{"entity": "researcher", "timestamp": "2026-09-26T00:32:38.071Z", "family": "Johannesson", "given": "Hanna", "initials": "H", "orcid": "0000-0001-6359-9856", "affiliations": ["Department of Ecology, Environment and Plant Sciences, Stockholm University, Stockholm, Sweden.", "The Royal Swedish Academy of Sciences, Stockholm, Sweden."], "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/researcher/53fd9541dedf469fa9e83c20a4a32fc2.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/researcher/53fd9541dedf469fa9e83c20a4a32fc2"}}, "publications": [{"entity": "publication", "iuid": "8eb84a59488e46b9a8798a36ac2b47a2", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/8eb84a59488e46b9a8798a36ac2b47a2.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/8eb84a59488e46b9a8798a36ac2b47a2"}}, "title": "Early germline sequestration in a basidiomycete fungus.", "authors": [{"family": "Thor\u00e9n", "given": "Markus Hiltunen", "initials": "MH", "orcid": "0000-0002-8880-872X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/8ab31cc80e1c43458c0d26ca9a7bb004.json"}}, {"family": "Olsson", "given": "Boel", "initials": "B", "orcid": "0009-0006-4157-2664", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ac0a8aaf72024f189e94249f7dd50ea1.json"}}, {"family": "Vonk", "given": "Peter Jan", "initials": "PJ", "orcid": "0000-0001-5325-7430", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/41c2981207704dee8268625a172a08ff.json"}}, {"family": "Siljestam", "given": "Mattias", "initials": "M", "orcid": "0000-0002-3720-4926", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/2bbb83adca0344c3a17a01bbe5138fdb.json"}}, {"family": "Reimeg\u00e5rd", "given": "Johan", "initials": "J", "orcid": "0000-0003-1518-2014", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/0231200f87bc4dbeb92566439db2f7ce.json"}}, {"family": "Ryberg", "given": "Martin", "initials": "M", "orcid": "0000-0002-6795-4349", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5917e3d7a89148689cccd59bfba4e47f.json"}}, {"family": "Johannesson", "given": "Hanna", "initials": "H", "orcid": "0000-0001-6359-9856", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/53fd9541dedf469fa9e83c20a4a32fc2.json"}}], "type": "journal article", "published": "2025-08-14", "journal": {"title": "Science (New York, N.Y.)", "issn": "1095-9203", "volume": "389", "issue": "6761", "pages": "720-723", "issn-l": "0036-8075"}, "abstract": "In sexual organisms, inheritance of new mutations is highly dependent on the timing of germline definition. Here, we used the fairy ring-forming fungus Marasmius oreades to challenge the general assumption of a late germline separation in the Fungi. We collected mushrooms from different parts of rings over a 7-year period and identified new mutations in different tissues by whole-genome sequencing. We found evidence that fertile and sterile tissues had accumulated different mutations, suggesting that the germ line, destined for spore production, is already defined in the mycelium in this species. Moreover, the germ line carried fewer mutations than sterile tissues, indicating a lower mutation rate. Our findings suggest that early germline sequestration is more widespread than previously considered across multicellular life.", "doi": "10.1126/science.adu8580", "pmid": "40811541", "labels": [], "xrefs": [{"db": "BioProject", "key": "PRJNA1083412"}], "notes": [], "created": "2026-09-23T11:36:59.774Z", "modified": "2026-09-23T11:37:00.052Z"}, {"entity": "publication", "iuid": "4b20728558b24c40866f3234a93ded76", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/4b20728558b24c40866f3234a93ded76.