Project description:Purpose: Identification of transcriptionally active genes in the unculturable community constituent, Smithella, during hexadecane degradation; Differential gene expression analysis of hexadecane-relevant genes acoss three different conditions; Extension of metatranscriptomic datasets to other community constituents to identify interspecies relationships. mRNA profiles were generated for this community across three different conditions (hexadecane-, butyric acid-, caprylic acid-degrading conditions) using a modified version of Nextera and sequenced using Illumina's Miseq platform.

2013-10-29 | E-GEOD-49830 | biostudies-arrayexpress

archaeon R1 strain:methanogenic propionate degrading microbial consortia

Project description:methanogenic propionate degrading microbial consortia

| PRJNA359412 | ENA

bioreactor metagenome

Project description:Benzene-degrading methanogenic consortium metagenomic assembly

| PRJNA281117 | ENA

Coalseam consortium metagenome

Project description:Coal Degrading Microbial Consortium

| PRJEB6523 | ENA

soil metagenome

Project description:Benzene-degrading methanogenic consortium ORb

| PRJNA269955 | ENA

Integrated meta-omic analysis of a lignocellulose-degrading microbial community

Project description:Microbial communities that degrade lignocellulosic biomass are typified by high levels of species- and strain-level complexity, as well as synergistic interactions between both cellulolytic and non-cellulolytic microorganisms. Here we deconvoluted a highly efficient cellulose-degrading and methanogenic consortium (SEM1b) that is co-dominated by Clostridium (Ruminiclostridium) thermocellum and multiple heterogenic strains affiliated to C. proteolyticus. A time-series analysis was performed over the entire lifetime span of the microbial community and comprised of metagenomic, metatranscriptomic, metabolomics, metaproteomic and 16S rRNA gene analysis for 8 time points, in triplicate. Metagenomic analysis of SEM1b recovered metagenome-assembled genomes (MAGs) for each constituent population, whereas in parallel two novel strains of C. proteolyticus were isolated and sequenced. Both the recovered MAGs and the isolated strains were used as a database for further functional meta-omics. Absolute quantitative metatranscriptomics was performed thanks the spike-in of an in vitro transcribed RNA as an internal standard and label-free quantification was used for the metaproteomic analysis. The present dataset has been used for several publications. The first aim of the project was to characterize the interactions between uncultured populations in a lignocellulose-degrading community. Furthermore, because of the in-depth multi-omics characterization of the community, the dataset was used to develop new approaches for meta-omics integration as well as to assess the protein-to-RNA ratio of multiple microbial populations simultaneously. Modifications of multi-omics toolkits allowed us to assess the linearity between transcriptome and proteome for each population over time and reveal deeper functional-related trends and integrative co-dependent metabolisms that drive the overall phenotype of microbial communities.

2020-08-21 | PXD016242 | Pride

denitrifying quinoline degrading microbial consortium

Project description:Draft Genome Sequence of Thauera sp. DTG from a denitrifying quinoline degrading microbial consortium

| PRJEB11730 | ENA