Data in Brief最新文献

The RISMEAU project (RISques liés aux résidus de Médicaments, biocides et antibiorésistance d'origine humaine et vétérinaire sur les ressources en EAU du bassin versant de l'Arve - Risks related to residues of pharmaceuticals and biocides, and antimicrobial resistance of human and veterinary origin on the water resources of the 2083 km² Arve catchment located in the French Alps) was implanted from 2018 to 2024 on the SIPIBEL observatory. It was devoted to the evaluation of (i) transfers of and processes related to pharmaceutical residues and biocides from both urban sludge and manure spread on fields as fertilisers, and (ii) the environmental impacts of land spreading, in particular the ecotoxicological risks and antimicrobial resistance dissemination. The methodology was based on the physico-chemical, ecotoxicological and antimicrobial resistance (AMR - assessed by molecular biology) characterisation of leachate and soil matrices samples, and focused on organic waste products application at locally representative agronomic rates. This dataset can be reused by other researchers for comparison with their own investigations on this emerging topic under different contexts and conditions, and may contribute to international reviews. The database includes in total 26,217 values, measured on 348 samples of organic waste products, soil, in situ lysimeter leachate, earthworms, plants with 3136 usual physico-chemical values, 15,469 values on pharmaceuticals and biocides concentrations, 6827 bioassay values (ecotoxicity and phytotoxicity) and 785 values of antimicrobial resistance indicators. The 348 samples have been collected from Nov. 2019 to Dec. 2022: 4 samples in 2019, 26 in 2020, 130 in 2021 and 188 in 2022. Regarding AMR, 96 assays coding for most abundant resistance genes in healthy humans, clinically relevant antibiotic resistance genes, biocide resistance genes, heavy metal genes, integrons (class I, II and III), and mobile genetic elements (transposase genes) have been carried out.

The dataset contains insights into the molluscan diversity associated with seagrass and seasonal dynamics in a subtropical arid zone in the southern Gulf of California. The dataset includes the number of species, taxonomy, seasonal abundance data, trophic composition, biomass of molluscan, and biomass of seagrass (H. wrightii). This dataset is referenced in the study titled: "Diversity and seasonal variation of the molluscan community associated with the seagrass Halodule wrightii in a marine protected area in the southern Gulf of California" (Pérez-Estrada et al., 2023) [1].

Here, the draft genome sequence of a multi-drug resistant (MDR) Serratia marcescens strain BMD28, isolated from a clinical source from Dhaka, Bangladesh, has been reported. The sequence raw read files were generated using Illumina sequencing technology utilizing genomic DNA from the pure culture of this strain. The strain has a genome size of around 5.4 million base pairs, a GC content of 59.70 %, and 5,141 coding sequences. We conducted genomic studies using several bioinformatics tools focusing on resistance genes, virulence factors, toxin-antitoxin systems, and pangenome analysis. Strain BMD28 harbored the bla_NDM-7 gene in an IncX3 plasmid. A phylogenomic study with S. marcescens strains isolated worldwide revealed that our strain is in the same clade as other strains reported in Bangladesh. The data can be used primarily to understand the genomic content, epidemiology, and evolution of S. marcescens in Bangladesh. The genome sequence data of BMD28 has been deposited in the NCBI database under BioSample accession number SAMN41260295.

The paper describes a dataset obtained through the detailed analysis of 688 judgments issued by the Mexican Supreme Court in constitutional controversies related to separation of power disputes within federalism conflicts centering on those involving the constitutionality of legislation. The data was collected in June 2022, after which judgments were extracted from the database of the Mexican Supreme Court and manually classified. With over 9000 data points, the dataset provides information such as the judgment id, the year resolved, the plaintiff, the level of government sued, the presence of the Federal District as a party, the remedy that procedurally could be sought, and the type of normative provision challenged. Furthermore, the dataset provides a time-consuming manual classification of the outcome of all challenged provisions, sorting them as upheld, invalidated, dismissed due to the supermajority requirement to strike down legislation, or dismissed on formal procedural grounds. The dataset could be of potential use to test hypotheses related to the centralizing nature of constitutional courts and other bodies resolving federalism disputes, testing the impact of supermajority rules on courts, and employing data for cross-comparison of unconstitutionality rates. The dataset has also laid a solid foundation for further annotation efforts, which may be undertaken by expanding the coded variables.

The present dataset combines transcriptomic and microscopic analyses to investigate the responses of winter oilseed rape (WOSR, Brassica napus L., cultivar Aviso) to soil drought, with a focus on differences between young and early-senescent old leaves. For microscopy, 36 scans of 1 to 5 leaf cross-sections were acquired from paraffin-embedded leaf disc samples using a scanner with a 40x lens (Pannoramic Confocal, 3DHistech), capturing a large field of view (8-mm-long observed leaf tissue). The raw scanned cross-sections and analyzed images are available under doi.org/10.57745/RK5PM3 in the Recherche Data Gouvrepository. These high-quality scans enable the differentiation of mesophyll cells and tissues. Software analysis yielded a dataset with 54 selected cross-sectional areas, 291 delimited surfaces of palisade, spongy, and vessel tissues, and 11,136 individually delimited cells from the palisade and spongy layers. For transcriptomics, an Illumina Novaseq sequencer was used to generate 390 Gb of mRNA paired-end reads. The raw reads were filtered, mapped, and assigned to genes from the Brassica napus reference genome Darmor-bzh v10, which were subsequently used to identify differentially expressed genes (DEGs) and to perform gene ontology enrichment analysis. The raw reads are accessible under accession PRJNA939927 at the NCBI Sequence Read Archive (SRA). This high-quality dataset provides insights into the molecular mechanisms underlying oilseed rape's response to soil drought and may aid in the development of drought-tolerant cultivars. A total of 17,975 DEGs were identified between well-watered and severe drought conditions across the contrasted leaf developmental stages.

