{"entity": "researcher", "timestamp": "2026-08-11T13:56:57.561Z", "family": "Nilsson", "given": "R Henrik", "initials": "RH", "orcid": "0000-0002-8052-0107", "affiliations": ["Department of Biological and Environmental Sciences, University of Gothenburg, G\u00f6teborg, Sweden.", "Gothenburg Global Biodiversity Centre, G\u00f6teborg, Sweden."], "links": {"self": {"href": "https://publications.scilifelab.se/researcher/d1f74b9c6c3d4e749adacffa0efb80b2.json"}, "display": {"href": "https://publications.scilifelab.se/researcher/d1f74b9c6c3d4e749adacffa0efb80b2"}}, "publications": [{"entity": "publication", "iuid": "ff4664ca9052497caeef1c1bccdbfa76", "links": {"self": {"href": "https://publications.scilifelab.se/publication/ff4664ca9052497caeef1c1bccdbfa76.json"}, "display": {"href": "https://publications.scilifelab.se/publication/ff4664ca9052497caeef1c1bccdbfa76"}}, "title": "\ufeffIntroducing guidelines for publishing DNA-derived occurrence data through biodiversity data platforms", "authors": [{"family": "Nilsson", "given": "R Henrik", "initials": "RH", "orcid": "0000-0002-8052-0107", "researcher": {"href": "https://publications.scilifelab.se/researcher/d1f74b9c6c3d4e749adacffa0efb80b2.json"}}, {"family": "Andersson", "given": "Anders F", "initials": "AF", "orcid": "0000-0002-3627-6899", "researcher": {"href": "https://publications.scilifelab.se/researcher/caa76ee4438d4b4aad386ba8a90448c2.json"}}, {"family": "Bissett", "given": "Andrew", "initials": "A"}, {"family": "Finstad", "given": "Anders G", "initials": "AG", "orcid": "0000-0003-4529-6266", "researcher": {"href": "https://publications.scilifelab.se/researcher/a5f25bcb9fcf48048e4ed9b5377b848a.json"}}, {"family": "Foss\u00f8y", "given": "Frode", "initials": "F"}, {"family": "Grosjean", "given": "Marie", "initials": "M"}, {"family": "Hope", "given": "Michael", "initials": "M"}, {"family": "Jeppesen", "given": "Thomas S", "initials": "TS", "orcid": "0000-0003-1691-239X", "researcher": {"href": "https://publications.scilifelab.se/researcher/50c1a9d451504813a5160db621356cd9.json"}}, {"family": "K\u00f5ljalg", "given": "Urmas", "initials": "U"}, {"family": "Lundin", "given": "Daniel", "initials": "D", "orcid": "0000-0002-8779-6464", "researcher": {"href": "https://publications.scilifelab.se/researcher/227cc90e084348a193fee05eb23a6bf3.json"}}, {"family": "Prager", "given": "Maria", "initials": "M", "orcid": "0000-0003-4897-8422", "researcher": {"href": "https://publications.scilifelab.se/researcher/4edcc39683ae4adb9f8000321271ae44.json"}}, {"family": "Suominen", "given": "Saara", "initials": "S", "orcid": "0000-0001-9401-8460", "researcher": {"href": "https://publications.scilifelab.se/researcher/dc0b8fbef068422c91a108b6fa297521.json"}}, {"family": "Svenningsen", "given": "Cecilie S", "initials": "CS", "orcid": "0000-0002-9216-2917", "researcher": {"href": "https://publications.scilifelab.se/researcher/91e23da698614b6496183fe5f16a7c6c.json"}}, {"family": "Schigel", "given": "Dmitry", "initials": "D", "orcid": "0000-0002-2919-1168", "researcher": {"href": "https://publications.scilifelab.se/researcher/a4b1cd30c0404d9b8c2caf5d5c2fed1d.json"}}], "type": "journal-article", "published": "2022-08-02", "journal": {"title": "MBMG", "issn": "2534-9708", "volume": "6", "issn-l": null}, "abstract": null, "doi": "10.3897/mbmg.6.84960", "pmid": null, "labels": {"Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [], "notes": [], "created": "2023-11-27T22:02:38.982Z", "modified": "2025-12-04T19:28:41.646Z"}, {"entity": "publication", "iuid": "e6d9c64d82f3471c902b98f30cac0cba", "links": {"self": {"href": "https://publications.scilifelab.se/publication/e6d9c64d82f3471c902b98f30cac0cba.json"}, "display": {"href": "https://publications.scilifelab.se/publication/e6d9c64d82f3471c902b98f30cac0cba"}}, "title": "\ufeffEvidence