lnu.sePublications
Change search
CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • harvard1
  • ieee
  • modern-language-association-8th-edition
  • vancouver
  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf
Shifts in coastal sediment oxygenation cause pronounced changes in microbial community composition and associated metabolism
Linnaeus University, Faculty of Health and Life Sciences, Department of Biology and Environmental Science. (Systems Biology of Microorganisms ; Ctr Ecol & Evolut Microbial Model Syst EEMiS)ORCID iD: 0000-0001-9005-5168
Linnaeus University, Faculty of Health and Life Sciences, Department of Biology and Environmental Science. Lund university ; Tech Univ Denmark, Denmark. (Ctr Ecol & Evolut Microbial Model Syst EEMiS)
Linnaeus University, Faculty of Health and Life Sciences, Department of Biology and Environmental Science. (Ctr Ecol & Evolut Microbial Model Syst EEMiS)ORCID iD: 0000-0002-6405-1347
Linnaeus University, Faculty of Health and Life Sciences, Department of Biology and Environmental Science. (Ctr Ecol & Evolut Microbial Model Syst EEMiS)ORCID iD: 0000-0002-9622-3318
2017 (English)In: Microbiome, ISSN 0026-2633, E-ISSN 2049-2618, Vol. 5, article id 96Article in journal (Refereed) Published
Abstract [en]

Background

A key characteristic of eutrophication in coastal seas is the expansion of hypoxic bottom waters, often referred to as ‘dead zones’. One proposed remediation strategy for coastal dead zones in the Baltic Sea is to mix the water column using pump stations, circulating oxygenated water to the sea bottom. Although microbial metabolism in the sediment surface is recognized as key in regulating bulk chemical fluxes, it remains unknown how the microbial community and its metabolic processes are influenced by shifts in oxygen availability. Here, coastal Baltic Sea sediments sampled from oxic and anoxic sites, plus an intermediate area subjected to episodic oxygenation, were experimentally exposed to oxygen shifts. Chemical, 16S rRNA gene, metagenomic, and metatranscriptomic analyses were conducted to investigate changes in chemistry fluxes, microbial community structure, and metabolic functions in the sediment surface.

Results

Compared to anoxic controls, oxygenation of anoxic sediment resulted in a proliferation of bacterial populations in the facultative anaerobic genus Sulfurovum that are capable of oxidizing toxic sulfide. Furthermore, the oxygenated sediment had higher amounts of RNA transcripts annotated as sqr, fccB, and dsrA involved in sulfide oxidation. In addition, the importance of cryptic sulfur cycling was highlighted by the oxidative genes listed above as well as dsvA, ttrB, dmsA, and ddhAB that encode reductive processes being identified in anoxic and intermediate sediments turned oxic. In particular, the intermediate site sediments responded differently upon oxygenation compared to the anoxic and oxic site sediments. This included a microbial community composition with more habitat generalists, lower amounts of RNA transcripts attributed to methane oxidation, and a reduced rate of organic matter degradation.

Conclusions

These novel data emphasize that genetic expression analyses has the power to identify key molecular mechanisms that regulate microbial community responses upon oxygenation of dead zones. Moreover, these results highlight that microbial responses, and therefore ultimately remediation efforts, depend largely on the oxygenation history of sites. Furthermore, it was shown that re-oxygenation efforts to remediate dead zones could ultimately be facilitated by in situ microbial molecular mechanisms involved in removal of toxic H2S and the potent greenhouse gas methane.

Place, publisher, year, edition, pages
BioMed Central, 2017. Vol. 5, article id 96
National Category
Ecology
Research subject
Ecology, Aquatic Ecology; Ecology, Microbiology
Identifiers
URN: urn:nbn:se:lnu:diva-67205DOI: 10.1186/s40168-017-0311-5ISI: 000407724600002PubMedID: 28793929OAI: oai:DiVA.org:lnu-67205DiVA, id: diva2:1130504
Projects
EcoChangeAvailable from: 2017-08-09 Created: 2017-08-09 Last updated: 2018-04-24Bibliographically approved
In thesis
1. Ecology and evolution of coastal Baltic Sea 'dead zone' sediments
Open this publication in new window or tab >>Ecology and evolution of coastal Baltic Sea 'dead zone' sediments
2018 (English)Doctoral thesis, comprehensive summary (Other academic)
Abstract [en]

