{"entity": "researcher", "timestamp": "2026-08-15T12:24:53.276Z", "family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "affiliations": ["Department of Forest Mycology and Plant Pathology, Swedish University of Agricultural Sciences, Uppsala, SE-75007, Sweden."], "links": {"self": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}, "display": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766"}}, "publications": [{"entity": "publication", "iuid": "5dc1287dd4864ce6bf7508888c640484", "links": {"self": {"href": "https://publications.scilifelab.se/publication/5dc1287dd4864ce6bf7508888c640484.json"}, "display": {"href": "https://publications.scilifelab.se/publication/5dc1287dd4864ce6bf7508888c640484"}}, "title": "Long-term effects of clear-cutting forestry on ectomycorrhizal fungi in boreal forest.", "authors": [{"family": "Lindahl", "given": "Bj\u00f6rn D", "initials": "BD", "orcid": "0000-0002-3384-4547", "researcher": {"href": "https://publications.scilifelab.se/researcher/b7a40688d33545a19c3c666940bda255.json"}}, {"family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}, {"family": "Stendahl", "given": "Johan", "initials": "J", "orcid": "0000-0002-9944-0297", "researcher": {"href": "https://publications.scilifelab.se/researcher/e85527eadcb54545844e20d97954fb11.json"}}, {"family": "Dahlberg", "given": "Anders", "initials": "A", "orcid": "0000-0002-3669-6797", "researcher": {"href": "https://publications.scilifelab.se/researcher/a62efad22b414d618531b66ad404f689.json"}}], "type": "journal article", "published": "2026-09-00", "journal": {"title": "New Phytol.", "issn": "1469-8137", "volume": "251", "issue": "5", "pages": "2818-2831", "issn-l": "0028-646X"}, "abstract": "Clear-cutting is detrimental to ectomycorrhizal fungi in a short time perspective, but long-term effects on species richness and community composition are uncertain. To evaluate ecological sustainability of rotation forestry, we examined to what extent communities similar to those in old forests develop within the time frame of a rotation period. We conducted DNA-based analyses of ectomycorrhizal fungal communities in > 1500 sites across Swedish boreal forests and used space for time substitution to analyse the development of species richness, community composition, and abundance with increasing stand age, ranging from recent clear-cuts to 200-yr-old forests. Ectomycorrhizal fungal species richness peaked in 30- to 40-yr-old secondary stands, but community composition remained altered in up to 100-yr-old stands. Certain species in the Atheliaceae family thrived in secondary forests, whereas many Cortinarius and Russula species linked to acidic and unfertile soils were more common in old, natural forests. While Swedish rotation forestry does not appear to decrease species richness, it will progressively change the composition of ectomycorrhizal fungal communities at the landscape level, with species characteristic of acidic and nutrient-poor old-growth boreal forests decreasing in abundance.", "doi": "10.1111/nph.71165", "pmid": "41933893", "labels": {"NGI Long read": "Service", "NGI Uppsala (Uppsala Genome Center)": "Service", "National Genomics Infrastructure": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC13443205"}], "notes": [], "created": "2026-08-12T15:16:44.273Z", "modified": "2026-08-12T15:16:44.298Z"}, {"entity": "publication", "iuid": "74bed75268ba4830a54471adda4cc78a", "links": {"self": {"href": "https://publications.scilifelab.se/publication/74bed75268ba4830a54471adda4cc78a.json"}, "display": {"href": "https://publications.scilifelab.se/publication/74bed75268ba4830a54471adda4cc78a"}}, "title": "The significance of tree retention on fungal communities and below\u2010ground stocks 12 years after harvest of boreal forest", "authors": [{"family": "Gangiah", "given": "Tamlyn K", "initials": "TK", "orcid": "0000-0002-6929-9608", "researcher": {"href": "https://publications.scilifelab.se/researcher/7f3ab61c600e43f5920a68c13289ee39.json"}}, {"family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}, {"family": "Dahlberg", "given": "Anders", "initials": "A", "orcid": "0000-0002-3669-6797", "researcher": {"href": "https://publications.scilifelab.se/researcher/a62efad22b414d618531b66ad404f689.json"}}, {"family": "Lindahl", "given": "Bj\u00f6rn D", "initials": "BD", "orcid": "0000-0002-3384-4547", "researcher": {"href": "https://publications.scilifelab.se/researcher/b7a40688d33545a19c3c666940bda255.json"}}], "type": "journal-article", "published": "2026-08-00", "journal": {"title": "Journal of Applied Ecology", "issn": "0021-8901", "volume": "63", "issue": "8", "issn-l": null}, "abstract": null, "doi": "10.1111/1365-2664.70512", "pmid": null, "labels": {"NGI Long read": "Service", "NGI Uppsala (Uppsala Genome Center)": "Service", "National Genomics Infrastructure": "Service"}, "xrefs": [], "notes": [], "created": "2026-08-12T15:05:13.221Z", "modified": "2026-08-12T15:05:17.148Z"}, {"entity": "publication", "iuid": "326ab7d7937e4f62a78f01e9675524d1", "links": {"self": {"href": "https://publications.scilifelab.se/publication/326ab7d7937e4f62a78f01e9675524d1.json"}, "display": {"href": "https://publications.scilifelab.se/publication/326ab7d7937e4f62a78f01e9675524d1"}}, "title": "The Fungal Community of a High-Arctic Semi-Desert Ecosystem Is Robust to Two Decades of Doubled Summer Precipitation but Influenced by Plant Dominance.", "authors": [{"family": "Harder", "given": "Christoffer Bugge", "initials": "CB", "orcid": "0000-0002-6973-5633", "researcher": {"href": "https://publications.scilifelab.se/researcher/98a9eb1a4a234f7e99bf006ac9a79f44.json"}}, {"family": "Michelsen", "given": "Anders", "initials": "A", "orcid": "0000-0002-9541-8658", "researcher": {"href": "https://publications.scilifelab.se/researcher/f1ae80fdcd1949869986ad85c68a5586.json"}}, {"family": "Casta\u00f1o", "given": "Carles", "initials": "C", "orcid": "0000-0002-2403-7006", "researcher": {"href": "https://publications.scilifelab.se/researcher/b7bfa857714f425886c4484c15eb59a5.json"}}, {"family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}], "type": "journal article", "published": "2026-06-00", "journal": {"title": "Mol. Ecol.", "issn": "1365-294X", "volume": "35", "issue": "12", "pages": "e70440", "issn-l": "0962-1083"}, "abstract": "In high-arctic semi-desert ecosystems, climate projections suggest a doubling of the current \u2264 250 mm annual precipitation by 2075, increasingly falling as summer rain. This is expected to affect the balance among fungal ecological groups and stimulate decomposition over build-up of soil organic matter. Here, we report the effects of 25 years of artificially doubled summer rainfall combined with nitrogen and phosphorus addition on soil fungal communities and organic matter stocks, in a semi-desert near Zackenberg in NE Greenland entirely dominated by the ectomycorrhizal plant species Salix arctica, Dryas integrifolia and Kobresia myosuroides. Surprisingly, soil fungal biomass and community composition and soil carbon and nitrogen pools were mostly unaffected by the treatments, while the three plant species appeared to cause consistent small-scale variation. The fungal communities were dominated by the ectomycorrhizal genera Cortinarius, Tomentella and Inocybe, but the evergreen Dryas supported a larger abundance of potentially nitrogen-mining Cortinarius species, while the graminoid Kobresia was associated with a larger abundance of saprotrophic or root-invasive Mycena species. Our results suggest that the soil fungal community and linked processes of this high-arctic ecosystem were more robust to two decades of doubled summer rainfall than expected. Long-term changes