Microbial ecology and functionality in deep Fennoscandian crystalline bedrock biosphere: Dissertation

Lotta Purkamo

Research output: ThesisDissertationMonograph

Abstract

Microbial life in the deep subsurface contributes significantly to overall biomass on Earth. Although the microbial communities inhabiting the deep subsurface are abundant, little is known about their diversity, activity, interactions and role in global biogeochemical cycles. The diversity of microbial life in the deep terrestrial subsurface of the Fennoscandian shield was studied with molecular biological methods. The Outokumpu Deep Drill Hole provides access to crystalline bedrock fluids that are estimated to be tens of millions of years old. Characterization of the indigenous bacterial and archaeal communities in addition to microbial communities with important functional properties in bedrock fluids was done from a depth range of 180 m to 2300 m. Microbial community profiling and assessment of possible functional processes was done with molecular fingerprinting, cloning and sequencing methods combined with suitable statistical and bioinformatics analyses. Low cell numbers but high diversity was characteristic to the microbial communities of the Outokumpu deep subsurface. The microbial communities in the fracture zones had in general fewer cells than those in the mixed fluids of the drill hole. Comamonadaceae, Peptococcaceae and Anaerobrancaceae were prevalent bacterial members of the microbial communities in the fracture fluids. Archaea were a minority in microbial communities. Sulfate-reducing bacteria and methanogens were detected at several depths. Microbial communities resembled those detected from other deep Fennoscandian Shield subsurface sites. Furthermore, sulfate reducing communities and archaeal communities resembled those found from the deep subsurface of South Africa. Investigation on carbon assimilation strategies of the microbial communities revealed that mainly heterotrophic Clostridia were responsible for CO2 fixation in this habitat. Representatives of Burkholderiales and Clostridia formed the core microbial community and these were also identified to be the keystone genera. The microbial communities of Outokumpu fractures share similarity with those of serpentinization-driven ecosystems. Energy and carbon substrates formed in serpentinization reactions of ophiolitic rocks in Outokumpu may sustain the microbial communities in this deep subsurface environment.
Original languageEnglish
QualificationDoctor Degree
Awarding Institution
  • University of Helsinki
Supervisors/Advisors
  • Itävaara, Merja, Supervisor, External person
  • Kukkonen, Ilmo, Supervisor, External person
  • Blomberg, Malin, Supervisor, External person
  • Ahonen, Lasse, Supervisor, External person
  • Nyyssönen, Mari, Supervisor
Award date18 Dec 2015
Place of PublicationEspoo
Publisher
Print ISBNs978-951-38-8370-6
Electronic ISBNs978-951-38-8371-3
Publication statusPublished - 2015
MoE publication typeG4 Doctoral dissertation (monograph)

Fingerprint

microbial ecology
biosphere
microbial community
bedrock
serpentinization
fluid
shield
biological method
bioinformatics
biogeochemical cycle
carbon
sulfate-reducing bacterium
fracture zone
fixation

Keywords

  • terrestrial deep biosphere
  • crystalline bedrock
  • microbial communities
  • functional genes
  • bacteria
  • archaea
  • sulfate reducers
  • methanogens

Cite this

Purkamo, L. (2015). Microbial ecology and functionality in deep Fennoscandian crystalline bedrock biosphere: Dissertation. Espoo: VTT Technical Research Centre of Finland.
Purkamo, Lotta. / Microbial ecology and functionality in deep Fennoscandian crystalline bedrock biosphere : Dissertation. Espoo : VTT Technical Research Centre of Finland, 2015. 155 p.
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abstract = "Microbial life in the deep subsurface contributes significantly to overall biomass on Earth. Although the microbial communities inhabiting the deep subsurface are abundant, little is known about their diversity, activity, interactions and role in global biogeochemical cycles. The diversity of microbial life in the deep terrestrial subsurface of the Fennoscandian shield was studied with molecular biological methods. The Outokumpu Deep Drill Hole provides access to crystalline bedrock fluids that are estimated to be tens of millions of years old. Characterization of the indigenous bacterial and archaeal communities in addition to microbial communities with important functional properties in bedrock fluids was done from a depth range of 180 m to 2300 m. Microbial community profiling and assessment of possible functional processes was done with molecular fingerprinting, cloning and sequencing methods combined with suitable statistical and bioinformatics analyses. Low cell numbers but high diversity was characteristic to the microbial communities of the Outokumpu deep subsurface. The microbial communities in the fracture zones had in general fewer cells than those in the mixed fluids of the drill hole. Comamonadaceae, Peptococcaceae and Anaerobrancaceae were prevalent bacterial members of the microbial communities in the fracture fluids. Archaea were a minority in microbial communities. Sulfate-reducing bacteria and methanogens were detected at several depths. Microbial communities resembled those detected from other deep Fennoscandian Shield subsurface sites. Furthermore, sulfate reducing communities and archaeal communities resembled those found from the deep subsurface of South Africa. Investigation on carbon assimilation strategies of the microbial communities revealed that mainly heterotrophic Clostridia were responsible for CO2 fixation in this habitat. Representatives of Burkholderiales and Clostridia formed the core microbial community and these were also identified to be the keystone genera. The microbial communities of Outokumpu fractures share similarity with those of serpentinization-driven ecosystems. Energy and carbon substrates formed in serpentinization reactions of ophiolitic rocks in Outokumpu may sustain the microbial communities in this deep subsurface environment.",
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author = "Lotta Purkamo",
year = "2015",
language = "English",
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Microbial ecology and functionality in deep Fennoscandian crystalline bedrock biosphere : Dissertation. / Purkamo, Lotta.

