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Microbial species from bioreactors

ABSTRACT: We collect samples in bioreactors. Raw sequence reads

PROVIDER: PRJNA362525 | ENA |

REPOSITORIES: ENA

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Dataset's files

Source:

			Action	DRS
	SRR5188320.fastq.gz	Fastqsanger.gz
	SRR5188330.fastq.gz	Fastqsanger.gz
	SRR5188321.fastq.gz	Fastqsanger.gz
	SRR5188331.fastq.gz	Fastqsanger.gz
	SRR5188322.fastq.gz	Fastqsanger.gz

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Microbial consortia driving lignocellulose transformation in agricultural woodchip bioreactors

Project description:Freshwater ecosystems can be largely affected by neighboring agriculture fields where potential fertilizer nitrate run-off may leach into surrounding water bodies. To counteract this eutrophic driver, farmers often utilize denitrifying woodchip bioreactors (WBRs) in which a consortium of microorganisms convert the nitrate into nitrogen-gases in anoxia, fueled by the degradation of lignocellulose. Polysaccharide-degrading strategies have been well-described for various aerobic and anaerobic systems, including the use of carbohydrate-active enzymes, utilization of lytic polysaccharide monooxygenases (LPMOs) and other redox enzymes, as well as the use of cellulosomes and polysaccharide utilization loci. However, for denitrifying microorganisms, the lignocellulose-degrading strategies remain largely unknown. Here, we have applied a combination of enrichment techniques, gas measurements, multi-omics approaches, and amplicon sequencing of fungal ITS and procaryotic 16S rRNA genes to highlight microbial drivers for lignocellulose transformation in woodchip bioreactors with the aim to provide an in-depth characterization of the indigenous microorganisms and their active enzymes. Our findings highlight a microbial community enriched for lignocellulose-degrading denitrifiers with key players from Giesbergeria, Cellulomonas, Azonexus, and UBA5070, including polysaccharide utilization loci from Bacteroidetes. A wide substrate specificity is observed among the many expressed carbohydrate active enzymes (CAZymes), evidencing a swift degradation of lignocellulose, including even enzymes with auxiliary activities whose functionality is still puzzling under strict anaerobic conditions.

2024-10-21 | PXD050137 | Pride

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