Resultados de investigación

Genetic relationship between mutant HPC and tumor cells., Instituto de Salud Carlos III Cancer Research UK Fundación Científica Asociación Española Contra el Cáncer Fondazione Italiana per la Ricerca sul Cancro Fondazione Regionale per la Ricerca Biomedica International Myeloma Foundation European Research Council European Commission Multiple Myeloma Research Foundation, Peer reviewed

SV gratefully acknowledges the financial support from EQUALSEA (Transformative adaptation towards ocean equity) project, under the European Horizon 2020 Program, ERC Consolidator (Grant Agreement # 101002784) funded by the European Research Council. He also acknowledges the support of the Earth Commission and Future Earth. AO-A was supported by a Ramon y Cajal grant funded by the Ministry of Science and Innovation (RyC2023-043454-I). This work contributes to the IMEDEA’s ‘Center of Excellence’ Maria de Maetzu (CEX2021-001198). This work contributes to the ICM “Severo Ochoa Centre of Excellence” accreditation (CEX2024-001494-S funded by AEI 10.13039/501100011033, Peer reviewed

Project: PRJEB90443; Secondary Study Accession: ERP173445, 26 sites in France and Chile were sampled, including coastal lagoons, fjords, estuaries, harbours, coastal marine sites, and marine offshore sites to investigate the response of microbial communities to environmental disturbances. The communities were identified by 16S rRNA gene metabarcoding (V4-V5; Primers: FWD:GTGYCAGCMGCCGCGGTAA, REV:CCGYCAATTYMTTTRAGTTT) and metagenomic sequencing, Peer reviewed

Peer reviewed

Distributed Acoustic Sensing acquisition in the Instituto de Astrofisica de Canarias observatories in La Palma and Tenerife to monitor the 2021 Cumbre Vieja eruption in the island of La Palma, Peer reviewed

In 2014, the continental shelf and submarine canyon off Cap de Creus (NW Mediterranean) were included in the Site of Community Importance (SCI) “South-West Gulf of Lions canyons system” of the Natura 2000 Network of protected areas. Before the declaration of the SCI (2007-2103), 60 underwater video transects were performed in the area by means of ROVs and a manned submersible, covering more than 30 km of seafloor. Based on the annotation of the video images, we identified the main invertebrate megabenthic communities dwelling from the shelf (70 m depth) down to the bottom of the canyon head (400 m depth). The results of the multivariate analyses indicated that this marine area hosted several benthic communities dominated by suspension- and filter-feeding species, including octocoral gardens, soft-coral assemblages, crinoid fields, sponge grounds and cold-water corals. This dataset includes (1) the geographical location of the benthic communities identified in the video footage, as determined by the clustering analysis, (2) the intra-community diversity associated to the benthic communities, provided as the number of megafauna species identified in each sampling unit and the exponential of Shannon, and (3) the spatial distribution of the benthic communities mapped by means of the Random Forest classification algorithm. This dataset is related to the article “Diversity, structure and spatial distribution of megabenthic communities in Cap de Creus continental shelf and submarine canyon (NW Mediterranean)” submitted to Progress in Oceanography by Dominguez-Carrió et al., which contains further information on how the data were obtained and processed., This dataset was obtained in the framework of the European projects HERMES (Goce-CT-2005-511234-I) and Life+ INDEMARES (LIFE07/NAT/E/000732), and the Spanish projects DEEP CORAL (CTM2005-07756-C02-02/MAR) and the Acciones Complementarias (CTM2005-24174-E, CTM2006-27063-E/MAR, CTM2007-28758-E/MAR). [...] CD-C acknowledges the financial support received by the EU funded projects Life+ INDEMARES (LIFE07/NAT/E/000732) and ENPI ECOSAFIMED (ENPI CBC MED 2007-2013) and by the FCT-IP Project UIDP/05634/2020, With the institutional support of the ‘Severo Ochoa Centre of Excellence’ accreditation (CEX2019-000928-S), Peer reviewed

