{"entity": "researcher", "timestamp": "2026-08-20T21:37:55.850Z", "family": "Guschanski", "given": "Katerina", "initials": "K", "orcid": "0000-0002-8493-5457", "affiliations": ["Animal Ecology, Department of Ecology and Genetics, Uppsala University, Uppsala, Sweden.", "Institute of Ecology and Evolution, School of Biological Sciences, University of Edinburgh, Edinburgh, UK.", "Science for Life Laboratory, Uppsala, Sweden."], "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/researcher/4e062373c6bc46b98e56215d3ec89eeb.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/researcher/4e062373c6bc46b98e56215d3ec89eeb"}}, "publications": [{"entity": "publication", "iuid": "e10a46376db74caba7746d411faa4302", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/e10a46376db74caba7746d411faa4302.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/e10a46376db74caba7746d411faa4302"}}, "title": "Ghost admixture in eastern gorillas.", "authors": [{"family": "Pawar", "given": "Harvinder", "initials": "H"}, {"family": "Rymbekova", "given": "Aigerim", "initials": "A", "orcid": "0009-0001-5461-5161", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d8c43ad5829f4ad28597d45d65260729.json"}}, {"family": "Cuadros-Espinoza", "given": "Sebastian", "initials": "S"}, {"family": "Huang", "given": "Xin", "initials": "X", "orcid": "0000-0002-9918-9602", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/27a6d482c13b437a8ba45a652135aef7.json"}}, {"family": "de Manuel", "given": "Marc", "initials": "M"}, {"family": "van der Valk", "given": "Tom", "initials": "T"}, {"family": "Lobon", "given": "Irene", "initials": "I", "orcid": "0000-0003-1170-9915", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/0c162d3810c048afb25925af6ff5ea86.json"}}, {"family": "Alvarez-Estape", "given": "Marina", "initials": "M"}, {"family": "Haber", "given": "Marc", "initials": "M"}, {"family": "Dolgova", "given": "Olga", "initials": "O"}, {"family": "Han", "given": "Sojung", "initials": "S", "orcid": "0000-0002-6113-1042", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ec6576ca2d1a480e8e5aec022199bcb5.json"}}, {"family": "Esteller-Cucala", "given": "Paula", "initials": "P", "orcid": "0000-0003-3048-4280", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/610f0a88c36a4acd80c59acbca72cc8a.json"}}, {"family": "Juan", "given": "David", "initials": "D", "orcid": "0000-0003-1912-9667", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/027154f54530486eac69b942138bc07f.json"}}, {"family": "Ayub", "given": "Qasim", "initials": "Q", "orcid": "0000-0003-3291-0917", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/56fe9f679c2d442290a454dd4a38f92e.json"}}, {"family": "Bautista", "given": "Ruben", "initials": "R", "orcid": "0009-0007-0059-4178", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/cc84c095e1114b8aa8381712203baa80.json"}}, {"family": "Kelley", "given": "Joanna L", "initials": "JL", "orcid": "0000-0002-7731-605X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a2809ef2164f4fd2bb01ac7e65a13fe9.json"}}, {"family": "Cornejo", "given": "Omar E", "initials": "OE", "orcid": "0000-0003-4076-4227", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/2ed9d28368d84181a1d971b651a8f909.json"}}, {"family": "Lao", "given": "Oscar", "initials": "O"}, {"family": "Andr\u00e9s", "given": "Aida M", "initials": "AM"}, {"family": "Guschanski", "given": "Katerina", "initials": "K", "orcid": "0000-0002-8493-5457", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/4e062373c6bc46b98e56215d3ec89eeb.json"}}, {"family": "Ssebide", "given": "Benard", "initials": "B"}, {"family": "Cranfield", "given": "Mike", "initials": "M"}, {"family": "Tyler-Smith", "given": "Chris", "initials": "C"}, {"family": "Xue", "given": "Yali", "initials": "Y"}, {"family": "Prado-Martinez", "given": "Javier", "initials": "J"}, {"family": "Marques-Bonet", "given": "Tomas", "initials": "T", "orcid": "0000-0002-5597-3075", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/1091cb5bfe394d459969d24bb1c22c66.json"}}, {"family": "Kuhlwilm", "given": "Martin", "initials": "M", "orcid": "0000-0002-0115-1797", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/c21afe591ec14eeab27425b903e4db99.json"}}], "type": "journal article", "published": "2023-09-00", "journal": {"title": "Nat Ecol Evol", "issn": "2397-334X", "volume": "7", "issue": "9", "pages": "1503-1514", "issn-l": "2397-334X"}, "abstract": "Archaic admixture has had a substantial impact on human evolution with multiple events across different clades, including from extinct hominins such as Neanderthals and Denisovans into modern humans. In great apes, archaic admixture has been identified in chimpanzees and bonobos but the possibility of such events has not been explored in other species. Here, we address this question using high-coverage whole-genome sequences from all four extant gorilla subspecies, including six newly sequenced eastern gorillas from previously unsampled geographic regions. Using approximate Bayesian computation with neural networks to model the demographic history of