in belowground fungal communities will likely be mediated by changes in plant communities rather than driven directly by climate change.", "doi": "10.1111/mec.70440", "pmid": "42359992", "labels": {"NGI Long read": "Service", "NGI Uppsala (Uppsala Genome Center)": "Service", "National Genomics Infrastructure": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC13307244"}], "notes": [], "created": "2026-08-12T15:10:44.574Z", "modified": "2026-08-12T15:10:44.642Z"}, {"entity": "publication", "iuid": "2b2c9cd55b354c8c805f7b3f3749f406", "links": {"self": {"href": "https://publications.scilifelab.se/publication/2b2c9cd55b354c8c805f7b3f3749f406.json"}, "display": {"href": "https://publications.scilifelab.se/publication/2b2c9cd55b354c8c805f7b3f3749f406"}}, "title": "Warming-Induced Effects on Microbial Communities and Nitrogen Cycling Capacity in Tundra Litter Are Modulated by Herb Abundance and Litter Quality.", "authors": [{"family": "Jeanbille", "given": "Mathilde", "initials": "M", "orcid": "0000-0002-7758-8928", "researcher": {"href": "https://publications.scilifelab.se/researcher/aec9e57ba006483381b852b505728277.json"}}, {"family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}, {"family": "Juhanson", "given": "Jaanis", "initials": "J", "orcid": "0000-0003-3799-2819", "researcher": {"href": "https://publications.scilifelab.se/researcher/43736fc1dba8405285b1143f5ba3f170.json"}}, {"family": "Michelsen", "given": "Anders", "initials": "A", "orcid": "0000-0002-9541-8658", "researcher": {"href": "https://publications.scilifelab.se/researcher/f1ae80fdcd1949869986ad85c68a5586.json"}}, {"family": "Alatalo", "given": "Juha", "initials": "J", "orcid": "0000-0001-5084-850X", "researcher": {"href": "https://publications.scilifelab.se/researcher/e31e5ef78cd941ffb26abd000ea418c1.json"}}, {"family": "Cooper", "given": "Elisabeth J", "initials": "EJ", "orcid": "0000-0002-0634-1282", "researcher": {"href": "https://publications.scilifelab.se/researcher/3e24fe660b0540ea9b977e022b22a82d.json"}}, {"family": "Henry", "given": "Greg H R", "initials": "GHR", "orcid": "0000-0002-2606-9650", "researcher": {"href": "https://publications.scilifelab.se/researcher/ec146a7b05534922b90d3205f12b5716.json"}}, {"family": "Hofgaard", "given": "Annika", "initials": "A", "orcid": "0000-0001-6919-5537", "researcher": {"href": "https://publications.scilifelab.se/researcher/4cb3c8abbf684418a75b41492e83ad5c.json"}}, {"family": "Hollister", "given": "Robert D", "initials": "RD", "orcid": "0000-0002-4764-7691", "researcher": {"href": "https://publications.scilifelab.se/researcher/1e541fcf014f49e38fccb53eeb989b64.json"}}, {"family": "J\u00f3nsd\u00f3ttir", "given": "Ingibj\u00f6rg S", "initials": "IS", "orcid": "0000-0003-3804-7077", "researcher": {"href": "https://publications.scilifelab.se/researcher/89fc1fd6b2b84dba86483c9e25d2a214.json"}}, {"family": "Klanderud", "given": "Kari", "initials": "K", "orcid": "0000-0003-1049-7025", "researcher": {"href": "https://publications.scilifelab.se/researcher/11f070d4cdfa40e3addf23592be1c840.json"}}, {"family": "Tolvanen", "given": "Anne", "initials": "A", "orcid": "0000-0002-5304-7510", "researcher": {"href": "https://publications.scilifelab.se/researcher/0ea61db4d29d428091e2bce0ae8d00a9.json"}}, {"family": "Hallin", "given": "Sara", "initials": "S", "orcid": "0000-0002-9069-9024", "researcher": {"href": "https://publications.scilifelab.se/researcher/6e3491aec8fe4fbf827e2448c898356e.json"}}], "type": "journal article", "published": "2025-11-00", "journal": {"title": "Glob Chang Biol", "issn": "1365-2486", "issn-l": "1354-1013", "volume": "31", "issue": "11", "pages": "e70582"}, "abstract": "Climate warming is changing tundra vegetation in the Arctic, with implications for plant litter properties. Warming may thus modify bacterial and fungal communities and their nitrogen (N) cycling capacity in the litter layer, which in turn can affect plant N availability. To address potential warming effects, we characterized the responses of bacterial and fungal communities and their genetically encoded capacity for inorganic N-transformations in the litter layer, as well as 15N natural abundance in the underlying soil layer as an integrated measure of N processes in the soil, in 16 long-term alpine and Arctic tundra warming experiments distributed across 12 circumpolar locations. Although abundance, diversity, and composition of microbial communities were structured by the local conditions rather than experimental warming, warming indirectly modified microbial communities and their capacity for N transformations through changes in litter quality. Specifically, experimental warming resulted in stronger connections between the capacity for nitrification, denitrification and N-fixation in the litter and the \u03b415N signature in the soil. These warming-induced connections were mainly mediated by increased dominance of herbs but also increased litter mass. These findings suggest accelerated inorganic N cycling in the litter layer with warming, particularly coupled to local abundance of herbs, which can create positive feedback on plant growth as well as ecosystem respiration. Thus, microbial communities in the litter may contribute to an intensification of ongoing vegetation shifts across the tundra biome.", "doi": "10.1111/gcb.70582", "pmid": "41221642", "labels": {"NGI Uppsala (Uppsala Genome Center)": "Service", "National Genomics Infrastructure": "Service", "NGI Long read": "Service", "NGI Stockholm (Genomics Production)": null, "NGI Short read": null}, "xrefs": [{"db": "pmc", "key": "PMC12606403"}], "notes": [], "created": "2025-11-16T14:52:02.241Z", "modified": "2025-11-21T14:19:43.976Z"}, {"entity": "publication", "iuid": "118f758d51d0462c8f73929b8a44a96a", "links": {"self": {"href": "https://publications.scilifelab.se/publication/118f758d51d0462c8f73929b8a44a96a.json"}, "display": {"href": "https://publications.scilifelab.se/publication/118f758d51d0462c8f73929b8a44a96a"}}, "title": "Effects of rainfall exclusion on soil fungi in a boreal forest landscape", "authors": [{"family": "Koelemeijer", "given": "Irena A", "initials": "IA", "orcid": "0000-0003-4298-5066", "researcher": {"href": "https://publications.scilifelab.se/researcher/599ff1ffee81411fa1de7d7eb09d05d7.json"}}, {"family": "Casta\u00f1o", "given": "Carles", "initials": "C", "orcid": "0000-0002-2403-7006", "researcher": {"href": "https://publications.scilifelab.se/researcher/b7bfa857714f425886c4484c15eb59a5.json"}}, {"family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}, {"family": "Ehrl\u00e9n", "given": "Johan", "initials": "J"}, {"family": "De Frenne", "given": "Pieter", "initials": "P"}, {"family": "J\u00f6nsson", "given": "Mari", "initials": "M"}, {"family": "Hylander", "given": "Kristoffer", "initials": "K"}], "type": "journal-article", "published": "2025-10-00", "journal": {"title": "Fungal Ecology", "issn": "1754-5048", "volume": "77", "pages": "101452", "issn-l": "1878-0083"}, "abstract": null, "doi": "10.1016/j.funeco.2025.101452", "pmid": null, "labels": {"National Genomics Infrastructure": "Service", "NGI Uppsala (Uppsala Genome Center)": "Service", "NGI Long read": "Service"}, "xrefs": [], "notes": [], "created": "2025-08-19T13:54:10.578Z", "modified": "2025-09-18T07:35:23.289Z"}, {"entity": "publication", "iuid": "f03b39792af64005a894aed97760ae28", "links": {"self": {"href": "https://publications.scilifelab.se/publication/f03b39792af64005a894aed97760ae28.json"}, "display": {"href": "https://publications.scilifelab.se/publication/f03b39792af64005a894aed97760ae28"}}, "title": "Fungal guild interactions slow decomposition of boreal forest pine litter and humus.", "authors": [{"family": "Mielke", "given": "Louis