A reliable M-mode ultrasound protocol for the assessment of diaphragm motion

Diaphragm is the principal inspiratory muscle. Different techniques have been used to assess diaphragm motion. Among them, M-mode ultrasound has gain particular interest since it is non-invasive and accessible. However it is operator-dependent and no objective acquisition protocol has been established. Purpose: to establish a reliable method for the assessment of the diaphragmatic motion via the M-mode ultrasound

Development of a tetraplex qpcr for the molecular identification and quantification of human enteric viruses, nov and hav, in fish samples

Funding Information: from Multi Biorefinery project (POCI-01?0145-FEDER-016403, INTERFACE Program, through the Innovation, Technology and Circular Economy Fund (FITEC) (CIT/2018/15) and FCT for Andreia Silva fellowship (PD/BD/128363/2017) are gratefully acknowledged. Publisher Copyright: © 2021 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https:// creativecommons.org/licenses/by/ 4.0/). Copyright: Copyright 2021 Elsevier B.V., All rights reserved.Human enteric viruses such as norovirus (NoV) and hepatitis A virus (HAV) are some of the most important causes of foodborne infections worldwide. Usually, infection via fish consumption is not a concern regarding these viruses, since fish are mainly consumed cooked. However, in the last years, raw fish consumption has become increasingly common, especially involving the use of seabass and gilthead seabream in dishes like sushi, sashimi, poke, and carpaccio. Therefore, the risk for viral infection via the consumption of raw fish has also increased. In this study, a virologic screening was performed in 323 fish specimens captured along the Portuguese coast using a tetraplex qPCR optimised for two templates (plasmid and in vitro transcribed RNA) to detect and quantify NoV GI, NoV GII and HAV genomes. A difference of approximately 1-log was found between the use of plasmid or in vitro transcribed RNA for molecular-based quantifications, showing an underestimation of genome copy-number equivalents using plasmid standard-based curves. Additionally, the presence of NoV genomic RNA in a pool of seabass brains was identified, which was shown to cluster with a major group of human norovirus sequences from genogroup I (GI.1) by phylogenetic analysis. None of the analysed fish revealed the presence of NoV GII or HAV. This result corroborates the hypothesis that enteric viruses circulate in seawater or that fish were contaminated during their transportation/handling, representing a potential risk to humans through raw or undercooked fish consumption.publishersversionpublishe

Development and evaluation of a two-step multiplex TaqMan real-time PCR assay for detection/quantification of different genospecies of Borrelia burgdorferi sensu lato

Nowadays, at least four clinically important B. burgdorferi sensu lato (s.l.) genospecies (B. afzelii, B. garinii, B. burgdorferi sensu stricto (s.s.) and B. lusitaniae) circulate in Portugal. Each genospecies has a different tropism that resuls in a diverse array of clinical manifestations. The standard diagnostic procedure used is normally simple, nevertheless, during the “window-period” phase, in which specific antibodies cannot yet be detected, diagnosis becomes difficult, and calls for reliable, sensitive and specific laboratory methods, such as molecular tests. The aim of this study was to develop and evaluate a multiplex TaqMan real-time PCR assay to infer the presence of B. burgdorferi s.l. genospecies in clinical and vector-derived samples. The assay consists of two steps: (i) a first duplex real-time PCR targeting both flaB of B. burgdorferi s.l., and an internal control (18S rDNA for tick samples or the mammal β-actin gene for clinical samples); and (ii) a second tetraplex real-time PCR targeting the flaB gene of B. afzelii, B. garinii, B. burgdorferi s.s. and B. lusitaniae. The first step revealed a high specificity and sensitivity, allowing the detection of as low as 20 genome equivalents (GE) of B. burgdorferi s.l. from isolated cultures, clinical samples and ticks. The second step revealed high specificity, but a slightly lower sensitivity (2×102 GE) for detection of B. afzelii, B. garinii, B. burgdorferi s.s. and B. lusitaniae in purified DNA extracts, and particularly when testing cerebrospinal fluid (CSF) samples. Nonetheless, both real-time PCR protocols were developed to be applied at the beginning of the infection, to improve early diagnosis of Lyme borreliosis (LB), where detection of Borrelia should not rely on the use of CSF samples. The assay here described is of special interest for the analysis of both environmental and clinical samples, being advantageous in the former phase screening of Lyme borreliosis, when the efficiency of serologically based diagnoses may be seriously compromised

"How Did They Come Across?" Lessons Learned from Continuous Affective Ratings

Social distance, or perception of the other, is recognized as a dynamic dimension of an interaction, but yet to be widely explored or understood. Through CORAE, a novel web-based open-source tool for COntinuous Retrospective Affect Evaluation, we collected retrospective ratings of interpersonal perceptions between 12 participant dyads. In this work, we explore how different aspects of these interactions reflect on the ratings collected, through a discourse analysis of individual and social behavior of the interactants. We found that different events observed in the ratings can be mapped to complex interaction phenomena, shedding light on relevant interaction features that may play a role in interpersonal understanding and grounding. This paves the way for better, more seamless human-robot interactions, where affect is interpreted as highly dynamic and contingent on interaction history.Comment: arXiv admin note: substantial text overlap with arXiv:2306.1662

