Fungal palaeodiversity revealed using high‐throughput metabarcoding of ancient DNA from arctic permafrost
Summary 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 16 000–32 000 radiocarbon years old from two localities in S iberia were analysed for...
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crwiley:10.1111/1462-2920.12020 2024-10-13T14:05:36+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 2012 http://dx.doi.org/10.1111/1462-2920.12020 https://api.wiley.com/onlinelibrary/tdm/v1/articles/10.1111%2F1462-2920.12020 http://onlinelibrary.wiley.com/wol1/doi/10.1111/1462-2920.12020/fullpdf en eng Wiley http://onlinelibrary.wiley.com/termsAndConditions#vor Environmental Microbiology volume 15, issue 4, page 1176-1189 ISSN 1462-2912 1462-2920 journal-article 2012 crwiley https://doi.org/10.1111/1462-2920.12020 2024-09-27T04:17:09Z Summary 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 16 000–32 000 radiocarbon years old from two localities in S iberia were analysed for fungal ITS . We detected 75 fungal OTU s 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 OTU s (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 16 000–32 000 bp . However, annotation of OTU s 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 permafrost Wiley Online Library Arctic Environmental Microbiology 15 4 1176 1189 |
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Open Polar |
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Wiley Online Library |
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crwiley |
language |
English |
description |
Summary 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 16 000–32 000 radiocarbon years old from two localities in S iberia were analysed for fungal ITS . We detected 75 fungal OTU s 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 OTU s (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 16 000–32 000 bp . However, annotation of OTU s 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 |
publisher |
Wiley |
publishDate |
2012 |
url |
http://dx.doi.org/10.1111/1462-2920.12020 https://api.wiley.com/onlinelibrary/tdm/v1/articles/10.1111%2F1462-2920.12020 http://onlinelibrary.wiley.com/wol1/doi/10.1111/1462-2920.12020/fullpdf |
geographic |
Arctic |
geographic_facet |
Arctic |
genre |
Arctic permafrost |
genre_facet |
Arctic permafrost |
op_source |
Environmental Microbiology volume 15, issue 4, page 1176-1189 ISSN 1462-2912 1462-2920 |
op_rights |
http://onlinelibrary.wiley.com/termsAndConditions#vor |
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 |
_version_ |
1812811679694585856 |