A5031676531- SARS-CoV-2 and COVID-19 Research
- Plant Virus Research Studies
- Genomics and Phylogenetic Studies
- Genetic diversity and population structure
- SARS-CoV-2 detection and testing
- CRISPR and Genetic Engineering
- Mosquito-borne diseases and control
- Evolution and Paleontology Studies
- Bacillus and Francisella bacterial research
- Evolution and Genetic Dynamics
- Virology and Viral Diseases
- Animal Virus Infections Studies
- Parasitic Infections and Diagnostics
- Viral gastroenteritis research and epidemiology
- Viral Infections and Outbreaks Research
- Vaccine Coverage and Hesitancy
- Bacteriophages and microbial interactions
- RNA and protein synthesis mechanisms
- Clostridium difficile and Clostridium perfringens research
- interferon and immune responses
- Virus-based gene therapy research
- Helminth infection and control
Universidade Federal do Rio de Janeiro
2019-2025
Laboratório Nacional de Computação Científica
2021-2024
Temple University
2023
The sharp increase of COVID-19 cases in late 2020 has made Brazil the new epicenter ongoing SARS-CoV-2 pandemic. novel viral lineages P.1 (Variant Concern Gamma) and P.2, respectively identified Brazilian states Amazonas Rio de Janeiro, have been associated with potentially higher transmission rates antibody neutralization escape. In this study, we performed whole-genome sequencing 185 samples isolated from three out five regions, including (North region), Grande do Norte, Paraíba Bahia...
Brazil currently ranks second in absolute deaths by COVID-19, even though most of its population has completed the vaccination protocol. With introduction Omicron late 2021, number COVID-19 cases soared once again country. We investigated this work how lineages BA.1 and BA.2 entered spread country sequencing 2173 new SARS-CoV-2 genomes collected between October 2021 April 2022 analyzing them addition to more than 18,000 publicly available sequences with phylodynamic methods. registered that...
Dynamic interspecific interactions and environmental factors deeply impact the composition of microbiotic communities in gut. These intertwined with host's genetic background social habits cooperate synergistically as a hidden force modulating physiological health determinants, certain bacterial species being maintained from generation to generation. Firmicutes, one dominant phyla present across vertebrate classes, exhibits wide range functional capabilities colonization strategies. While...
In this study, we report the first case of intra-host SARS-CoV-2 recombination during a coinfection by variants concern (VOC) AY.33 (Delta) and P.1 (Gamma) supported sequencing reads harboring mosaic lineage-defining mutations. By using next-generation intersecting regions that simultaneously overlap mutations from Gamma Delta, were able to identify total six recombinant across genome within sample. Four them mapped in spike gene two nucleocapsid gene. We detected combination each VOC. To...
In the present study, we provide a retrospective genomic epidemiology analysis of SARS-CoV-2 pandemic in state Rio de Janeiro, Brazil. We gathered publicly available data from GISAID and sequenced 1927 new genomes sampled periodically March 2021 to June 91 out 92 cities state. Our results showed that was characterized by three different phases driven successive replacement lineages. Interestingly, noticed viral supercarriers accounted for overwhelming majority circulating virus (>90%) among...
Abstract The sharp increase of COVID-19 cases in late 2020 has made Brazil the new epicenter ongoing SARS-CoV-2 pandemic. Novel lineages P.1 and P.2, first identified respectively Manaus Rio de Janeiro, have been associated with potentially higher transmission rates antibody neutralization escape. In this study, we performed a whole-genome sequencing 185 samples isolated from three out five Brazilian regions, including Amazonas (North region), Grande do Norte, Paraíba Bahia (Northeast...
In the present study, we provide a retrospective genomic surveillance of SARS-CoV-2 pandemic in Lebanon; newly sequence viral genomes 200 nasopharyngeal samples collected between July 2020 and February 2021 from patients different regions Lebanon travelers crossing Lebanese-Syrian border, also analyze Lebanese dataset available at GISAID. Our results show that infections during this period were shaped by turnovers four dominant lineages, with B.1.398 being first to thoroughly dominate. acted...