for further non-coding RNA genes in the fungal rDNA region.", "authors": [{"family": "Rosenblad", "given": "Magnus Alm", "initials": "MA", "orcid": "0000-0002-4077-7821", "researcher": {"href": "https://publications.scilifelab.se/researcher/1db3e7106016494bb4365e099a8493ef.json"}}, {"family": "Larsson", "given": "Ellen", "initials": "E", "orcid": "0000-0003-4308-4972", "researcher": {"href": "https://publications.scilifelab.se/researcher/ff2004120e9d46ea80f5a4cfc630ffdb.json"}}, {"family": "Walker", "given": "Arttapon", "initials": "A", "orcid": "0000-0002-3855-4522", "researcher": {"href": "https://publications.scilifelab.se/researcher/7fee6666dd05402b98a8cffd86a939ec.json"}}, {"family": "Thongklang", "given": "Naritsada", "initials": "N", "orcid": "0000-0001-9337-5001", "researcher": {"href": "https://publications.scilifelab.se/researcher/df8dcef5b3314d71abb6ccb60dce5dc7.json"}}, {"family": "Wurzbacher", "given": "Christian", "initials": "C", "orcid": "0000-0001-7418-0831", "researcher": {"href": "https://publications.scilifelab.se/researcher/1fed784d185749498b07f7458c9ccfb6.json"}}, {"family": "Nilsson", "given": "R Henrik", "initials": "RH", "orcid": "0000-0002-8052-0107", "researcher": {"href": "https://publications.scilifelab.se/researcher/d1f74b9c6c3d4e749adacffa0efb80b2.json"}}], "type": "journal article", "published": "2022-06-30", "journal": {"title": "MycoKeys", "issn": "1314-4049", "volume": "90", "pages": "203-213", "issn-l": null}, "abstract": "Non-coding RNA (ncRNA) genes play important, but incompletely understood, roles in various cellular processes, notably translation and gene regulation. A recent report on the detection of the ncRNA Signal Recognition Particle gene in the nuclear ribosomal internal transcribed spacer region of several species of three genera of ectomycorrhizal basidiomycetes prompted a more thorough bioinformatics search for additional ncRNA genes in the full fungal ribosomal operon. This study reports on the detection of three ncRNA genes hitherto not known from the fungal ribosomal region: nuclear RNase P RNA, RNase MRP RNA, and a possible snoRNA U14 in a total of five species of Auricularia and Inocybe. We verified their presence through resequencing of independent specimens. Two completed Auricularia genomes were found to lack these ncRNAs elsewhere than in the ribosomal operon, suggesting that these are functional genes. It seems clear that ncRNA genes play a larger role in fungal ribosomal genetics than hitherto thought.", "doi": "10.3897/mycokeys.90.84866", "pmid": "36760425", "labels": {"Bioinformatics Support, Infrastructure and Training": "Collaborative", "Bioinformatics Support and Infrastructure": "Collaborative", "Bioinformatics (NBIS)": "Collaborative"}, "xrefs": [{"db": "pmc", "key": "PMC9849065"}, {"db": "pii", "key": "84866"}], "notes": [], "created": "2022-08-26T08:39:52.764Z", "modified": "2023-06-02T10:27:22.383Z"}, {"entity": "publication", "iuid": "f989e24dc1864d62a1e0808ea11f31ca", "links": {"self": {"href": "https://publications.scilifelab.se/publication/f989e24dc1864d62a1e0808ea11f31ca.json"}, "display": {"href": "https://publications.scilifelab.se/publication/f989e24dc1864d62a1e0808ea11f31ca"}}, "title": "Introducing ribosomal tandem repeat barcoding for fungi.", "authors": [{"family": "Wurzbacher", "given": "Christian", "initials": "C", "orcid": "0000-0001-7418-0831", "researcher": {"href": "https://publications.scilifelab.se/researcher/1fed784d185749498b07f7458c9ccfb6.json"}}, {"family": "Larsson", "given": "Ellen", "initials": "E"}, {"family": "Bengtsson-Palme", "given": "Johan", "initials": "J"}, {"family": "Van