Fungal palaeodiversity revealed using high-throughput metabarcoding of ancient DNA from arctic permafrost
The taxonomic and ecological diversity of ancient fungal communities was assessed by combining next generation sequencing and metabarcoding of DNA preserved in permafrost. Twenty-six sediment samples dated 16000-32000 radiocarbon years old from two localities in Siberia were analysed for fungal ITS....
Published in: | Environmental Microbiology |
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Main Authors: | , , , , , , , , , , , |
Format: | Article in Journal/Newspaper |
Language: | English |
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2013
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Online Access: | https://curis.ku.dk/portal/da/publications/fungal-palaeodiversity-revealed-using-highthroughput-metabarcoding-of-ancient-dna-from-arctic-permafrost(1122b94c-ba88-4213-9d9d-3954eba0081e).html https://doi.org/10.1111/1462-2920.12020 http://www.scopus.com/inward/record.url?scp=84875893142&partnerID=8YFLogxK |
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ftcopenhagenunip:oai:pure.atira.dk:publications/1122b94c-ba88-4213-9d9d-3954eba0081e 2024-04-28T08:04:22+00:00 Fungal palaeodiversity revealed using high-throughput metabarcoding of ancient DNA from arctic permafrost Bellemain, Eva Davey, Marie L. Kauserud, Håvard Epp, Laura S. Boessenkool, Sanne Coissac, Eric Geml, Jozsef Edwards, Mary Willerslev, Eske Gussarova, Galina Taberlet, Pierre Brochmann, Christian 2013-04 https://curis.ku.dk/portal/da/publications/fungal-palaeodiversity-revealed-using-highthroughput-metabarcoding-of-ancient-dna-from-arctic-permafrost(1122b94c-ba88-4213-9d9d-3954eba0081e).html https://doi.org/10.1111/1462-2920.12020 http://www.scopus.com/inward/record.url?scp=84875893142&partnerID=8YFLogxK eng eng info:eu-repo/semantics/closedAccess Bellemain , E , Davey , M L , Kauserud , H , Epp , L S , Boessenkool , S , Coissac , E , Geml , J , Edwards , M , Willerslev , E , Gussarova , G , Taberlet , P & Brochmann , C 2013 , ' Fungal palaeodiversity revealed using high-throughput metabarcoding of ancient DNA from arctic permafrost ' , Environmental Microbiology , vol. 15 , no. 4 , pp. 1176-1189 . https://doi.org/10.1111/1462-2920.12020 article 2013 ftcopenhagenunip https://doi.org/10.1111/1462-2920.12020 2024-04-11T00:22:37Z The taxonomic and ecological diversity of ancient fungal communities was assessed by combining next generation sequencing and metabarcoding of DNA preserved in permafrost. Twenty-six sediment samples dated 16000-32000 radiocarbon years old from two localities in Siberia were analysed for fungal ITS. We detected 75 fungal OTUs from 21 orders representing three phyla, although rarefaction analyses suggested that the full diversity was not recovered despite generating an average of 6677±3811 (mean±SD) sequences per sample and that preservation bias likely has considerable effect on the recovered DNA. Most OTUs (75.4%) represented ascomycetes. Due to insufficient sequencing depth, DNA degradation and putative preservation biases in our samples, the recovered taxa probably do not represent the complete historic fungal community, and it is difficult to determine whether the fungal communities varied geographically or experienced a composition shift within the period of 16000-32000 bp. However, annotation of OTUs to functional ecological groups provided a wealth of information on the historic communities. About one-third of the OTUs are presumed plant-associates (pathogens, saprotrophs and endophytes) typical of graminoid- and forb-rich habitats. We also detected putative insect pathogens, coprophiles and keratinophiles likely associated with ancient insect and herbivore faunas. The detection of putative insect pathogens, mycoparasites, aquatic fungi and endophytes broadens our previous knowledge of the diversity of fungi present in Beringian palaeoecosystems. A large group of putatively psychrophilic/psychrotolerant fungi was also detected, most likely representing a modern, metabolically active fungal community. Article in Journal/Newspaper Arctic Arctic permafrost Siberia University of Copenhagen: Research Environmental Microbiology 15 4 1176 1189 |
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Open Polar |
collection |
University of Copenhagen: Research |
op_collection_id |
ftcopenhagenunip |
language |
English |
description |
