Characterisation of microbial community composition of a Siberian tundra soil by fluorescence in situ hybridisation
The bacterial community composition of the active layer (0–45 cm) of a permafrost-affected tundra soil was analysed by fluorescence in situ hybridisation (FISH). Arctic tundra soils contain large amounts of organic carbon, accumulated in thick soil layers and are known as a major sink of atmospheric...
Published in: | FEMS Microbiology Ecology |
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ftoceanrep:oai:oceanrep.geomar.de:27429 2023-05-15T15:10:11+02:00 Characterisation of microbial community composition of a Siberian tundra soil by fluorescence in situ hybridisation Kobabe, Svenja Wagner, Dirk Pfeiffer, Eva-Maria 2004 text https://oceanrep.geomar.de/id/eprint/27429/ https://oceanrep.geomar.de/id/eprint/27429/1/2004_Kobabe-etal-Characterization_j.femsec.2004.05.003.pdf https://doi.org/10.1016/j.femsec.2004.05.003 en eng Elsevier https://oceanrep.geomar.de/id/eprint/27429/1/2004_Kobabe-etal-Characterization_j.femsec.2004.05.003.pdf Kobabe, S., Wagner, D. and Pfeiffer, E. M. (2004) Characterisation of microbial community composition of a Siberian tundra soil by fluorescence in situ hybridisation. FEMS Microbiology Ecology, 50 (1). pp. 13-23. DOI 10.1016/j.femsec.2004.05.003 <https://doi.org/10.1016/j.femsec.2004.05.003>. doi:10.1016/j.femsec.2004.05.003 cc_by_nc Article PeerReviewed 2004 ftoceanrep https://doi.org/10.1016/j.femsec.2004.05.003 2023-04-07T15:17:31Z The bacterial community composition of the active layer (0–45 cm) of a permafrost-affected tundra soil was analysed by fluorescence in situ hybridisation (FISH). Arctic tundra soils contain large amounts of organic carbon, accumulated in thick soil layers and are known as a major sink of atmospheric CO2. These soils are totally frozen throughout the year and only a thin active layer is unfrozen and shows biological activity during the short summer. To improve the understanding of how the carbon fluxes in the active layer are controlled, detailed analysis of composition, functionality and interaction of soil microorganisms was done. The FISH analyses of the active layer showed large variations in absolute cell numbers and in the composition of the active microbial community between the different horizons, which is caused by the different environmental conditions (e.g., soil temperature, amount of organic matter, aeration) in this vertically structured ecosystem. Universal protein stain 5-(4,6-dichlorotriazin-2-yl)aminofluorescein (DTAF) showed an exponential decrease of total cell counts from the top to the bottom of the active layer (2.3 × 109–1.2 × 108 cells per gram dry soil). Using FISH, up to 59% of the DTAF-detected cells could be detected in the surface horizon, and up to 84% of these FISH-detected cells could be affiliated to a known phylogenetic group. The amount of FISH-detectable cells decreased with increasing depth and so did the diversity of ascertained phylogenetic groups. Article in Journal/Newspaper Arctic permafrost Tundra OceanRep (GEOMAR Helmholtz Centre für Ocean Research Kiel) Arctic FEMS Microbiology Ecology 50 1 13 23 |
institution |
Open Polar |
collection |
OceanRep (GEOMAR Helmholtz Centre für Ocean Research Kiel) |
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ftoceanrep |
language |
English |
description |
The bacterial community composition of the active layer (0–45 cm) of a permafrost-affected tundra soil was analysed by fluorescence in situ hybridisation (FISH). Arctic tundra soils contain large amounts of organic carbon, accumulated in thick soil layers and are known as a major sink of atmospheric CO2. These soils are totally frozen throughout the year and only a thin active layer is unfrozen and shows biological activity during the short summer. To improve the understanding of how the carbon fluxes in the active layer are controlled, detailed analysis of composition, functionality and interaction of soil microorganisms was done. The FISH analyses of the active layer showed large variations in absolute cell numbers and in the composition of the active microbial community between the different horizons, which is caused by the different environmental conditions (e.g., soil temperature, amount of organic matter, aeration) in this vertically structured ecosystem. Universal protein stain 5-(4,6-dichlorotriazin-2-yl)aminofluorescein (DTAF) showed an exponential decrease of total cell counts from the top to the bottom of the active layer (2.3 × 109–1.2 × 108 cells per gram dry soil). Using FISH, up to 59% of the DTAF-detected cells could be detected in the surface horizon, and up to 84% of these FISH-detected cells could be affiliated to a known phylogenetic group. The amount of FISH-detectable cells decreased with increasing depth and so did the diversity of ascertained phylogenetic groups. |
format |
Article in Journal/Newspaper |
author |
Kobabe, Svenja Wagner, Dirk Pfeiffer, Eva-Maria |
spellingShingle |
Kobabe, Svenja Wagner, Dirk Pfeiffer, Eva-Maria Characterisation of microbial community composition of a Siberian tundra soil by fluorescence in situ hybridisation |
author_facet |
Kobabe, Svenja Wagner, Dirk Pfeiffer, Eva-Maria |
author_sort |
Kobabe, Svenja |
title |
Characterisation of microbial community composition of a Siberian tundra soil by fluorescence in situ hybridisation |
title_short |
Characterisation of microbial community composition of a Siberian tundra soil by fluorescence in situ hybridisation |
title_full |
Characterisation of microbial community composition of a Siberian tundra soil by fluorescence in situ hybridisation |
title_fullStr |
Characterisation of microbial community composition of a Siberian tundra soil by fluorescence in situ hybridisation |
title_full_unstemmed |
Characterisation of microbial community composition of a Siberian tundra soil by fluorescence in situ hybridisation |
title_sort |
characterisation of microbial community composition of a siberian tundra soil by fluorescence in situ hybridisation |
publisher |
Elsevier |
publishDate |
2004 |
url |
https://oceanrep.geomar.de/id/eprint/27429/ https://oceanrep.geomar.de/id/eprint/27429/1/2004_Kobabe-etal-Characterization_j.femsec.2004.05.003.pdf https://doi.org/10.1016/j.femsec.2004.05.003 |
geographic |
Arctic |
geographic_facet |
Arctic |
genre |
Arctic permafrost Tundra |
genre_facet |
Arctic permafrost Tundra |
op_relation |
https://oceanrep.geomar.de/id/eprint/27429/1/2004_Kobabe-etal-Characterization_j.femsec.2004.05.003.pdf Kobabe, S., Wagner, D. and Pfeiffer, E. M. (2004) Characterisation of microbial community composition of a Siberian tundra soil by fluorescence in situ hybridisation. FEMS Microbiology Ecology, 50 (1). pp. 13-23. DOI 10.1016/j.femsec.2004.05.003 <https://doi.org/10.1016/j.femsec.2004.05.003>. doi:10.1016/j.femsec.2004.05.003 |
op_rights |
cc_by_nc |
op_doi |
https://doi.org/10.1016/j.femsec.2004.05.003 |
container_title |
FEMS Microbiology Ecology |
container_volume |
50 |
container_issue |
1 |
container_start_page |
13 |
op_container_end_page |
23 |
_version_ |
1766341236234387456 |