den Wyngaert", "given": "Silke", "initials": "S"}, {"family": "Svantesson", "given": "Sten", "initials": "S"}, {"family": "Kristiansson", "given": "Erik", "initials": "E"}, {"family": "Kagami", "given": "Maiko", "initials": "M", "orcid": "0000-0003-3086-390X", "researcher": {"href": "https://publications.scilifelab.se/researcher/c6fd6b466b4143139a9709eeddf37315.json"}}, {"family": "Nilsson", "given": "R Henrik", "initials": "RH", "orcid": "0000-0002-8052-0107", "researcher": {"href": "https://publications.scilifelab.se/researcher/d1f74b9c6c3d4e749adacffa0efb80b2.json"}}], "type": "journal article", "published": "2019-01-00", "journal": {"volume": "19", "issn": "1755-0998", "issue": "1", "pages": "118-127", "title": "Mol Ecol Resour", "issn-l": "1755-098X"}, "abstract": "Sequence comparison and analysis of the various ribosomal genetic markers are the dominant molecular methods for identification and description of fungi. However, new environmental fungal lineages known only from DNA data reveal significant gaps in our sampling of the fungal kingdom in terms of both taxonomy and marker coverage in the reference sequence databases. To facilitate the integration of reference data from all of the ribosomal markers, we present three sets of general primers that allow for amplification of the complete ribosomal operon from the ribosomal tandem repeats. The primers cover all ribosomal markers: ETS, SSU, ITS1, 5.8S, ITS2, LSU and IGS. We coupled these primers successfully with third-generation sequencing (PacBio and Nanopore sequencing) to showcase our approach on authentic fungal herbarium specimens (Basidiomycota), aquatic chytrids (Chytridiomycota) and a poorly understood lineage of early diverging fungi (Nephridiophagidae). In particular, we were able to generate high-quality reference data with Nanopore sequencing in a high-throughput manner, showing that the generation of reference data can be achieved on a regular desktop computer without the involvement of any large-scale sequencing facility. The quality of the Nanopore generated sequences was 99.85%, which is comparable with the 99.78% accuracy described for Sanger sequencing. With this work, we hope to stimulate the generation of a new comprehensive standard of ribosomal reference data with the ultimate aim to close the huge gaps in our reference datasets.", "doi": "10.1111/1755-0998.12944", "pmid": "30240145", "labels": {"National Genomics Infrastructure": "Service", "NGI Uppsala (Uppsala Genome Center)": "Service", "Bioinformatics Support and Infrastructure": "Service", "Bioinformatics Support, Infrastructure and Training": "Service", "Bioinformatics Support for Computational Resources": "Service", "Bioinformatics (NBIS)": "Service"}, "xrefs": [{"db": "ENA", "description": "https://www.ebi.ac.uk/ena/data/view/PRJEB26696", "key": "PRJEB26696"}, {"db": "GENBANK", "description": null, "key": "MH356537"}, {"db": "GENBANK", "description": null, "key": "MH356538"}, {"db": "GENBANK", "description": null, "key": "MH356539"}, {"db": "GENBANK", "description": null, "key": "MH356540"}, {"db": "GENBANK", "description": null, "key": "MH356541"}, {"db": "GENBANK", "description": null, "key": "MH356542"}, {"db": "GENBANK", "description": null, "key": "MH356543"}, {"db": "GENBANK", "description": null, "key": "MH356544"}, {"db": "GENBANK", "description": null, "key": "MH356545"}], "notes": [], "created": "2018-06-25T14:29:38.213Z", "modified": "2024-01-16T13:48:44.902Z"}]}