TY - JOUR
T1 - Dead or alive; Or does it really matter? Level of congruency between trophic modes in total and active fungal communities in high arctic soil
AU - Wutkowska, Magdalena
AU - Vader, Anna
AU - Mundra, Sunil
AU - Cooper, Elisabeth J.
AU - Eidesen, Pernille B.
N1 - Funding Information:
This research was funded by ConocoPhillips and Lundin Petroleum through the Northern Area Program and by the Norwegian Research Council, project number 230970. This work was performed on the Abel Cluster, owned by the University of Oslo and the Norwegian Metacenter for High Performance Computing (NOTUR), and operated by the Department for Research Computing at USIT, the University of Oslo IT-department. http://www.hpc.uio.no/. The publication charges for this paper have been funded by a grant from the publication fund of UiT The Arctic University of Norway.
Publisher Copyright:
© 2019 Wutkowska, Vader, Mundra, Cooper and Eidesen.
PY - 2019
Y1 - 2019
N2 - 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.
AB - 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.
KW - Arctic vegetation
KW - Below-ground processes
KW - Fungal functional group
KW - Fungal trophic mode
KW - Snow fences
KW - Snow regime
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U2 - 10.3389/fmicb.2018.03243
DO - 10.3389/fmicb.2018.03243
M3 - Article
AN - SCOPUS:85064275232
SN - 1664-302X
VL - 10
JO - Frontiers in Microbiology
JF - Frontiers in Microbiology
IS - JAN
M1 - 3243
ER -