BUSCADOR RECOLECTA

Bacterial interactions are vital for adapting to changing environments, with quorum sensing (QS) systems playing a central role in coordinating behaviors through small signaling molecules. The RRNPPA family is the prevalent QS systems in Bacillota and mediating communication through secreted oligopeptides, which are processed into active pheromones by extracellular proteases. Notably, in several cases the propeptides show the presence of multiple putative pheromones within their sequences, which has been proposed as a mechanism to diversify peptide-receptor specificity and potentially facilitate new functions. However, neither the processes governing the maturation of propeptides containing multiple pheromones, nor their functional significance has been evaluated. Here, using 2 Rap systems from bacteriophages infecting Bacillus subtilis that exhibit different types of pheromone duplication in their propeptides, we investigate the maturation process and the molecular and functional activities of the produced pheromones. Our results reveal that distinct maturation processes generate multiple mature pheromones, which bind to receptors with varying affinities but produce identical structural and biological responses. These findings add additional layers in the complexity of QS communication and regulation, opening new possibilities for microbial social behaviors, highlighting the intricate nature of bacterial interactions and adaptation., pbio.3002744.s013.xlsx, Peer reviewed

Bacterial interactions are vital for adapting to changing environments, with quorum sensing (QS) systems playing a central role in coordinating behaviors through small signaling molecules. The RRNPPA family is the prevalent QS systems in Bacillota and mediating communication through secreted oligopeptides, which are processed into active pheromones by extracellular proteases. Notably, in several cases the propeptides show the presence of multiple putative pheromones within their sequences, which has been proposed as a mechanism to diversify peptide-receptor specificity and potentially facilitate new functions. However, neither the processes governing the maturation of propeptides containing multiple pheromones, nor their functional significance has been evaluated. Here, using 2 Rap systems from bacteriophages infecting Bacillus subtilis that exhibit different types of pheromone duplication in their propeptides, we investigate the maturation process and the molecular and functional activities of the produced pheromones. Our results reveal that distinct maturation processes generate multiple mature pheromones, which bind to receptors with varying affinities but produce identical structural and biological responses. These findings add additional layers in the complexity of QS communication and regulation, opening new possibilities for microbial social behaviors, highlighting the intricate nature of bacterial interactions and adaptation., pbio.3002744.s014.xlsx, Peer reviewed

Frequency of True Positive SWR detected by each architecture. Each dot represents the mean frequency of detected ripples of one test session (21 sessions from 8 animals). e) Spectral power of True Positive events detected by each architecture. Same boxplot representation as in d)., Peer reviewed

a) F1 against threshold from the 10-best models of each architecture as evaluated in the test set, and the 10-best filters of all possible parametric combinations. Each line represents the performance of one trained model, colored by its maximal F1 (mean from all sessions is plotted in dark color). b) F1-scores for the best model of panel A, and ensemble model of panel e). Thresholds used are: 0.4 for XGBoost, 0.5 for SVM, 0.4 for LSTM, 0.1 for CNN2D, 0.5 for CNN1D, 4.5SD for Filter. c) Stability index for the same models as in panel b) (bottom), and the stability index vs the F1 (top). d) Similarity between predicted events of different architectures. Models are the same as in panels b)-c). To measure the similarity, the mean F1 across test sessions have been computed, using detected events in the y-axis as detections, and detected events in the x-axis as ground truth. Note the similarity between LSTM and 1D-CNN (white *), and that by XGBoost against SVM, LSTM and 1D-CNN (white +). e) Ensemble model, trained using the output of the best models of the machine learning architectures. Weights were: w1=-0.11 (XGBOOST); w2=-1.56 (SVM); w3=5.33 (LSTM); w4= 2.03 (2D-CNN); w5= 4.07 (1D-CNN); bias= -4.97. On the right, mean F1 score (line) ±95% confidence interval (shadow) for test sessions. Maximum F1-score and stability index for test sessions has been included in panels b) and c) to facilitate comparison with the rest of the methods., Peer reviewed

Peer reviewed

A particularly long and dense episode of airborne dust transport crossed Spain, France and part of Europe from 15 to 18 March 2022. This episode led to significant dust deposits on cars, roofs, etc., which may have caused surprise or concern among the general public. Based on association reports, several media published articles stating that this dust contained an artificial radionuclide, cesium-137 (137Cs), the source of which was attributed to the French nuclear tests conducted in the Sahara early in the 1960s. In order to provide a solid and representative scientific basis for a better characterisation of this dust and its radionuclide content, a participatory call for the collection of about ten grams of dust in different sites in France and Europe was launched on 17 March 2022 on the social network Twitter by Olivier Evrard. It was then relayed by Germán Orizaola, generating numerous reactions and the collection of several dozen samples in France, Spain and other neighbouring countries in Europe. The current dataset provides general information about the location/time of sample collection (n=110 samples) and data about the content of dust samples in cesium-137 (137Cs), an artificial radionuclide emitted by nuclear atmospheric tests and accidents (Evrard et al., 2020). Samples (2-80g) were analysed using the ultra-low background Germanium HyperPure gamma spectrometry detectors of LSCE installed in the underground facilities at both University Paris-Saclay (Gif-sur-Yvette) and Modane (Underground Lab of Modane, France). Filters were analysed for 80,000 to 200,000 s to obtain sufficient counting statistics (for the detection of the 137Cs peak at 662 keV). All results were expressed in Bq kg−1 with activities decay-corrected to the sampling date. Counting efficiencies and reliability were conducted using certified International Atomic Energy Agency (IAEA) standards (IAEA-444, 135, 375, RGU-1 and RGTh-1) prepared in the same containers as the samples. Additional data regarding other physico-chemical properties analysed in these dust samples has been added in June 2024., This work benefited from the French state aid managed by the ANR under the "Investissements d'avenir" programme with the reference ANR-11-IDEX-0004 -17-EURE-0006. The support of the team from the Laboratoire Souterrain de Modane (Laboratoire de Physique Subatomique et de Cosmologie - LPSC Grenoble, CNRS, Université Grenoble-Alpes France) is also acknowledged., Peer reviewed