Mastadenovirus Molecular Diversity in Waste and Environmental Waters from the Lisbon Metropolitan Area

Funding Information: This work received financial support from the AgriWWater Project (PTDC/CTA-AMB/29586/2017), iNOVA4Health (UID/Multi/04462/2019), and Global Health and Tropical Medicine Center (which is funded through FCT contract UID/Multi/04413/2013). Publisher Copyright: © 2022 by the authors.In face of the absence of epidemiological data regarding the circulation of human adenoviruses (HAdV) in Portugal, this study aimed at the evaluation of their molecular diversity in waste and environmental waters in the Lisbon Metropolitan Area (LMA). Using samples collected between 2018 and 2021, the HAdV hexon protein-coding sequence was partially amplified using three nested touch-down PCR protocols. The amplification products obtained were analyzed in parallel by two approaches: molecular cloning followed by Sanger sequencing and Next-Generation Sequencing (NGS) using Illumina® sequencing. The analysis of NGS-generated data allowed the identification of a higher diversity of HAdV-A (19%), -B (1%), -C (3%), -D (24%), and -F (25%) viral types, along with murine adenovirus (MAdV-2; 30%) in the wastewater treatment plant samples. On the other hand, HAdV-A (19%), -D (32%), and -F (36%) were identified in environmental samples, and possibly MAdV-2 (14%). These results demonstrate the presence of fecal contamination in environmental waters and the assessment of the diversity of this virus provides important information regarding the distribution of HAdV in LMA, including the detection of HAdV-F41, the most frequently reported in water worldwide.publishersversionpublishe

CORAE: A Tool for Intuitive and Continuous Retrospective Evaluation of Interactions

This paper introduces CORAE, a novel web-based open-source tool for COntinuous Retrospective Affect Evaluation, designed to capture continuous affect data about interpersonal perceptions in dyadic interactions. Grounded in behavioral ecology perspectives of emotion, this approach replaces valence as the relevant rating dimension with approach and withdrawal, reflecting the degree to which behavior is perceived as increasing or decreasing social distance. We conducted a study to experimentally validate the efficacy of our platform with 24 participants. The tool's effectiveness was tested in the context of dyadic negotiation, revealing insights about how interpersonal dynamics evolve over time. We find that the continuous affect rating method is consistent with individuals' perception of the overall interaction. This paper contributes to the growing body of research on affective computing and offers a valuable tool for researchers interested in investigating the temporal dynamics of affect and emotion in social interactions

A Systematic Review on Reproducibility in Child-Robot Interaction

Research reproducibility - i.e., rerunning analyses on original data to replicate the results - is paramount for guaranteeing scientific validity. However, reproducibility is often very challenging, especially in research fields where multi-disciplinary teams are involved, such as child-robot interaction (CRI). This paper presents a systematic review of the last three years (2020-2022) of research in CRI under the lens of reproducibility, by analysing the field for transparency in reporting. Across a total of 325 studies, we found deficiencies in reporting demographics (e.g. age of participants), study design and implementation (e.g. length of interactions), and open data (e.g. maintaining an active code repository). From this analysis, we distill a set of guidelines and provide a checklist to systematically report CRI studies to help and guide research to improve reproducibility in CRI and beyond

Genome-wide identification, phylogeny, and gene duplication of the epigenetic regulators in Fagaceae

Epigenetic regulators are proteins involved in controlling gene expression. Informationabout the epigenetic regulators within the Fagaceae, a relevant family of trees andshrubs of the northern hemisphere ecosystems, is scarce. With the intent to character-ize these proteins in Fagaceae, we searched for orthologs of DNA methyltransferases(DNMTs) and demethylases (DDMEs) and Histone modifiers involved in acetylation(HATs), deacetylation (HDACs), methylation (HMTs), and demethylation (HDMTs) inFagus,Quercus,andCastaneagenera. Blast searches were performed in the availablegenomes, and freely available RNA-seq data were used to de novo assemble transcrip-tomes. We identified homologs of seven DNMTs, three DDMEs, six HATs, 11 HDACs,32 HMTs, and 21 HDMTs proteins. Protein analysis showed that most of them havethe putative characteristic domains found in these protein families, which suggeststheir conserved function. Additionally, to elucidate the evolutionary history of thesegenes within Fagaceae, paralogs were identified, and phylogenetic analyses were per-formed with DNA and histone modifiers. We detected duplication events in all speciesanalyzed with higher frequency inQuercusandCastaneaand discuss the evidence oftransposable elements adjacent to paralogs and their involvement in gene duplication.The knowledge gathered from this work is a steppingstone to upcoming studies con-cerning epigenetic regulation in this economically important family of Fagaceaeinfo:eu-repo/semantics/publishedVersio

Uso do azul de metileno e permanganato de potássio em lesão cutânea de Phractocephalus Hemioliopterus