gorillas, we find a signature of admixture from an archaic 'ghost' lineage into the common ancestor of eastern gorillas but not western gorillas. We infer that up to 3% of the genome of these individuals is introgressed from an archaic lineage that diverged more than 3 million years ago from the common ancestor of all extant gorillas. This introgression event took place before the split of mountain and eastern lowland gorillas, probably more than 40 thousand years ago and may have influenced perception of bitter taste in eastern gorillas. When comparing the introgression landscapes of gorillas, humans and bonobos, we find a consistent depletion of introgressed fragments on the X chromosome across these species. However, depletion in protein-coding content is not detectable in eastern gorillas, possibly as a consequence of stronger genetic drift in this species.", "doi": "10.1038/s41559-023-02145-2", "pmid": "37500909", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC10482688"}, {"db": "pii", "key": "10.1038/s41559-023-02145-2"}], "notes": [], "created": "2026-08-20T08:55:12.210Z", "modified": "2026-08-20T08:55:12.747Z"}, {"entity": "publication", "iuid": "05f038f754da4f4781f21a4937cf7db3", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/05f038f754da4f4781f21a4937cf7db3.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/05f038f754da4f4781f21a4937cf7db3"}}, "title": "Ghost admixture in eastern gorillas", "authors": [{"family": "Pawar", "given": "Harvinder", "initials": "H", "orcid": "0000-0002-3852-4999", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/1eab80604aac428f880af679461e32ac.json"}}, {"family": "Rymbekova", "given": "Aigerim", "initials": "A"}, {"family": "Cuadros", "given": "Sebastian", "initials": "S", "orcid": "0000-0002-6240-281X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a56b2cee5df84075abf3a87573937347.json"}}, {"family": "Huang", "given": "Xin", "initials": "X", "orcid": "0000-0002-9918-9602", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/27a6d482c13b437a8ba45a652135aef7.json"}}, {"family": "de Manuel", "given": "Marc", "initials": "M", "orcid": "0000-0002-1245-0127", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/32a9a768dceb47d682d91f91799b35fa.json"}}, {"family": "van der Valk", "given": "Tom", "initials": "T", "orcid": "0000-0001-6582-3452", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/aa0dba3cc12143cba213f7f3a052216c.json"}}, {"family": "Lobon", "given": "Irene", "initials": "I"}, {"family": "Alvarez-Estape", "given": "Marina", "initials": "M", "orcid": "0000-0001-8242-1092", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/92207dc6de3d4bfaa8614bcdb3738cfb.json"}}, {"family": "Haber", "given": "Marc", "initials": "M", "orcid": "0000-0003-1000-1448", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f33d7d7019084d4c9973df74a53b58da.json"}}, {"family": "Dolgova", "given": "Olga", "initials": "O", "orcid": "0000-0001-5231-9388", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/51a65f7fb8544946b506f69b37b414b0.json"}}, {"family": "Han", "given": "Sojung", "initials": "S", "orcid": "0000-0002-6113-1042", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ec6576ca2d1a480e8e5aec022199bcb5.json"}}, {"family": "Esteller-Cucala", "given": "Paula", "initials": "P", "orcid": "0000-0003-3048-4280", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/610f0a88c36a4acd80c59acbca72cc8a.json"}}, {"family": "Juan", "given": "David", "initials": "D", "orcid": "0000-0003-1912-9667", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/027154f54530486eac69b942138bc07f.json"}}, {"family": "Ayub", "given": "Qasim", "initials": "Q"}, {"family": "Bautista", "given": "Ruben", "initials": "R"}, {"family": "Kelley", "given": "Joanna L", "initials": "JL"}, {"family": "Cornejo", "given": "Omar E", "initials": "OE"}, {"family": "Lao", "given": "Oscar", "initials": "O", "orcid": "0000-0002-8525-9649", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f3a9334fa5dd44198f1cde45246d8480.json"}}, {"family": "Andr\u00e9s", "given": "Aida M", "initials": "AM", "orcid": "0000-0002-8590-9672", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/58f57f8eb741498a95bcb05b3c9c7dd6.json"}}, {"family": "Guschanski", "given": "Katerina", "initials": "K", "orcid": "0000-0002-8493-5457", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/4e062373c6bc46b98e56215d3ec89eeb.json"}}, {"family": "Ssebide", "given": "Benard", "initials": "B"}, {"family": "Cranfield", "given": "Mike", "initials": "M"}, {"family": "Tyler-Smith", "given": "Chris", "initials": "C", "orcid": "0000-0002-6492-5403", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d9c0139811de45f9bf0f31b69b31e846.json"}}, {"family": "Xue", "given": "Yali", "initials": "Y", "orcid": "0000-0002-4501-6909", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/367981d027d44ff9ba2c8ad927ca15e4.json"}}, {"family": "Prado-Martinez", "given": "Javier", "initials": "J", "orcid": "0000-0001-5402-2721", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/43966b07053e4841948de2d54d41b2f3.json