The tunable fluorescence and biocompatibility of fluorescent carbon nanoparticles (FCNs) makes them appealing tracers in geothermal, environmental, and clinical applications. Here, we address FCNs synthesized from reaction and pyrolysis of citric acid and ethanolamine. We examine the fluorescence and the adsorption of these FCNs as critical parameters that influence their use in applications. FCN fluorescence was observed to develop during pyrolysis and measured at pyrolysis temperatures ranging from 190 to 250 °C. Transmission electron microscopy shows that the FCN average diameter of approximately 13 nm is unaffected by pyrolysis temperature. However, pyrolysis temperature strongly affects fluorescence, which peaks at 210 °C. Here, the surface hydrophobicity of the FCNs increases with pyrolysis temperature as measured by retention on reverse phase chromatography. Together, these results suggest that particle surface functionalities provide both fluorescence and hydrophilicity, and that these surface functionalities are destroyed with excessive pyrolysis. To examine their surface adsorption, quartz crystal microbalance measurements demonstrate that pyrolysis temperature increases FCN adsorption on mineral surfaces. Surfaces with greater hydrophobicity show greater FCN adsorption. Adsorption is unaffected by the presence of mono- or divalent ions in solution. This suggests adsorption by hydrophobic interaction for the Fe 2 O 3 , SiO 2 , and AlSiO surfaces studied.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2020

ATLAS: a Snakemake workflow for assembly, annotation, and genomic binning of metagenome sequence data

Background: Metagenomics and metatranscriptomics studies provide valuable insight into the composition and function of microbial populations from diverse environments, however the data processing pipelines that rely on mapping reads to gene catalogs or genome databases for cultured strains yield results that underrepresent the genes and functional potential of uncultured microbes. Recent improvements in sequence assembly methods have eased the reliance on genome databases, thereby allowing the recovery of genomes from uncultured microbes. However, configuring these tools, linking them with advanced binning and annotation tools, and maintaining provenance of the processing continues to be challenging for researchers. Results: Here we present ATLAS, a software package for customizable data processing from raw sequence reads to functional and taxonomic annotations using state-of-the-art tools to assemble, annotate, quantify, and bin metagenome and metatranscriptome data. Genome-centric resolution and abundance estimates are provided for each sample in a dataset. ATLAS is written in Python and the workflow implemented in Snakemake; it operates in a Linux environment, and is compatible with Python 3.5+ and Anaconda 3+ versions. The source code for ATLAS is freely available, distributed under a BSD-3 license. Conclusions: ATLAS provides a user-friendly, modular and customizable Snakemake workflow for metagenome and metatranscriptome data processing; it is easily installable with conda and maintained as open-source on GitHub at https://github.com/metagenome-atlas/atlas.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2020