A", "initials": "LA", "orcid": "0000-0001-6948-3141", "researcher": {"href": "https://publications.scilifelab.se/researcher/38f0d43b208d42798d423786eb4eb4cc.json"}}, {"family": "Klein", "given": "Julian", "initials": "J", "orcid": "0000-0002-4269-4974", "researcher": {"href": "https://publications.scilifelab.se/researcher/bdf08ca4a4cb44fbaa41db3c8549010f.json"}}, {"family": "Ekblad", "given": "Alf", "initials": "A", "orcid": "0000-0003-4384-5014", "researcher": {"href": "https://publications.scilifelab.se/researcher/55b407368cf342698c0b681ef8cf2ba9.json"}}, {"family": "Finlay", "given": "Roger D", "initials": "RD", "orcid": "0000-0002-3652-2930", "researcher": {"href": "https://publications.scilifelab.se/researcher/9cf62270530f402faa530c435cb6829c.json"}}, {"family": "Lindahl", "given": "Bj\u00f6rn D", "initials": "BD", "orcid": "0000-0002-3384-4547", "researcher": {"href": "https://publications.scilifelab.se/researcher/b7a40688d33545a19c3c666940bda255.json"}}, {"family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}], "type": "journal article", "published": "2025-09-00", "journal": {"title": "New Phytol.", "issn": "1469-8137", "volume": "247", "issue": "5", "pages": "2367-2380", "issn-l": "0028-646X"}, "abstract": "Ericaceous understory shrubs and ericoid mycorrhizal fungal communities are ubiquitous in boreal forests, and their interactions with ectomycorrhizal and saprotrophic fungi may determine organic matter dynamics in forest soils. We followed decomposition of pine needle litter and mor-layer humus over 3 yr in a factorial shrub removal- and pine root exclusion experiment in an old-growth Scots pine (Pinus sylvestris) forest, to evaluate effects of fungal guilds on mass loss. Litter mass loss was 23% greater when ectomycorrhizal fungi were excluded suggesting increased saprotrophic activity, independently of ericoid shrub presence. However, this 'Gadgil effect' was only found after 17 months following a summer drought. By contrast, humus mass loss was overall stimulated by ectomycorrhizal fungi, while ericoid mycorrhizal shrubs appeared to counteract this effect, potentially caused by simultaneous addition of recalcitrant organic matter and inhibition of ectomycorrhizal decomposers. We conclude that competitive saprotrophic-ectomycorrhizal fungal interactions may slow early-stage litter decomposition, but this effect was small and inconsistent. Furthermore, interactions between ecto- and ericoid mycorrhizal guild members appear to determine the late-stage organic matter balance of boreal forest humus.", "doi": "10.1111/nph.70316", "pmid": "40552521", "labels": {"National Genomics Infrastructure": "Service", "NGI Uppsala (Uppsala Genome Center)": "Service", "NGI Long read": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC12329171"}], "notes": [], "created": "2025-08-19T13:22:00.173Z", "modified": "2025-08-19T13:22:00.288Z"}, {"entity": "publication", "iuid": "1ea24dddd57b41208480279c592968f1", "links": {"self": {"href": "https://publications.scilifelab.se/publication/1ea24dddd57b41208480279c592968f1.json"}, "display": {"href": "https://publications.scilifelab.se/publication/1ea24dddd57b41208480279c592968f1"}}, "title": "Complex relationship between soil fungi and conservation value assessments in boreal forests.", "authors": [{"family": "Kyaschenko", "given": "Julia", "initials": "J", "orcid": "0000-0001-8831-8483", "researcher": {"href": "https://publications.scilifelab.se/researcher/9f85920960014681b0a1b7199253ba3e.json"}}, {"family": "Mielke", "given": "Louis", "initials": "L", "orcid": "0000-0001-6948-3141", "researcher": {"href": "https://publications.scilifelab.se/researcher/38f0d43b208d42798d423786eb4eb4cc.json"}}, {"family": "J\u00f6nsson", "given": "Mari", "initials": "M", "orcid": "0000-0002-5465-7820", "researcher": {"href": "https://publications.scilifelab.se/researcher/18583af858a540c19c5c143acd1c08ba.json"}}, {"family": "Hekkala", "given": "Anne-Maarit", "initials": "AM", "orcid": "0000-0002-8023-0425", "researcher": {"href": "https://publications.scilifelab.se/researcher/ec3c2c2c458443218444e462efd0b756.json"}}, {"family": "K\u00e4rvemo", "given": "Simon", "initials": "S", "orcid": "0000-0003-0954-7312", "researcher": {"href": "https://publications.scilifelab.se/researcher/9816d3d619c845bbbf833bb6141506cc.json"}}, {"family": "Sj\u00f6gren", "given": "J\u00f6rgen", "initials": "J", "orcid": "0000-0002-0538-8265", "researcher": {"href": "https://publications.scilifelab.se/researcher/08946e047aeb45f5be5aa3797113346d.json"}}, {"family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}, {"family": "Strengbom", "given": "Joachim", "initials": "J", "orcid": "0000-0002-1720-5016", "researcher": {"href": "https://publications.scilifelab.se/researcher/3311ed539845455b9bad3e84907133de.json"}}], "type": "journal article", "published": "2025-08-00", "journal": {"title": "Conservation Biology", "issn": "1523-1739", "volume": "39", "issue": "4", "pages": "e70012", "issn-l": "0888-8892"}, "abstract": "Large-scale industrial forestry is a threat to biodiversity and imposes long-lasting changes to many forested biomes. Preserving forests as reserves is an important component of the strategy for safeguarding forest biodiversity. Yet, the selection of forests of high biodiversity value is usually based on proxies (i.e., subsets of aboveground habitat characteristics) rather than on direct assessments of species occurrences. This approach is based on the assumption that the diversity and community composition of all organism groups are well represented by the assessed habitat characteristics. We investigated how conservation value, assessed according to common practices based on aboveground habitat heterogeneity, corresponded to the abundance, richness, and community composition of 12 taxonomic and ecological groups of soil fungi across northern and southern Swedish forests. Overall, the assessed conservation value reflected the abundance, diversity, and community composition of deadwood-associated saprotrophs well, likely because they depend directly on the availability of the structures that the assessment is based on. However, the conservation assessment value failed to capture the overall variability for most of the soil-dwelling fungal guilds. Although the assessed value was positively associated with the diversity of ectomycorrhizal fungi, root-associated Ascomycota, and saprotrophic Basidiomycota in the southern region, no such association was evident in the northern region. Soil fertility was the best predictor of the variation in community composition in all fungal guilds. The relative abundance and diversity of most saprotrophic guilds increased as soil fertility increased, whereas root-associated guilds decreased as soil fertility increased. Current methods for assessing conservation value captured only specific subsets of soil fungi, and the predictability of capturing fungal diversity varied depending on the region. To more comprehensively preserve soil fungi, assessment methods should incorporate additional environmental parameters, especially those linked to fungal community composition, such as soil fertility.", "doi": "10.1111/cobi.70012", "pmid": "40070243", "labels": {"National Genomics Infrastructure": "Service", "NGI Uppsala (Uppsala Genome Center)": "Service", "NGI Long read": "Service"}, "xrefs": [], "notes": [], "created": "2025-08-19T13:58:34.455Z", "modified": "2025-08-19T13:58:34.710Z"}, {"entity": "publication", "iuid": "a4c2b66aa3bc44a9b753a11fb03b83a9", "links": {"self": {"href": "https://publications.scilifelab.se/publication/a4c2b66aa3bc44a9b753a11fb03b83a9.json"}, "display": {"href": "https://publications.scilifelab.se/publication/a4c2b66aa3bc44a9b753a11fb03b83a9"}}, "title": "Ectomycorrhizal