The results of a survey of vascular plant species along two elevational gradients in the high Andes of central Chile (33°S) are reported. Vascular plant species were recorded in 12 and 15 plots of 1600 m² set up to be permanent, distributed at intervals of 100 m elevation along two elevational gradients, one in the La Parva (2500-3600 m a.s.l.) and a second in the Valle Nevado (2300-3700 m a.s.l.) area, Metropolitan Region of Santiago. All plots were square in shape except for one that was divided into two sections due to a landslide on the slope. Plots cover subalpine vegetation above the Kageneckia angustifolia treeline and the entire alpine belt to the upper limit of consistent vascular plant vegetation. The presence of each species in the individual plots is given along with location data for the plots, including georeferences, altitude, and sampling dates. Images of the study area are included. Scientific names, families, life forms, and native/non-native status are provided for the 168 taxa (167 species with one represented by two subspecies) recorded. Data on temperature and relative humidity for three sites in the general study area are included. The reported plot data will be useful for detailed studies on patterns of diversity (e.g., phylogenetic diversity, functional diversity) along elevational gradients in high mountains and for monitoring the upward shift of non-native species. Importantly, the data set provides a solid basis for detecting changes in species composition under ongoing climate change in the southern Andes, an area that has received limited attention to date but is highly relevant given instrumental evidence of rapid warming.

Female germline stem cells (FGSCs) are adult stem cells capable of self-renewal and differentiation into mature oocytes. AKT3, a member of the AKT kinase family, plays crucial roles in multiple cellular processes, such as proliferation, migration, and apoptosis. However, the mechanism by which AKT3 affects the development of FGSCs is poorly understood. We performed 4D-data-independent acquisition (DIA) Quantitative Proteomics on mouse FGSCs in which AKT3 was knocked down using a lentivirus and on control FGSCs. Based on the raw DIA data, coupled with database searches and data filtering, we identified 46,260 peptides, including 45,821 unique peptides, corresponding to 6849 identified proteins and 6697 comparable proteins. These identified proteins were functionally annotated using Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), Protein Domain, Clusters of Orthologous Genes (COG)/Eukaryotic Orthologous Groups (KOG), STRING database, Reactome, WikiPathways, HallMark, and transcription factor (TF) analyses. Fisher's exact test was used to assess the significance of functional enrichment of the differentially abundant proteins. We identified 281 differentially abundant proteins between AKT3 knockdown and control FGSCs, comprising 229 upregulated and 52 downregulated proteins. We performed clustering analysis on these differentially abundant proteins based on functional enrichment using GO, Domain, KEGG, Reactome and WikiPathways platforms. A protein-protein interaction network was constructed to demonstrate interactions between proteins. These datasets will facilitate future investigations into the mechanisms governing FGSC self-renewal and differentiation and will provide a foundation for understanding diseases related to abnormal germ cell development.

This article presents a dataset containing 641 images of Thyroid Gammagraphies studies corresponding to 235 patients over 18 years of age that were acquired in the period from 2016 to 2024 at the Nuclear Medicine Service of the Instituto de Investigaciones en Ciencias de la Salud of the Universidad Nacional de Asunción (IICS - UNA), Paraguay. First, the Thyroid Gammagraphies images were acquired according to the acquisition protocol described in this article. The thyroid scintigraphies images were acquired using trimodal SPECT-CT-PET equipment, model AnyScan SCP, MEDISO brand. The images were classified by the professionals of the Nuclear Medicine Service according to the diagnoses made by the nuclear physicians. They were grouped into toxic adenoma, diffuse goiter, multinodular goiter, nodular goiter, absent thyroid gland (total thyroidectomy), preserved thyroid gland, deformed thyroid gland, right hemithyroidectomy, autonomous nodule, hyperuptake nodule, hypouptake nodule, remnant after total thyroidectomy, iatrogenically blocked thyroid, De Quervain's subacute thyroiditis, and combined cases of diffuse or multinodular goiter with subacute thyroiditis. The generated dataset will be helpful for nuclear physicians and researchers working on classification algorithms for thyroid pathologies.

The Heptageniidae family stands out as one of the most abundant and widespread among mayflies, distinguished by its unique mitochondrial characteristics in intergenic spacers and duplication of transfer RNA (tRNA) genes. In this dataset, we present the complete mitochondrial genome sequence of Afronurus levis (Navás, 1912), a member of the Heptageniidae family of mayflies. The total length of the A. levis mitogenome was determined to be 15,362 base pairs, encompassing 13 protein-coding genes (PCGs), 23 tRNA genes, and two ribosomal RNA genes. An additional trnM gene was detected in the A. levis genome, consistent with observations in other Heptageniid species. The base composition of the A. levis mitogenome was determined to be 31.7 % A, 32.7 % T, 14.1% G, and 21.5 % C. Phylogenetic analysis using PCGs confirmed that the newly sequenced A. levis mitogenome clusters within the genus Afronurus, showing closer proximity to that of A. drepanophyllus.