{"entity": "researcher", "timestamp": "2026-08-22T08:30:20.619Z", "family": "Bene\u0161", "given": "Vladim\u00edr", "initials": "V", "orcid": "0000-0002-0352-2547", "affiliations": ["Genomics Core Facility, European Molecular Biology Laboratory, Heidelberg, Germany."], "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/researcher/b1bf0a09799e4e338ecc55f4712e70b4.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/researcher/b1bf0a09799e4e338ecc55f4712e70b4"}}, "publications": [{"entity": "publication", "iuid": "1f429de03d59490fb573923ac809e3d4", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/1f429de03d59490fb573923ac809e3d4.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/1f429de03d59490fb573923ac809e3d4"}}, "title": "Germline-restricted chromosome of songbirds has different centromere compared to regular chromosomes.", "authors": [{"family": "R\u00eddl", "given": "Jakub", "initials": "J", "orcid": "0000-0003-2148-3606", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/1794108c718a42beacfa24fd94c44090.json"}}, {"family": "Dedukh", "given": "Dmitrij", "initials": "D"}, {"family": "Halenkov\u00e1", "given": "Zuzana", "initials": "Z", "orcid": "0000-0002-8550-1693", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/16d1064a71c64fae9d4a4e68790267b0.json"}}, {"family": "Schlebusch", "given": "Stephen A", "initials": "SA"}, {"family": "Bene\u0161", "given": "Vladim\u00edr", "initials": "V", "orcid": "0000-0002-0352-2547", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/b1bf0a09799e4e338ecc55f4712e70b4.json"}}, {"family": "Lopez", "given": "Mireia Osuna", "initials": "MO"}, {"family": "Osiejuk", "given": "Tomasz S", "initials": "TS"}, {"family": "Ruiz-Ruano", "given": "Francisco J", "initials": "FJ", "orcid": "0000-0002-5391-301X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/b6c9c69ad6644f77bfe61a99ec3e8fd0.json"}}, {"family": "Suh", "given": "Alexander", "initials": "A", "orcid": "0000-0002-8979-9992", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e1790a31477c4376957d8c328299db1c.json"}}, {"family": "Albrecht", "given": "Tom\u00e1\u0161", "initials": "T"}, {"family": "Reif", "given": "Ji\u0159\u00ed", "initials": "J"}, {"family": "Reifov\u00e1", "given": "Radka", "initials": "R", "orcid": "0000-0001-5852-5174", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/19c70fc264f24ae6b713a7be58620937.json"}}], "type": "journal article", "published": "2025-07-30", "journal": {"title": "Heredity (Edinb)", "issn": "1365-2540", "issn-l": "0018-067X"}, "abstract": "Centromeres are an important part of chromosomes which direct chromosome segregation during cell division. Their modifications can therefore explain the unusual mitotic and meiotic behaviour of certain chromosomes, such as the germline-restricted chromosome (GRC) of songbirds. This chromosome is eliminated from somatic cells during early embryogenesis and later also from male germ cells during spermatogenesis. Although the mechanism of elimination is not yet known, it is possible that it involves a modification of the centromeric sequence on the GRC, resulting in problems with the attachment of this chromosome to the mitotic or meiotic spindle and its lagging during anaphase, which eventually leads to its elimination from the nucleus. However, the repetitive nature and rapid evolution of centromeres make their identification and comparative analysis across species and chromosomes challenging. Here, we used a combination of cytogenetic and genomic approaches to identify the centromeric sequences of two closely related songbird species, the common nightingale (Luscinia megarhynchos) and the thrush nightingale (L. luscinia). We found a 436-bp satellite repeat present in the centromeric regions of all regular chromosomes (i.e., autosomes and sex chromosomes), making it a strong candidate for the centromeric repeat. This centromeric repeat was highly similar between the two nightingale species. Interestingly, hybridization of the probe to this satellite repeat on meiotic spreads suggested that this repeat is missing on the GRC. Our results indicate that the change of the centromeric sequence may underlie the unusual inheritance and programmed DNA elimination of the GRC in songbirds.", "doi": "10.1038/s41437-025-00779-5", "pmid": "40745398", "labels": [], "xrefs": [{"db": "pii", "key": "10.1038/s41437-025-00779-5"}], "notes": [], "created": "2026-08-21T11:48:02.911Z", "modified": "2026-08-21T11:48:03.122Z"}, {"entity": "publication", "iuid": "bc9d19e9abb546cfb2de415c68ba7546", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/bc9d19e9abb546cfb2de415c68ba7546.