decomposers and their niche(s) in boreal forests", "authors": [{"family": "Packard", "given": "Erica E", "initials": "EE", "orcid": "0000-0002-3175-090X", "researcher": {"href": "https://publications.scilifelab.se/researcher/086fa0579672428fa8845eacdf4da74f.json"}}, {"family": "P\u00e9rez\u2010Izquierdo", "given": "Leticia", "initials": "L", "orcid": "0000-0002-5200-8157", "researcher": {"href": "https://publications.scilifelab.se/researcher/25e9fb4343c24736b87268bb20d5aa28.json"}}, {"family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}, {"family": "Dahlberg", "given": "Anders", "initials": "A", "orcid": "0000-0002-3669-6797", "researcher": {"href": "https://publications.scilifelab.se/researcher/a62efad22b414d618531b66ad404f689.json"}}, {"family": "Spohn", "given": "Marie", "initials": "M", "orcid": "0000-0002-1010-7317", "researcher": {"href": "https://publications.scilifelab.se/researcher/a4f9aa10fc7e490a8b8ff24eba5bef44.json"}}, {"family": "Stendahl", "given": "Johan", "initials": "J", "orcid": "0000-0002-9944-0297", "researcher": {"href": "https://publications.scilifelab.se/researcher/e85527eadcb54545844e20d97954fb11.json"}}, {"family": "Lindahl", "given": "Bj\u00f6rn D", "initials": "BD", "orcid": "0000-0002-3384-4547", "researcher": {"href": "https://publications.scilifelab.se/researcher/b7a40688d33545a19c3c666940bda255.json"}}], "type": "journal-article", "published": "2025-08-00", "journal": {"title": "Functional Ecology", "issn": "0269-8463", "volume": "39", "issue": "8", "pages": "1998-2014", "issn-l": null}, "abstract": null, "doi": "10.1111/1365-2435.70085", "pmid": null, "labels": {"National Genomics Infrastructure": "Service", "NGI Uppsala (Uppsala Genome Center)": "Service", "NGI Long read": "Service", "Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [], "notes": [], "created": "2025-08-19T13:28:05.546Z", "modified": "2025-11-28T10:50:35.099Z"}, {"entity": "publication", "iuid": "e22c083918a9414f9a025d7a080c9352", "links": {"self": {"href": "https://publications.scilifelab.se/publication/e22c083918a9414f9a025d7a080c9352.json"}, "display": {"href": "https://publications.scilifelab.se/publication/e22c083918a9414f9a025d7a080c9352"}}, "title": "Fertilizer\u2010induced soil carbon rapidly disappears after clearcutting in boreal production forests", "authors": [{"family": "Boeraeve", "given": "Margaux", "initials": "M", "orcid": "0000-0003-2835-9798", "researcher": {"href": "https://publications.scilifelab.se/researcher/e2288143def9454793855ef5dc790f6c.json"}}, {"family": "Granath", "given": "Gustaf", "initials": "G", "orcid": "0000-0002-3632-9102", "researcher": {"href": "https://publications.scilifelab.se/researcher/232d1b8a07454b5f802624dd91d68597.json"}}, {"family": "Lindahl", "given": "Bj\u00f6rn D", "initials": "BD", "orcid": "0000-0002-3384-4547", "researcher": {"href": "https://publications.scilifelab.se/researcher/b7a40688d33545a19c3c666940bda255.json"}}, {"family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}, {"family": "Strengbom", "given": "Joachim", "initials": "J", "orcid": "0000-0002-1720-5016", "researcher": {"href": "https://publications.scilifelab.se/researcher/3311ed539845455b9bad3e84907133de.json"}}], "type": "journal-article", "published": "2025-05-00", "journal": {"title": "Journal of Applied Ecology", "issn": "0021-8901", "volume": "62", "issue": "5", "pages": "1202-1215", "issn-l": null}, "abstract": null, "doi": "10.1111/1365-2664.70034", "pmid": null, "labels": {"National Genomics Infrastructure": "Service", "NGI Uppsala (Uppsala Genome Center)": "Service", "NGI Long read": "Service"}, "xrefs": [], "notes": [], "created": "2025-08-19T13:19:20.312Z", "modified": "2025-08-19T13:19:20.414Z"}, {"entity": "publication", "iuid": "e4fb5daacf564be8babcde7781049f5f", "links": {"self": {"href": "https://publications.scilifelab.se/publication/e4fb5daacf564be8babcde7781049f5f.json"}, "display": {"href": "https://publications.scilifelab.se/publication/e4fb5daacf564be8babcde7781049f5f"}}, "title": "Impact of plant diversity in potato-ley strip-cropping systems on soil microbial communities", "authors": [{"family": "Riggi", "given": "L G A", "initials": "LGA"}, {"family": "Ranheim Sveen", "given": "T", "initials": "T"}, {"family": "Casta\u00f1o", "given": "C", "initials": "C", "orcid": "0000-0002-2403-7006", "researcher": {"href": "https://publications.scilifelab.se/researcher/b7bfa857714f425886c4484c15eb59a5.json"}}, {"family": "Onorati", "given": "P", "initials": "P"}, {"family": "van Apeldoorn", "given": "D F", "initials": "DF"}, {"family": "Berri", "given": "M", "initials": "M"}, {"family": "Mommer", "given": "L", "initials": "L"}, {"family": "Clemmensen", "given": "K E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}, {"family": "Bahram", "given": "M", "initials": "M", "orcid": "0000-0002-9539-3307", "researcher": {"href": "https://publications.scilifelab.se/researcher/26b5310cd872405aa2716c09a3f9d4bf.json"}}], "type": "journal-article", "published": "2025-02-00", "journal": {"title": "Applied Soil Ecology", "issn": "0929-1393", "volume": "206", "pages": "105777", "issn-l": null}, "abstract": null, "doi": "10.1016/j.apsoil.2024.105777", "pmid": null, "labels": {"Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [], "notes": [], "created": "2025-02-28T14:11:35.546Z", "modified": "2025-11-28T10:41:55.541Z"}, {"entity": "publication", "iuid": "f05fd6c1911a466280e1a2ff55f943e3", "links": {"self": {"href": "https://publications.scilifelab.se/publication/f05fd6c1911a466280e1a2ff55f943e3.json"}, "display": {"href": "https://publications.scilifelab.se/publication/f05fd6c1911a466280e1a2ff55f943e3"}}, "title": "Trees First Inhibit Then Promote Litter Decomposition in the Subarctic.", "authors": [{"family": "Jonsson", "given": "Micael", "initials": "M", "orcid": "0000-0002-1618-2617", "researcher": {"href": "https://publications.scilifelab.se/researcher/ea45358bb3a146ffac63c13cba7f56c9.json"}}, {"family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}, {"family": "Casta\u00f1o", "given": "Carles", "initials": "C"}, {"family": "Parker", "given": "Thomas C", "initials": "TC"}], "type": "journal article", "published": "2025-01-00", "journal": {"title": "Ecol. Lett.", "issn": "1461-0248", "volume": "28", "issue": "1", "pages": "e70063", "issn-l": "1461-023X"}, "abstract": "Trees affect organic matter decomposition through allocation of recently fixed carbon belowground, but the magnitude and direction of this effect may depend on substrate type and decomposition stage. Here, we followed mass loss, chemical composition and fungal colonisation of leaf and root litters incubated in mountain birch forests over 4 years, in plots where belowground carbon allocation was severed by tree girdling or in control plots. Initially, girdling stimulated leaf and root litter mass loss by 12% and 22%, respectively, suggesting competitive release of saprotrophic decomposition when tree-mediated competition by ectomycorrhizal fungi was eliminated (Gadgil effect). After 4 years, girdling instead hampered mass loss of root litter by 30%, suggesting late-stage priming of decomposition in the presence of trees, in parallel with increased growth of shrubs and associated fungi following tree elimination. Hence, different mechanisms driving early- and late-stage litter decomposition should be considered in climate-feedback evaluations of plant-soil interactions.", "doi": "10.1111/ele.70063", "pmid": "39829292", "labels": {"NGI Uppsala (Uppsala Genome Center)": "Service", "NGI Long read": "Service", "National Genomics Infrastructure": "Service", "Swedish