Multi 'omics comparison reveals metabolome biochemistry, not microbiome composition or gene expression, corresponds to elevated biogeochemical function in the hyporheic zone

Graham, Emily B.; Crump, Alex R.; Kennedy, David W.; Arntzen, Evan; Fansler, Sarah; Purvine, Samuel O.; Nicora, Carrie D.; Nelson, William; Tfaily, Malak M.; Stegen, James C.

doi:10.1016/J.SCITOTENV.2018.05.256

Title: Multi 'omics comparison reveals metabolome biochemistry, not microbiome composition or gene expression, corresponds to elevated biogeochemical function in the hyporheic zone

Journal Article · Sun Jun 17 00:00:00 EDT 2018 · Science of the Total Environment

DOI:https://doi.org/10.1016/J.SCITOTENV.2018.05.256· OSTI ID:1457749

^[1]; Crump, Alex R. ^[2]; Kennedy, David W. ^[1]; Arntzen, Evan ^[1]; Fansler, Sarah ^[1]; Purvine, Samuel O. ^[3]; Nicora, Carrie D. ^[3]; Nelson, William ^[1]; Tfaily, Malak M. ^[3]; Stegen, James C. ^[1]

Pacific Northwest National Lab. (PNNL), Richland, WA (United States)
Univ. of Idaho, Moscow, ID (United States)
Pacific Northwest National Lab. (PNNL), Richland, WA (United States). Environmental Molecular Sciences Lab. (EMSL)

Biogeochemical hotspots are pervasive at terrestrial-aquatic interfaces, particularly within groundwater-surface water mixing zones (hyporheic zones), and they are critical to understanding spatiotemporal variation in biogeochemical cycling. For this study, we use multi 'omic comparisons of hotspots to low-activity sediments to gain mechanistic insight into hyporheic zone organic matter processing. We hypothesized that microbiome structure and function, as described by metagenomics and metaproteomics, would distinguish hotspots from low-activity sediments by shifting metabolism towards carbohydrate-utilizing pathways and elucidate discrete mechanisms governing organic matter processing in each location. We also expected these differences to be reflected in the metabolome, whereby hotspot carbon (C) pools and metabolite transformations therein would be enriched in sugar-associated compounds. In contrast to expectations, we found pronounced phenotypic plasticity in the hyporheic zone microbiome that was denoted by similar microbiome structure, functional potential, and expression across sediments with dissimilar metabolic rates. Instead, diverse nitrogenous metabolites and biochemical transformations characterized hotspots. Metabolomes also corresponded more strongly to aerobic metabolism than bulk C or N content only (explaining 67% vs. 42% and 37% of variation respectively), and bulk C and N did not improve statistical models based on metabolome composition alone. These results point to organic nitrogen as a significant regulatory factor influencing hyporheic zone organic matter processing. Based on our findings, we propose incorporating knowledge of metabolic pathways associated with different chemical fractions of C pools into ecosystem models will enhance prediction accuracy.

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Research Organization:: Pacific Northwest National Lab. (PNNL), Richland, WA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER)

Grant/Contract Number:: AC0576RL01830; AC06-76RLO 1830

OSTI ID:: 1457749

Alternate ID(s):: OSTI ID: 1548167

Report Number(s):: PNNL-SA-133671; PII: S0048969718319089

Journal Information:: Science of the Total Environment, Vol. 642, Issue C; ISSN 0048-9697

Publisher:: ElsevierCopyright Statement

Country of Publication:: United States

Language:: English

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Cited by: 32 works

Citation information provided by
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Dynamic changes in dissolved organic matter composition in a Mountain Lake under ice cover and relationships to changes in nutrient cycling and phytoplankton community composition Rue, Garrett P.; Darling, Joshua P.; Graham, Emily Aquatic Sciences, Vol. 82, Issue 1 https://doi.org/10.1007/s00027-019-0687-3	journal	December 2019
Spatial gradients in the characteristics of soil-carbon fractions are associated with abiotic features but not microbial communities Sengupta, Aditi; Indivero, Julia; Gunn, Cailene Biogeosciences, Vol. 16, Issue 19 https://doi.org/10.5194/bg-16-3911-2019	journal	January 2019