Dead or Alive; or Does It Really Matter? Level of Congruency Between Trophic Modes in Total and Active Fungal Communities in High Arctic Soil
Describing dynamics of belowground organisms, such as fungi, can be challenging. Results of studies based on environmental DNA (eDNA) may be biased as the template does not discriminate between metabolically active cells and dead biomass. We analyzed ribosomal DNA (rDNA) and ribosomal RNA (rRNA) coe...
Published in: | Frontiers in Microbiology |
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Language: | English |
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Frontiers Research Foundation
2019
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Online Access: | http://hdl.handle.net/10852/73985 http://urn.nb.no/URN:NBN:no-77073 https://doi.org/10.3389/fmicb.2018.03243 |
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ftoslouniv:oai:www.duo.uio.no:10852/73985 2023-05-15T14:27:54+02:00 Dead or Alive; or Does It Really Matter? Level of Congruency Between Trophic Modes in Total and Active Fungal Communities in High Arctic Soil Wutkowska, Magdalena Vader, Anna Mundra, Sunil Cooper, Elisabeth J. Eidesen, Pernille Bronken 2019-01-14T11:33:13Z http://hdl.handle.net/10852/73985 http://urn.nb.no/URN:NBN:no-77073 https://doi.org/10.3389/fmicb.2018.03243 EN eng Frontiers Research Foundation NOTUR/NORSTORE/NN9320K NFR/230970 CONOCOPHILIPS/Northern Area Program LUNDIN/Northern Area Program http://urn.nb.no/URN:NBN:no-77073 Wutkowska, Magdalena Vader, Anna Mundra, Sunil Cooper, Elisabeth J. Eidesen, Pernille Bronken . Dead or Alive; or Does It Really Matter? Level of Congruency Between Trophic Modes in Total and Active Fungal Communities in High Arctic Soil. Frontiers in Microbiology. 2019, 9 http://hdl.handle.net/10852/73985 1656110 info:ofi/fmt:kev:mtx:ctx&ctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=Frontiers in Microbiology&rft.volume=9&rft.spage=&rft.date=2019 Frontiers in Microbiology 9 https://doi.org/10.3389/fmicb.2018.03243 URN:NBN:no-77073 Fulltext https://www.duo.uio.no/bitstream/handle/10852/73985/2/article91252.pdf Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/ CC-BY 1664-302X Journal article Tidsskriftartikkel Peer reviewed PublishedVersion 2019 ftoslouniv https://doi.org/10.3389/fmicb.2018.03243 2020-06-21T08:53:50Z Describing dynamics of belowground organisms, such as fungi, can be challenging. Results of studies based on environmental DNA (eDNA) may be biased as the template does not discriminate between metabolically active cells and dead biomass. We analyzed ribosomal DNA (rDNA) and ribosomal RNA (rRNA) coextracted from 48 soil samples collected from a manipulated snow depth experiment in two distinct vegetation types in Svalbard, in the High Arctic. Our main goal was to compare if the rDNA and rRNA metabarcoding templates produced congruent results that would lead to consistent ecological interpretation. Data derived from both rDNA and rRNA clustered according to vegetation types. Different sets of environmental variables explained the community composition based on the metabarcoding template. rDNA and rRNA-derived community composition of symbiotrophs and saprotrophs, unlike pathotrophs, clustered together in a similar way as when the community composition was analyzed using all OTUs in the study. Mean OTU richness was higher for rRNA, especially in symbiotrophs. The metabarcoding template was more important than vegetation type in explaining differences in richness. The proportion of symbiotrophic, saprotrophic and functionally unassigned reads differed between rDNA and rRNA, but showed similar trends. There was no evidence for increased snow depth influence on fungal community composition or richness. Our findings suggest that template choice may be especially important for estimating biodiversity, such as richness and relative abundances, especially in Helotiales and Agaricales, but not for inferring community composition. Differences in study results originating from rDNA or rRNA may directly impact the ecological conclusions of one’s study, which could potentially lead to false conclusions on the dynamics of microbial communities in a rapidly changing Arctic. Article in Journal/Newspaper Arctic Arctic Svalbard Universitet i Oslo: Digitale utgivelser ved UiO (DUO) Arctic Svalbard Frontiers in Microbiology 9 |
institution |
Open Polar |
collection |
Universitet i Oslo: Digitale utgivelser ved UiO (DUO) |
op_collection_id |
ftoslouniv |
language |
English |
description |
