Jaqueline Góes de Jesus
A5068384819- Mosquito-borne diseases and control
- Viral Infections and Vectors
- SARS-CoV-2 and COVID-19 Research
- SARS-CoV-2 detection and testing
- Insect symbiosis and bacterial influences
- COVID-19 Clinical Research Studies
- COVID-19 epidemiological studies
- Virology and Viral Diseases
- Malaria Research and Control
- RNA modifications and cancer
- Viral Infections and Outbreaks Research
- Evolution and Genetic Dynamics
- RNA Research and Splicing
- Respiratory viral infections research
- Toxoplasma gondii Research Studies
- Genomics and Phylogenetic Studies
- Animal Virus Infections Studies
- Zoonotic diseases and public health
- Vibrio bacteria research studies
- HIV Research and Treatment
- Fish biology, ecology, and behavior
- Vector-Borne Animal Diseases
- RNA and protein synthesis mechanisms
- Rabies epidemiology and control
- Long-Term Effects of COVID-19
Universidade de São Paulo
2019-2024
Fundação Oswaldo Cruz
2015-2024
Hospital das Clínicas da Faculdade de Medicina da Universidade de São Paulo
2020-2023
Imperial College London
2021-2023
University of Wisconsin–Madison
2023
University of Nebraska Medical Center
2023
Yale University
2023
University of Liverpool
2023
Universidade Brasil
2022
Brazilian Society of Tropical Medicine
2022
Cases of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection in Manaus, Brazil, resurged late 2020 despite previously high levels infection. Genome sequencing viruses sampled Manaus between November and January 2021 revealed the emergence circulation a novel SARS-CoV-2 variant concern. Lineage P.1 acquired 17 mutations, including trio spike protein (K417T, E484K, N501Y) associated with increased binding to human ACE2 (angiotensin-converting enzyme 2) receptor. Molecular...
How viruses evolve within hosts can dictate infection outcomes; however, reconstructing this process is challenging. We evaluate our multiplexed amplicon approach, PrimalSeq, to demonstrate how virus concentration, sequencing coverage, primer mismatches, and replicates influence the accuracy of measuring intrahost diversity. develop an experimental protocol computational tool, iVar, for using PrimalSeq measure diversity Illumina compare results Oxford Nanopore sequencing. utility by Zika...
Brazil currently has one of the fastest-growing severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) epidemics in world. Because limited available data, assessments impact nonpharmaceutical interventions (NPIs) on this virus spread remain challenging. Using a mobility-driven transmission model, we show that NPIs reduced reproduction number from >3 to 1 1.6 São Paulo and Rio de Janeiro. Sequencing 427 new genomes analysis geographically representative genomic dataset identified >100...
The yellow fever virus (YFV) epidemic in Brazil is the largest decades. recent discovery of YFV Brazilian Aedes species mosquitos highlights a need to monitor risk reestablishment urban transmission Americas. We use suite epidemiological, spatial, and genomic approaches characterize transmission. show that age sex distribution human cases characteristic sylvatic Analysis combined with genomes generated locally reveals an early phase spatial expansion toward previously YFV-free areas,...
With the emergence of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) variants that may increase transmissibility and/or cause escape from immune responses, there is an urgent need for targeted surveillance circulating lineages. It was found B.1.1.7 (also 501Y.V1) variant, first detected in United Kingdom, could be serendipitously by Thermo Fisher TaqPath COVID-19 PCR assay because a key deletion these viruses, spike Δ69-70, would "spike gene target failure" (SGTF) result....
Abstract Cases of SARS-CoV-2 infection in Manaus, Brazil, resurged late 2020, despite high levels previous there. Through genome sequencing viruses sampled Manaus between November 2020 and January 2021, we identified the emergence circulation a novel variant concern, lineage P.1, that acquired 17 mutations, including trio spike protein (K417T, E484K N501Y) associated with increased binding to human ACE2 receptor. Molecular clock analysis shows P.1 occurred around early was preceded by period...
Mutations accrued by SARS-CoV-2 lineage P.1-first detected in Brazil early January, 2021-include amino acid changes the receptor-binding domain of viral spike protein that also are reported other variants concern, including B.1.1.7 and B.1.351. We aimed to investigate whether isolates wild-type P.1 can escape from neutralising antibodies generated a polyclonal immune response.We did an immunological study assess effects on B SARS-CoV-2, using plasma samples patients previously infected with...
Arbovirus infections in Brazil, including yellow fever, dengue, zika, and chikungunya, result considerable morbidity mortality are pressing public health concerns. However, our understanding of these outbreaks is hampered by the limited availability genomic data. In this study, we investigated genetic diversity spatial distribution YFV during current outbreak analyzing data from areas southeastern Brazil not covered other previous studies. To gain insights into routes introduction...
We conducted the genome sequencing and analysis of first confirmed COVID-19 infections in Brazil. Rapid coupled with phylogenetic analyses context travel history corroborate multiple independent importations from Italy local spread during initial stage transmission
Background Since its first detection in the Caribbean late 2013, chikungunya virus (CHIKV) has affected 51 countries Americas. The CHIKV epidemic Americas was caused by CHIKV-Asian genotype. In August 2014, local transmission of genotype detected Brazilian Amazon region. However, a distinct lineage, CHIKV-East-Central-South-America (ECSA)-genotype, nearly simultaneously Feira de Santana, Bahia state, northeast Brazil. genomic diversity and dynamics region remains poorly understood despite...