NMR Centre": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC11744340"}], "notes": [], "created": "2025-03-07T09:47:53.171Z", "modified": "2025-10-17T13:03:52.434Z"}, {"entity": "publication", "iuid": "0d56edc355474fd0b9f79366020120ea", "links": {"self": {"href": "https://publications.scilifelab.se/publication/0d56edc355474fd0b9f79366020120ea.json"}, "display": {"href": "https://publications.scilifelab.se/publication/0d56edc355474fd0b9f79366020120ea"}}, "title": "Ectomycorrhizal fungi are more sensitive to high soil nitrogen levels in forests exposed to nitrogen deposition.", "authors": [{"family": "J\u00f6rgensen", "given": "Karolina", "initials": "K", "orcid": "0000-0002-5550-4762", "researcher": {"href": "https://publications.scilifelab.se/researcher/ec08f0931e434b73af3ab655c44ebe53.json"}}, {"family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}, {"family": "Wallander", "given": "H\u00e5kan", "initials": "H", "orcid": "0000-0002-9220-4590", "researcher": {"href": "https://publications.scilifelab.se/researcher/d022a631696b44adbe1d6bfa52cd584d.json"}}, {"family": "Lindahl", "given": "Bj\u00f6rn D", "initials": "BD", "orcid": "0000-0002-3384-4547", "researcher": {"href": "https://publications.scilifelab.se/researcher/b7a40688d33545a19c3c666940bda255.json"}}], "type": "journal article", "published": "2024-05-00", "journal": {"title": "New Phytol.", "issn": "1469-8137", "volume": "242", "issue": "4", "pages": "1725-1738", "issn-l": "0028-646X"}, "abstract": "Ectomycorrhizal fungi are essential for nitrogen (N) cycling in many temperate forests and responsive to anthropogenic N addition, which generally decreases host carbon (C) allocation to the fungi. In the boreal region, however, ectomycorrhizal fungal biomass has been found to correlate positively with soil N availability. Still, responses to anthropogenic N input, for instance through atmospheric deposition, are commonly negative. To elucidate whether variation in N supply affects ectomycorrhizal fungi differently depending on geographical context, we investigated ectomycorrhizal fungal communities along fertility gradients located in two nemo-boreal forest regions with similar ranges in soil N : C ratios and inorganic N availability but contrasting rates of N deposition. Ectomycorrhizal biomass and community composition remained relatively stable across the N gradient with low atmospheric N deposition, but biomass decreased and the community changed more drastically with increasing N availability in the gradient subjected to higher rates of N deposition. Moreover, potential activities of enzymes involved in ectomycorrhizal mobilisation of organic N decreased as N availability increased. In forests with low external input, we propose that stabilising feedbacks in tree-fungal interactions maintain ectomycorrhizal fungal biomass and communities even in N-rich soils. By contrast, anthropogenic N input seems to impair ectomycorrhizal functions.", "doi": "10.1111/nph.19509", "pmid": "38213001", "labels": {"NGI Uppsala (Uppsala Genome Center)": "Service", "NGI Long read": "Service", "National Genomics Infrastructure": "Service"}, "xrefs": [], "notes": [], "created": "2024-08-02T11:55:37.704Z", "modified": "2024-08-02T11:55:38.072Z"}, {"entity": "publication", "iuid": "d15cf4e4b2eb403d9ed06962d64bd8a6", "links": {"self": {"href": "https://publications.scilifelab.se/publication/d15cf4e4b2eb403d9ed06962d64bd8a6.json"}, "display": {"href": "https://publications.scilifelab.se/publication/d15cf4e4b2eb403d9ed06962d64bd8a6"}}, "title": "Contrasting plant-soil-microbial feedbacks stabilize vegetation types and uncouple topsoil C and N stocks across a subarctic-alpine landscape.", "authors": [{"family": "Casta\u00f1o", "given": "Carles", "initials": "C", "orcid": "0000-0002-2403-7006", "researcher": {"href": "https://publications.scilifelab.se/researcher/b7bfa857714f425886c4484c15eb59a5.json"}}, {"family": "Hallin", "given": "Sara", "initials": "S", "orcid": "0000-0002-9069-9024", "researcher": {"href": "https://publications.scilifelab.se/researcher/6e3491aec8fe4fbf827e2448c898356e.json"}}, {"family": "Egelkraut", "given": "Dagmar", "initials": "D", "orcid": "0000-0002-2644-2144", "researcher": {"href": "https://publications.scilifelab.se/researcher/c360cf5cb53c43e582e95487d8c0a949.json"}}, {"family": "Lindahl", "given": "Bj\u00f6rn D", "initials": "BD", "orcid": "0000-0002-3384-4547", "researcher": {"href": "https://publications.scilifelab.se/researcher/b7a40688d33545a19c3c666940bda255.json"}}, {"family": "Olofsson", "given": "Johan", "initials": "J", "orcid": "0000-0002-6943-1218", "researcher": {"href": "https://publications.scilifelab.se/researcher/5e9ecce51d244e0ab066f315aae8548d.json"}}, {"family": "Clemmensen", "given": "Karina Engelbrecht", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}], "type": "journal article", "published": "2023-06-00", "journal": {"title": "New Phytol.", "issn": "1469-8137", "volume": "238", "issue": "6", "pages": "2621-2633", "issn-l": "0028-646X"}, "abstract": "Global vegetation regimes vary in belowground carbon (C) and nitrogen (N) dynamics. However, disentangling large-scale climatic controls from the effects of intrinsic plant-soil-microbial feedbacks on belowground processes is challenging. In local gradients with similar pedo-climatic conditions, effects of plant-microbial feedbacks may be isolated from large-scale drivers. Across a subarctic-alpine mosaic of historic grazing fields and surrounding heath and birch forest, we evaluated whether vegetation-specific plant-microbial feedbacks involved contrasting N cycling characteristics and C and N stocks in the organic topsoil. We sequenced soil fungi, quantified functional genes within the inorganic N cycle, and measured 15 N natural abundance. In grassland soils, large N stocks and low C : N ratios associated with fungal saprotrophs, archaeal ammonia oxidizers, and bacteria capable of respiratory ammonification, indicating maintained inorganic N cycling a century after abandoned reindeer grazing. Toward forest and heath, increasing abundance of mycorrhizal fungi co-occurred with transition to organic N cycling. However, ectomycorrhizal fungal decomposers correlated with small soil N and C stocks in forest, while root-associated ascomycetes associated with small N but large C stocks in heath, uncoupling C and N storage across vegetation types. We propose that contrasting, positive plant-microbial feedbacks stabilize vegetation trajectories, resulting in diverging soil C : N ratios at the landscape scale.", "doi": "10.1111/nph.18679", "pmid": "36519258", "labels": {"NGI Long read": "Service", "National Genomics Infrastructure": "Service", "NGI Uppsala (Uppsala Genome Center)": "Service", "Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [], "notes": [], "created": "2023-10-10T08:52:43.763Z", "modified": "2024-01-16T13:48:33.308Z"}, {"entity": "publication", "iuid": "5f570a00d6234c8c82f7616a436809b0", "links": {"self": {"href": "https://publications.scilifelab.se/publication/5f570a00d6234c8c82f7616a436809b0.json"}, "display": {"href": "https://publications.scilifelab.se/publication/5f570a00d6234c8c82f7616a436809b0"}}, "title": "Resistance of subarctic soil fungal and invertebrate communities to disruption of below\u2010ground carbon supply", "authors": [{"family": "Parker", "given": "Thomas C", "initials": "TC", "orcid": "0000-0002-3648-5316", "researcher": {"href": "https://publications.scilifelab.se/researcher/6e5809cee85f43c9ac23aa362b6e3bd2.json"}}, {"family": "Chomel", "given": "Mathilde", "initials": "M", "orcid": "0000-0001-5110-2355", "researcher": {"href": "https://publications.scilifelab.se/researcher/2c5d10e8befc464ab7aab703c1787457.json"}}, {"family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}, {"family": "Friggens", "given": "Nina