Note the higher mutational load in comparison with the molecular NOS cases. B Summary of Variant classification in DLBCL NOS of the molecular NOS/other subtype (49%, 37 case. S2 Fig. A complete representation of genetic subtype associated Lymphgen features found on each case of DLBCL. Genetic subtype prediction, FISH results for MYC, BCL2 and BCL6, Histopathological subtype and cell of origin phenotype are shown. S3 Fig. Oncogenic signaling pathway analysis focusing on the RTK/RAS pathway in molecular NOS/Other DLBCL cases. Somatic mutations in genes such as ROS1 (7 cases) were prevalent in these cases. Mutations in MAPK/ERK pathway were absent with isolated cases showing NF1 (4 cases), BRAF (1 case) and NRAs (1 case) somatic mutations. B. Detail of gene locations for mutations in ROS1, NF1 and ALK. S4 Fig. TP53 somatic mutations in DLBCL cases. Detailed protein location of TP53 gene mutations are shown. Note the presence of hotspot mutations such as (p.Arg175His COSV52661038 and p.Gly245Ser, COSV52661877). S5 Fig. Detailed protein location of recurrent mutations in MAPK/ERK pathway genes, EGFR and ROS1 in plasmablastic lymphoma. S6 Fig. druggable categories in plasmablastic lymphoma according to mutational landscape. S1 Table. Summary of pathological features of the cohort of cases. Data regarding histopathological diagnosis according to current WHO classification, phenotype based on immunohistochemistry and/or gene expression profiling (LymphC2x), MYD88 L265P mutation status by allele-specific PCR and/or NGS in the tumor biopsy, FISH results, TP53 CNAs prediction, Lymphgen 2.0 genetic subtype predictions, EBV-EBER by in situ hybridization in tumor biopsy and HIV status are shown. S2 Table. MYD88L265P mutation status detected by AS-PCR in an independent series of 112 DLBCL samples, including seventy-one extranodal DLBCL. The prevalence of MYD88L265P mutation in extranodal samples was 45%, in contrast with <10% of nodal Lymphoma cases. S3 Table. Summary genetic subtype associated Lymphgen features found on each case of DLBCL. S4 Table. Summary of Lymphgen features found on each case of Plasmablastic Lymphoma. S5 Table. List of somatic variants identified in 108 cases. This list includes all type of variants (synonymous, intronic, missense, nonsense, splice site, frame-shift deletions, frame-shift insertions, in frame deletions, in-frame insertions, translation start site, non-stop mutations) with a DP superior or equal to 50 reads. For evaluation of complete raw data for each case, including germline DNA sequencing when available, please consider to log in the EGA repository (https://ega-archive.org/studies/EGAS50000000371). Request for data access may be referred directly to the Data Access Committee: https://ega-archive.org/dacs/EGAC50000000261, Peer reviewed

Sequencing data from various tissues of European seabass (Dicentrarchus labrax).-- Accession: PRJNA1103406. Data Type:Raw sequence reads, Los programas tradicionales de cría se centran en la genética y suelen ignorar la influencia ambiental y epigenética en la variabilidad fenotípica. En este estudio con peces, se analizaron ~500 000 loci CpG de 60 familias para desarrollar biomarcadores epigenéticos (EBs) que ayuden a seleccionar reproductores. Mediante selección cuidadosa de muestras, filtrado estadístico y algoritmos de machine learning, se identificaron tres loci CpG heredables asociados con biomasa, crecimiento rápido de hembras y resistencia a efectos de masculinización por alta temperatura. Con estos EBs se construyó un modelo capaz de predecir los mejores reproductores, validado en tres ensayos independientes y en una cohorte externa, mostrando robustez. Incorporar la selección epigenética aumentó la producción hasta 1,4 veces respecto a la selección genética sola. Esta estrategia ofrece un enfoque económico para integrar selección genética y epigenética, aplicable también a estudios de enfermedades raras y conservación biológica. El conjunto de datos incluye 20 librerias de RRBS con las cuales se desarrollo el método inicial y librerías de MBS hechas para su validación, Este estudio fue financiado por el “Centro para el Desarrollo Tecnológico e Industrial” (CDTI) y el Fondo Europeo Marítimo y de Pesca (FEMP) a través del Proyecto IDI-20220244 para ML, y por los proyectos del Ministerio de Ciencia de España PID2019-108888RB-I00 y PID2022-139096OB-I00 para FP, con financiación del gobierno español mediante la acreditación de “Centro de Excelencia Severo Ochoa” (CEX2019-000928-S). NS contó con una beca predoctoral del Ministerio de Ciencia e Innovación de España (BES-2017-079744), 28 RRBS libraries with pools of 4 individuals per family and sex and 70 individual MBS libraries, Peer reviewed

