Gut Microbiome Analysis of Japanese Patients with Multiple Chemical Sensitivity

Feces samples of 30 Japanese patients with multiple chemical sensitivity/Idiopathic Environmental Intolerance were collected. The fecal DNA samples were sequenced using the MiSeq (Illumina, Inc. San Diego, CA, USA). For microbial genome/species assignment of the metagenomic reads, 500,000 high-quality metagenomic reads per individual were mapped to reference genomes using Bowtie232 (v2.2.1). For each individual, the filter-passed MiSeq reads were assembled using MEGAHIT (v1.2.4). Prodigal (v2.6.3) was used to predict protein-coding genes (greater than or equal to 100 bp) in contigs (greater than or equal to 500 bp) and singletons (greater than or equal to 300 bp). The non-redundant genes were functionally assigned by alignments against the Kyoto Encyclopedia of Genes and Genomes (KEGG) database (release 2019-10-07) using DIAMOND (e-value less than or equal to 1.0e-5) [20] to obtain KEGG orthologies (KOs).