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/4b20728558b24c40866f3234a93ded76"}}, "title": "Nuclear-specific gene expression in heterokaryons of the filamentous ascomycete Neurospora tetrasperma.", "authors": [{"family": "Meunier", "given": "C\u00e9cile", "initials": "C"}, {"family": "Darolti", "given": "Iulia", "initials": "I"}, {"family": "Reimeg\u00e5rd", "given": "Johan", "initials": "J"}, {"family": "Mank", "given": "Judith E", "initials": "JE", "orcid": "0000-0002-2450-513X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/145ca4b7c80e4d9c9b8d52b1de56dc8e.json"}}, {"family": "Johannesson", "given": "Hanna", "initials": "H", "orcid": "0000-0001-6359-9856", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/53fd9541dedf469fa9e83c20a4a32fc2.json"}}], "type": "journal article", "published": "2022-08-10", "journal": {"title": "Proc. Biol. Sci.", "issn": "1471-2954", "volume": "289", "issue": "1980", "pages": "20220971", "issn-l": "0962-8452"}, "abstract": "Heterokaryosis is a system in which genetically distinct nuclei coexist within the same cytoplasm. While heterokaryosis dominates the life cycle of many fungal species, the transcriptomic changes associated with the transition from homokaryosis to heterokaryosis is not well understood. Here, we analyse gene expression profiles of homokaryons and heterokaryons from three phylogenetically and reproductively isolated lineages of the filamentous ascomycete Neurospora tetrasperma. We show that heterokaryons are transcriptionally distinct from homokaryons in the sexual stage of development, but not in the vegetative stage, suggesting that the phenotypic switch to fertility in heterokaryons is associated with major changes in gene expression. Heterokaryon expression is predominantly defined by additive effects of its two nuclear components. Furthermore, allele-specific expression analysis of heterokaryons with varying nuclear ratios show patterns of expression ratios strongly dependent on nuclear ratios in the vegetative stage. By contrast, in the sexual stage, strong deviations of expression ratios indicate a co-regulation of nuclear gene expression in all three lineages. Taken together, our results show two levels of expression control: additive effects suggest a nuclear level of expression, whereas co-regulation of gene expression indicate a heterokaryon level of control.", "doi": "10.1098/rspb.2022.0971", "pmid": "35946150", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC9363985"}], "notes": [], "created": "2026-09-23T13:07:49.718Z", "modified": "2026-09-23T13:07:49.826Z"}, {"entity": "publication", "iuid": "fd37e18d092842258db053b899323645", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/fd37e18d092842258db053b899323645.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/fd37e18d092842258db053b899323645"}}, "title": "In-depth phylogenomic analysis of arbuscular mycorrhizal fungi based on a comprehensive set of de novo genome assemblies", "authors": [{"family": "Montoliu-Nerin", "given": "Merce", "initials": "M", "orcid": "0000-0002-5200-0411", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5514c05d52444c96ada72817796a903d.json"}}, {"family": "S\u00e1nchez-Garc\u00eda", "given": "Marisol", "initials": "M"}, {"family": "Bergin", "given": "Claudia", "initials": "C"}, {"family": "Kutschera", "given": "Verena Esther", "initials": "VE", "orcid": "0000-0002-8930-534X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/c7185df2f7d44872960d604e9c70c551.json"}}, {"family": "Johannesson", "given": "Hanna", "initials": "H", "orcid": "0000-0001-6359-9856", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/53fd9541dedf469fa9e83c20a4a32fc2.json"}}, {"family": "Bever", "given": "James D", "initials": "JD", "orcid": "0000-0003-4068-3582", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/37ae67592d5f456eaff325c15c2ae439.json"}}, {"family": "Rosling", "given": "Anna", "initials": "A", "orcid": "0000-0002-7003-5941", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/0664c029a14140b09f9f9f74440e8008.json"}}], "type": "posted-content", "published": "2021-04-11", "journal": {"issn-l": null}, "abstract": null, "doi": "10.1101/2021.04.09.439159", "pmid": null, "labels": [], "xrefs": [], "notes": [], "created": "2026-09-23T13:54:19.788Z", "modified": "2026-09-23T13:54:19.896Z"}, {"entity": "publication", "iuid": "25d7a7dfe11044379f53af08e6e931d0", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/25d7a7dfe11044379f53af08e6e931d0.