Climate oscillations reflected within the microbiome of Arabian Sea sediments

Handle URI:
http://hdl.handle.net/10754/625786
Title:
Climate oscillations reflected within the microbiome of Arabian Sea sediments
Authors:
Orsi, William D.; Coolen, Marco J. L.; Wuchter, Cornelia; He, Lijun; More, Kuldeep D.; Irigoien, Xabier; Chust, Guillem; Johnson, Carl; Hemingway, Jordon D.; Lee, Mitchell; Galy, Valier ( 0000-0003-0385-8443 ) ; Giosan, Liviu
Abstract:
Selection of microorganisms in marine sediment is shaped by energy-yielding electron acceptors for respiration that are depleted in vertical succession. However, some taxa have been reported to reflect past depositional conditions suggesting they have experienced weak selection after burial. In sediments underlying the Arabian Sea oxygen minimum zone (OMZ), we performed the first metagenomic profiling of sedimentary DNA at centennial-scale resolution in the context of a multi-proxy paleoclimate reconstruction. While vertical distributions of sulfate reducing bacteria and methanogens indicate energy-based selection typical of anoxic marine sediments, 5–15% of taxa per sample exhibit depth-independent stratigraphies indicative of paleoenvironmental selection over relatively short geological timescales. Despite being vertically separated, indicator taxa deposited under OMZ conditions were more similar to one another than those deposited in bioturbated intervals under intervening higher oxygen. The genomic potential for denitrification also correlated with palaeo-OMZ proxies, independent of sediment depth and available nitrate and nitrite. However, metagenomes revealed mixed acid and Entner-Dourdoroff fermentation pathways encoded by many of the same denitrifier groups. Fermentation thus may explain the subsistence of these facultatively anaerobic microbes whose stratigraphy follows changing paleoceanographic conditions. At least for certain taxa, our analysis provides evidence of their paleoenvironmental selection over the last glacial-interglacial cycle.
Citation:
Orsi WD, Coolen MJL, Wuchter C, He L, More KD, et al. (2017) Climate oscillations reflected within the microbiome of Arabian Sea sediments. Scientific Reports 7. Available: http://dx.doi.org/10.1038/s41598-017-05590-9.
Publisher:
Springer Nature
Journal:
Scientific Reports
Issue Date:
14-Jul-2017
DOI:
10.1038/s41598-017-05590-9
Type:
Article
ISSN:
2045-2322
Sponsors:
This work was primarily supported by NSF MGG Grant #1357017 to MJLC, VG, and LG, and the KAUST-WHOI Special Academic Partnership Program OCRF-SP-WHOI-2013 (grants 7000000463 to XI and 7000000464 to MJLC). Additional financial support was provided via a C-DEBI grant #OCE-0939564 to WDO. This is C-DEBI contribution # 358. Core collection was supported by NSF OCE Grant #0634731 to LG. We thank the co-chiefs Peter Clift and Tim Henstock as well as the scientific participants, captain and crew of the R/V Pelagia. We thank Tristan Horner and Jeremy Owens for discussions. Data has been deposited in the NCBI under BioProject ID PRJNA294382. Metagenomes are also available in MG RAST under accessions 4581719.3–4581790.3.
