spread was low with a mean rate of ~1 km per day. This is consistent with a scenario in which the majority of transmission events occurred between non-human primates and sylvatic vectors across forested patches.Article Summary LineGenomic surveillance of yellow fever in São Paulo during the 2016-2018 epizootic

2011 ◽  
Vol 53 (3) ◽  
pp. 133-139 ◽  
Author(s):  
Renato Pereira de Souza ◽  
Selma Petrella ◽  
Terezinha Lisieux Moraes Coimbra ◽  
Adriana Yurika Maeda ◽  
Iray Maria Rocco ◽  
...  

After detecting the death of Howlers monkeys (genus Alouatta) and isolation of yellow fever virus (YFV) in Buri county, São Paulo, Brazil, an entomological research study in the field was started. A YFV strain was isolated from newborn Swiss mice and cultured cells of Aedes albopictus - C6/36, from a pool of six Haemagogus (Conopostegus) leucocelaenus (Hg. leucocelaenus) mosquitoes (Dyar & Shannon) collected at the study site. Virus RNA fragment was amplified by RT-PCR and sequenced. The MCC Tree generated showed that the isolated strain is related to the South American I genotype, in a monophyletic clade containing isolates from recent 2008-2010 epidemics and epizootics in Brazil. Statistical analysis commonly used were calculated to characterize the sample in relation to diversity and dominance and indicated a pattern of dominance of one or a few species. Hg. leucocelaenus was found infected in Rio Grande do Sul State as well. In São Paulo State, this is the first detection of YFV in Hg. leucocelaenus.


2021 ◽  
Vol 10 (1) ◽  
Author(s):  
Márcio Junio Lima Siconelli ◽  
Daniel Macedo de Melo Jorge ◽  
Luiza Antunes de Castro-Jorge ◽  
Benedito Antonio Lopes da Fonseca

ABSTRACT We report a coding-complete sequence of a yellow fever virus, strain JabSPM02, containing the 3′ untranslated region and all coding regions. The virus was recovered from an infected howler monkey from a rural area in São Paulo State, Brazil. Our findings show that it belongs to the South America 1E genotype.


2019 ◽  
Vol 9 (1) ◽  
Author(s):  
Mariana Sequetin Cunha ◽  
Antonio Charlys da Costa ◽  
Natália Coelho Couto de Azevedo Fernandes ◽  
Juliana Mariotti Guerra ◽  
Fabiana Cristina Pereira dos Santos ◽  
...  

Author(s):  
Eduardo Stramandinoli Moreno ◽  
Roberta Spinola ◽  
Cilea Hatsumi Tengan ◽  
Roosecelis Araujo Brasil ◽  
Melissa Mascheratti Siciliano ◽  
...  

Since 2000, the expansion of Sylvatic Yellow Fever (YF) has been observed in the southeast of Brazil, being detected in areas considered silent for decades. Epizootics in non-human primates (NHPs) are considered sentinel events for the detection of human cases. It is important to report epizootic events that could have impact on the conservation status of susceptible species. We describe the epizootics in NHPs, notified in state of São Paulo, Brazil, between September 2008 to August 2009. Ninety-one epizootic events, involving 147 animals, were reported in 36 counties. Samples were obtained from 65 animals (44.2%). Most of the epizootics (46.6%) were reported between March and April, the same period during which human cases of YF occurred in the state. Biological samples were collected from animals found dead and were sent to Instituto Adolfo Lutz, in São Paulo. Two samples, collected in two counties without an indication for YF vaccination, were positive for the virus. Another 48 animals were associated with YF by clinical-epidemiological linkage with laboratory confirmed cases. Because the disease in human and NHPs occurred in the same period, the detection of the virus in NHPs did not work as sentinel, but aided in the delineation of new areas of risk.


2021 ◽  
Author(s):  
Ramon Wilk-da-Silva ◽  
Antônio Ralph Medeiros-Sousa ◽  
Gabriel Zorello Laporta ◽  
Luis Filipe Mucci ◽  
Paula Ribeiro Prist ◽  
...  