L", "initials": "NL", "orcid": "0000-0002-5536-6312", "researcher": {"href": "https://publications.scilifelab.se/researcher/c2c551d3b3bc4935acefd32bfdbdc50d.json"}}, {"family": "Hartley", "given": "Iain P", "initials": "IP", "orcid": "0000-0002-9183-6617", "researcher": {"href": "https://publications.scilifelab.se/researcher/d7b898531128426e9e497bc1fcb815fa.json"}}, {"family": "Johnson", "given": "David", "initials": "D", "orcid": "0000-0003-2299-2525", "researcher": {"href": "https://publications.scilifelab.se/researcher/fae5b4222cfd4bc2bb527fffed0e1d32.json"}}, {"family": "Kater", "given": "Ilona", "initials": "I", "orcid": "0000-0002-2910-1337", "researcher": {"href": "https://publications.scilifelab.se/researcher/c6a06319f8f3461eb8ec06b5ff2728fa.json"}}, {"family": "Krab", "given": "Eveline J", "initials": "EJ", "orcid": "0000-0001-8262-0198", "researcher": {"href": "https://publications.scilifelab.se/researcher/ebc32c4ce5a943328a06009ce8bef485.json"}}, {"family": "Lindahl", "given": "Bj\u00f6rn D", "initials": "BD", "orcid": "0000-0002-3384-4547", "researcher": {"href": "https://publications.scilifelab.se/researcher/b7a40688d33545a19c3c666940bda255.json"}}, {"family": "Street", "given": "Lorna E", "initials": "LE", "orcid": "0000-0001-9570-7479", "researcher": {"href": "https://publications.scilifelab.se/researcher/63c215f9df22433d88407ef85e0958d6.json"}}, {"family": "Subke", "given": "Jens\u2010Arne", "initials": "J", "orcid": "0000-0001-9244-639X", "researcher": {"href": "https://publications.scilifelab.se/researcher/f3b5cc0875544e739d2169fd0fffb9df.json"}}, {"family": "Wookey", "given": "Philip A", "initials": "PA", "orcid": "0000-0001-5957-6424", "researcher": {"href": "https://publications.scilifelab.se/researcher/526fff91a7334bf3be9f6b5af71e5d32.json"}}], "type": "journal-article", "published": "2022-12-00", "journal": {"title": "J Ecol", "issn": "0022-0477", "volume": "110", "issue": "12", "pages": "2883-2897", "issn-l": null}, "abstract": null, "doi": "10.1111/1365-2745.13994", "pmid": null, "labels": {"NGI Long read": "Service", "NGI Uppsala (Uppsala Genome Center)": "Service", "National Genomics Infrastructure": "Service"}, "xrefs": [], "notes": [], "created": "2022-11-28T10:38:18.357Z", "modified": "2023-06-19T13:29:03.785Z"}, {"entity": "publication", "iuid": "12d14cce636845a79e98cee6f954cc80", "links": {"self": {"href": "https://publications.scilifelab.se/publication/12d14cce636845a79e98cee6f954cc80.json"}, "display": {"href": "https://publications.scilifelab.se/publication/12d14cce636845a79e98cee6f954cc80"}}, "title": "Do ectomycorrhizal exploration types reflect mycelial foraging strategies?", "authors": [{"family": "J\u00f6rgensen", "given": "Karolina", "initials": "K", "orcid": "0000-0002-5550-4762", "researcher": {"href": "https://publications.scilifelab.se/researcher/ec08f0931e434b73af3ab655c44ebe53.json"}}, {"family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}, {"family": "Wallander", "given": "H\u00e5kan", "initials": "H", "orcid": "0000-0002-9220-4590", "researcher": {"href": "https://publications.scilifelab.se/researcher/d022a631696b44adbe1d6bfa52cd584d.json"}}, {"family": "Lindahl", "given": "Bj\u00f6rn D", "initials": "BD"}], "type": "journal article", "published": "2022-10-21", "journal": {"title": "New Phytol.", "issn": "1469-8137", "issn-l": "0028-646X"}, "abstract": "Ectomycorrhizal exploration types are commonly assumed to denote spatial foraging patterns and resource-related niches of extraradical mycelia. However, empirical evidence of the consistency of foraging strategies within exploration types is lacking. Here, we analysed ectomycorrhizal foraging patterns by incubating root-excluding ingrowth mesh bags filled with six different substrates in mature Picea abies forests. High-throughput sequencing was used to characterize ectomycorrhizal fungal communities in the mesh bags and on adjacent fine roots after one growing season. Contrary to expectations, many ectomycorrhizal genera of exploration types thought to produce little extraradical mycelium colonised ingrowth bags extensively, whereas genera commonly associated with ample mycelial production occurred sparsely in ingrowth bags relative to their abundance on roots. Previous assumptions about soil foraging patterns of exploration types do not seem to hold. Instead, we propose that variation in the proliferation of extraradical mycelium is related to intergeneric differences in mycelial longevity and mobility of targeted resources.", "doi": "10.1111/nph.18566", "pmid": "36271619", "labels": {"NGI Uppsala (Uppsala Genome Center)": "Service", "NGI Long read": "Service", "National Genomics Infrastructure": "Service"}, "xrefs": [], "notes": [], "created": "2022-11-21T09:57:10.930Z", "modified": "2022-11-21T09:57:10.979Z"}, {"entity": "publication", "iuid": "35abd47fe2024cd88ab9c32e8d386ff8", "links": {"self": {"href": "https://publications.scilifelab.se/publication/35abd47fe2024cd88ab9c32e8d386ff8.json"}, "display": {"href": "https://publications.scilifelab.se/publication/35abd47fe2024cd88ab9c32e8d386ff8"}}, "title": "Ericaceous dwarf shrubs contribute a significant but drought\u2010sensitive fraction of soil respiration in a boreal pine forest", "authors": [{"family": "Mielke", "given": "Louis A", "initials": "LA", "orcid": "0000-0001-6948-3141", "researcher": {"href": "https://publications.scilifelab.se/researcher/38f0d43b208d42798d423786eb4eb4cc.json"}}, {"family": "Ekblad", "given": "Alf", "initials": "A", "orcid": "0000-0003-4384-5014", "researcher": {"href": "https://publications.scilifelab.se/researcher/55b407368cf342698c0b681ef8cf2ba9.json"}}, {"family": "Finlay", "given": "Roger D", "initials": "RD", "orcid": "0000-0002-3652-2930", "researcher": {"href": "https://publications.scilifelab.se/researcher/9cf62270530f402faa530c435cb6829c.json"}}, {"family": "Fransson", "given": "Petra", "initials": "P", "orcid": "0000-0003-0842-9197", "researcher": {"href": "https://publications.scilifelab.se/researcher/0e9b58abe6fa4486bea932f75b98320b.json"}}, {"family": "Lindahl", "given": "Bj\u00f6rn D", "initials": "BD", "orcid": "0000-0002-3384-4547", "researcher": {"href": "https://publications.scilifelab.se/researcher/b7a40688d33545a19c3c666940bda255.json"}}, {"family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}], "type": "journal-article", "published": "2022-08-00", "journal": {"title": "J Ecol", "issn": "0022-0477", "volume": "110", "issue": "8", "pages": "1928-1941", "issn-l": null}, "abstract": null, "doi": "10.1111/1365-2745.13927", "pmid": null, "labels": {"National Genomics Infrastructure": "Service", "NGI Uppsala (Uppsala Genome Center)": "Service", "NGI Long read": "Service"}, "xrefs": [], "notes": [], "created": "2022-09-05T06:43:51.160Z", "modified": "2023-06-02T10:29:26.660Z"}, {"entity": "publication", "iuid": "8e20678760134b4bb272b8719f82c034", "links": {"self": {"href": "https://publications.scilifelab.se/publication/8e20678760134b4bb272b8719f82c034.json"}, "display": {"href": "https://publications.scilifelab.se/publication/8e20678760134b4bb272b8719f82c034"}}, "title": "Reindeer control over subarctic treeline alters soil fungal communities with potential consequences for soil carbon storage.", "authors": [{"family": "Yl\u00e4nne", "given": "Henni", "initials": "H", "orcid": "0000-0002-0842-6757", "researcher": {"href": "https://publications.scilifelab.se/researcher/03e7414a781841b6a26ec4d65640fc9f.json"}}, {"family": "Madsen", "given": "Rieke