In-depth characterization of denitrifier communities across different soil ecosystems in the tundra
Background In contrast to earlier assumptions, there is now mounting evidence for the role of tundra soils as important sources of the greenhouse gas nitrous oxide (N2O). However, the microorganisms involved in the cycling of N2O in this system remain largely uncharacterized. Since tundra soils are...
Published in: | Environmental Microbiome |
---|---|
Main Authors: | , , , , , , , |
Other Authors: | , , , , |
Format: | Article in Journal/Newspaper |
Language: | English |
Published: |
2022
|
Subjects: | |
Online Access: | http://hdl.handle.net/10138/345728 |
id |
ftunivhelsihelda:oai:helda.helsinki.fi:10138/345728 |
---|---|
record_format |
openpolar |
spelling |
ftunivhelsihelda:oai:helda.helsinki.fi:10138/345728 2023-05-15T15:10:26+02:00 In-depth characterization of denitrifier communities across different soil ecosystems in the tundra Pessi, Igor S. Viitamäki, Sirja Virkkala, Anna-Maria Eronen-Rasimus, Eeva Delmont, Tom O. Marushchak, Maija E. Luoto, Miska Hultman, Jenni Department of Microbiology Helsinki Institute of Sustainability Science (HELSUS) Arctic Microbial Ecology BioGeoClimate Modelling Lab Department of Geosciences and Geography 2022-06-11 17 http://hdl.handle.net/10138/345728 eng eng Environmental microbiome https://doi.org/10.1186/s40793-022-00424-2 2524-6372 Pessi , I S , Viitamäki , S , Virkkala , A-M , Eronen-Rasimus , E , Delmont , T O , Marushchak , M E , Luoto , M & Hultman , J 2022 , ' In-depth characterization of denitrifier communities across different soil ecosystems in the tundra ' , Environmental microbiome , vol. 17 , 30 . https://doi.org/10.1186/s40793-022-00424-2 PURE: 213843861 PURE UUID: 90f578dd-898f-43a6-bb9f-fbfdceed1cf5 WOS: 000809566300001 Scopus: 85131797312 ORCID: /0000-0001-6203-5143/work/115265845 ORCID: /0000-0003-4877-2918/work/115270526 ORCID: /0000-0002-2427-6162/work/115270659 ORCID: /0000-0001-5926-7496/work/115270773 http://hdl.handle.net/10138/345728 cc_by info:eu-repo/semantics/openAccess openAccess CC-BY Arctic Denitrification Genome-resolved metagenomics Nitrous oxide MULTIPLE SEQUENCE ALIGNMENT NITROUS-OXIDE REDUCTASE N2O EMISSIONS RIBOSOMAL-RNA MICROBIAL COMMUNITY PERMAFROST ACIDOBACTERIA DIVERSITY CARBON CHLOROFLEXI 11832 Microbiology and virology Article publishedVersion 2022 ftunivhelsihelda https://doi.org/10.1186/s40793-022-00424-2 2022-08-31T22:57:24Z Background In contrast to earlier assumptions, there is now mounting evidence for the role of tundra soils as important sources of the greenhouse gas nitrous oxide (N2O). However, the microorganisms involved in the cycling of N2O in this system remain largely uncharacterized. Since tundra soils are variable sources and sinks of N2O, we aimed at investigating differences in community structure across different soil ecosystems in the tundra. Results We analysed 1.4 Tb of metagenomic data from soils in northern Finland covering a range of ecosystems from dry upland soils to water-logged fens and obtained 796 manually binned and curated metagenome-assembled genomes (MAGs). We then searched for MAGs harbouring genes involved in denitrification, an important process driving N2O emissions. Communities of potential denitrifiers were dominated by microorganisms with truncated denitrification pathways (i.e., lacking one or more denitrification genes) and differed across soil ecosystems. Upland soils showed a strong N2O sink potential and were dominated by members of the Alphaproteobacteria such as Bradyrhizobium and Reyranella. Fens, which had in general net-zero N2O fluxes, had a high abundance of poorly characterized taxa affiliated with the Chloroflexota lineage Ellin6529 and the Acidobacteriota subdivision Gp23. Conclusions By coupling an in-depth characterization of microbial communities with in situ measurements of N2O fluxes, our results suggest that the observed spatial patterns of N2O fluxes in the tundra are related to differences in the composition of denitrifier communities. Peer reviewed Article in Journal/Newspaper Arctic Northern Finland permafrost Tundra Helsingfors Universitet: HELDA – Helsingin yliopiston digitaalinen arkisto Arctic Environmental Microbiome 17 1 |
institution |
Open Polar |
collection |
Helsingfors Universitet: HELDA – Helsingin yliopiston digitaalinen arkisto |
op_collection_id |
ftunivhelsihelda |
language |
English |
topic |
Arctic Denitrification Genome-resolved metagenomics Nitrous oxide MULTIPLE SEQUENCE ALIGNMENT NITROUS-OXIDE REDUCTASE N2O EMISSIONS RIBOSOMAL-RNA MICROBIAL COMMUNITY PERMAFROST ACIDOBACTERIA DIVERSITY CARBON CHLOROFLEXI 11832 Microbiology and virology |
spellingShingle |
