Fabrícia F. Nascimento

Fabrícia F. Nascimento
Imperial College London | Imperial · Department of Infectious Disease Epidemiology

PhD

About

31
Publications
13,802
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1,684
Citations
Citations since 2017
12 Research Items
1294 Citations
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Additional affiliations
January 2015 - present
University of Oxford
Position
  • The evolution of endogenous retroviruses in vertebrate genomes
January 2013 - December 2014
National Evolutionary Synthesis Center
National Evolutionary Synthesis Center
Position
  • The evolutionary dynamics of endogenous retroviruses
February 2012 - December 2012

Publications

Publications (31)
Article
Background: South Africa has the largest number of people living with HIV (PLWHIV) in the world, with HIV prevalence and transmission patterns varying greatly between provinces. Transmission between regions is still poorly understood, but phylodynamics of HIV-1 evolution can reveal how many infections are attributable to contacts outside a given co...
Article
Full-text available
Unprecedented public health interventions including travel restrictions and national lockdowns have been implemented to stem the COVID-19 epidemic, but the effectiveness of non-pharmaceutical interventions is still debated. We carried out a phylogenetic analysis of more than 29,000 publicly available whole genome SARS-CoV-2 sequences from 57 locati...
Article
Full-text available
In response to the COVID-19 pandemic, countries have sought to control SARS-CoV-2 transmission by restricting population movement through social distancing interventions, thus reducing the number of contacts. Mobility data represent an important proxy measure of social distancing, and here, we characterise the relationship between transmission and...
Article
Full-text available
Analysis of genetic sequence data from the SARS-CoV-2 pandemic can provide insights into epidemic origins, worldwide dispersal, and epidemiological history. With few exceptions, genomic epidemiological analysis has focused on geographically distributed data sets with few isolates in any given location. Here, we report an analysis of 20 whole SARS-...
Article
Full-text available
Global dispersal and increasing frequency of the SARS-CoV-2 spike protein variant D614G are suggestive of a selective advantage but may also be due to a random founder effect. We investigate the hypothesis for positive selection of spike D614G in the United Kingdom using more than 25,000 whole genome SARS-CoV-2 sequences. Despite the availability o...
Preprint
Full-text available
Background: Unprecedented public health interventions including travel restrictions and national lockdowns have been implemented to stem the COVID-19 epidemic, but the effectiveness of non-pharmaceutical interventions is still debated. International comparisons are hampered by highly variable conditions under which epidemics spread and differences...
Preprint
Full-text available
Global dispersal and increasing frequency of the SARS-CoV-2 Spike protein variant D614G are suggestive of a selective advantage but may also be due to a random founder effect. We investigate the hypothesis for positive selection of Spike D614G in the United Kingdom using more than 25,000 whole genome SARS-CoV-2 sequences. Despite the availability o...
Preprint
Full-text available
In response to the COVID-19 pandemic, countries have sought to control transmission of SARS-CoV-2 by restricting population movement through social distancing interventions, reducing the number of contacts. Mobility data represent an important proxy measure of social distancing. Here, we develop a framework to infer the relationship between mobilit...
Article
Full-text available
Surveillance of HIV epidemics in key populations and in developing countries is often challenging due to sparse, incomplete, or low-quality data. Analysis of HIV sequence data can provide an alternative source of information about epidemic history, population structure, and transmission patterns. To understand HIV-1 dynamics and transmission patter...
Preprint
Full-text available
Endogenous retroviruses (ERVs) are remnants of ancient retroviral infections that make up 8% of the human genome. Although these elements are mostly fragmented and inactive, many proviruses belonging to the HERV-K (HML-2) family, the youngest lineage in the human genome, have intact open reading frames, some encoding for accessory genes called np9...
Article
Full-text available
The genus Potos (Procyonidae) is currently recognized as a monotypic genus comprising the single species Potos flavus, the kinkajou. Kinkajous are widely distributed throughout forested habitats of tropical Central and South America, extending from eastern Brazil across central Bolivia, eastern Peru, northern Ecuador, Guianas, Suriname, Venezuela,...
Article
Full-text available
Bayesian methods have become very popular in molecular phylogenetics due to the availability of user-friendly software for running sophisticated models of evolution. However, Bayesian phylogenetic models are complex, and analyses are often carried out using default settings, which may not be appropriate. Here we summarize the major features of Baye...
Article
Full-text available
Transposable elements (TEs) are DNA sequences that are able to replicate and move within and between host genomes. Their mechanism of replication is also shared with endogenous retroviruses (ERVs), which are also a type of TE that represent an ancient retroviral infection within animal genomes. Two models have been proposed to explain TE proliferat...
Article
The data used by Lynch Alfaro et al. (2012a, Journal of Biogeography, 39, 272–288) and the biogeographical hypothesis postulated by these authors to explain the current distribution of capuchin monkeys were reanalysed including additional cytochrome b data from Sapajus xanthosternos and Sapajus flavius. Our reconstructed phylogeny placed S. xanthos...
