A5045563136- Genetic diversity and population structure
- Genomics and Phylogenetic Studies
- Cancer-related molecular mechanisms research
- Chromosomal and Genetic Variations
- Molecular Biology Techniques and Applications
- Insect-Plant Interactions and Control
- Insect Resistance and Genetics
- Plant and Fungal Interactions Research
- RNA modifications and cancer
- Turtle Biology and Conservation
- Fungal and yeast genetics research
- Fish Biology and Ecology Studies
- Genetic Mapping and Diversity in Plants and Animals
- Identification and Quantification in Food
- Antifungal resistance and susceptibility
- Physiological and biochemical adaptations
- Species Distribution and Climate Change
- Insect Pest Control Strategies
- Insect behavior and control techniques
- RNA Research and Splicing
- Evolution and Genetic Dynamics
- Genomic variations and chromosomal abnormalities
- Plant Virus Research Studies
- Forensic and Genetic Research
- Yeasts and Rust Fungi Studies
Universitat Autònoma de Barcelona
2025
Universitat de Barcelona
2008-2025
Institut de Biologia Evolutiva
2024
Barcelona Institute for Science and Technology
2017-2020
Centre for Genomic Regulation
2015-2020
Universitat Politècnica de Catalunya
2019-2020
Barcelona Supercomputing Center
2019-2020
Institute for Research in Biomedicine
2019-2020
Universitat Pompeu Fabra
2013-2019
Institute for Research in Biomedicine
2019
Gene duplication is widely regarded as a major mechanism modeling genome evolution and function. However, the mechanisms that drive of two, initially redundant, gene copies are still ill defined. Many duplicates experience evolutionary rate acceleration, but relative contribution positive selection random drift to retention subsequent duplicates, for how long molecular clock may be distorted by these processes, remains unclear. Focusing on rodent genes duplicated before after mouse rat...
Candida glabrata is an opportunistic fungal pathogen that ranks as the second most common cause of systemic candidiasis. Despite its genus name, this yeast more closely related to model Saccharomyces cerevisiae than other pathogens, and hence ability infect humans thought have emerged independently. Moreover, C. has all necessary genes undergo a sexual cycle but considered asexual organism due lack direct evidence reproduction. To reconstruct recent evolution find footprints reproduction, we...
Sea urchins are emblematic models in developmental biology and display several characteristics that set them apart from other deuterostomes. To uncover the genomic cues may underlie these specificities, we generated a chromosome-scale genome assembly for sea urchin Paracentrotus lividus an extensive gene expression epigenetic profiles of its embryonic development. We found that, unlike vertebrates, retained ancestral chromosomal linkages but underwent very fast intrachromosomal order mixing....
Abstract The Catalan Initiative for the Earth BioGenome Project (CBP) is an EBP-affiliated project network aimed at sequencing genome of >40 000 eukaryotic species estimated to live in Catalan-speaking territories (Catalan Linguistic Area, CLA). These represent a biodiversity hotspot. While covering less than 1% Europe, they are home about one fourth all known European species. include high proportion endemisms, many which threatened. This trend likely get worse as effects global...
Aging is a complex process affecting different species and individuals in ways. Comparing genetic variation across with their aging phenotypes will help understanding the molecular basis of longevity. Although most studies on have so far focused short-lived model organisms, recent comparisons genomic, transcriptomic, metabolomic data lineages lifespans are unveiling signatures associated Here, we examine relationship between genomic maximum lifespan primate species. We used two approaches....
Abstract The loggerhead sea turtle ( Caretta caretta ) is sensitive to climate change and responding by colonising the Western Mediterranean. To understand rapid nesting increase in recent years Spain, we sampled 45 hatchlings from 8 nests between 2016 2019. We sequenced a mtDNA D‐loop region, genotyped 2291 SNPs using 2bRAD collected data on clutch size, hatching success, incubation duration. confirmed that colonisation has Mediterranean Atlantic mixed origin detected these were laid...
Abstract Biological invasions are a major threat to biodiversity. Therefore, monitoring genomic features of invasive species is crucial understand their population structure and adaptive processes. However, resources scarce, compromising the study success. Here, we present reference genome Styela plicata , one most widespread marine species, combined with data 24 individuals from 6 populations distributed worldwide. We characterized large inversions in four chromosomes, accounting for ~ 15%...
Metazoans transcribe many long non-coding RNAs (lncRNAs) that are poorly conserved and whose function remains unknown. This has raised the questions of what fraction predicted lncRNAs is actually functional, whether selection can effectively constrain in species with small effective population sizes such as human populations. Here we evaluate signatures using inter-specific data intra-specific comparisons from five major populations, well by assessing relationships between sequence variation...
