DOI: 10.5061/dryad.95x69p8xh
title: Mice lung microbiomes' variable responses to dust exposure

description: Inhalation of dust is significant and relevant to health effects. As
 pollution and climate change worsen in dryland regions, wind currents
 entrain loose sediment and dust. This potentially disperses toxic
 geochemical and microbial burdens throughout the region. When inhaled
 environmental dust and host-associated microbiomes mingle, they pose
 exposure risks to host respiratory health. The Salton Sea, California’s
 largest lake, is shrinking thus exposing nearby communities to playa dust.
 Therefore, we analyze the effect of Salton Sea dust exposure in murine
 models to relate lung microbial communities and respiratory health. We
 used an environmental chamber to expose mice to dust filtrate or ambient
 air and examined the effects of those exposures on lung microbiomes. We
 found that lung microbial composition varied by dust exposure.
 Furthermore, dust elicited neutrophil recruitment and immune responses
 more than mice exposed to ambient air. Sources of dust differentially
 affected the composition of the lung core microbiome. Lung microbial
 diversity correlated with neutrophil recruitment as lungs associated with
 inflammatory responses harbored more diverse microbiomes. Although Salton
 Sea dust influences dust microbiomes and prevalent taxa, these responses
 were variable. The composition of lungs exposed to dust collected further
 from the Sea was more similar to lungs from ambient air exposures; in
 contrast, dust collected near the Sea yielded lung microbiomes that
 clustered further from lungs exposed to ambient air. As lakes continue to
 dry out, we expect greater public health risks in proximal dryland
 regions, which may correlate with dust microbial dispersal-related changes
 to lung microbiomes.
description: # Mice lung microbiomes' variable responses to dust exposure Dataset
 DOI: [10.5061/dryad.95x69p8xh](10.5061/dryad.95x69p8xh) ## Description of
 the data and file structure These data are metadata related to mouse lung
 sequences from targeted amplicon sequencing of the marker gene 16S V3-V4
 region. The file WIPD.bac.dat.meta_-_WIPD.bac.dat.meta.csv lists all ASVs
 and the **complete list of taxa in each sample** WIPD.bac.dat.meta has 26
 column headings. Below is a list of column headers, including information
 about the meaning of the data in each column of the dataset. PD stands for
 Palm Desert, and Wi stands for Wister, which are two locations where dust
 was collected. * SampleID = which is the name identifying the sample *
 ASV_ID = which is the ASV (i.e., exact sequence variant) Identification
 code * Kingdom = Kingdom * Phylum = Phylum * Class = Class * Order = Order
 * Family = Family * Genus = Genus * Species = Species * Count = the number
 of reads that ASV has in that particular sample * Run.Cont = the
 abbreviation for the name of that exposure in the chamber; it indicates
 whether it is a control or a dust-associated exposure * ShortID = is a
 short abbreviation of that taxon * ExposureRun = is the abbreviation for
 the exposure run, whether it was dust-associated or a contemporaneous
 control; it is listed as the dust exposure experimental code. *
 ExposureMaterial = the specific control air or dust exposure used in the
 experiment * ExposureSite = Indicates which site dust was collected from;
 alternatively, it lists ControlAir if it was a contemporaneous control.l *
 DustDeployed = Indicates when dust collectors were deployed at these
 particular sites * DustCollected = Indicates when dust collectors were
 taken to the lab to characterize collected dust. * DustSeason = Indicates
 which season dust was collected in * DustYear = Indicates which year dust
 was collected in for this experiment * Chamber = Indicates whether it was
 a contemporaneous control air exposure or a dust exposure * MouseSex =
 Uses F for female or M for male mice, indicates sex of exposed mouse *
 MouseGenotype = Indicates the genotype of exposed mice (C57/B6) * Lobe =
 Lists the part of the lung that the samples came from (i.e., left, half
 left, etc.) * Sample_or_Control = whether the sample was a negative
 control or if it was from a mouse lung; all listed as False, as they are
 all samples * SampleType = all sample types are listed as lung in this
 column * RunContColor = color palette used for showing the data in the
 figures in the manuscript The file ReadCountsWIPD.bac.dat.meta.csv has a
 complete list of samples and the reads per sample, as well as the total
 number of reads across all samples. ## Code/software Excel or R ## Access
 information Other publicly accessible locations of the data: * Temporary
 SubmissionID: SUB15361627 * BioSample accession: SAMN48852837 Data was
 derived from the following sources: * 16S targeted amplicon sequencing *
 Temporal data on dust * Demographic data on mice