DOI: 10.5281/zenodo.7066692
title: Accompanying data for the PhD thesis 'Nanomaterial safety for microbially-colonized hosts'

description: <strong>These files include all data presented in chapter 6 of the dissertation:</strong> <strong>"Nanomaterial safety for microbially-colonized hosts: microbiota-mediated physisorption interactions and particle-specific toxicity" by Bregje Brinkmann (2022).</strong> The data presented in chapters 2-5 have previously been published elsewhere: Chapter 2: <em>Zenodo</em> (DOI: 10.5281/zenodo.6800734). Chapter 3: <em>Mendeley</em> <em>Data</em> (DOI: 10.17632/2d4hcr5cb5.1) Chapter 4: <em>Figshare</em> (DOI: 10.6084/m9.figshare.c.4923261) Chapter 5: <em>Mendeley Data </em>(DOI: 10.17632/4nfg69v8hy.1) <br> <strong>1. Data presented in Figure 6.1:</strong> Survival_CFU_(...)<br> Tab-delimited file with zebrafish larvae survival, and the number of colony-forming units (CFUs) associated with zebrafish larvae, following exposure to silver nanoparticles (nAg) from 3-5 days-post fertilization (dpf): <em>Concentration</em>: Nominal exposure concentration (mg nAg·L<sup>-1</sup>). <em>Date</em>: The date at which the mortality was scored (Format: DD/MM/YYYY). <em>Family</em>: A code referring to the aquarium of wildtype zebrafish (ABxTL) that were crossed to obtain the larvae for the experiment. <em>Survival</em>: Percentage of larvae that had survived the treatment. <em>CFU</em>: Number of colony-forming units that was isolated per larva The methodology for toxicity tests and the procedures to determine CFU counts, have been published in <em>Nanotoxicology</em>: Brinkmann BW, Koch BEV, Spaink HP, Peijnenburg WJGM, Vijver MG. 2020. Colonizing microbiota protect zebrafish larvae against silver nanoparticle toxicity. Nanotoxicology. 14: 725-739. DOI: 10.1080/17435390.2020.1755469 <strong>2. Data presented in Figure 6.2:</strong> ABs_DoseResponses_(...)<br> Tab-delimited file with zebrafish larvae mortality following a pretreatment of 0, 6 or 72 hours with an antibiotic and antifungal cocktail, and subsequent exposure to nAg from 3-5 dpf: <em>Concentration</em>: Nominal exposure concentration (mg nAg·L<sup>-1</sup>). <em>Mortality</em>: Percentage of larvae that had died. <em>Date</em>: The date at which the mortality was scored (Format: DD/MM/YYYY). <em>Family</em>: A code referring to the aquarium of wildtype zebrafish (ABxTL) that were crossed to obtain the larvae for the experiment. <em>ABs</em>: Duration of the antibiotic/ antifungal pretreatment, either 0, 6 or 72 hours. <strong>3. Data presented in Figure 6.3:</strong> il1beta_eGFP_(...)<br> Three folders comprising fluorescence microscopy images (TIFF format) of il1beta:eGFP reporter zebrafish larvae at 5 dpf: <em>(...)_replicates1_20200226</em>: images for the first experimental replicate. <em>(...)_replicates2_20200304</em>: images for the second experimental replicate. <em>(...)_replicates3_20200318</em>: images for the third experimental replicate. For each of the replicates, the following images were acquired: <em>nZnO_GFP</em>: GFP signal for larvae exposed to nZnO. <em>Znion_GFP</em>: GFP signal for larvae exposed to zinc ions. <em>nZnO_trans</em>: transmitted light images for larvae exposed to nZnO. <em>Znion_trans</em>: transmitted light images for larvae exposed to zinc ions. Additionally, the following images have previously been deposited to <em>Mendeley Data </em>(DOI: 10.17632/4nfg69v8hy.1): <em>nAg_GFP</em>: GFP signal for larvae exposed to nAg. <em>nAg_trans</em>: transmitted light images for larvae exposed to nAg. <em>Agion_GFP</em>: GFP signal for larvae exposed to silver ions. <em>Agion_trans</em>: transmitted light images for larvae exposed to silver ions. <em>control_GFP</em>: GFP signal for control larvae that had not been exposed to silver ions or nAg <em>control_trans</em>: transmitted light images for control larvae that had not been exposed to silver ions or nAg. All image processing steps have been published in <em>Ecotoxicology and Environmental Safety</em>: Brinkmann BW, Koch BEV, Peijnenburg WJGM, Vijver MG. 2022. Microbiota-dependent TLR2 signaling reduces silver nanoparticle toxicity to zebrafish larvae. Ecotox Environ Saf. 237: 113522. DOI: 10.1016/j.ecoenv.2022.113522 <strong>Abbreviations:</strong> <em>ABs</em>: antibiotics <em>CFU</em>: colony-forming units <em>dpf</em>: days post-fertilization <em>il1beta</em>: interleukin-1beta <em>nAg</em>: silver nanoparticles (NM-300 K) <em>nZnO</em>: zinc oxide nanoparticles (NM-110)
description: {"references": ["Brinkmann BW, Koch BEV, Spaink HP, Peijnenburg WJGM, Vijver MG. 2020. Colonizing microbiota protect zebrafish larvae against silver nanoparticle toxicity. Nanotoxicology. 14: 725-739. DOI: 10.1080/17435390.2020.1755469", "Brinkmann BW, Koch BEV, Peijnenburg WJGM, Vijver MG. 2022. Microbiota-dependent TLR2 signaling reduces silver nanoparticle toxicity to zebrafish larvae. Ecotox Environ Saf. 237: 113522. DOI: 10.1016/j.ecoenv.2022.113522"]}