{"entity": "researcher", "timestamp": "2026-09-26T14:39:19.210Z", "family": "Dion-C\u00f4t\u00e9", "given": "Anne-Marie", "initials": "AM", "orcid": "0000-0002-8656-4127", "affiliations": ["D\u00e9partement de Biologie, Universit\u00e9 de Moncton, 18, av. Antonine-Maillet, Moncton, NB, E1A 3E9, Canada."], "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/researcher/ab2ed5d653e74855b2c659e4113c3547.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/researcher/ab2ed5d653e74855b2c659e4113c3547"}}, "publications": [{"entity": "publication", "iuid": "40c8e5f117f5437da2f846ffad39ea6a", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/40c8e5f117f5437da2f846ffad39ea6a.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/40c8e5f117f5437da2f846ffad39ea6a"}}, "title": "Accumulation of a Biparentally Inherited Neptune Transposable Element in Natural Killifish Hybrids (Fundulus diaphanus \u00d7 F. heteroclitus).", "authors": [{"family": "Roussel", "given": "Alexandre-James", "initials": "AJ", "orcid": "0009-0008-8953-9710", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ee009340fc044d4da2aa896369098d2b.json"}}, {"family": "Suh", "given": "Alexander", "initials": "A", "orcid": "0000-0002-8979-9992", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e1790a31477c4376957d8c328299db1c.json"}}, {"family": "Ruiz-Ruano", "given": "Francisco J", "initials": "FJ", "orcid": "0000-0002-5391-301X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/b6c9c69ad6644f77bfe61a99ec3e8fd0.json"}}, {"family": "Dion-C\u00f4t\u00e9", "given": "Anne-Marie", "initials": "AM", "orcid": "0000-0002-8656-4127", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ab2ed5d653e74855b2c659e4113c3547.json"}}], "type": "journal article", "published": "2025-10-29", "journal": {"title": "Mol. Biol. Evol.", "issn": "1537-1719", "volume": "42", "issue": "11", "issn-l": "0737-4038"}, "abstract": "Transposable elements (TEs) are abundant selfish genetic elements that can mobilize in their host genome, causing DNA damage, mutations, and chromosome rearrangements. TE silencing is thus critical, and is initiated by maternally loaded piRNAs, leading to their repression. Consistently, paternally inherited TEs are derepressed in the progeny of Drosophila crosses involving a naive female. TEs have also been found to be derepressed in interspecific crosses, which is proposed to result from suboptimal interactions of piRNA pathway proteins. Fundulus heteroclitus and F. diaphanus hybridize in nature and produce viable and fertile offspring that sometimes reproduce asexually. We characterized the repetitive DNA content of these species and their asexually reproducing hybrids. TE load was slightly higher than expected in hybrids and associated with younger repeats. Two biparentally inherited active Neptune subfamilies showed a remarkable \u223c3- to 4-fold accumulation in hybrids. These results are consistent with suboptimal piRNA pathway function, leading to active TE accumulation.", "doi": "10.1093/molbev/msaf266", "pmid": "41094714", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC12602865"}, {"db": "pii", "key": "8287239"}, {"db": "SRA", "key": "PRJNA862733"}], "notes": [], "created": "2026-09-23T15:51:58.226Z", "modified": "2026-09-23T15:51:58.328Z"}, {"entity": "publication", "iuid": "b316b72a87474542a7b90b22bcdc493e", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/b316b72a87474542a7b90b22bcdc493e.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/b316b72a87474542a7b90b22bcdc493e"}}, "title": "Evolution of Large Polymorphic Inversions in a Panmictic Songbird.", "authors": [{"family": "Pei", "given": "Yifan", "initials": "Y", "orcid": "0000-0002-2411-4454", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f89c9be70df04b05bbe8bc30945c854f.json"}}, {"family": "Forstmeier", "given": "Wolfgang", "initials": "W", "orcid": "0000-0002-5984-8925", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ecb710f7c6a34435b03de70f2bddfc38.json"}}, {"family": "Suh", "given": "Alexander", "initials": "A", "orcid": "0000-0002-8979-9992", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e1790a31477c4376957d8c328299db1c.json"}}, {"family": "Bambach", "given": "Lynn", "initials": "L"}, {"family": "Borges", "given": "In\u00eas", "initials": "I", "orcid": "0009-0003-7740-2665", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/2e615806e52349bd8f434e850a8bceab.json"}}, {"family": "Low", "given": "Gabriel