Arctic Denitrification Genome-resolved metagenomics Nitrous oxide MULTIPLE SEQUENCE ALIGNMENT NITROUS-OXIDE REDUCTASE N2O EMISSIONS RIBOSOMAL-RNA MICROBIAL COMMUNITY PERMAFROST ACIDOBACTERIA DIVERSITY CARBON CHLOROFLEXI 11832 Microbiology and virology Pessi, Igor S. Viitamäki, Sirja Virkkala, Anna-Maria Eronen-Rasimus, Eeva Delmont, Tom O. Marushchak, Maija E. Luoto, Miska Hultman, Jenni In-depth characterization of denitrifier communities across different soil ecosystems in the tundra |
topic_facet |
Arctic Denitrification Genome-resolved metagenomics Nitrous oxide MULTIPLE SEQUENCE ALIGNMENT NITROUS-OXIDE REDUCTASE N2O EMISSIONS RIBOSOMAL-RNA MICROBIAL COMMUNITY PERMAFROST ACIDOBACTERIA DIVERSITY CARBON CHLOROFLEXI 11832 Microbiology and virology |
description |
Background In contrast to earlier assumptions, there is now mounting evidence for the role of tundra soils as important sources of the greenhouse gas nitrous oxide (N2O). However, the microorganisms involved in the cycling of N2O in this system remain largely uncharacterized. Since tundra soils are variable sources and sinks of N2O, we aimed at investigating differences in community structure across different soil ecosystems in the tundra. Results We analysed 1.4 Tb of metagenomic data from soils in northern Finland covering a range of ecosystems from dry upland soils to water-logged fens and obtained 796 manually binned and curated metagenome-assembled genomes (MAGs). We then searched for MAGs harbouring genes involved in denitrification, an important process driving N2O emissions. Communities of potential denitrifiers were dominated by microorganisms with truncated denitrification pathways (i.e., lacking one or more denitrification genes) and differed across soil ecosystems. Upland soils showed a strong N2O sink potential and were dominated by members of the Alphaproteobacteria such as Bradyrhizobium and Reyranella. Fens, which had in general net-zero N2O fluxes, had a high abundance of poorly characterized taxa affiliated with the Chloroflexota lineage Ellin6529 and the Acidobacteriota subdivision Gp23. Conclusions By coupling an in-depth characterization of microbial communities with in situ measurements of N2O fluxes, our results suggest that the observed spatial patterns of N2O fluxes in the tundra are related to differences in the composition of denitrifier communities. Peer reviewed |
author2 |
Department of Microbiology Helsinki Institute of Sustainability Science (HELSUS) Arctic Microbial Ecology BioGeoClimate Modelling Lab Department of Geosciences and Geography |
format |
Article in Journal/Newspaper |
author |
Pessi, Igor S. Viitamäki, Sirja Virkkala, Anna-Maria Eronen-Rasimus, Eeva Delmont, Tom O. Marushchak, Maija E. Luoto, Miska Hultman, Jenni |
author_facet |
Pessi, Igor S. Viitamäki, Sirja Virkkala, Anna-Maria Eronen-Rasimus, Eeva Delmont, Tom O. Marushchak, Maija E. Luoto, Miska Hultman, Jenni |
author_sort |
Pessi, Igor S. |
title |
In-depth characterization of denitrifier communities across different soil ecosystems in the tundra |
title_short |
In-depth characterization of denitrifier communities across different soil ecosystems in the tundra |
title_full |
In-depth characterization of denitrifier communities across different soil ecosystems in the tundra |
title_fullStr |
In-depth characterization of denitrifier communities across different soil ecosystems in the tundra |
title_full_unstemmed |
In-depth characterization of denitrifier communities across different soil ecosystems in the tundra |
title_sort |
in-depth characterization of denitrifier communities across different soil ecosystems in the tundra |
publishDate |
2022 |
url |
http://hdl.handle.net/10138/345728 |
geographic |
Arctic |
geographic_facet |
Arctic |
genre |
Arctic Northern Finland permafrost Tundra |
genre_facet |
Arctic Northern Finland permafrost Tundra |
op_relation |
Environmental microbiome https://doi.org/10.1186/s40793-022-00424-2 2524-6372 Pessi , I S , Viitamäki , S , Virkkala , A-M , Eronen-Rasimus , E , Delmont , T O , Marushchak , M E , Luoto , M & Hultman , J 2022 , ' In-depth characterization of denitrifier communities across different soil ecosystems in the tundra ' , Environmental microbiome , vol. 17 , 30 . https://doi.org/10.1186/s40793-022-00424-2 PURE: 213843861 PURE UUID: 90f578dd-898f-43a6-bb9f-fbfdceed1cf5 WOS: 000809566300001 Scopus: 85131797312 ORCID: /0000-0001-6203-5143/work/115265845 ORCID: /0000-0003-4877-2918/work/115270526 ORCID: /0000-0002-2427-6162/work/115270659 ORCID: /0000-0001-5926-7496/work/115270773 http://hdl.handle.net/10138/345728 |
op_rights |
cc_by info:eu-repo/semantics/openAccess openAccess |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.1186/s40793-022-00424-2 |
container_title |
Environmental Microbiome |
container_volume |
17 |
container_issue |
1 |
_version_ |
1766341462528622592 |