A5100370712- Genetic Associations and Epidemiology
- Antibiotic Resistance in Bacteria
- Genomics and Phylogenetic Studies
- Cancer Genomics and Diagnostics
- Lung Cancer Treatments and Mutations
- Birth, Development, and Health
- Genetic factors in colorectal cancer
- Bacteriophages and microbial interactions
- Scientific Computing and Data Management
- Bacterial Genetics and Biotechnology
- RNA Research and Splicing
- Genomics and Chromatin Dynamics
- Research Data Management Practices
- Cancer-related molecular mechanisms research
- Escherichia coli research studies
- Vibrio bacteria research studies
- Bioinformatics and Genomic Networks
- Gene expression and cancer classification
- Asthma and respiratory diseases
- Bacterial biofilms and quorum sensing
- Salmonella and Campylobacter epidemiology
- Lymphoma Diagnosis and Treatment
- Plant Pathogenic Bacteria Studies
- Molecular Biology Techniques and Applications
- Complement system in diseases
Barcelona Institute for Global Health
2015-2024
Centre for Genomic Regulation
2019-2022
Barcelona Institute for Science and Technology
2022
Center for Research in Environmental Epidemiology
2018-2021
Universitat Pompeu Fabra
2018-2019
Instituto de Salud Carlos III
2018-2019
Universitat de Barcelona
2014-2018
Centro de Investigación Biomédica en Red de Epidemiología y Salud Pública
2018
Hospital Sant Joan de Déu Barcelona
2017
Euskadiko Parke Teknologikoa
2014
Abstract The European Genome-phenome Archive (EGA - https://ega-archive.org/) is a resource for long term secure archiving of all types potentially identifiable genetic, phenotypic, and clinical data resulting from biomedical research projects. Its mission to foster hosted reuse, enable reproducibility, accelerate translational in line with the FAIR principles. Launched 2008, EGA has grown quickly, currently over 4,500 studies nearly one thousand institutions. operates distributed access...
The recent advances in bacterial species identification methods have led to the rapid taxonomic diversification of genus Acinetobacter. In present study, phenotypic and molecular been used determine position a group 12 genotypically distinct strains belonging Acinetobacter calcoaceticus-Acinetobacter baumannii (ACB) complex, initially described by Gerner-Smidt Tjernberg 1993, that are closely related pittii. Strains characterized this study originated mostly from human samples obtained...
Pubertal growth patterns correlate with future health outcomes. However, the genetic mechanisms mediating trajectories remain largely unknown. Here, we modeled longitudinal height Super-Imposition by Translation And Rotation (SITAR) curve analysis on ~ 56,000 trans-ancestry samples repeated measurements from age 5 years to adulthood. We performed six phenotypes representing magnitude, timing, and intensity of pubertal spurt. To investigate lifelong impact variants associated trajectories,...
Circulating small RNAs, including miRNAs but also isomiRs and other RNA species, have the potential to be used as non-invasive biomarkers for communicable non-communicable diseases. This study aims characterize compare profiles in human biofluids. For this purpose, was extracted from plasma breast milk samples 15 healthy postpartum mothers. Small libraries were prepared with NEBNext® library preparation kit sequenced an Illumina HiSeq2000 platform. miRNAs, clusters of RNAs annotated using...
Vaginal Escherichia coli colonization is related to obstetric infections and the consequent development of in newborns. Ampicillin resistance among E. strains increasing, which main choice for treating empirically many neonatal infections. are very similar extraintestinal pathogenic with regards virulence factors belonging phylogroup B2. We studied antimicrobial genetic profile 82 isolates from 638 vaginal samples 63 isolated endometrial aspirate, placental amniotic fluid pregnant women The...
To investigate the potential relationship between quinolone resistance and biofilm production in a collection of Salmonella enterica clinical isolates S. serovar Typhimurium serial mutants with increasing to ciprofloxacin.Nalidixic acid susceptibility formation were assessed 122 isolates. An vitro quinolone-resistant mutant, 59-64, was obtained from biofilm-producing quinolone-susceptible isolate, 59-wt, multistep selection process after ciprofloxacin concentrations. The mechanisms [target...
Abstract Background Variants in the FTO gene have been associated with obesity children, but this association has not shown other biomarkers. We assessed of 52 polymorphisms, spanning whole gene, and estimated influence these polymorphisms on anthropometric, clinical metabolic parameters as well inflammation cardiovascular disease (CVD) risk biomarkers among Spanish children. Methods A multicentre case–control study was conducted 534 children (292 obese 242 normal-BMI). Anthropometric,...
