Consortia of low-abundance bacteria drive sulfate reduction-dependent degradation of fermentation products in peat soil microcosms

Hausmann, Bela; Knorr, Klaus-Holger; Schreck, Katharina; Tringe, Susannah G.; Glavina del Rio, Tijana; Loy, Alexander; Pester, Michael

doi:10.1038/ismej.2016.42

Title: Consortia of low-abundance bacteria drive sulfate reduction-dependent degradation of fermentation products in peat soil microcosms

Journal Article · Fri Mar 25 00:00:00 EDT 2016 · The ISME Journal

DOI:https://doi.org/10.1038/ismej.2016.42· OSTI ID:1347110

^[1];

^[2]; Schreck, Katharina ^[3];

^[4]; Glavina del Rio, Tijana ^[4];

^[3];

^[1]

Univ. of Vienna (Austria); Univ. of Konstanz (Germany)
Univ. of Munster (Germany)
Univ. of Vienna (Austria)
USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)

Dissimilatory sulfate reduction in peatlands is sustained by a cryptic sulfur cycle and effectively competes with methanogenic degradation pathways. In a series of peat soil microcosms incubated over 50 days, we identified bacterial consortia that responded to small, periodic additions of individual fermentation products (formate, acetate, propionate, lactate or butyrate) in the presence or absence of sulfate. Under sulfate supplementation, net sulfate turnover (ST) steadily increased to 16-174 nmol cm -3 per day and almost completely blocked methanogenesis. 16S rRNA gene and cDNA amplicon sequencing identified microorganisms whose increases in ribosome numbers strongly correlated to ST. Natively abundant (≥0.1% estimated genome abundance) species-level operational taxonomic units (OTUs) showed no significant response to sulfate. In contrast, low-abundance OTUs responded significantly to sulfate in incubations with propionate, lactate and butyrate. These OTUs included members of recognized sulfate-reducing taxa (Desulfosporosinus, Desulfopila, Desulfomonile, Desulfovibrio) and also members of taxa that are either yet unknown sulfate reducers or metabolic interaction partners thereof. Most responsive OTUs markedly increased their ribosome content but only weakly increased in abundance. Responsive Desulfosporosinus OTUs even maintained a constantly low population size throughout 50 days, which suggests a novel strategy of rare biosphere members to display activity. Interestingly, two OTUs of the non-sulfate-reducing genus Telmatospirillum (Alphaproteobacteria) showed strongly contrasting preferences towards sulfate in butyrate-amended microcosms, corroborating that closely related microorganisms are not necessarily ecologically coherent. We show that diverse consortia of low-abundance microorganisms can perform peat soil sulfate reduction, a process that exerts control on methane production in these climate-relevant ecosystems.

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Research Organization:: USDOE Joint Genome Institute (JGI), Berkeley, CA (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)

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

Grant/Contract Number:: AC02-05CH11231; PCIG14- GA-2013-630188

OSTI ID:: 1347110

Alternate ID(s):: OSTI ID: 1377513

Journal Information:: The ISME Journal, Vol. 10, Issue 10; ISSN 1751-7362

Publisher:: Nature Publishing GroupCopyright Statement

Country of Publication:: United States

Language:: English

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Cited by: 96 works

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The Active Sulfate-Reducing Microbial Community in Littoral Sediment of Oligotrophic Lake Constance Wörner, Susanne; Pester, Michael Frontiers in Microbiology, Vol. 10 https://doi.org/10.3389/fmicb.2019.00247	journal	February 2019
Tree Species Shape Soil Bacterial Community Structure and Function in Temperate Deciduous Forests Dukunde, Amélie; Schneider, Dominik; Schmidt, Marcus Frontiers in Microbiology, Vol. 10 https://doi.org/10.3389/fmicb.2019.01519	journal	July 2019
The microbial biosphere of the coral Acropora cervicornis in Northeastern Puerto Rico Godoy-Vitorino, Filipa; Ruiz-Diaz, Claudia P.; Rivera-Seda, Abigail PeerJ, Vol. 5 https://doi.org/10.7717/peerj.3717	journal	January 2017
Conserved microbiota among young Heliconius butterfly species van Schooten, Bas; Godoy-Vitorino, Filipa; McMillan, W. Owen PeerJ, Vol. 6 https://doi.org/10.7717/peerj.5502	journal	January 2018
Label-Free Proteomics of a Defined, Binary Co-culture Reveals Diversity of Competitive Responses Between Members of a Model Soil Microbial System Chignell, J. F.; Park, S.; Lacerda, C. M. R. Microbial Ecology, Vol. 75, Issue 3 https://doi.org/10.1007/s00248-017-1072-1	journal	October 2017
Expanded diversity of microbial groups that shape the dissimilatory sulfur cycle Anantharaman, Karthik; Hausmann, Bela; Jungbluth, Sean P. The ISME Journal, Vol. 12, Issue 7 https://doi.org/10.1038/s41396-018-0078-0	journal	February 2018
Bacterial interactions during sequential degradation of cyanobacterial necromass in a sulfidic arctic marine sediment: Necromass degradation in arctic marine sediment Müller, Albert L.; Pelikan, Claus; de Rezende, Julia R. Environmental Microbiology, Vol. 20, Issue 8 https://doi.org/10.1111/1462-2920.14297	journal	August 2018
Draft Genome Sequence of Desulfosporosinus sp. Strain Sb-LF, Isolated from an Acidic Peatland in Germany Hausmann, Bela; Pjevac, Petra; Huemer, Martin Microbiology Resource Announcements, Vol. 8, Issue 29 https://doi.org/10.1128/mra.00428-19	journal	July 2019
Rare gut microbiota associated with breeding success, hormone metabolites and ovarian cycle phase in the critically endangered eastern black rhino Antwis, Rachael E.; Edwards, Katie L.; Unwin, Bryony Microbiome, Vol. 7, Issue 1 https://doi.org/10.1186/s40168-019-0639-0	journal	February 2019
A single Thaumarchaeon drives nitrification in deep oligotrophic Lake Constance Herber, J.; Klotz, F.; Frommeyer, B. Wiley https://doi.org/10.5445/ir/1000104257	text	January 2020
Abundance of freshwater Nitrososphaeria in Lake Constance, Germany Klotz, Franziska; Pester, Michael PANGAEA - Data Publisher for Earth & Environmental Science https://doi.org/10.1594/pangaea.934520	dataset	January 2021
Where less may be more: how the rare biosphere pulls ecosystems strings Jousset, Alexandre; Rillig, Matthias C.; Bienhold, Christina Freie Universität Berlin https://doi.org/10.17169/refubium-25396	text	January 2017

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