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/25d7a7dfe11044379f53af08e6e931d0"}}, "title": "Comparative analysis of genome-wide DNA methylation in Neurospora.", "authors": [{"family": "Hosseini", "given": "Sara", "initials": "S"}, {"family": "Meunier", "given": "C\u00e9cile", "initials": "C"}, {"family": "Nguyen", "given": "Diem", "initials": "D"}, {"family": "Reimeg\u00e5rd", "given": "Johan", "initials": "J"}, {"family": "Johannesson", "given": "Hanna", "initials": "H", "orcid": "0000-0001-6359-9856", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/53fd9541dedf469fa9e83c20a4a32fc2.json"}}], "type": "journal article", "published": "2020-09-00", "journal": {"title": "Epigenetics", "issn": "1559-2308", "volume": "15", "issue": "9", "pages": "972-987", "issn-l": "1559-2294"}, "abstract": "DNA methylation is an epigenetic mark that plays an important role in genetic regulation in eukaryotes. Major progress has been made in dissecting the molecular pathways that regulate DNA methylation. Yet, little is known about DNA methylation variation over evolutionary time. Here we present an investigation of the variation of DNA methylation and transposable element (TE) content in species of the filamentous ascomycetes Neurospora. We generated genome-wide DNA methylation data at single-base resolution, together with genomic TE content and gene expression data, of 10 individuals representing five closely related Neurospora species. We found that the methylation levels were low (ranging from 1.3% to 2.5%) and varied among the genomes in a species-specific way. Furthermore, we found that the TEs over 400 bp long were targeted by DNA methylation, and in all genomes, high methylation correlated with low GC, confirming a conserved link between DNA methylation and Repeat Induced Point (RIP) mutations in this group of fungi. Both TE content and DNA methylation pattern showed phylogenetic signal, and the species with the highest TE load (N. crassa) also exhibited the highest methylation level per TE. Our results suggest that DNA methylation is an evolvable trait and indicate that the genomes of Neurospora are shaped by an evolutionary arms race between TEs and host defence.", "doi": "10.1080/15592294.2020.1741758", "pmid": "32228351", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC7518705"}], "notes": [], "created": "2026-09-23T11:54:23.263Z", "modified": "2026-09-23T11:54:23.308Z"}, {"entity": "publication", "iuid": "60dbfc0b4b4a4be98748223588a15518", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/60dbfc0b4b4a4be98748223588a15518.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/60dbfc0b4b4a4be98748223588a15518"}}, "title": "From single nuclei to whole genome assemblies", "authors": [{"family": "Montoliu-Nerin", "given": "Merce", "initials": "M", "orcid": "0000-0002-5200-0411", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5514c05d52444c96ada72817796a903d.json"}}, {"family": "S\u00e1nchez-Garc\u00eda", "given": "Marisol", "initials": "M"}, {"family": "Bergin", "given": "Claudia", "initials": "C"}, {"family": "Grabherr", "given": "Manfred", "initials": "M", "orcid": "0000-0001-8792-6508", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/b7d96bfeead545498f188dae001abcef.json"}}, {"family": "Ellis", "given": "Barbara", "initials": "B"}, {"family": "Kutschera", "given": "Verena Esther", "initials": "VE", "orcid": "0000-0002-8930-534X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/c7185df2f7d44872960d604e9c70c551.json"}}, {"family": "Kierczak", "given": "Marcin", "initials": "M", "orcid": "0000-0003-2629-5655", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/da6834c3cedf4ea1b20b659316b45eb2.json"}}, {"family": "Johannesson", "given": "Hanna", "initials": "H", "orcid": "0000-0001-6359-9856", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/53fd9541dedf469fa9e83c20a4a32fc2.json"}}, {"family": "Rosling", "given": "Anna", "initials": "A", "orcid": "0000-0002-7003-5941", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/0664c029a14140b09f9f9f74440e8008.json"}}], "type": "posted-content", "published": "2019-05-03", "journal": {"issn-l": null}, "abstract": null, "doi": "10.1101/625814", "pmid": null, "labels": [], "xrefs": [], "notes": [], "created": "2026-09-23T14:20:48.837Z", "modified": "2026-09-23T14:20:48.910Z"}]}