Metabolic interdependencies between phylogenetically novel fermenters and respiratory organisms in an unconfined aquifer

Journal Article · Tue Jul 08 04:00:00 EDT 2014 · The ISME Journal, 8(7):1452-1463

DOI:https://doi.org/10.1038/ismej.2013.249· OSTI ID:1171894

Wrighton, Kelly C.; Castelle, Cindy; Wilkins, Michael J.; Hug, Laura A.; Sharon, I.; Thomas, Brian C.; Handley, Kim M.; Mullin, Sean W.; Nicora, Carrie D.; Singh, Andrea; Lipton, Mary S.; Long, Philip E.; Williams, Kenneth H.; Banfield, Jillian F.

Fermentation-based metabolism is an important ecosystem function often associated with environments rich in organic carbon, such as wetlands, sewage sludge, and the mammalian gut. The diversity of microorganisms and pathways involved in carbon and hydrogen cycling in sediments and aquifers and the impacts of these processes on other biogeochemical cycles remain poorly understood. Here we used metagenomics and proteomics to characterize microbial communities sampled from an aquifer adjacent to the Colorado River at Rifle, Colorado, USA, and document interlinked microbial roles in geochemical cycling. The organic carbon content in the aquifer was elevated via two acetate-based biostimulation treatments. Samples were collected at three time points, with the objective of extensive genome recovery to enable metabolic reconstruction of the community. Fermentative community members include genomes from a new phylum (ACD20), phylogenetically novel members of the Chloroflexi and Bacteroidetes, as well as candidate phyla genomes (OD1, BD1-5, SR1, WWE3, ACD58, TM6, PER, and OP11). These organisms have the capacity to produce hydrogen, acetate, formate, ethanol, butyrate, and lactate, activities supported by proteomic data. The diversity and expression of hydrogenases suggests the importance of hydrogen currency in the subsurface. Our proteogenomic data further indicate the consumption of fermentation intermediates by Proteobacteria can be coupled to nitrate, sulfate, and iron reduction. Thus, fermentation carried out by previously unstudied members of sediment microbial communities may be an important driver of diverse subsurface biogeochemical cycles.

• Research Organization: Pacific Northwest National Laboratory (PNNL), Richland, WA (US)
• Sponsoring Organization: USDOE
• DOE Contract Number: AC05-76RL01830
• OSTI ID: 1171894
• Report Number(s): PNNL-SA-97151; 830403000
• Journal Information: The ISME Journal, 8(7):1452-1463, Journal Name: The ISME Journal, 8(7):1452-1463
• Country of Publication: United States
• Language: English

Related Subjects

metabolic interdependencies
phylogenetically novel fermenters
respiratory organisms
unconfined aquifer