ABSTRACT High throughput cDNA sequencing technologies have dramatically advanced our understanding of transcriptome complexity and regulation. However, these methods lose information contained in biological RNA because the copied reads are often short modifications not carried forward cDNA. We address limitations using a native poly(A) strategy developed by Oxford Nanopore Technologies (ONT). Our study focused on from human cell line GM12878, generating 9.9 million aligned sequence reads....
In December 2020, research surveillance detected the B.1.1.7 lineage of severe acute respiratory syndrome coronavirus 2 in São Paulo, Brazil. Rapid genomic sequencing and phylogenetic analysis revealed distinct introductions lineage. One patient reported no international travel. There may be more infections with this Brazil than reported.
<ns4:p>Emerging and re-emerging viruses are a global health concern. Genome sequencing as an approach for monitoring circulating is currently hampered by complex expensive methods. Untargeted, metagenomic nanopore can provide genomic information to identify pathogens, prepare or even prevent outbreaks.</ns4:p><ns4:p> SMART (Switching Mechanism at the 5′ end of RNA Template) popular RNA-Seq but most current methods rely on oligo-dT priming target polyadenylated mRNA molecules. We have...
Zika virus (ZIKV) has caused an explosive epidemic linked to severe clinical outcomes in the Americas. As of June 2018, 4,929 ZIKV suspected infections and 46 congenital syndrome cases had been reported Manaus, Amazonas, Brazil. Although Manaus is a key demographic hub Amazon region, little known about there, terms both transmission viral genetic diversity. Using portable genome sequencing, we generated 59 genomes Manaus. Phylogenetic analyses indicated multiple introductions from...
Background: A new SARS-CoV-2 lineage, named P.1 (20J/501Y.V3), has recently been detected in Brazil. Mutations accrued by the lineage include amino acid changes receptor-binding domain of spike protein that also are reported variants concern United Kingdom (B.1.1.7) and South Africa (B.1.325).Methods: We isolated two P.1-containing specimens from nasopharyngeal bronchoalveolar lavage samples patients Manaus, measured neutralization virus after incubation with plasma 19 COVID-19 convalescent...
Genome sequencing has become a powerful tool for studying emerging infectious diseases; however, genome directly from clinical samples without isolation remains challenging viruses such as Zika, where metagenomic methods may generate insufficient numbers of viral reads. Here we present protocol generating coding-sequence complete genomes comprising an online primer design tool, novel multiplex PCR enrichment protocol, optimised library preparation the portable MinION sequencer (Oxford...
The emergence of chikungunya virus (CHIKV) has raised serious concerns due to the virus' rapid dissemination into new geographic areas and clinical features associated with infection. To better understand CHIKV dynamics in Rio de Janeiro, we generated 11 near-complete genomes by means real-time portable nanopore sequencing isolates obtained directly from samples. Our phylogenetic reconstructions indicated circulation East-Central-South-African (ECSA) lineage Janeiro. Time-measured analysis...
Zika virus (ZIKV) is an arthropod-borne (arbovirus) in the Flavivirus genus of Flaviviridae family. Since large outbreaks French Polynesia 2013-2014 and Brazil 2015, ZIKV has been considered a new public health threat. Similar to other related flavivirus, associated with mild self-limiting symptoms such as rash, pruritus, prostration, headache, arthralgia, myalgia, conjunctivitis, lower back pain and, when present, short-term low grade fever. In addition, implicated neurological...
São Paulo, a densely inhabited state in southeast Brazil that contains the fourth most populated city world, recently experienced its largest yellow fever virus (YFV) outbreak decades. YFV does not normally circulate extensively so people were unvaccinated when began. Surveillance non-human primates (NHPs) is important for determining magnitude and geographic extent of an epizootic, thereby helping to evaluate risk spillover humans. Data from infected NHPs can give more accurate insights...
BACKGROUND Despite efforts to mitigate the impact of dengue virus (DENV) epidemics, remains a public health problem in tropical and subtropical regions around world. Most DENV cases Americas between January July 2019 were reported Brazil. São Paulo State southeast Brazil has nearly half all infections country. OBJECTIVES To understand origin dynamics outbreak. METHODS Here using portable nanopore sequencing we generated20 new genome sequences from viremic patients with suspected infection...
Abstract Background CoronaVac, a vaccine containing inactivated SARS-CoV-2, demonstrated efficacy of 50.39% 14 days or more after the 2nd dose. The objective this study is to report occurrence symptomatic COVID-19 in cohort HCW vaccinated with CoronaVac and estimate its effectiveness. Methods was given HCWs inHospital das Clinicas on 18-21 January, 2021 (epi week 3) (22,402 HCWs), 14-16 February, 7) (21,652 HCWs). Weekly cases were evaluated. Using period from 2020 epi 24 through 2 (before...
Reinfection by the severe acute respiratory syndrome coronavirus type 2 (SARS-COV-2) has been reported in many countries, suggesting that virus may continue to circulate among humans despite possibility of local herd immunity due massive previous infections. The emergence variants concern (VOC) are more transmissible than circulating ones raised particular concerns on vaccines effectiveness and reinfection rates. P.1 lineage was first identified December 2020 Manaus city is now globally...