Project description:<p>A variety of anthropogenic organohalide contaminants generated from industry are released into the environment, and thus cause serious pollution that endangers human health. In the present study, we investigated the microbial community composition of industrial saponification wastewater using 16S rRNA sequencing, providing genomic insights of potential organohalide dehalogenation bacteria (OHDBs) by whole-metagenome sequencing. We also explored yet-to-culture OHDBs involved in the microbial community. Microbial diversity analysis reveals that Proteobacteria and Patescibacteria phyla dominate microbiome abundance of the wastewater. In addition, a total of six bacterial groups (Rhizobiales, Rhodobacteraceae, Rhodospirillales, Flavobạcteriales, Micrococcales, and Saccharimonadales) were found as biomarkers in the key organohalide removal module. Ninety-four metagenome-assembled genomes (MAGs) were reconstructed from the microbial community, and 105 hydrolytic dehalogenase genes within 42 MAGs were identified, suggesting that the potential for hydrolytic organohalide dehalogenation is present in the microbial community. Subsequently, we characterized the organohalide dehalogenation of an isolated OHDB, Microbacterium sp. J1-1, which shows the dehalogenation activities of chloropropanol, dichloropropanol, and epichlorohydrin. This study provides a community-integrated multi-omics approach to gain functional OHDBs for industrial organohalide dehalogenation.</p>

2022-11-21 | MTBLS3916 | MetaboLights

marine metagenome

Project description:Re-assembled SAR202 MAGs from TARA Oceans Metagenomes

| PRJNA547867 | ENA

Arctic Ocean metagenomes

Project description:Arctic Ocean metagenomes from HLY1502

| PRJEB14154 | ENA

Complete metabolic reconstruction of the microbiome of the model sponge Ianthella basta

Project description:Marine sponges are essential for coral reefs to thrive and harbour a diverse microbiome that is thought to contribute to host health. Although the overall function of sponge symbionts has been increasingly described, in-depth characterisation of each taxa remains challenging, with many sponge species hosting up to 3,000 distinct microbial species. Recently, the sponge Ianthella basta has emerged as a model organism for symbiosis research, hosting only three dominant symbionts: a Thaumarchaeotum, a Gammaproteobacterium, and an Alphaproteobacterium and a range of other minor taxa. Here, we retrieved metagenome assembled genomes (MAGs) for >90% of I. basta’s microbial community which allowed us to make a complete metabolic reconstruction of the sponge’s microbiome, identifying metabolic complementarity between microbes, as well as the importance of symbionts present in low abundance. We also mined the metagenomes for putative viral sequences, highlighting the contribution of viruses to the overall metabolism of the sponge, and complement this data with metaproteomic sequencing to identify active metabolic pathways in both prokaryotes and viruses. This data now allows us to use I. basta as a model organism for studying host-microbe interactions and provides a basis for future (genomic) manipulative experiments.

2023-02-24 | PXD032278 | Pride

freshwater metagenome

Project description:LEAP 2016 Metagenome Assembled Genomes (MAGs)

| PRJNA767111 | ENA

Salar de Ascotan microbial communities

Project description:Metagenomes and metagenome-assembled genomes (MAGs) from Salar de Ascotan (Atacama Desert, Chile)

| PRJNA1023877 | ENA

Arctic Ocean metagenomes metagenomic assembly

Project description:EMG produced TPA metagenomics assembly of the Arctic Ocean metagenomes from HLY1502 (Arctic Ocean metagenomes) data set

| PRJEB22522 | ENA