ABSTRACT Allochrony is a form of reproductive isolation characterized by differences in the timing spawning and may play crucial role genetic phenotypic divergence within species. The Atlantic lumpfish ( Cyclopterus lumpus ) known to spawn spring autumn. However, allochrony on genomic structure this species has not been addressed. Here, combining whole genome sequencing data otolith shape 64 specimens, we explore evolutionary drivers lumpfish, focusing autumn spawners sampled at two...
Abstract A huge amount of data seem to confirm the adaptive value inversions in Drosophila . The inhibition recombination heterokaryotypes mediated by seems fundamental maintaining their role. This study shows that is highly suppressed subobscura because chromosomal inversions, not only inside but also outside them. It region inversion where inhibited asymmetrical and independent length. Despite difficulty crossovers taking place near breakpoints, two events detected were located close...
Ecology of insects is as wide their diversity, which reflects high capacity adaptation in most the environments our planet. Aphids, with over 4,000 species, have developed a series adaptations including phenotypic plasticity and ability to feed on phloem sap plants, enriched sugars derived from photosynthesis. Recent analyses aphid genomes indicated level shared ancestral gene duplications that might represent basis for genetic innovation broad adaptations. In addition, there are large...
ABSTRACT In response to global climate change, numerous taxa are expanding their living ranges. highly migratory species such as sea turtles, this expansion may be driven by individuals from nearby or distant areas. Recent nests outside the species' typical nesting range and reports of adult‐sized in western Mediterranean suggest a green turtle ( Chelonia mydas ) into central Mediterranean. To assess turtles' origin these novel habitats, we built genomic baseline using 2bRAD sequencing on...
The high regulatory complexity of vertebrates has been related to two rounds whole genome duplication (2R-WGD) that occurred before the divergence major vertebrate groups. Following these events, many developmental transcription factors (TFs) were retained in multiple copies and subsequently specialized diverse functions, whereas others reverted their singleton state. TFs are known be generally rich amino acid repeats or low-complexity regions (LCRs), such as polyalanine polyglutamine runs,...
Conservation genomic studies in non-model organisms generally rely on reduced representation sequencing techniques based restriction enzymes to identify population structure as well candidate loci for local adaptation. While the expectation is that of genome randomly distributed, proportion sampled might depend GC content recognition site enzyme used. Here, we evaluated distribution and functional composition obtained after a approach using Genotyping-by-Sequencing (GBS). To do so, compared...
Long non-coding RNAs (lncRNAs) are a heterogeneous class of genes that do not code for proteins. Since lncRNAs (or fraction thereof) expected to be functional, many efforts have been dedicated catalog in numerous organisms, but our knowledge non vertebrate species remains very limited. Here, we annotated using transcriptomic data from the same larval stage four Caenorhabditis species. The number self-fertile nematodes was lower than out-crossing We used combination approaches identify...
Abstract The majority of the transcribed genome does not have coding potential but these non‐coding transcripts play crucial roles in transcriptional and post‐transcriptional regulation protein‐coding genes. Regulation gene expression is important shaping an organism's response to environmental changes, ultimately impacting their survival persistence as population or species face global change. However, long RNAs (lncRNAs), when confronted with remain largely unclear. To explore role lncRNAs...
Abstract Background Genomic architecture is a key evolutionary trait for living organisms. Due to multiple complex adaptive and neutral forces which impose pressures on genomes, there huge variability of genomic features. However, their the extent content determines distribution recovered loci in reduced representation sequencing studies largely unexplored. Results Here, by using 80 genome assemblies, we observed that whereas plants primarily increase size expanding intergenic regions,...
The black sea urchin (Arbacia lixula) is a keystone species inhabiting the coastal shallow waters of Mediterranean Sea, which key driver littoral communities' structure. Here, we present first genome assembly and annotation this species, standing as Arbacioida genome, including both nuclear mitochondrial genomes. To obtain chromosome-level assembly, used combination PacBio high fidelity (HiFi) reads chromatin capture (Omni-C). In addition, generated high-quality coding non-coding genes, by...
Abstract Adaptation is defined as an evolutionary process allowing organisms to succeed in certain habitats or conditions. Chromosomal inversions have the potential be key adaptation processes, since they can contribute maintenance of favoured combinations adaptive alleles through reduced recombination between individuals carrying different inversions. We analysed six genes ( Pif1A, Abi, Sqd, Yrt, Atpα and Fmr1 ), located inside outside three O chromosome European populations Drosophila...
An increasing number of phased (i.e. with resolved haplotypes) reference genomes are available. However, the most genetic variant calling tools do not explicitly account for haplotype structure. Here, we present HaploTypo, a pipeline tailored to resolve haplotypes in variation analyses. HaploTypo infers correspondence each heterozygous called on genome.HaploTypo is implemented Python 2.7 and 3.5, freely available at https://github.com/gabaldonlab/haplotypo, as Docker image.Supplementary data...