Characterization of gut microbiome and metabolome in Helicobacter pylori patients in an underprivileged community in the United States

AIM: patients in a socioeconomically challenged and underprivileged inner-city community. METHODS: gene sequencing was performed on normalized pooled amplicons using the Illumina MiSeq System using a MiSeq reagent kit v2. Alpha and beta diversity analyses were performed in QIIME 2. Non-targeted fatty acid analysis of the samples was carried out using gas chromatography-mass spectrometry, which measures the total content of 30 fatty acids in stool after conversion into their corresponding fatty acid methyl esters. Multi-dimensional scaling (MDS) was performed on Bray-Curtis distance matrices created from both the metabolomics and microbiome datasets and a Procrustes test was performed on the metabolomics and microbiome MDS coordinates. RESULTS: gene analysis. Such changes may have implications for improving eradication rates and minimizing associated negative distal outcomes.