L", "initials": "RL", "orcid": "0000-0002-2651-5796", "researcher": {"href": "https://publications.scilifelab.se/researcher/ce4f1d8bd72947cdb1d5938886c6af1a.json"}}, {"family": "Casta\u00f1o", "given": "Carles", "initials": "C", "orcid": "0000-0002-2403-7006", "researcher": {"href": "https://publications.scilifelab.se/researcher/b7bfa857714f425886c4484c15eb59a5.json"}}, {"family": "Metcalfe", "given": "Daniel B", "initials": "DB", "orcid": "0000-0001-8325-9269", "researcher": {"href": "https://publications.scilifelab.se/researcher/8beef045c16b4a50a48a1e3fefb005e6.json"}}, {"family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}], "type": "journal article", "published": "2021-09-00", "journal": {"title": "Glob Chang Biol", "issn": "1365-2486", "volume": "27", "issue": "18", "pages": "4254-4268", "issn-l": "1354-1013"}, "abstract": "The climate-driven encroachment of shrubs into the Arctic is accompanied by shifts in soil fungal communities that could contribute to a net release of carbon from tundra soils. At the same time, arctic grazers are known to prevent the establishment of deciduous shrubs and, under certain conditions, promote the dominance of evergreen shrubs. As these different vegetation types associate with contrasting fungal communities, the belowground consequences of climate change could vary among grazing regimes. Yet, at present, the impact of grazing on soil fungal communities and their links to soil carbon have remained speculative. Here we tested how soil fungal community composition, diversity and function depend on tree vicinity and long-term reindeer grazing regime and assessed how the fungal communities relate to organic soil carbon stocks in an alpine treeline ecotone in Northern Scandinavia. We determined soil carbon stocks and characterized soil fungal communities directly underneath and >3 m away from mountain birches (Betula pubescens ssp. czerepanovii) in two adjacent 55-year-old grazing regimes with or without summer grazing by reindeer (Rangifer tarandus). We show that the area exposed to year-round grazing dominated by evergreen dwarf shrubs had higher soil C:N ratio, higher fungal abundance and lower fungal diversity compared with the area with only winter grazing and higher abundance of mountain birch. Although soil carbon stocks did not differ between the grazing regimes, stocks were positively associated with root-associated ascomycetes, typical to the year-round grazing regime, and negatively associated with free-living saprotrophs, typical to the winter grazing regime. These findings suggest that when grazers promote dominance of evergreen dwarf shrubs, they induce shifts in soil fungal communities that increase soil carbon sequestration in the long term. Thus, to predict climate-driven changes in soil carbon, grazer-induced shifts in vegetation and soil fungal communities need to be accounted for.", "doi": "10.1111/gcb.15722", "pmid": "34028938", "labels": {"National Genomics Infrastructure": "Service", "NGI Uppsala (Uppsala Genome Center)": "Service"}, "xrefs": [], "notes": [], "created": "2021-06-18T06:17:18.177Z", "modified": "2021-11-10T12:24:40.085Z"}, {"entity": "publication", "iuid": "54e8c2df71e24922b03fbbba056478b2", "links": {"self": {"href": "https://publications.scilifelab.se/publication/54e8c2df71e24922b03fbbba056478b2.json"}, "display": {"href": "https://publications.scilifelab.se/publication/54e8c2df71e24922b03fbbba056478b2"}}, "title": "Community composition of aquatic fungi across the thawing Arctic.", "authors": [{"family": "Kluge", "given": "Mariana", "initials": "M", "orcid": "0000-0001-7500-2041", "researcher": {"href": "https://publications.scilifelab.se/researcher/f89b91331601447bb8302fc376ab05f2.json"}}, {"family": "Wurzbacher", "given": "Christian", "initials": "C"}, {"family": "Wauthy", "given": "Maxime", "initials": "M", "orcid": "0000-0002-7768-7133", "researcher": {"href": "https://publications.scilifelab.se/researcher/8e16ef79cd75436e8fb7b2f490b16b74.json"}}, {"family": "Clemmensen", "given": "Karina Engelbrecht", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}, {"family": "Hawkes", "given": "Jeffrey Alistair", "initials": "JA"}, {"family": "Einarsdottir", "given": "Karolina", "initials": "K"}, {"family": "Stenlid", "given": "Jan", "initials": "J", "orcid": "0000-0002-5344-2094", "researcher": {"href": "https://publications.scilifelab.se/researcher/eac6fc31e38c4552a986310015fcb1b4.json"}}, {"family": "Peura", "given": "Sari", "initials": "S"}], "type": "dataset", "published": "2021-08-19", "journal": {"title": "Sci Data", "issn": "2052-4463", "volume": "8", "issue": "1", "pages": "221", "issn-l": "2052-4463"}, "abstract": "Thermokarst activity at permafrost sites releases considerable amounts of ancient carbon to the atmosphere. A large part of this carbon is released via thermokarst ponds, and fungi could be an important organismal group enabling its recycling. However, our knowledge about aquatic fungi in thermokarstic systems is extremely limited. In this study, we collected samples from five permafrost sites distributed across circumpolar Arctic and representing different stages of permafrost integrity. Surface water samples were taken from the ponds and, additionally, for most of the ponds also the detritus and sediment samples were taken. All the samples were extracted for total DNA, which was then amplified for the fungal ITS2 region of the ribosomal genes. These amplicons were sequenced using PacBio technology. Water samples were also collected to analyze the chemical conditions in the ponds, including nutrient status and the quality and quantity of dissolved organic carbon. This dataset gives a unique overview of the impact of the thawing permafrost on fungal communities and their potential role on carbon recycling.", "doi": "10.1038/s41597-021-01005-7", "pmid": "34413318", "labels": {"National Genomics Infrastructure": "Service", "NGI Uppsala (Uppsala Genome Center)": "Service", "Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [{"db": "pii", "key": "10.1038/s41597-021-01005-7"}, {"db": "pmc", "key": "PMC8377128"}], "notes": [], "created": "2021-10-18T19:54:16.212Z", "modified": "2024-01-16T13:48:38.697Z"}, {"entity": "publication", "iuid": "770c8885ac974bdaa5e1b64bcb800cfe", "links": {"self": {"href": "https://publications.scilifelab.se/publication/770c8885ac974bdaa5e1b64bcb800cfe.json"}, "display": {"href": "https://publications.scilifelab.se/publication/770c8885ac974bdaa5e1b64bcb800cfe"}}, "title": "A group of ectomycorrhizal fungi restricts organic matter accumulation in boreal forest.", "authors": [{"family": "Lindahl", "given": "Bj\u00f6rn D", "initials": "BD", "orcid": "0000-0002-3384-4547", "researcher": {"href": "https://publications.scilifelab.se/researcher/b7a40688d33545a19c3c666940bda255.json"}}, {"family": "Kyaschenko", "given": "Julia", "initials": "J", "orcid": "0000-0001-8831-8483", "researcher": {"href": "https://publications.scilifelab.se/researcher/9f85920960014681b0a1b7199253ba3e.json"}}, {"family": "Varenius", "given": "Kerstin", "initials": "K"}, {"family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}, {"family": "Dahlberg", "given": "Anders", "initials": "A", "orcid": "0000-0002-3669-6797", "researcher": {"href": "https://publications.scilifelab.se/researcher/a62efad22b414d618531b66ad404f689.json"}}, {"family": "Karltun", "given": "Erik", "initials": "E", "orcid": "0000-0002-1317-1146", "researcher": {"href": "https://publications.scilifelab.se/researcher/550ddefcca8d44fab61f8ce79241fbe2.json"}}, {"family": "Stendahl", "given": "Johan", "initials": "J", "orcid": "0000-0002-9944-0297", "researcher": {"href": "https://publications.scilifelab.se/researcher/e85527eadcb54545844e20d97954fb11.json"}}], "type": "letter", "published": "2021-07-00", "journal": {"title": "Ecol. Lett.", "issn": "1461-0248", "volume": "24", "issue": "7", "pages": "1341-1351", "issn-l": "1461-023X"}, "abstract": "Boreal