Article
Candidatus Magnetoglobus multicellularis (Ca. M. multicellularis) is a member of a group of uncultured magnetotactic prokaryotes that possesses a unique multicellular morphology. To better understand this organism's physiology, we used a genomic approach through pyrosequencing. Genomic data analysis corroborates previous structural studies and reve...
Article
The genetic variation of Brazilian populations of the mouse opossum Gracilinanus agilis was analyzed on the basis of the mitochondrial Cytochrome b gene (mt-Cytb) and the exon 28 of the nuclear Von Willenbrand factor (e28-vWF). The radiation of Gracilinanus was dated at 4.80 Ma, with the appearance of G. agilis around 1.93 Ma. Gracilinanus aceramar...
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The Neotropics harbors a high diversity of species and several hypotheses have been proposed to account for this pattern. However, while species of forested domains are frequently studied, less is known of species from open vegetation formations occupying, altogether, a larger area than the Amazon Forest. Here we evaluate the role of historical bar...
Article
The characterization of the different taxa of the highly diverse genus Monodelphis is poorly understood, as is the case of their distribution. Historically, taxonomic studies of Monodelphis have been restricted to a few or single species, whereas molecular approaches have been used for estimating phylogenetic relationships between species. We carri...
Article
Full-text available
Gongora, J., Cuddahee, R. E., do Nascimento, F. F., Palgrave, C. J., Lowden, S., Ho, S. Y. W., Simond, D., Damayanti, C. S., White, D. J., Tay, W. T., Randi, E., Klingel, H., Rodrigues-Zarate, C. J., Allen, K., Moran, C. & Larson, G. (2011). Rethinking the evolution of extant sub-Saharan African suids (Suidae, Artiodactyla). —Zoologica Scripta, 40,...
Article
Full-text available
Porcine endogenous retroviruses (PERVs) represent remnants of an exogenous form that have become integrated in the domestic pig (Sus scrofa) genome. Although they are usually inactive, the capacity of γ1 ERVs to infect human cells in vitro has raised concerns about xenotransplantation because the viruses could cross the species barrier to humans. H...
Article
Full-text available
Magnetosomes are prokaryotic organelles produced by magnetotactic bacteria that consist of nanometer-sized magnetite (Fe(3)O(4)) or/and greigite (Fe(3)S(4)) magnetic crystals enveloped by a lipid bilayer membrane. In magnetite-producing magnetotactic bacteria, proteins present in the magnetosome membrane modulate biomineralization of the magnetite...
Article
Diversity of long terminal repeats (LTRs) from γ1 endogenous retroviruses (ERVs) was analysed by DNA sequencing in 10 species of the family Suidae (suids, pigs and hogs). Phylogenetic analysis separated LTR sequences into two groups which correlated approximately with either the previously described cluster I and III, or the clusters II, IV and V....
Article
Full-text available
Riverine barriers have been associated to genetic diversification and speciation of several taxa. The Rio São Francisco is one of the largest rivers in South America, representing the third largest river basin in Brazil and operating as a geographic barrier to gene flow of different taxa. To evaluate the influence of the Rio São Francisco in the sp...
Article
Previous studies identified the Amazon river dolphin (Inia geoffrensis) as the species frequently traded in public markets of Pará and Amazonas State (Brazil). In order to investigate the geographic origin and the taxonomic identification of these specimens we analysed 21 samples provided by residents of the city of Belém and vicinities (Pará State...
Article
Cytochrome b DNA sequence data (ca. 1,140 bp) of 66 Alouatta belzebul from the Amazonian and the Atlantic Forests of Brazil were used for phylogenetic reconstructions and population studies. Our sample consisted of 60 specimens from the Amazonian Forest (captured in 1984 and 1998 in Pará-PA state) and six specimens from the Atlantic Forest (Paraíba...
Article
Cytochrome b DNA sequence data (ca. 1,140 bp) of 44 Alouatta caraya, including 42 specimens from three localities of Brazil and two from Bolivia, were used for phylogenetic reconstructions and population studies. Seventeen haplotypes were identified, eight of which were present in more than one individual. Seven of these eight haplotypes were share...
Article
We carried out a phylogenetic and population study in Alouatta caraya and Alouatta belzebul based on cytochrome b DNA sequence data. Maximum Parsimony and Median-Joining analyses grouped A. caraya from different localities showing a population structure in accordance with geographic distribution. The relation between A. caraya haplotypes could be e...
Article
Morphologic, karyotypic, and molecular analyses were carried out in 25 specimens of a distinct morph of Chiropotes (henceforth termed Chiropotes sp.) obtained from a number of localities in the Brazilian Amazon. Pelage coloration clearly distinguishes the collected specimens and all other known species of this genus. A distinct karyotype was descri...
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Full-text available
Chromobacterium violaceum is one of millions of species of free-living microorganisms that populate the soil and water in the extant areas of tropical biodiversity around the world. Its complete genome sequence reveals (i) extensive alternative pathways for energy generation , (ii) 500 ORFs for transport-related proteins, (iii) complex and extensiv...
Article
Morphologic, molecular and karyologic analyses of Callicebus lugens (Humboldt, 1811) of known geographic origin supported the proposition that this is a valid species. Morphologic and morphometric analyses showed evident differences between C. lugens and two other related taxa of the same group (Callicebus purinus and Callicebus torquatus). Cytochr...

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