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/bc9d19e9abb546cfb2de415c68ba7546"}}, "title": "A genome resource for the marine annelid Platynereis spp.", "authors": [{"family": "Mutemi", "given": "Kevin Nzumbi", "initials": "KN", "orcid": "0000-0002-6426-2363", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/96cb858ec634402ab61f2c8a2963c65c.json"}}, {"family": "Simakov", "given": "Oleg", "initials": "O", "orcid": "0000-0002-3585-4511", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f5377c9c4c71468c8e60ac2dfe56ee94.json"}}, {"family": "Pan", "given": "Leslie", "initials": "L", "orcid": "0000-0002-2408-4259", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f9fcbc9ba63a483f947caf2c873137da.json"}}, {"family": "Santangeli", "given": "Luca", "initials": "L", "orcid": "0000-0001-9600-6164", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/886738b7a2d942f28b6febdec005ceaf.json"}}, {"family": "Null", "given": "Ryan Wesley", "initials": "RW", "orcid": "0000-0002-3830-4152", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/0cd0ad321bdc4192bb5afac9902314f1.json"}}, {"family": "Handberg-Thorsager", "given": "Mette", "initials": "M", "orcid": "0000-0002-3908-7233", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/27e5a45c3529449eb63db9b6e5168838.json"}}, {"family": "Vellutini", "given": "Bruno Cossermelli", "initials": "BC", "orcid": "0000-0002-0000-9465", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/4071ec4a3d284ad5984323c88432bded.json"}}, {"family": "Peterson", "given": "Kevin J", "initials": "KJ", "orcid": "0000-0002-6780-0964", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/13b1b005ccf0443e8f4441890ae833d0.json"}}, {"family": "Fromm", "given": "Bastian", "initials": "B", "orcid": "0000-0003-0352-3037", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/cdc4c42e06604b759dd6225c5f8362b5.json"}}, {"family": "Larsson", "given": "Tomas", "initials": "T"}, {"family": "Savage", "given": "Emily", "initials": "E", "orcid": "0000-0003-3391-7571", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/c4863e2e90204f9b999fe8103834aa70.json"}}, {"family": "Lopez", "given": "Mireia Osuna", "initials": "MO", "orcid": "0000-0001-7724-444X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/82fd8b97a25c43a0a976da54ca9005a7.json"}}, {"family": "Hercog", "given": "Rajna", "initials": "R"}, {"family": "Provaznik", "given": "Jan", "initials": "J"}, {"family": "Ordo\u00f1ez-Rueda", "given": "Diana", "initials": "D"}, {"family": "Azevedo", "given": "Nayara", "initials": "N"}, {"family": "Gazave", "given": "Eve", "initials": "E", "orcid": "0000-0002-4647-6640", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/aa2145abe5f44641aa2c0295bd5b4ba7.json"}}, {"family": "Vervoort", "given": "Michel", "initials": "M", "orcid": "0000-0002-5995-2140", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/fed9ac1fcb5d4ab0a291f80c10bf0717.json"}}, {"family": "Tomancak", "given": "Pavel", "initials": "P", "orcid": "0000-0002-2222-9370", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/b9498f9b902d455ca5d1a4346a32e2c8.json"}}, {"family": "Tan", "given": "Wenhua", "initials": "W"}, {"family": "Winkler", "given": "Sylke", "initials": "S", "orcid": "0000-0002-0915-3316", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e1f0e31e9346484b8709096822e47d19.json"}}, {"family": "Benes", "given": "Vladimir", "initials": "V", "orcid": "0000-0002-0352-2547", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/b1bf0a09799e4e338ecc55f4712e70b4.json"}}, {"family": "Hui", "given": "Jerome", "initials": "J", "orcid": "0000-0003-1355-8495", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/0e007a542ac745b3806f32717a1c7db3.json"}}, {"family": "Helm", "given": "Conrad", "initials": "C", "orcid": "0000-0002-0308-8402", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/272a9436329f4946a9e988543448b8e3.json"}}, {"family": "\u00d6zpolat", "given": "B Duygu", "initials": "BD", "orcid": "0000-0002-1900-965X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/077b6d9102bf4bbf933a27ec1bd2b40e.json"}}, {"family": "Arendt", "given": "Detlev", "initials": "D", "orcid": "0000-0001-7833-050X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5bfd7c6c45f7406dba72d3fd5a5f17e8.json"}}], "type": "journal article", "published": "2025-07-14", "journal": {"title": "BMC Genomics", "issn": "1471-2164", "volume": "26", "issue": "1", "pages": "665", "issn-l": "1471-2164"}, "abstract": "The marine annelid Platynereis dumerilii is a model organism used in many research areas including evolution and development, neurobiology, ecology and regeneration. Here we present the genomes of P. dumerilii (laboratory culture reference and a single individual assembly) and of the closely related P. massiliensis and P. megalops (single individual assembly) to facilitate comparative genomic approaches and help explore Platynereis biology. We used long-read sequencing technology and chromosomal-conformation capture along with extensive transcriptomic resources to obtain and annotate a draft genome assembly of ~ 1.47 Gbp for P. dumerilii, of which more than half represent repeat elements. We predict around 29,000 protein-coding genes, with relatively large intron sizes, over 38,000 non-coding genes, and 105 miRNA loci. We further explore the high genetic variation (~ 3% heterozygosity) within the Platynereis species complex. Gene ontology reveals the most variable loci to be associated with pigmentation, development and immunity. The current work sets the stage for further development of Platynereis genomic resources.", "doi": "10.1186/s12864-025-11727-2", "pmid": "40660120", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC12257675"}, {"db": "pii", "key": "10.1186/s12864-025-11727-2"}], "notes": [], "created": "2026-08-21T12:38:12.076Z", "modified": "2026-08-21T12:38:12.885Z"}]}