2005 ◽  
Vol 21 (4) ◽  
pp. 1278-1286 ◽  
Author(s):  
Vera L. F. de Camargo-Neves ◽  
Daniela W. Poletto ◽  
Lílian A. C. Rodas ◽  
Márcio L. Pachioli ◽  
Rubens P. Cardoso ◽  
...  

Following reports of two autochthonous cases of sylvatic yellow fever in the State of São Paulo, Brazil, in 2000, entomological surveys were conducted with the objective of verifying the occurrence of vector species in forest environments close to or associated with riparian areas located in the western and northwestern regions of the State. Culicidae were captured in 39 sites distributed in four regions. Haemagogus leucocelaenus and Aedes albopictus were the most abundant species and were captured in all the regions studied. H. leucocelaenus was the most abundant species in the municipalities of Santa Albertina and Ouroeste, where the two cases of sylvatic yellow fever had been reported. Mosquitoes from the janthinomys/capricornii group were only found at eight sites in the São José do Rio Preto region, while Sabethes chloropterus was found at one site in Ribeirão Preto. H. leucocelaenus showed its capacity to adapt to a secondary and degraded environment. Our results indicate a wide receptive area for yellow fever transmission in the State of São Paulo, with particular emphasis on the possibility of H. leucocelaenus being involved in the maintenance of this sylvatic focus of the disease.


Geoheritage ◽  
2018 ◽  
Vol 11 (3) ◽  
pp. 783-792 ◽  
Author(s):  
Ana Rita Rodrigues Ferreira ◽  
Heros Augusto Santos Lobo ◽  
José Alexandre de Jesus Perinotto

Check List ◽  
2006 ◽  
Vol 2 (1) ◽  
pp. 57 ◽  
Author(s):  
Leandro Muller Gomiero ◽  
Francisco Manoel de Souza Braga

Fish were studied in two river basins (Corumbataí and Jacaré-Pepira) subjected to strong human pressure, in the interior of the State of São Paulo, southeastern Brazil. In the Corumbataí basin, four sites were sampled: Cabeça river, Lapa stream, Passa-Cinco river, and Corumbataí river; in the Jacaré-Pepira basin, three sites were sampled: Tamanduá stream, Jacaré-Pepira river, and Água Branca stream. A total of 4,050 specimens belonging to 48 species and 13 families were caught and analyzed. 


2009 ◽  
Vol 9 (4) ◽  
pp. 197-209 ◽  
Author(s):  
Olívia Gabriela dos Santos Araújo ◽  
Luís Felipe Toledo ◽  
Paulo Christiano Anchietta Garcia ◽  
Célio Fernando Baptista Haddad

The State of São Paulo is one of the most studied regions of Brazil in regard to amphibian species richness and distribution. However, we still do not have a list of species for the State. Therefore, we present here a list including 231 species of amphibians (225 anurans and six caecilians), of which 27 are endemic. We present data about previous and current taxonomists and speculate about future prospects in the study and conservation of amphibian biodiversity in São Paulo State.


2011 ◽  
Vol 53 (6) ◽  
pp. 335-339 ◽  
Author(s):  
Eduardo Stramandinoli Moreno ◽  
Rita de Cássia Barradas Barata

Until 1999 the endemic cases of Sylvatic Yellow Fever were located in the states of northern, midwestern and pre-Amazon regions. Since then, the disease progressively expanded its territory of occurrence, cases being registered beyond the traditional boundaries of endemism. The São Paulo State is considered to be part of this context, since after decades without registration of autochthonous cases of the disease, it reported, in 2000 and 2008-2009, epizootic occurrence in non-human primates and 30 cases in humans. Facts like these, added to the increase in incidences of serious adverse effects resulting from the Yellow Fever vaccination, have highlighted the importance of defining priority municipalities for vaccination against the disease in the state. Two groups of municipalities, some affected and some non-affected by YF, were compared for environmental variables related to the eco-epidemiology of the disease according to literature. The Multiple Correspondence Analysis (MCA) was used to pinpoint the factor able to differentiate the two groups of municipalities and define the levels of risk. The southeast region of the São Paulo State was considered to be the area with a higher number of municipalities classified as high risk and should be considered a priority for the application of prevention measures against Yellow Fever.


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