Compared control A253 cells with DUSP1 or SOX2 KO cells to identify differentially expressed genes., Salivary gland squamous cell carcinomas (SG-SCCs) are a rare type of head and neck cancers which are linked to poor prognosis. Due to their low frequencies, the molecular mechanisms responsible for their aggressiveness are poorly understood. In this work we studied the function of the phosphatase DUSP1, a negative regulator of MAPK activity, in controlling the progression of SG-SCCs. We generated DUSP1 KO clones in A253 human cells. These clones showed a reduced ability to grow in 2D, self-renew in ECM matrices and grow tumors in immunodeficient mice. This was caused by an overactivation of the stress and apoptosis kinase JNK1/2 in DUSP1-KO clones. Interestingly, RNAseq analysis revealed that the expression of SOX2, a well know self-renewal gene was decreased at the mRNA and protein level. Unexpectedly, CRISPR-KO of SOX2 did not recapitulate DUSP1-KO phenotype, and SOX2-null cells had an enhanced ability to self-renew and grow tumors in mice. Gene expression analysis demonstrated that SOX2-null cells have a decreased squamous differentiation profile -losing TP63 expression- and an increased migratory phenotype, with an enhanced epithelial to mesenchymal transition signature. In summary, our data indicates that DUSP1 and SOX2 have opposite functions in SG-SCC, being DUSP1 necessary for tumor growth and SOX2 dispensable, and with a tumor suppressor function. Our data will suggest that the expression SOX2 and DUSP1 could be a useful biomarker to predict the progression of patients with SG-SCCs., Peer reviewed

The item is made of an excel file, of which the second sheet of the dataset include a small description of the measured variables, Dissolved organic carbon, absorption coefficients of the coloured dissolved organic matter, fluorescent dissolved organic matter peaks (peak T, peak C, peak M and peak A) and optical indexes of the water collected from one well, two boreholes, one river and two surface seawater stations and the porewater extracted from Panxón and Ladeira beaches at the Ría de Vigo (NW Iberian Peninsula), SUBACID project (SUBmarine groundwater discharge (submarine groundwater discharge) impact on coastal ACIDification processes in contrasting Atlantic Shores: toward securing ecosystem services and food production). Irish Research Council and the European Union’s Horizon 2020 Research and Innovation Program under the Marie Skłodowska-Curie grant agreement No. 713279 through the CAROLINE program (CLNE/2017/210), Peer reviewed

2 files, Supplementary material for https://doi.org/10.1002/lno.12622, Peer reviewed

[EN] It contains a file in CSV (Comma-Separated Values) format. The file includes data on experimental sites, species, plots, trees, core, year, period, treatments, BAI, SPEI, STI_spr, STI_sum, and STI_aut across 14 columns. The file can be opened with any text editor, spreadsheet software, or programming language. For more information, refer to the readme.pdf document., [ES] Contiene un fichero en formato de texto separado por comas (CSV). El fichero contiene datos de sitios experimentales, especies, parcelas, árboles, core, año, periodo, tratamientos, BAI, SPEI, STI_spr, STI_sum, STI_aut en 14 columnas. El archivo puede ser leído por cualquier editor de texto, hoja de cálculo o lenguaje de programación. Para más información, consultar el documento readme.pdf., [EN] The Basal Area Increment and Climate Data from Long-Term Silviculture Monitoring Sites in Spain (SilvAdapt.net) Dataset offers a comprehensive long-term time series of growth and climate data. It includes compiled basal area increment data from 19 experimental sites, which includes different thinning treatments: control, moderate and heavy and four pine species: Pinus halepensis Mill., Pinus pinaster Aiton, Pinus nigra Arnold, and Pinus sylvestris L. The sites cover a wide geographical and altitudinal range, representing a significant part of the species' distribution. Additionally, the dataset provides standardized climatic indices, including the Standardized Precipitation Evapotranspiration Index (SPEI) and Standardized Temperature Indices for spring (STIspr), summer (STIsum), and autumn (STIaut)., [ES] El conjunto de datos Incremento de Área Basal y Datos Climáticos de Sitios experimentales de Silvicultura a Largo Plazo en España (SilvAdapt.net), ofrece una serie temporal de largo plazo con datos de crecimiento y de clima. Incluye datos compilados de incremento de área basal de 19 sitios experimentales, que incluyen diferentes tratamientos de claras (control, moderado y fuerte) y cuatro especies de pinos: Pinus halepensis Mill., Pinus pinaster Aiton, Pinus nigra Arnold y Pinus sylvestris L. Los sitios abarcan un amplio rango geográfico y altitudinal, representando una parte significativa de la distribución de estas especies. Además, el conjunto de datos proporciona índices climáticos estandarizados, incluyendo el Índice Estandarizado de Precipitación y Evapotranspiración (SPEI) y los Índices Estandarizados de Temperatura para primavera (STIspr), verano (STIsum) y otoño (STIaut)., Financiado por el Ministerio para la Transición Ecológica y el Reto Demográfico (MITECO) y la Comisión Europea NextGeneration-EU (Reglamento UE 2020/2094), a través de la Plataforma Temática Interdisciplinar Clima del CSIC (PTI-Clima) y el proyecto de la red Silvadapt.net (proyectos RED2018-102719-T y RED2022-134910-T, financiados por MCIN/AEI/10.13039/501100011033)., No