A5037439879- Extracellular vesicles in disease
- Cancer-related molecular mechanisms research
- Genomics and Phylogenetic Studies
- Plant Virus Research Studies
- Insect and Arachnid Ecology and Behavior
- Vector-borne infectious diseases
- Chromosomal and Genetic Variations
- Bacteriophages and microbial interactions
- Parasite Biology and Host Interactions
- Marine Ecology and Invasive Species
- SARS-CoV-2 and COVID-19 Research
- Viral Infections and Vectors
- Colorectal and Anal Carcinomas
- Cholangiocarcinoma and Gallbladder Cancer Studies
- Cancer, Lipids, and Metabolism
- Plant and Fungal Interactions Research
- Gut microbiota and health
- Plant Disease Resistance and Genetics
- SARS-CoV-2 detection and testing
- Metabolomics and Mass Spectrometry Studies
- Microbial Community Ecology and Physiology
- Genetic factors in colorectal cancer
- DNA and Biological Computing
- Aquaculture disease management and microbiota
- Advanced biosensing and bioanalysis techniques
Parc Científic de la Universitat de València
2015-2025
Park University
2023
Universitat de València
2001-2022
Universitat de Barcelona
2016-2019
SOM Biotech (Spain)
2018
Genomics (United Kingdom)
2017
Universidad Politécnica de Cartagena
2015
Centro de Investigación Biomédica en Red
2010
Universitat Politècnica de València
2010
Instituto Valenciano de Investigaciones Agrarias
2010
This article introduces the second release of Gypsy Database Mobile Genetic Elements (GyDB 2.0): a research project devoted to evolutionary dynamics viruses and transposable elements based on their phylogenetic classification (per lineage protein domain). The (GyDB) is long-term that continuously progressing, owing high molecular diversity mobile requires be completed in several stages. GyDB 2.0 has been powered with wiki allow other researchers participate project. current database stage...
Here we present the genome sequence and annotation of wild olive tree (
Sequencing projects have allowed diverse retroviruses and LTR retrotransposons from different eukaryotic organisms to be characterized. It is known that other retro-transcribing viruses evolve this whole system clusters into five families: Ty3/Gypsy, Retroviridae, Ty1/Copia, Bel/Pao Caulimoviridae. Phylogenetic analyses usually show these split multiple distinct lineages but what yet understood how deep evolution occurred in system. We combined phylogenetic graph investigate the history of...
Fusarium avenaceum is a fungus commonly isolated from soil and associated with wide range of host plants. We present here three genome sequences F. avenaceum, one barley in Finland two spring winter wheat Canada. The sizes the genomes 41.6–43.1 MB, 13217–13445 predicted protein-coding genes. Whole-genome analysis showed that are highly syntenic, share>95% gene orthologs. Comparative to other sequenced Fusaria shows has very large potential for producing secondary metabolites, between 75 80...
We performed a comprehensive analysis of the evolution Ty3/Gypsy group long-terminal-repeat retrotransposons (also known as Metaviridae). Exhaustive database searches allowed us to detect novel elements this group. In particular, Arabidopsis thaliana and Drosophila melanogaster genome sequencing projects have recently disclosed large number new sequences. So far, three different lineages had been described for A. thaliana. Here, we describe six lineages, which called Tit-for-tat1,...
Vibrio vulnificus (Vv) is a multi-host pathogenic species currently subdivided into three biotypes (Bts). The Bts are human-pathogens, but only Bt2 also fish-pathogen, an ability that conferred by transferable virulence-plasmid (pVvbt2). Here we present phylogenomic analysis from the core genome of 80 Vv strains belonging to recovered wide range geographical and ecological sources. We have identified five well-supported phylogenetic groups or lineages (L). L1 comprises mixture clinical...
The work that we present here represents the culmination of many years investigation in looking for a suitable methodology to simulate multihierarchical processes involved antibiotic resistance. Everything started with our early appreciation different independent but embedded biological units shape biology, ecology, and evolution antibiotic-resistant microorganisms. Genes, plasmids carrying these genes, cells hosting plasmids, populations cells, microbial communities, host's constitute...
Populations of RNA viruses are composed complex and dynamic mixtures variant genomes that termed mutant spectra or clouds. This applies also to SARS-CoV-2, mutations detected at low frequency in an infected individual can be dominant (represented the consensus sequence) subsequent variants interest concern. Here we briefly review main conclusions our work on spectrum characterization hepatitis C virus (HCV) SARS-CoV-2 nucleotide amino acid levels address following two new questions derived...
The significant microbiota variability represents a key feature that makes the full comprehension of functional interaction between and host an ongoing challenge. To overcome this limitation, in study, fish intestinal was analyzed through meta-analysis, identifying core constructing stochastic Bayesian network (BN) models with SAMBA. We combined three experiments performed gilthead sea bream juveniles same hatchery batch, reared at season/location, fed diets enriched on processed animal...
Anisakis simplex sensu stricto and pegreffii are sibling species of nematodes parasitic on marine mammals. Zoonotic human infection with third stage infective larvae causes anisakiasis, a debilitating potentially fatal disease. These 2 show evidence hybridisation in geographical areas where they sympatric. How the their hybrids differ is still poorly understood.Third s.s., were sampled from Merluccius merluccius (Teleosti) hosts captured waters FAO 27 area. Specimens each distinguished...