Neste trabalho objetivou-se relatar o uso de permanganato de potássio e azul de metileno (cloreto de metiltionina) no tratamento de lesão cutânea da pirarara exposta para visitação pública. Pirarara, nome comum para espécie Phractocephalus hemioliopterus, é originária da bacia amazônica e bastante valorizada na aqüicultura pelo fácil manejo, adaptação ao cativeiro e pela bela fisionomia e coloração, porém muito susceptível à infestação por ectoparasitas acarretando em mortalidades tanto no aspecto produtivo como no mercado pet. A adesão de anelídeos na pele desta espécie alocada no aquário público da cidade de Uberlândia, Minas Gerais, Brasil, levou à lesão cutânea grave e infecção secundária por fungos e bactérias necessitando de tratamento medicamentoso. O diagnóstico foi feito através de achados macroscópicos e das características fisiológicas e comportamentais do animal e o tratamento durou trinta e quatro dias. Após identificação da lesão, os ectoparasitas foram retirados manualmente e o peixe foi conduzido ao tanque escavado isolando-o de outros animais e sem acesso aos visitantes. Adotou-se, respectivamente, o tratamento tópico de 10 gramas e 2 gramas por metro cúbico de permanganato de potássio e azul de metileno até o desaparecimento total da ferida e cura do animal. Com recuperação clínica, o peixe retornou ao aquário exposto à visitação

Morphological and Molecular Characterization Using Genitalia and CoxI Barcode Sequence Analysis of Afrotropical Mosquitoes with Arbovirus Vector Potential

Funding Information: Eddyson Montalvo-Sabino was recipient of a grant from “Programa Nacional de Becas y Crédito Educativo” (PRONABEC), 2019—Beca Generacion del Bicentenario, from the “Ministerio de Educación” of Peru. A.P. Abilio was a recipient of a grant from Wellcome Trust (Grant WT087546MA) through SACIDS RVF and NPHI-Phase-II from the National Institute for Health of Mozambique through a cooperative agreement number [5NU14GH001237-03-00]. Marietjie Venter was a recipient of a sub-award from the Global Disease Detection Program, US-CDC award 5U19GH000571-02 with the NICD and University of Pretoria that funded vector surveillance in South Africa (2012–2015) and by the Cooperative Agreement Number (5 NU2GGH001874-02-00) with the University of Pretoria (2014–2017). Milehna M. Guarido received a studentship through this grant. A.P.G. Almeida has been a recipient of the Visiting Professor Programme by the University of Pretoria for the work in South Africa. This work received financial support from the Global Health and Tropical Medicine Center (GHTM|IHMT|NOVA), which is funded through FCT contract UID/Multi/04413/2013, Portugal. The findings and conclusions expressed in this manuscript are those of the author(s) and do not necessarily represent the official position of the funding agencies. Publisher Copyright: © 2022 by the authors.Potential arboviral Afrotropical mosquito vectors are underrepresented in public databases of CoxI barcode sequences. Furthermore, available CoxI sequences for many species are often not associated with voucher specimens to match the corresponding fine morphological characterization of specimens. Hence, this study focused on the characterization of Culicine mosquitoes from South Africa, Mozambique, and Angola and their classification using a complementary approach including a morphological analysis of specimens’ genitalia and phylogenetic study based on the analysis of CoxI barcode sequences using maximum likelihood and Bayesian phylogenetic inference methods, alongside Median-Joining Network and PCOORD analyses. Overall, 800 mosquitoes (652 males and 148 females) from 67 species, were analyzed. Genitalia from 663 specimens allowed the identification of 55 species of 10 genera. A total of 247 CoxI partial gene sequences corresponding to 65 species were obtained, 11 of which (Aedes capensis, Ae. mucidus, Culex andersoni, Cx. telesilla, Cx. inconspicuosus, Eretmapodites subsimplicipes, Er. quinquevittatus, Ficalbia uniformis, Mimomyia hispida, Uranotaenia alboabdominalis, and Ur. mashonaensis) are, to the best of our knowledge, provided here for the first time. The presence of Cx. pipiens ecotypes molestus and pipiens and their hybrids, as well as Cx. infula, is newly reported in the Afrotropical region. The rates of correct sequence identification using BOLD and BLASTn (≥95% identity) were 64% and 53%, respectively. Phylogenetic analysis revealed that, except for subgenus Eumelanomyia of Culex, there was support for tribes Aedini, Culicini, Ficalbiini, and Mansoniini. A divergence >2% was observed in conspecific sequences, e.g., Aedeomyia africana, Ae. cumminsii, Ae. unilineatus, Ae. metallicus, Ae. furcifer, Ae. caballus, and Mansonia uniformis. Conversely, sequences from groups and species complexes, namely, Ae. simpsoni, Ae. mcintoshi, Cx. bitaeniorhynchus, Cx. simpsoni, and Cx. pipiens were insufficiently separated. A contribution has been made to the barcode library of Afrotropical mosquitoes with associated genitalia morphological identifications.publishersversionpublishe