Describing dynamics of belowground organisms, such as fungi, can be challenging. Results of studies based on environmental DNA (eDNA) may be biased as the template does not discriminate between metabolically active cells and dead biomass. We analyzed ribosomal DNA (rDNA) and ribosomal RNA (rRNA) coextracted from 48 soil samples collected from a manipulated snow depth experiment in two distinct vegetation types in Svalbard, in the High Arctic. Our main goal was to compare if the rDNA and rRNA metabarcoding templates produced congruent results that would lead to consistent ecological interpretation. Data derived from both rDNA and rRNA clustered according to vegetation types. Different sets of environmental variables explained the community composition based on the metabarcoding template. rDNA and rRNA-derived community composition of symbiotrophs and saprotrophs, unlike pathotrophs, clustered together in a similar way as when the community composition was analyzed using all OTUs in the study. Mean OTU richness was higher for rRNA, especially in symbiotrophs. The metabarcoding template was more important than vegetation type in explaining differences in richness. The proportion of symbiotrophic, saprotrophic and functionally unassigned reads differed between rDNA and rRNA, but showed similar trends. There was no evidence for increased snow depth influence on fungal community composition or richness. Our findings suggest that template choice may be especially important for estimating biodiversity, such as richness and relative abundances, especially in Helotiales and Agaricales, but not for inferring community composition. Differences in study results originating from rDNA or rRNA may directly impact the ecological conclusions of one’s study, which could potentially lead to false conclusions on the dynamics of microbial communities in a rapidly changing Arctic. |
format |
Article in Journal/Newspaper |
author |
Wutkowska, Magdalena Vader, Anna Mundra, Sunil Cooper, Elisabeth J. Eidesen, Pernille Bronken |
spellingShingle |
Wutkowska, Magdalena Vader, Anna Mundra, Sunil Cooper, Elisabeth J. Eidesen, Pernille Bronken Dead or Alive; or Does It Really Matter? Level of Congruency Between Trophic Modes in Total and Active Fungal Communities in High Arctic Soil |
author_facet |
Wutkowska, Magdalena Vader, Anna Mundra, Sunil Cooper, Elisabeth J. Eidesen, Pernille Bronken |
author_sort |
Wutkowska, Magdalena |
title |
Dead or Alive; or Does It Really Matter? Level of Congruency Between Trophic Modes in Total and Active Fungal Communities in High Arctic Soil |
title_short |
Dead or Alive; or Does It Really Matter? Level of Congruency Between Trophic Modes in Total and Active Fungal Communities in High Arctic Soil |
title_full |
Dead or Alive; or Does It Really Matter? Level of Congruency Between Trophic Modes in Total and Active Fungal Communities in High Arctic Soil |
title_fullStr |
Dead or Alive; or Does It Really Matter? Level of Congruency Between Trophic Modes in Total and Active Fungal Communities in High Arctic Soil |
title_full_unstemmed |
Dead or Alive; or Does It Really Matter? Level of Congruency Between Trophic Modes in Total and Active Fungal Communities in High Arctic Soil |
title_sort |
dead or alive; or does it really matter? level of congruency between trophic modes in total and active fungal communities in high arctic soil |
publisher |
Frontiers Research Foundation |
publishDate |
2019 |
url |
http://hdl.handle.net/10852/73985 http://urn.nb.no/URN:NBN:no-77073 https://doi.org/10.3389/fmicb.2018.03243 |
geographic |
Arctic Svalbard |
geographic_facet |
Arctic Svalbard |
genre |
Arctic Arctic Svalbard |
genre_facet |
Arctic Arctic Svalbard |
op_source |
1664-302X |
op_relation |
NOTUR/NORSTORE/NN9320K NFR/230970 CONOCOPHILIPS/Northern Area Program LUNDIN/Northern Area Program http://urn.nb.no/URN:NBN:no-77073 Wutkowska, Magdalena Vader, Anna Mundra, Sunil Cooper, Elisabeth J. Eidesen, Pernille Bronken . Dead or Alive; or Does It Really Matter? Level of Congruency Between Trophic Modes in Total and Active Fungal Communities in High Arctic Soil. Frontiers in Microbiology. 2019, 9 http://hdl.handle.net/10852/73985 1656110 info:ofi/fmt:kev:mtx:ctx&ctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=Frontiers in Microbiology&rft.volume=9&rft.spage=&rft.date=2019 Frontiers in Microbiology 9 https://doi.org/10.3389/fmicb.2018.03243 URN:NBN:no-77073 Fulltext https://www.duo.uio.no/bitstream/handle/10852/73985/2/article91252.pdf |
op_rights |
Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/ |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.3389/fmicb.2018.03243 |
container_title |
Frontiers in Microbiology |
container_volume |
9 |
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1766301963644829696 |