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DC FieldValue Language
dc.contributor.authorOrsi, William D.en
dc.contributor.authorCoolen, Marco J. L.en
dc.contributor.authorWuchter, Corneliaen
dc.contributor.authorHe, Lijunen
dc.contributor.authorMore, Kuldeep D.en
dc.contributor.authorIrigoien, Xabieren
dc.contributor.authorChust, Guillemen
dc.contributor.authorJohnson, Carlen
dc.contributor.authorHemingway, Jordon D.en
dc.contributor.authorLee, Mitchellen
dc.contributor.authorGaly, Valieren
dc.contributor.authorGiosan, Liviuen
dc.date.accessioned2017-10-04T14:59:16Z-
dc.date.available2017-10-04T14:59:16Z-
dc.date.issued2017-07-14en
dc.identifier.citationOrsi WD, Coolen MJL, Wuchter C, He L, More KD, et al. (2017) Climate oscillations reflected within the microbiome of Arabian Sea sediments. Scientific Reports 7. Available: http://dx.doi.org/10.1038/s41598-017-05590-9.en
dc.identifier.issn2045-2322en
dc.identifier.doi10.1038/s41598-017-05590-9en
dc.identifier.urihttp://hdl.handle.net/10754/625786-
dc.description.abstractSelection of microorganisms in marine sediment is shaped by energy-yielding electron acceptors for respiration that are depleted in vertical succession. However, some taxa have been reported to reflect past depositional conditions suggesting they have experienced weak selection after burial. In sediments underlying the Arabian Sea oxygen minimum zone (OMZ), we performed the first metagenomic profiling of sedimentary DNA at centennial-scale resolution in the context of a multi-proxy paleoclimate reconstruction. While vertical distributions of sulfate reducing bacteria and methanogens indicate energy-based selection typical of anoxic marine sediments, 5–15% of taxa per sample exhibit depth-independent stratigraphies indicative of paleoenvironmental selection over relatively short geological timescales. Despite being vertically separated, indicator taxa deposited under OMZ conditions were more similar to one another than those deposited in bioturbated intervals under intervening higher oxygen. The genomic potential for denitrification also correlated with palaeo-OMZ proxies, independent of sediment depth and available nitrate and nitrite. However, metagenomes revealed mixed acid and Entner-Dourdoroff fermentation pathways encoded by many of the same denitrifier groups. Fermentation thus may explain the subsistence of these facultatively anaerobic microbes whose stratigraphy follows changing paleoceanographic conditions. At least for certain taxa, our analysis provides evidence of their paleoenvironmental selection over the last glacial-interglacial cycle.en
dc.description.sponsorshipThis work was primarily supported by NSF MGG Grant #1357017 to MJLC, VG, and LG, and the KAUST-WHOI Special Academic Partnership Program OCRF-SP-WHOI-2013 (grants 7000000463 to XI and 7000000464 to MJLC). Additional financial support was provided via a C-DEBI grant #OCE-0939564 to WDO. This is C-DEBI contribution # 358. Core collection was supported by NSF OCE Grant #0634731 to LG. We thank the co-chiefs Peter Clift and Tim Henstock as well as the scientific participants, captain and crew of the R/V Pelagia. We thank Tristan Horner and Jeremy Owens for discussions. Data has been deposited in the NCBI under BioProject ID PRJNA294382. Metagenomes are also available in MG RAST under accessions 4581719.3–4581790.3.en
dc.publisherSpringer Natureen
dc.titleClimate oscillations reflected within the microbiome of Arabian Sea sedimentsen
dc.typeArticleen
dc.identifier.journalScientific Reportsen
dc.contributor.institutionDepartment of Earth and Environmental Science, Geobiology and Paleontology, GeoBio CenterLMU, Ludwig-Maximilians-Universität München, 80333, Munich, Germanyen
dc.contributor.institutionMarine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, Woods Hole, USAen
dc.contributor.institutionWestern Australia Organic and Isotope Geochemistry Centre (WA-OIGC), Department of Chemistry, Curtin University, Bentley, WA, 6102, Australiaen
dc.contributor.institutionState Key Laboratory of Estuarine and Coastal Research, East China Normal University, Shanghai, 200062, Chinaen
dc.contributor.institutionIKERBASQUE, Basque Foundation for Science, Bilbao, Spainen
dc.contributor.institutionAZTI – Marine Research, Herrera Kaia, Portualdea z/g, 20110, Pasaia (Gipuzkoa), Spainen
dc.contributor.institutionAZTI-Tecnalia, Marine Research Division, Txatxarramendi ugartea z/g, 48395, Sukarrieta (Bizkaia), Spainen
dc.contributor.institutionDepartment of Earth and Planetary Sciences, Harvard University, Cambridge, MA, 02138, USAen
dc.contributor.institutionMassachusetts Institute of Technology-Woods Hole Oceanographic Institution Joint Program in Oceanography/Applied Ocean Science and Engineering, Woods Hole, USAen
dc.contributor.institutionGeology and Geophysics, Woods Hole Oceanographic Institution, Woods Hole, USAen
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