Cryptocercus punctulatus and Parasphaeria boleiriana are two distantly related xylophagous subsocial cockroaches. is to termites. Xylophagous cockroaches termites excellent model organisms for studying the symbiotic relationship between insect their microbiota. In this study, high-throughput 454 pyrosequencing of 16S rRNA was used investigate diversity metagenomic gut communities C. P. boleiriana, thereby identify possible shifts in symbiont allegiances during evolution. Our results revealed...
Gilthead sea bream is an economically important fish species that remarkably well-adapted to farming and changing environments. Understanding the genomic basis of this plasticity will serve orientate domestication selective breeding towards more robust efficient fish. To address goal, a draft genome assembly was reconstructed combining short- long-read high-throughput sequencing with genetic linkage maps. The assembled unmasked spans 1.24 Gb expected 1.59 size 932 scaffolds (~732 Mb)...
Scope Nonalcoholic fatty liver disease (NAFLD) is the most common with poor therapeutic strategies. Mastiha possesses antioxidant/anti‐inflammatory and lipid‐lowering properties. The authors investigate effectiveness of as a nonpharmacological intervention in NAFLD. Methods Results Ninety‐eight patients NAFLD three countries (Greece, Italy, Serbia) are randomly allocated to either or Placebo for 6 months, part multicenter, randomized, double‐blind, placebo‐controlled, parallel‐group clinical...
In this article, we introduce the Gypsy Database (GyDB) of mobile genetic elements, an in-progress database devoted to non-redundant analysis and evolutionary-based classification elements. first version, contemplate eukaryotic Ty3/Gypsy Retroviridae long terminal repeats (LTR) retroelements. Phylogenetic analyses based on gag-pro-pol internal region commonly presented by these two groups strongly support a certain number previously described lineages originally reported from...
The origin of vertebrate retroviruses (Retroviridae) is yet to be thoroughly investigated, but due their similarity and identical gag-pol (and env) genome structure, it accepted that they evolve from Ty3/Gypsy LTR retroelements the retrotransposons plants, fungi animals. These 2 groups code for 3 proteins rarely studied high variability – gag polyprotein, protease GPY/F module. In relation previously proposed Retroviridae classes I, II II, investigation above conclusively uncovers important...
Bacterial plasmids harboring antibiotic resistance genes are critical in the spread of resistance. It is known that differ their kinetic values, i.e., conjugation rate, segregation rate by copy number incompatibility with related plasmids, and stochastic loss during replication. They also cost to cell terms reducing fitness frequency compensatory mutations compensating plasmid cost. However, we do not know how variation these values influences success a its complex ecosystems, such as...
Metaviridae is a family of retrotransposons and reverse-transcribing viruses with long terminal repeats belonging to the order Ortervirales . Members genera Errantivirus Metavirus include, respectively, Saccharomyces cerevisiae Ty3 virus its Gypsy-like relatives in drosophilids. This summary International Committee on Taxonomy Viruses (ICTV) Report Metaviridae, which available at ictv.global/report/metaviridae
Non-alcoholic fatty liver disease (NAFLD) is the most common with no therapeutic consensus. Oxidation and inflammation are hallmarks in progression of this complex disease, which also involves interactions between genetic background environment. Mastiha a natural nutritional supplement known to possess antioxidant anti-inflammatory properties. This study investigated how 6-month supplementation (2.1 g/day) could impact inflammatory status patients NAFLD, whether variants significantly...
Replication of SARS-CoV-2 in the human population is defined by distributions mutants that are present at different frequencies within infected host and can be detected ultra-deep sequencing techniques. In this study, we examined mutant spectra amplicons from spike-coding (S-coding) region 5 nasopharyngeal isolates derived patients with vaccine breakthrough. Interestingly, all became Alpha variant, but amino acid substitutions correspond to Delta Plus, Iota, Omicron variants were resident...
Mutant spectra of RNA viruses are important to understand viral pathogenesis and response selective pressures. There is a need characterize the complexity mutant in coronaviruses sampled from infected patients. In particular, possible relationship between SARS-CoV-2 spectrum disease associations has not been established. present study, we report an ultradeep sequencing (UDS) analysis amplicons nsp12 (polymerase)- spike (S)-coding regions 30 nasopharyngeal isolates (diagnostic samples) first...
Abstract Background Broodstock nutritional programming improves the offspring utilization of plant-based diets in gilthead sea bream through changes hepatic metabolism. Attention was initially focused on fatty acid desaturases, but it can involve a wide range processes that remain largely unexplored. How all this be driven by different genetic background is hardly underlined, and present study aimed to assess how broodstock nutrition affects differentially transcriptome genome-wide DNA...
The argasid tick Ornithodoros moubata is the main vector of human relapsing fever (HRF) and African swine (ASF) in Africa. Salivary proteins are part host-tick interface play vital roles feeding process host infection by tick-borne pathogens; they represent interesting targets for immune interventions aimed at control. present work describes transcriptome profile salivary glands O . assesses gene expression dynamics along trophogonic cycle using Illumina sequencing. De novo assembling...