Exosomes are extracellular vesicles of endocytic origin containing molecular signatures implying the cell origin; thus, they offer a unique opportunity to discover biomarkers disease. Plasmodium vivax, responsible for more than half all malaria cases outside Africa, is major obstacle in goal elimination due presence dormant liver stages (hypnozoites), which after initial infection may reactivate cause Hypnozoite asymptomatic and there currently no diagnostic tools detect their presence. The...
Antimicrobial resistance genes (ARGs) can be transferred by means of mobile genetic elements, which play a critical role in the dissemination bacterial community. ARG transmission within elements has been reported plasmids and transposons but less frequently bacteriophages. Here, bacteriophage fraction seven human faecal samples was purified deep-sequenced to detect presence ARGs phage particles. Seven (five from healthy individuals two patient before after receiving ciprofloxacin treatment)...
Abstract Bacteriophages are abundant in human biomes and therefore clinical samples. Although this is usually not considered, they might interfere with the recovery of bacterial pathogens at two levels: 1) by propagating enrichment cultures used to isolate infectious agent, causing lysis host 2) detection genes inside phage capsids that mislead presence pathogen. To unravel these interferences, samples (n = 271) were analyzed phages observed 11% blood culture, 28% serum, 45% ascitic fluid,...
Despite impressive and durable responses, nonsmall cell lung cancer (NSCLC) patients treated with anaplastic lymphoma kinase ( ALK ) inhibitors ‐Is) ultimately progress due to development of resistance. Here, we have evaluated the clinical utility circulating tumor DNA (ctDNA) profiling by next‐generation sequencing (NGS) upon disease progression. We collected 26 plasma two cerebrospinal fluid samples from 24 advanced ‐positive NSCLC at progression an ‐I. These were analyzed NGS digital PCR....
Summary Poultry meat production is one of the most important agri‐food industries in world. The selective pressure exerted by widespread prophylactic or therapeutic use antibiotics intensive chicken farming favours development drug resistance bacterial populations. Chicken liver, closely connected with intestinal tract, has been directly involved food‐borne infections and found to be contaminated pathogenic bacteria, including Campylobacter Salmonella . In this study, 74 livers, divided into...
In this study, we describe the molecular characterization of a plasmid-located blaNDM-1 harbored by an Acinetobacter clinical isolate recovered from patient in Turkey that putatively constitutes novel species, as shown its distinct ARDRA (amplified 16S ribosomal DNA restriction analysis) profile and sequencing techniques. was carried conjugative plasmid widespread among non-baumannii isolates, suggesting potential for dissemination before reaching more clinically relevant species.
Escherichia coli is one of the most frequent causes late-onset neonatal sepsis. The aim this study was to characterize an outbreak sepsis occurring in intensive care unit Hospital Clinic Barcelona from April August 2013.After presentation index case, all E. isolates previously hospitalized neonates, health-care workers and neonates admitted October 2013 were tested for K1 antigen positivity epidemiologically compared by pulse-field gel electrophoresis. Furthermore, strains collected during...
Salmonella possesses virulence determinants that allow replication under extreme conditions and invasion of host cells, causing disease. Here, we examined four putative genes predicted to encode membrane proteins (ydiY, ybdJ, STM1441 ynaJ) a transcriptional factor (yedF). These were identified in previous study S. Typhimurium clinical isolate its multidrug-resistant counterpart. For yedF reduced ability interact with HeLa cells was observed the knock-out mutants, but an increase this absent...
The European Genome-phenome Archive (EGA) is a repository that facilitates access and management for long-term archival of human biomolecular data. EGA co-managed by the Bioinformatics Institute (EBI) Centre Genomic Regulation (CRG). As omics community awareness data sharing reproducibility increases, complex services granular solutions are needed from repositories such as EGA. Not only will we introduce environment but also present advanced features designed wide range users. These new...
ABSTRACT Here, we report the draft genome sequence of type strain Acinetobacter dijkshoorniae , a novel human pathogen within calcoaceticus – baumannii (ACB) complex. Strain JVAP01 T has an estimated size 3.9 Mb, exhibits 38.8% G+C content, and carries plasmid with bla NDM-1 carbapenemase gene.
Abstract Since its launch in 2008, the European Genome–Phenome Archive (EGA) has been leading archiving and distribution of human identifiable genomic data. In this regard, one community concerns is potential usability stored data, as now, data submitters are not mandated to perform any quality control (QC) before uploading their associated metadata information. Here, we present a new File QC Portal developed at EGA, along with reports performed created for 1 694 442 files [Fastq, sequence...