COVID-19 is an infectious disease caused by SARS-CoV-2 that has become a serious threat to public health owing its rapid spread from aerosols infected people. Despite being considered strictly human disease, there are reports in the literature about animals with confirmed presence of virus.
Repeated runs of the same program can generate different molecular phylogenies from identical data sets under analytical conditions. This lack reproducibility inferred casts a long shadow on downstream research employing these in areas such as comparative genomics, systematics, and functional biology. We have assessed relative accuracies log-likelihoods alternative generated for computer-simulated empirical sets. Our findings indicate that reconstruct evolutionary relationships with...
During the first semester of 2021, all Brazil has suffered an intense wave COVID-19 associated with Gamma variant. In July, cases Delta variant were detected in state Rio de Janeiro. this work, we have employed phylodynamic methods to analyse more than 1 600 genomic sequences collected until September Janeiro reconstruct how surpassed and dispersed throughout state. After introduction Delta, it initially spread mostly homonymous city Janeiro, most populous a second stage, dispersal occurred...
Abstract Despite ongoing efforts relying on computationally intensive tree-building methods and large datasets, the deeper phylogenetic relationships between living canid genera remain controversial. We demonstrate that this issue arises fundamentally from uncertainty of root placement as a consequence short length branch connecting major clades, which probably resulted fast radiation during early diversification extant Canidae. Using both nuclear mitochondrial genes, we investigate position...
Abstract Emergence of novel SARS-CoV-2 lineages are under the spotlight media, scientific community and governments. Recent reports variants in United Kingdom, South Africa Brazil (B.1.1.28-E484K) have raised intense interest because a possible higher transmission rate or resistance to vaccines. Nevertheless, spread B.1.1.28 (E484K) other is still unknown. In this work, we investigated population structure genomic complexity Rio Grande do Sul, southernmost state Brazil. Most samples...
Brazil, Russia, India, China, and South Africa (BRICS) are a group of developing countries with shared economic, healthcare, scientific interests. These navigate multiple syndemics, the COVID-19 pandemic placed severe strain on already burdened BRICS’ healthcare systems, hampering effective interventions. Genomic surveillance molecular epidemiology remain indispensable tools for facilitating informed intervention. To evaluate combined manner in which unfolded BRICS countries, we reviewed...
Abstract Since the first reports of patients coinfected by two genetically-distinct lineages SARS-CoV-2, scientific community raised concerns about recombination intra-host viral RNA sequences as a possible mechanism underlying emergence novel variants. Indeed, this phenomenon occurs at relatively high frequency among betacoronaviruses. Nevertheless, few existing studies between SARS-CoV-2 are restricted to detect inter-host dissemination genomes post-recombination events. However, genomic...
Abstract In the present study, we provide a retrospective genomic epidemiology analysis of SARS-CoV-2 pandemic in state Rio de Janeiro, Brazil. We gathered publicly available data from GISAD and sequenced more 1,927 new genomes sampled periodically March 2021 to June 91 out 92 cities state. Our results showed that was characterized by three different phases driven successive replacement lineages. All stages occurred distinct mortality mobility contexts, with higher evidence social distancing...
The southern muriqui (Brachyteles arachnoides) is the largest neotropical primate. This species endemic to Brazil and currently critically endangered due its habitat destruction. genetic basis underlying adaptive traits of New World monkeys has been a subject interest several investigators, with significant concern about genes related immune system. In absence reference genome, RNA-seq de novo transcriptome assembly have proved be valuable procedures for accessing gene sequences testing...
Abstract During the first semester of 2021, all Brazil has suffered an intense wave COVID-19 associated with Gamma variant. In July, cases Delta variant were detected in state Rio de Janeiro. this work, we have employed phylodynamic methods to analyze more than 1,600 genomic sequences collected until September Janeiro reconstruct how surpassed and dispersed throughout state. After introduction Delta, it initially spread mostly homonymous city Janeiro, most populous a second stage, dispersal...