forest soils are important global carbon sinks, with significant storage in the organic topsoil. Decomposition of these stocks requires oxidative enzymes, uniquely produced by fungi. Across Swedish boreal forests, we found that local carbon storage in the organic topsoil was 33% lower in the presence of a group of closely related species of ectomycorrhizal fungi - Cortinarius acutus s.l.. This observation challenges the prevailing view that ectomycorrhizal fungi generally act to increase carbon storage in soils but supports the idea that certain ectomycorrhizal fungi can complement free-living decomposers, maintaining organic matter turnover, nutrient cycling and tree productivity under nutrient-poor conditions. The indication that a narrow group of fungi may exert a major influence on carbon cycling questions the prevailing dogma of functional redundancy among microbial decomposers. Cortinarius acutus s.l. responds negatively to stand-replacing disturbance, and associated population declines are likely to increase soil carbon sequestration while impeding long-term nutrient cycling.", "doi": "10.1111/ele.13746", "pmid": "33934481", "labels": {"NGI Uppsala (Uppsala Genome Center)": "Service", "National Genomics Infrastructure": "Service"}, "xrefs": [], "notes": [], "created": "2021-08-05T12:05:46.181Z", "modified": "2021-11-10T12:23:45.956Z"}, {"entity": "publication", "iuid": "50450d83db6c4d08a1856bbd190a0401", "links": {"self": {"href": "https://publications.scilifelab.se/publication/50450d83db6c4d08a1856bbd190a0401.json"}, "display": {"href": "https://publications.scilifelab.se/publication/50450d83db6c4d08a1856bbd190a0401"}}, "title": "Crown\u2010fire severity is more important than ground\u2010fire severity in determining soil fungal community development in the boreal forest", "authors": [{"family": "P\u00e9rez\u2010Izquierdo", "given": "Leticia", "initials": "L", "orcid": "0000-0002-5200-8157", "researcher": {"href": "https://publications.scilifelab.se/researcher/25e9fb4343c24736b87268bb20d5aa28.json"}}, {"family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}, {"family": "Strengbom", "given": "Joachim", "initials": "J", "orcid": "0000-0002-1720-5016", "researcher": {"href": "https://publications.scilifelab.se/researcher/3311ed539845455b9bad3e84907133de.json"}}, {"family": "Granath", "given": "Gustaf", "initials": "G", "orcid": "0000-0002-3632-9102", "researcher": {"href": "https://publications.scilifelab.se/researcher/232d1b8a07454b5f802624dd91d68597.json"}}, {"family": "Wardle", "given": "David A", "initials": "DA", "orcid": "0000-0002-0476-7335", "researcher": {"href": "https://publications.scilifelab.se/researcher/570a8bd46088437cb7edc3e607f84e7b.json"}}, {"family": "Nilsson", "given": "Marie\u2010Charlotte", "initials": "M", "orcid": "0000-0002-9254-2223", "researcher": {"href": "https://publications.scilifelab.se/researcher/32f05190f0254333aab0ce402c19df9c.json"}}, {"family": "Lindahl", "given": "Bj\u00f6rn D", "initials": "BD", "orcid": "0000-0002-3384-4547", "researcher": {"href": "https://publications.scilifelab.se/researcher/b7a40688d33545a19c3c666940bda255.json"}}], "type": "journal-article", "published": "2021-01-00", "journal": {"title": "J Ecol", "issn": "0022-0477", "volume": "109", "issue": "1", "pages": "504-518", "issn-l": null}, "abstract": null, "doi": "10.1111/1365-2745.13529", "pmid": null, "labels": {"National Genomics Infrastructure": "Service", "NGI Uppsala (Uppsala Genome Center)": "Service", "Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [], "notes": [], "created": "2020-11-11T15:16:51.533Z", "modified": "2024-01-16T13:48:41.075Z"}, {"entity": "publication", "iuid": "1fcb59bfe89a4aa2bc5101cd706fe80f", "links": {"self": {"href": "https://publications.scilifelab.se/publication/1fcb59bfe89a4aa2bc5101cd706fe80f.json"}, "display": {"href": "https://publications.scilifelab.se/publication/1fcb59bfe89a4aa2bc5101cd706fe80f"}}, "title": "Optimized metabarcoding with Pacific biosciences enables semi-quantitative analysis of fungal communities.", "authors": [{"family": "Casta\u00f1o", "given": "Carles", "initials": "C", "orcid": "0000-0002-2403-7006", "researcher": {"href": "https://publications.scilifelab.se/researcher/b7bfa857714f425886c4484c15eb59a5.json"}}, {"family": "Berlin", "given": "Anna", "initials": "A", "orcid": "0000-0002-9518-5719", "researcher": {"href": "https://publications.scilifelab.se/researcher/023743c670cc408bb4ed767cb8ee558a.json"}}, {"family": "Brandstr\u00f6m Durling", "given": "Mikael", "initials": "M", "orcid": "0000-0001-6485-197X", "researcher": {"href": "https://publications.scilifelab.se/researcher/7be72d0dcc48489495509b23c7ad3d38.json"}}, {"family": "Ihrmark", "given": "Katharina", "initials": "K"}, {"family": "Lindahl", "given": "Bj\u00f6rn D", "initials": "BD", "orcid": "0000-0002-3384-4547", "researcher": {"href": "https://publications.scilifelab.se/researcher/b7a40688d33545a19c3c666940bda255.json"}}, {"family": "Stenlid", "given": "Jan", "initials": "J", "orcid": "0000-0002-5344-2094", "researcher": {"href": "https://publications.scilifelab.se/researcher/eac6fc31e38c4552a986310015fcb1b4.json"}}, {"family": "Clemmensen", "given": "Karina E", "initials": "KE", "orcid": "0000-0002-9627-6428", "researcher": {"href": "https://publications.scilifelab.se/researcher/73a4e19bdfc1431c9dd1c3f1cd58c766.json"}}, {"family": "Olson", "given": "\u00c5ke", "initials": "\u00c5", "orcid": "0000-0001-8998-6096", "researcher": {"href": "https://publications.scilifelab.se/researcher/83a79139c2b94d9f97cf038e1cab8c03.json"}}], "type": "journal article", "published": "2020-11-00", "journal": {"title": "New Phytol.", "issn": "1469-8137", "issn-l": "0028-646X", "volume": "228", "issue": "3", "pages": null}, "abstract": "Recent studies have questioned the use of high-throughput sequencing of the nuclear ribosomal internal transcribed spacer (ITS) region to derive a semi-quantitative representation of fungal community composition. However, comprehensive studies that quantify biases occurring during PCR and sequencing of ITS amplicons are still lacking. We used artificially assembled communities consisting of 10 ITS-like fragments of varying lengths and guanine-cytosine (GC) contents to evaluate and quantify biases during PCR and sequencing with Illumina MiSeq, PacBio RS II and PacBio Sequel I technologies. Fragment length variation was the main source of bias in observed community composition relative to the template, with longer fragments generally being under-represented for all sequencing platforms. This bias was three times higher for Illumina MiSeq than for PacBio RS II and Sequel I. All 10 fragments in the artificial community were recovered when sequenced with PacBio technologies, whereas the three longest fragments (> 447 bases) were lost when sequenced with Illumina MiSeq. Fragment length bias also increased linearly with increasing number of PCR cycles but could be mitigated by optimization of the PCR setup. No significant biases related to GC content were observed. Despite lower sequencing output, PacBio sequencing was better able to reflect the community composition of the template than Illumina MiSeq sequencing.", "doi": "10.1111/nph.16731", "pmid": "32531109", "labels": {"National Genomics Infrastructure": "Service", "NGI Uppsala (Uppsala Genome Center)": "Service", "NGI Uppsala (SNP&SEQ Technology Platform)": "Service"}, "xrefs": [], "notes": [], "created": "2020-08-19T09:21:07.482Z", "modified": "2021-11-10T12:45:47.178Z"}]}