This dataset contains annual series of coral growth rates (1912-2020) and environmental variables used to generate the results of the following research article: Cardoso, G. O., Kersting, D. K., Brachert, T. C. , Heiss, G. A., Leinfelder, R., Maréchal, J.P., D’Olivo, J.P. (2025). Emerging skeletal growth responses of Siderastrea sidereacorals to multidecadal anthropogenic impacts in Martinique, Caribbean Sea. Scientific Reports, Anthropogenic stressors on Caribbean reefs have shifted coral dominance toward stress-tolerant species such as Siderastrea siderea, increasing their importance for reef construction. However, the sublethal responses of these corals to past stressors remain understudied, limiting our understanding of their long-term acclimatization capacity. Here, we reconstructed the annual skeletal growth rates (1912 to 2020) of twelve S. siderea coral colonies from Martinique (Caribbean Sea) and examined their relationships with changes in human population, sea surface temperature (SST), precipitation, river discharge, and agricultural indicators between 1950 and 2020. Long-term growth rate declines observed since the 1950s were initially associated with human population, a proxy for local stress. Warming SST enhanced coral skeletal growth between 1950 and 1985, suggesting optimal temperatures for calcification during this interval. However, skeletal density exhibited a multidecadal (1950 to 2020) parabolic response, indicating a surpassing of this thermal optimum in recent decades. This parabolic response included persistent skeletal density declines from 2010 to 2020, possibly related to cumulative thermal stress or the interaction with ocean acidification effects. Our findings suggest a limited acclimatization capacity of long-lived S. siderea corals to cumulative pressures in Martinique and highlight their vulnerability to the compounding effects of local stressors and climate change., European Union’s Horizon 2020 Research and Innovation Programme (EU-MaCoBioS)Grant no. 869710; Ministerio de Ciencia, Innovación y Universidades Ramon y Cajalgrant no. RYC2021-033576-I; Deutsche Forschungsgemeinschaft grant no. 468545550; Deutsche Forschungsgemeinschaft SPP 2299 “Tropical Climate Variability & Coral Reefs”Project no. 441832482, Peer reviewed

Sampling was conducted over a period of 14 yr (2000 to 2014) at the Blanes Bay Microbial Observatory (BBMO) station, located in the Bay of Blanes, in the Northwestern Mediterranean Coast (Fig. 1), approximately 60 km north of Barcelona. The BBMO station is a shallow site (~20 m depth) approximately 800 m offshore from the town of Blanes (41° 40' N, 2° 48' E). A total of 162 surface water samples were considered for analysis. The first one was taken in September 2000; from 2001 to 2014, samples were in general collected monthly, with some exceptions. A volume of water varying from 0.7 l to 1 l (depending on the sampling season) was filtered onto Whatman GF/F (nominal pore size 0.7 μm; 25 mm diameter) glass fiber filters with low vacuum (0.4 bars) to prevent cells from breaking. Subsequently, the filters were folded, dried, wrapped in aluminum foil and stored frozen at −80°C until analysis. For pigment extraction, the filters were placed in tubes with 2.5 ml of 90% acetone submerged in ice, and the pigments were extracted by sonication for 30 s. Subsequently, the filters were stored at −20°C. After 24 h, the samples were vortexed and filtered through Whatman GF/F glass fiber filters. Prior to 2008, the samples were analyzed at the Institut de Ciències del Mar (CSIC) in Barcelona according to the method of Zapata et al. (2000), using a ThermoQuest chromatograph (hereafter System 1), which included a P2000 solvent module, an A/S 3000 autosampler, a UV-3000 absorbance detector (440 nm), a FL2000 fluorescence detector (excitation = 430 nm, emission = 662 nm), and an SN 4000 controller. After 2008, analyses were carried out at the Centro Oceanográfico de Gijón/Xixón (IEO-CSIC) following the procedure (hereafter System 2) of Latasa (2014), which increased the sensitivity and lowered the detection limit, using an Agilent series 1200 chromatographic system consisting of a G1311A quaternary pump, a G1367C autosampler with a 100 μl capillary loop, a G1316B column thermostat, and a G1315C diode array detector. A significant change added to the System 2 analyses was the use of trans-β-apo-8'-carotenal, as an internal standard, dissolved in the acetone used for sample extraction. In total, 28 pigments were detected at 440 and 665 nm (System 1) or 474 and 664 nm (System 2) and identified by retention time and online diode array detector, - Agència de Gestió d'Ajuts Universitaris i de Recerca (AGAUR), grant/award no. SGR/1179 - Agència de Gestió d'Ajuts Universitaris i de Recerca (AGAUR), grant/award no. SGR/761 - Comissió Interdepartamental de Recerca i Innovació Tecnològica, Generalitat de Catalunya, grant/award no. 2005SGR/00872 - Comissió Interdepartamental de Recerca i Innovació Tecnològica, Generalitat de Catalunya, grant/award no. 2009SGR/1177 - Comissió Interdepartamental de Recerca i Innovació Tecnològica, Generalitat de Catalunya, grant/award no. 2014SGR/1179 - Comissió Interdepartamental de Recerca i Innovació Tecnològica, Generalitat de Catalunya, grant/award no. 2017SGR/1568 - Spanish Ministry of Science, Innovation and Universities (MICINN), grant/award no. CTM2015-70340-R, This work contributes to the Institut de Ciències del Mar "Severo Ochoa Centre of Excellence" accreditation CEX2024-001494-S funded by AEI 10.13039/501100011033 of the Spanish Ministry of Science and Innovation, Peer reviewed