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RNA-seq of human gut bacterial isolates grown on seaweed polysaccharides

ABSTRACT: Purpose: Examining the transcriptome of human gut bacteria that grow on seaweed polysaccharides as a sole carbon source Methods: Strains were grown on 5 mg/ml seaweed polysaccharides (carrageenan, agarose and/or poprhyran respective to strain) or galactose as a sole carbon source in vitro. Fold change was calculated as seaweed polysaccharide over galactose with n=2 biological replicates. Once cells reached an optical density corresponding to mid-log phase growth, RNA was isolated and rRNA depleted. Samples were multiplexed for sequencing on the Illumina HiSeq platform at the University of Michigan Sequencing Core. Data was analyzed using Arraystar software (DNASTAR, Inc.) Genes with significant up- or down-regulation were determined by the following criteria: genes with an average fold-change >10-fold and with both biological replicates with a normalized expression level >1% of the overall average RPKM expression level. READS WERE ANALYZED .......GABRIEL FILL IN Results: We identified novel polysaccharide utiilization loci in 5 strains of human gut bacteria

ORGANISM(S): Faecalicatena contorta Bacteroides thetaiotaomicron Faecalicatena fissicatena Bacteroides xylanisolvens

PROVIDER: GSE149357 | GEO | 2020/09/01

REPOSITORIES: GEO

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Extensive transfer of genes for edible seaweed digestion from marine to human gut bacteria

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RNA-seq of human gut bacterial isolates grown on seaweed polysaccharides

Project description:RNA-seq of human gut bacterial isolates grown on seaweed polysaccharides

| PRJNA628169 | ENA

Analysis of Polysaccharide Utilization Loci from 53 sequenced North Sea Flavobacteriia suggests that major algal glycans exhibit limited structural diversity

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