Weijie", "initials": "GW", "orcid": "0000-0002-1276-7618", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5fadb2718acc414eb7391d1d9edf87d1.json"}}, {"family": "Dion-C\u00f4t\u00e9", "given": "Anne-Marie", "initials": "AM", "orcid": "0000-0002-8656-4127", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ab2ed5d653e74855b2c659e4113c3547.json"}}, {"family": "Knief", "given": "Ulrich", "initials": "U", "orcid": "0000-0001-6959-3033", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/41faddaa4cc1445e854ba4a62298507d.json"}}, {"family": "Wolf", "given": "Jochen", "initials": "J", "orcid": "0000-0002-2958-5183", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d1004f304db34314a61ca1fa0ee028b2.json"}}, {"family": "Kempenaers", "given": "Bart", "initials": "B", "orcid": "0000-0002-7505-5458", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/6771e71dc2114c6a98eeae371c75fe59.json"}}], "type": "journal article", "published": "2025-10-29", "journal": {"title": "Mol. Biol. Evol.", "issn": "1537-1719", "volume": "42", "issue": "11", "issn-l": "0737-4038"}, "abstract": "Chromosomal inversions have long been appreciated as an important source of genetic diversity, local adaptation, and speciation. However, selection pressures maintaining ancestral and derived alleles at high frequency over extended periods of time remain poorly characterized. Using genome-wide single-nucleotide polymorphism markers and shared barcodes of linked-read sequences from 20 wild and 7 captive zebra finches Taeniopygia guttata, we systematically scanned a high-quality zebra finch reference genome and identified all large polymorphic inversions that segregate at high minor allele frequencies. Apart from the known polymorphic inversions on chromosomes Tgu5, Tug11, Tgu13, and TguZ, we characterized two inversions on microchromosomes Tgu26 and Tgu27 and identified another eight putative inversions, located mostly on microchromosomes and ranging in size from 0.42 to 65.22 Mb. Population genomic analyses show that most of the six bona fide inversions are complex, containing short nested inversions. The early inversions emerged an estimated 0.6 to 2.2 million years ago and segregate at relatively high frequencies in the wild (minor haplotype frequency range: 0.289 to 0.429). Based on fitness-related measures of about 5,000 captive zebra finches, we conclude that three of the inversion polymorphisms (Tgu11, Tgu27, and TguZ) may be maintained by net heterosis. In the youngest of the six inversions (Tgu13), the derived haplotype showed weak positive additive effects on various fitness components. In combination with previous discoveries, we provide a comprehensive overview of the genomic distribution and evolutionary dynamics of large polymorphic inversions in the panmictic zebra finch. Our findings highlight (i) that microchromosomes may harbor quite a few additional inversion polymorphisms, (ii) that most of the inversions contain smaller nested or overlapping inversions, and (iii) that inversions were most likely maintained by weak heterosis with small fitness effects requiring large sample sizes to be detected.", "doi": "10.1093/molbev/msaf262", "pmid": "41102527", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC12612816"}, {"db": "pii", "key": "8287915"}], "notes": [], "created": "2026-09-23T13:19:25.128Z", "modified": "2026-09-23T13:19:25.313Z"}, {"entity": "publication", "iuid": "193b1903ad1243bc9ba1682a6bc786b9", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/193b1903ad1243bc9ba1682a6bc786b9.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/193b1903ad1243bc9ba1682a6bc786b9"}}, "title": "Accumulation of a biparentally-inherited Neptune transposable element in natural Killifish hybrids ( Fundulus diaphanus \u00d7 F. heteroclitus )", "authors": [{"family": "Roussel", "given": "Alexandre James", "initials": "AJ"}, {"family": "Suh", "given": "Alexander", "initials": "A", "orcid": "0000-0002-8979-9992", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e1790a31477c4376957d8c328299db1c.json"}}, {"family": "Ruiz-Ruano", "given": "Francisco J", "initials": "FJ", "orcid": "0000-0002-5391-301X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/b6c9c69ad6644f77bfe61a99ec3e8fd0.json"}}, {"family": "Dion-C\u00f4t\u00e9", "given": "Anne Marie", "initials": "AM", "orcid": "0000-0002-8656-4127", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ab2ed5d653e74855b2c659e4113c3547.json"}}], "type": "posted-content", "published": "2025-05-27", "journal": {"issn-l": null}, "abstract": null, "doi": "10.1101/2025.05.22.655539", "pmid": null, "labels": [], "xrefs": [], "notes": [], "created": "2026-09-23T14:38:15.475Z", "modified": "2026-09-23T14:38:15.518Z"}]}