Espoo : VTT Technical Research Centre of Finland, 2015. 155 p.

Research output: ThesisDissertationMonograph

TY - THES

T1 - Microbial ecology and functionality in deep Fennoscandian crystalline bedrock biosphere

T2 - Dissertation

AU - Purkamo, Lotta

PY - 2015

Y1 - 2015

N2 - Microbial life in the deep subsurface contributes significantly to overall biomass on Earth. Although the microbial communities inhabiting the deep subsurface are abundant, little is known about their diversity, activity, interactions and role in global biogeochemical cycles. The diversity of microbial life in the deep terrestrial subsurface of the Fennoscandian shield was studied with molecular biological methods. The Outokumpu Deep Drill Hole provides access to crystalline bedrock fluids that are estimated to be tens of millions of years old. Characterization of the indigenous bacterial and archaeal communities in addition to microbial communities with important functional properties in bedrock fluids was done from a depth range of 180 m to 2300 m. Microbial community profiling and assessment of possible functional processes was done with molecular fingerprinting, cloning and sequencing methods combined with suitable statistical and bioinformatics analyses. Low cell numbers but high diversity was characteristic to the microbial communities of the Outokumpu deep subsurface. The microbial communities in the fracture zones had in general fewer cells than those in the mixed fluids of the drill hole. Comamonadaceae, Peptococcaceae and Anaerobrancaceae were prevalent bacterial members of the microbial communities in the fracture fluids. Archaea were a minority in microbial communities. Sulfate-reducing bacteria and methanogens were detected at several depths. Microbial communities resembled those detected from other deep Fennoscandian Shield subsurface sites. Furthermore, sulfate reducing communities and archaeal communities resembled those found from the deep subsurface of South Africa. Investigation on carbon assimilation strategies of the microbial communities revealed that mainly heterotrophic Clostridia were responsible for CO2 fixation in this habitat. Representatives of Burkholderiales and Clostridia formed the core microbial community and these were also identified to be the keystone genera. The microbial communities of Outokumpu fractures share similarity with those of serpentinization-driven ecosystems. Energy and carbon substrates formed in serpentinization reactions of ophiolitic rocks in Outokumpu may sustain the microbial communities in this deep subsurface environment.

AB - Microbial life in the deep subsurface contributes significantly to overall biomass on Earth. Although the microbial communities inhabiting the deep subsurface are abundant, little is known about their diversity, activity, interactions and role in global biogeochemical cycles. The diversity of microbial life in the deep terrestrial subsurface of the Fennoscandian shield was studied with molecular biological methods. The Outokumpu Deep Drill Hole provides access to crystalline bedrock fluids that are estimated to be tens of millions of years old. Characterization of the indigenous bacterial and archaeal communities in addition to microbial communities with important functional properties in bedrock fluids was done from a depth range of 180 m to 2300 m. Microbial community profiling and assessment of possible functional processes was done with molecular fingerprinting, cloning and sequencing methods combined with suitable statistical and bioinformatics analyses. Low cell numbers but high diversity was characteristic to the microbial communities of the Outokumpu deep subsurface. The microbial communities in the fracture zones had in general fewer cells than those in the mixed fluids of the drill hole. Comamonadaceae, Peptococcaceae and Anaerobrancaceae were prevalent bacterial members of the microbial communities in the fracture fluids. Archaea were a minority in microbial communities. Sulfate-reducing bacteria and methanogens were detected at several depths. Microbial communities resembled those detected from other deep Fennoscandian Shield subsurface sites. Furthermore, sulfate reducing communities and archaeal communities resembled those found from the deep subsurface of South Africa. Investigation on carbon assimilation strategies of the microbial communities revealed that mainly heterotrophic Clostridia were responsible for CO2 fixation in this habitat. Representatives of Burkholderiales and Clostridia formed the core microbial community and these were also identified to be the keystone genera. The microbial communities of Outokumpu fractures share similarity with those of serpentinization-driven ecosystems. Energy and carbon substrates formed in serpentinization reactions of ophiolitic rocks in Outokumpu may sustain the microbial communities in this deep subsurface environment.

KW - terrestrial deep biosphere

KW - crystalline bedrock

KW - microbial communities

KW - functional genes

KW - bacteria

KW - archaea

KW - sulfate reducers

KW - methanogens

M3 - Dissertation

SN - 978-951-38-8370-6

T3 - VTT Science

PB - VTT Technical Research Centre of Finland

CY - Espoo

ER -

Purkamo L. Microbial ecology and functionality in deep Fennoscandian crystalline bedrock biosphere: Dissertation. Espoo: VTT Technical Research Centre of Finland, 2015. 155 p.