The taxonomic and ecological diversity of ancient fungal communities was assessed by combining next generation sequencing and metabarcoding of DNA preserved in permafrost. Twenty-six sediment samples dated 16000-32000 radiocarbon years old from two localities in Siberia were analysed for fungal ITS. We detected 75 fungal OTUs from 21 orders representing three phyla, although rarefaction analyses suggested that the full diversity was not recovered despite generating an average of 6677±3811 (mean±SD) sequences per sample and that preservation bias likely has considerable effect on the recovered DNA. Most OTUs (75.4%) represented ascomycetes. Due to insufficient sequencing depth, DNA degradation and putative preservation biases in our samples, the recovered taxa probably do not represent the complete historic fungal community, and it is difficult to determine whether the fungal communities varied geographically or experienced a composition shift within the period of 16000-32000 bp. However, annotation of OTUs to functional ecological groups provided a wealth of information on the historic communities. About one-third of the OTUs are presumed plant-associates (pathogens, saprotrophs and endophytes) typical of graminoid- and forb-rich habitats. We also detected putative insect pathogens, coprophiles and keratinophiles likely associated with ancient insect and herbivore faunas. The detection of putative insect pathogens, mycoparasites, aquatic fungi and endophytes broadens our previous knowledge of the diversity of fungi present in Beringian palaeoecosystems. A large group of putatively psychrophilic/psychrotolerant fungi was also detected, most likely representing a modern, metabolically active fungal community. |
format |
Article in Journal/Newspaper |
author |
Bellemain, Eva Davey, Marie L. Kauserud, Håvard Epp, Laura S. Boessenkool, Sanne Coissac, Eric Geml, Jozsef Edwards, Mary Willerslev, Eske Gussarova, Galina Taberlet, Pierre Brochmann, Christian |
spellingShingle |
Bellemain, Eva Davey, Marie L. Kauserud, Håvard Epp, Laura S. Boessenkool, Sanne Coissac, Eric Geml, Jozsef Edwards, Mary Willerslev, Eske Gussarova, Galina Taberlet, Pierre Brochmann, Christian Fungal palaeodiversity revealed using high-throughput metabarcoding of ancient DNA from arctic permafrost |
author_facet |
Bellemain, Eva Davey, Marie L. Kauserud, Håvard Epp, Laura S. Boessenkool, Sanne Coissac, Eric Geml, Jozsef Edwards, Mary Willerslev, Eske Gussarova, Galina Taberlet, Pierre Brochmann, Christian |
author_sort |
Bellemain, Eva |
title |
Fungal palaeodiversity revealed using high-throughput metabarcoding of ancient DNA from arctic permafrost |
title_short |
Fungal palaeodiversity revealed using high-throughput metabarcoding of ancient DNA from arctic permafrost |
title_full |
Fungal palaeodiversity revealed using high-throughput metabarcoding of ancient DNA from arctic permafrost |
title_fullStr |
Fungal palaeodiversity revealed using high-throughput metabarcoding of ancient DNA from arctic permafrost |
title_full_unstemmed |
Fungal palaeodiversity revealed using high-throughput metabarcoding of ancient DNA from arctic permafrost |
title_sort |
fungal palaeodiversity revealed using high-throughput metabarcoding of ancient dna from arctic permafrost |
publishDate |
2013 |
url |
https://curis.ku.dk/portal/da/publications/fungal-palaeodiversity-revealed-using-highthroughput-metabarcoding-of-ancient-dna-from-arctic-permafrost(1122b94c-ba88-4213-9d9d-3954eba0081e).html https://doi.org/10.1111/1462-2920.12020 http://www.scopus.com/inward/record.url?scp=84875893142&partnerID=8YFLogxK |
genre |
Arctic Arctic permafrost Siberia |
genre_facet |
Arctic Arctic permafrost Siberia |
op_source |
Bellemain , E , Davey , M L , Kauserud , H , Epp , L S , Boessenkool , S , Coissac , E , Geml , J , Edwards , M , Willerslev , E , Gussarova , G , Taberlet , P & Brochmann , C 2013 , ' Fungal palaeodiversity revealed using high-throughput metabarcoding of ancient DNA from arctic permafrost ' , Environmental Microbiology , vol. 15 , no. 4 , pp. 1176-1189 . https://doi.org/10.1111/1462-2920.12020 |
op_rights |
info:eu-repo/semantics/closedAccess |
op_doi |
https://doi.org/10.1111/1462-2920.12020 |
container_title |
Environmental Microbiology |
container_volume |
15 |
container_issue |
4 |
container_start_page |
1176 |
op_container_end_page |
1189 |
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1797575077394382848 |