Project description: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

2020-09-01 | GSE149357 | GEO

Microbial Ecology of Seaweed

Project description:Microbial Ecology of Seaweed

| PRJEB25010 | ENA

De novo transcriptome assembly for desiccation tolerance in intertidal seaweed species Ulva lactuca

Project description:This study aimed at identification of genetic regulations for desiccation tolerance in intertidal seaweed species Ulva lactuca most commonly experienced phenomenon of intertidal communities.

2018-04-17 | GSE97868 | GEO

Seaweed epiphytic bacteria

Project description:Seaweed epiphytic bacteria Raw sequence reads

| PRJNA1074237 | ENA

Greenlandic seaweed (Fucus)

Project description:Greenlandic seaweed (Fucus) Raw sequence reads

| PRJNA699133 | ENA