Since industrialization and the release of agricultural fertilizers began, coastal and open waters of the Baltic Sea have been loaded with nutrients. This has increased the growth of algal blooms and because a portion of the algal organic matter sinks to the sea floor, hypoxia has increased. In conjunction to this, natural stratification of the water column makes the bottom zones especially prone to oxygen depletion due to microbes using oxygen and organic matter to grow. Hypoxia (<2 mg/L O2) and anoxia (no oxygen) are deadly for many organisms and only specialists (typically some microorganisms) are able to survive. Due to the harsh conditions these bottom zones are commonly referred to as 'dead zones'. The focus of this thesis was to look closer at the microbial community changes upon degradation of algal organic matter and the effect of oxygenating coastal Baltic Sea 'dead zone' sediments on chemistry fluxes, phyto- and zooplankton, the microbial community structure, and microbial metabolic responses. Results from field sampling and incubation experiments showed that degradation of algal biomass in nutrient rich oxic sediment was partly related to the growth of archaea; that oxygenation of anoxic sediments decreased stored organic matter plus triggered hatching of zooplankton eggs increasing the benthic-pelagic coupling; and resting diatoms buried in hypoxic/anoxic sediment were alive and triggered to germinate by light rather than oxygen. Changes in the microbial community structures to oxygen shifts were dependent on the historical exposure to oxygen and that microbial generalists adapted to episodic oxygenation were favored during oxygen shifts. Facultative anaerobic sulfur/sulfide oxidizing bacterial genera were favored upon oxygenation of hypoxic/anoxic sediment plus sulfur cycling and nitrogen fixation genes were abundant. Finally, it was discovered that oxygenation regulates metabolic processes involved in the sulfur and methane cycles, especially by metabolic processes that results in a decrease of toxic hydrogen sulfide as well as the potent greenhouse gas methane. This thesis has explored how 'dead zones' change and develop during oxygen shifts and that re-oxygenation of ‘dead zones’ could bring favorable conditions in the sediment surface for reestablishment of new micro- and macroorganism communities.

Abstract [sv]

Arealerna av 'döda bottnar' i Östersjön har ökat som en följd av industrialiseringen och användandet av gödningsmedel. Föroreningen av Östersjöns kust och öppna vatten med näringsämnen leder till en ökad tillväxt av algblomningar. En del av dessa alger sjunker till havsbotten och orsakar att så kallad hypoxia utvecklas. Den naturliga stratifieringen av vattenkolummen avgränsar yt- och bottenvattnet vilket leder till att bottenzonen är speciellt utsatt för syrebrist. Detta eftersom mikroorganismer i bottensedimentet använder syre och organiskt material för att leva. Hypoxia (<2 mg/L O2) och anoxia (inget syre) är dödligt för de flesta organismer och endast specialiserade organismer (vanligtvis vissa mikroorganismer) kan överleva. Det är av denna anledning dessa bottenzoner ofta kallas för 'döda bottnar'. Målet med denna avhandling var att undersöka förändringar i de mikrobiologiska samhällena vid nedbrytning av organiskt algmaterial, och undersöka vilken effekt syresättning har på ekologin i döda bottensediment i Östersjöns kust. I mer detalj studerades kemiska flöden, växt- och djurplankton, samt mikrobiologiska samhällen och deras metaboliska processer. Resultaten från fältprovtagningar och inkubationer i laboratoriet visade att nedbrytning av algmaterial i syrerikt sediment till viss del gynnade arkéer; syretillsättning av anoxiska sediment minskade det lagrade organiska materialet och ledde till ökad kläckning av djurplanktonägg; vilande kiselalger begravda i hypoxisk/anoxisk sediment var levande och vaknade vid tillförsel av ljus snarare än syre. Förändringar i mikrobiologiska samhällen vid syreförändringar var beroende av historisk exponering av syre i sedimentytan. Det observerades också att mikroorganismer anpassade till episodiska förändringar i syre gynnades. Fakultativt anaerobiska svavel/sulfidoxiderande bakteriesläkten gynnades efter syresättning av hypoxisk/anoxiskt sediment och gener involverade i omvandling av svavelämnen och kvävefixering var vanliga. Slutligen visade resultaten att syresättning reglerar metaboliska processer involverade i kretsloppen för svavel och metan. Speciellt genom processer som leder till en minskning av den gifta gasen svavelväte och växthusgasen metan. Denna avhandling har undersökt hur döda bottensediment förändras och utvecklas vid skiftande syreförhållanden och visar att syresättning av 'döda bottnar' kan skapa gynnsamma förhållanden i sedimentytan för återetablering av mikro- och makroorganismsamhällen. 

Place, publisher, year, edition, pages
Växjö: Linnaeus University Press, 2018
Series
Linnaeus University Dissertations ; 302/2018
Keywords
Baltic Sea, sediment, oxygen, metatranscriptomics, metagenomics, 16S rRNA gene, RNA-seq, dead zone, re-oxygenation
National Category
Ecology
Research subject
Ecology, Aquatic Ecology
Identifiers
urn:nbn:se:lnu:diva-69710 (URN)978-91-88761-00-2 (ISBN)978-91-88761-01-9 (ISBN)
Public defence
2018-02-02, Fullriggaren, Landgången 4, Kalmar, 13:30 (English)
Opponent
Supervisors
Available from: 2018-01-12 Created: 2018-01-11 Last updated: 2018-02-05Bibliographically approved

Open Access in DiVA

No full text in DiVA

Other links

Publisher's full textPubMed

Authority records BETA

Broman, EliasSjöstedt, JohannaPinhassi, JaroneDopson, Mark

Search in DiVA

By author/editor
Broman, EliasSjöstedt, JohannaPinhassi, JaroneDopson, Mark
By organisation
Department of Biology and Environmental Science
In the same journal
Microbiome
Ecology

Search outside of DiVA

GoogleGoogle Scholar

doi
pubmed
urn-nbn

Altmetric score

doi
pubmed
urn-nbn
Total: 84 hits
CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • harvard1
  • ieee
  • modern-language-association-8th-edition
  • vancouver
  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf