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Sustained increase of paediatric invasive Streptococcus pyogenes infections dom...
Gouveia, Catarina; Bajanca-Lavado, Maria Paula; Mamede, Rafael; Araújo Carvalho, Ana; Rodrigues, Fernanda; Melo-Cristino, José; Ramirez, MarioSince autumn 2022, observed numbers of paediatric invasive group A Streptococcus infections in Portugal (n = 89) were higher than in pre-COVID-19 seasons. Between September 2022 and May 2023, the dominant diagnoses were pneumonia (25/79), mostly with empyema (20/25), and sepsis (22/79). A number of cases required admission to intensive care (27/79) and surgery (35/79), and the case fatality rate was 5.1% (4/79)...
Seroprevalence of anti-SARS-CoV-2 antibodies in COVID-19 patients and healthy v...
Figueiredo-Campos, Patrícia; Blankenhaus, Birte; Mota, Catarina; Gomes, Andreia; Serrano, Marta; Ariotti, Silvia; Costa, Catarina; Nunes-Cabaço, HelenaSARS-CoV-2 has emerged as a human pathogen, causing clinical signs, from fever to pneumonia—COVID-19—but may remain mild or asymptomatic. To understand the continuing spread of the virus, to detect those who are and were infected, and to follow the immune response longitudinally, reliable and robust assays for SARS-CoV-2 detection and immunological monitoring are needed. We quantified IgM, IgG, and IgA antibodi...
iDS372, a phenotypically reconciled model for the metabolism of Streptococcus p...
Dias, Oscar; Saraiva, J.; Faria, Cristiana; Ramirez, Mario; Pinto, Francisco; Rocha, I.A high-quality GSM model for Streptococcus pneumoniae R6 model strain (iDS372), comprising 372 genes and 529 reactions, was developed. The construction of this model involved performing a genome-wide reannotation to identify the metabolic capacity of the bacterium. A reaction representing the abstraction of the biomass composition was reconciled from several studies reported in the literature and previous model...
PHYLOViZ 2.0: providing scalable data integration and visualization for multipl...
Nascimento, Marta; Sousa, Adriano; Ramirez, Mario; Francisco, Alexandre; Carrico, Joao; Vaz, CátiaHigh Throughput Sequencing provides a cost effective means of generating high resolution data for hundreds or even thousands of strains, and is rapidly superseding methodologies based on a few genomic loci. The wealth of genomic data deposited on public databases such as Sequence Read Archive/European Nucleotide Archive provides a powerful resource for evolutionary analysis and epidemiological surveillance. How...
PHYLOViZ: phylogenetic inference and data visualization for sequence based typi...
Francisco, Alexandre P.; Vaz, Cátia; Monteiro, Pedro T.; Melo-Cristino, José; Ramirez, Mario; Carrico, JoaoBackground: With the decrease of DNA sequencing costs, sequence-based typing methods are rapidly becoming the gold standard for epidemiological surveillance. These methods provide reproducible and comparable results needed for a global scale bacterial population analysis, while retaining their usefulness for local epidemiological surveys. Online databases that collect the generated allelic profiles and associat...