"}}, {"family": "Marques-Bonet", "given": "Tomas", "initials": "T", "orcid": "0000-0002-5597-3075", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/1091cb5bfe394d459969d24bb1c22c66.json"}}, {"family": "Kuhlwilm", "given": "Martin", "initials": "M", "orcid": "0000-0002-0115-1797", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/c21afe591ec14eeab27425b903e4db99.json"}}], "type": "posted-content", "published": "2022-12-19", "journal": {"issn-l": null}, "abstract": null, "doi": "10.1101/2022.12.19.521012", "pmid": null, "labels": [], "xrefs": [], "notes": [], "created": "2026-08-20T10:43:03.727Z", "modified": "2026-08-20T10:43:04.442Z"}, {"entity": "publication", "iuid": "8c142158f5404cbdbaa3962fe7825832", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/8c142158f5404cbdbaa3962fe7825832.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/8c142158f5404cbdbaa3962fe7825832"}}, "title": "Host-derived population genomics data provides insights into bacterial and diatom composition of the killer whale skin.", "authors": [{"family": "Hooper", "given": "Rebecca", "initials": "R"}, {"family": "Brealey", "given": "Jaelle C", "initials": "JC", "orcid": "0000-0001-7068-2017", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/94980a28c68b44c8a2c709ac6a4c6dc7.json"}}, {"family": "van der Valk", "given": "Tom", "initials": "T", "orcid": "0000-0001-6582-3452", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/aa0dba3cc12143cba213f7f3a052216c.json"}}, {"family": "Alberdi", "given": "Antton", "initials": "A", "orcid": "0000-0002-2875-6446", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/7db6c63c5480449c8791411cffa3b2a5.json"}}, {"family": "Durban", "given": "John W", "initials": "JW"}, {"family": "Fearnbach", "given": "Holly", "initials": "H"}, {"family": "Robertson", "given": "Kelly M", "initials": "KM", "orcid": "0000-0002-0090-8604", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/dd34e649cf2148a382009e97594c4d9a.json"}}, {"family": "Baird", "given": "Robin W", "initials": "RW"}, {"family": "Bradley Hanson", "given": "M", "initials": "M"}, {"family": "Wade", "given": "Paul", "initials": "P"}, {"family": "Gilbert", "given": "M Thomas P", "initials": "MTP"}, {"family": "Morin", "given": "Phillip A", "initials": "PA", "orcid": "0000-0002-3279-1519", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/6068e888748e4995b6e7f2d39702c8b0.json"}}, {"family": "Wolf", "given": "Jochen B W", "initials": "JBW"}, {"family": "Foote", "given": "Andrew D", "initials": "AD", "orcid": "0000-0001-7384-1634", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d685d768b18a41b6ae4ece4569cb99b7.json"}}, {"family": "Guschanski", "given": "Katerina", "initials": "K", "orcid": "0000-0002-8493-5457", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/4e062373c6bc46b98e56215d3ec89eeb.json"}}], "type": "journal article", "published": "2019-01-00", "journal": {"title": "Mol. Ecol.", "issn": "1365-294X", "volume": "28", "issue": "2", "pages": "484-502", "issn-l": "0962-1083"}, "abstract": "Recent exploration into the interactions and relationship between hosts and their microbiota has revealed a connection between many aspects of the host's biology, health and associated micro-organisms. Whereas amplicon sequencing has traditionally been used to characterize the microbiome, the increasing number of published population genomics data sets offers an underexploited opportunity to study microbial profiles from the host shotgun sequencing data. Here, we use sequence data originally generated from killer whale Orcinus orca skin biopsies for population genomics, to characterize the skin microbiome and investigate how host social and geographical factors influence the microbial community composition. Having identified 845 microbial taxa from 2.4 million reads that did not map to the killer whale reference genome, we found that both ecotypic and geographical factors influence community composition of killer whale skin microbiomes. Furthermore, we uncovered key taxa that drive the microbiome community composition and showed that they are embedded in unique networks, one of which is tentatively linked to diatom presence and poor skin condition. Community composition differed between Antarctic killer whales with and without diatom coverage, suggesting that the previously reported episodic migrations of Antarctic killer whales to warmer waters associated with skin turnover may control the effects of potentially pathogenic bacteria such as Tenacibaculum dicentrarchi. Our work demonstrates the feasibility of microbiome studies from host shotgun sequencing data and highlights the importance of metagenomics in understanding the relationship between host and microbial ecology.", "doi": "10.1111/mec.14860", "pmid": "30187987", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC6487819"}, {"db": "GENBANK", "key": "ERS554424"}, {"db": "GENBANK", "key": "ERS554471"}, {"db": "GENBANK", "key": "ANOL00000000.2"}], "notes": [], "created": "2026-08-20T11:18:52.996Z", "modified": "2026-08-20T11:18:53.273Z"}]}