A5062248194- Protist diversity and phylogeny
- Microbial Community Ecology and Physiology
- Genomics and Phylogenetic Studies
- Environmental DNA in Biodiversity Studies
- Coral and Marine Ecosystems Studies
- Marine Biology and Ecology Research
- Bacteriophages and microbial interactions
- Aquaculture disease management and microbiota
- Parasitic Infections and Diagnostics
- Marine Ecology and Invasive Species
- Parasite Biology and Host Interactions
- Community Development and Social Impact
- Insect and Arachnid Ecology and Behavior
- Marine and coastal ecosystems
- Marine Invertebrate Physiology and Ecology
- Coastal wetland ecosystem dynamics
- Financial Literacy, Pension, Retirement Analysis
- Molecular Biology Techniques and Applications
- Plant and animal studies
- Insect symbiosis and bacterial influences
- Methane Hydrates and Related Phenomena
- Marine and coastal plant biology
- Marine and fisheries research
- Primate Behavior and Ecology
- Wildlife Ecology and Conservation
Pompeu Fabra University
2013-2025
Institut de Biologia Evolutiva
2012-2025
University of Miami
2018-2025
University of British Columbia
2014-2024
King Abdullah University of Science and Technology
2023
Boston University
2023
National University of San Marcos
2022
Consejo Superior de Investigaciones Científicas
2000-2021
Institut Català de Ciències del Clima
2007-2018
Institut de Ciències del Mar
2007-2018
The interrogation of genetic markers in environmental meta-barcoding studies is currently seriously hindered by the lack taxonomically curated reference data sets for targeted genes. Protist Ribosomal Reference database (PR2, http://ssu-rrna.org/) provides a unique access to eukaryotic small sub-unit (SSU) ribosomal RNA and DNA sequences, with taxonomy. mainly consists nuclear-encoded protistan sequences. However, metazoans, land plants, macrosporic fungi organelles (mitochondrion, plastid...
Abstract This revision of the classification eukaryotes follows that Adl et al., 2012 [ J. Euk. Microbiol . 59(5)] and retains an emphasis on protists. Changes since have improved resolution many nodes in phylogenetic analyses. For some clades even families are being clearly resolved. As we had predicted, environmental sampling intervening years has massively increased genetic information at hand. Consequently, discovered novel clades, exciting new genera uncovered a massive species level...
The eukaryotic phylum Apicomplexa encompasses thousands of obligate intracellular parasites humans and animals with immense socio-economic health impacts. We sequenced nuclear genomes Chromera velia Vitrella brassicaformis, free-living non-parasitic photosynthetic algae closely related to apicomplexans. Proteins from key metabolic pathways the endomembrane trafficking systems associated a lifestyle have been progressively non-randomly lost during adaptation parasitism. ancestor contained...
Environmental DNA and culture-based analyses have suggested that fungi are present in low diversity abundance many marine environments, especially the upper water column. Here, we use a dual approach involving high-throughput tag sequencing from both RNA templates fluorescent cell counts to evaluate relative of across samples taken six European near-shore sites. We removed very rare fungal operational taxonomic units (OTUs) selecting only OTUs recovered multiple for detailed analysis. This...
Within microeukaryotes, genetic variation and functional sometimes accumulate more quickly than morphological differences. To understand the evolutionary history ecology of such lineages, it is key to examine diversity at multiple levels organization. In dinoflagellate family Symbiodiniaceae, which can form endosymbioses with cnidarians ( e.g ., corals, octocorals, sea anemones, jellyfish), other marine invertebrates e.g. , sponges, molluscs, flatworms), protists foraminifera), molecular...
Analysis of marine cyanobacteria and proteobacteria genomes has provided a profound understanding the life strategies these organisms their ecotype differentiation metabolisms. However, comparable analysis Bacteroidetes, third major bacterioplankton group, is still lacking. In present paper, we report on genome Polaribacter sp. strain MED152. On one hand, MED152 contains substantial number genes for attachment to surfaces or particles, gliding motility, polymer degradation. This agrees with...
Over the last decade, culture-independent surveys of marine picoeukaryotic diversity based on 18S ribosomal DNA clone libraries have unveiled numerous sequences novel high-rank taxa. This newfound has significantly altered our understanding microbial food webs and evolution eukaryotes. However, current picture eukaryotic biodiversity may be skewed by PCR amplification biases, occurrence rDNA genes in multiple copies within a single cell, capacity to persist as extracellular material. In this...
•There is an important bias in eukaryotic knowledge, affecting cultures and genomes.•Eukaryotic genomics are biased towards multicellular organisms their parasites.•A phylogeny-driven initiative needed to overcome the genomic bias.•We propose sequence neglected increase culturing efforts.•Single-cell should be embraced as a tool explore diversity. Understanding origin evolution of cell full diversity eukaryotes relevant many biological disciplines. However, our current understanding genomes...
The evolution of metazoans from their unicellular ancestors was one the most important events in history life. However, cellular and genetic changes that ultimately led to multicellularity are not known. In this study, we describe an aggregative multicellular stage protist Capsaspora owczarzaki, a close relative metazoans. Remarkably, transition is associated with significant upregulation orthologs genes known establish tissue architecture We further observe transitions regulated alternative...
Environmental sequencing has greatly expanded our knowledge of micro-eukaryotic diversity and ecology by revealing previously unknown lineages their distribution. However, the value these data is critically dependent on quality reference databases used to assign an identity environmental sequences. Existing contain errors struggle keep pace with rapidly changing eukaryotic taxonomy, influx novel diversity, computational challenges related assembling high-quality alignments trees needed for...
Abstract Stony coral tissue loss disease (SCTLD) has been causing significant whole colony mortality on reefs in Florida and the Caribbean. The cause of SCTLD remains unknown, with limited concurrence SCTLD-associated bacteria among studies. We conducted a meta-analysis 16S ribosomal RNA gene datasets generated by 16 field laboratory studies to find consistent associated across zones (vulnerable, endemic, epidemic), species, compartments (mucus, tissue, skeleton), health states (apparently...
A genomic database of all Earth's eukaryotic species could contribute to many scientific discoveries; however, only a tiny fraction have information available. In 2018, scientists across the world united under Earth BioGenome Project (EBP), aiming produce high-quality reference genomes containing ~1.5 million recognized species. As European node EBP, Reference Genome Atlas (ERGA) sought implement new decentralised, equitable and inclusive model for producing genomes. For this, ERGA launched...
Abstract Awareness of the roles that host‐associated microbes play in host biology has escalated recent years. However, microbiome studies have focused essentially on bacteria, and overall, we know little about role eukaryotes outside field parasitology. Despite that, microeukaryotes particular are known to be common inhabitants animals. In many cases, and/or for long periods time, these associations not associated with clinical signs disease. Unlike study bacterial microbiomes, animals...