{"entity": "researcher", "timestamp": "2026-07-13T10:11:16.089Z", "family": "Milesi", "given": "Pascal", "initials": "P", "orcid": "0000-0001-8580-4291", "affiliations": ["Program in Plant Ecology and Evolution, Department of Ecology and Genetics, Evolutionary Biology Centre, Uppsala University, Norbyv\u00e4gen 18D, 752 36, Uppsala, Sweden.", "Science For Life Laboratory (SciLifeLab), 752 37, Uppsala, Sweden."], "links": {"self": {"href": "https://publications.scilifelab.se/researcher/1f59e048cc6a4159a1829885b370d978.json"}, "display": {"href": "https://publications.scilifelab.se/researcher/1f59e048cc6a4159a1829885b370d978"}}, "publications": [{"entity": "publication", "iuid": "109d08b7139947779a648f3aea19ed7a", "links": {"self": {"href": "https://publications.scilifelab.se/publication/109d08b7139947779a648f3aea19ed7a.json"}, "display": {"href": "https://publications.scilifelab.se/publication/109d08b7139947779a648f3aea19ed7a"}}, "title": "Genetic structure and diversity of the declining orchid Gymnadenia conopsea in Scandinavia: implications for conservation and management", "authors": [{"family": "S\u00f6derquist", "given": "Linus", "initials": "L", "orcid": "0000-0002-9894-4119", "researcher": {"href": "https://publications.scilifelab.se/researcher/6a0c370d6402423284ea40a2f51179ae.json"}}, {"family": "Joffard", "given": "Nina", "initials": "N", "orcid": "0000-0003-3712-6080", "researcher": {"href": "https://publications.scilifelab.se/researcher/fae9d351d1d14a129908a73c37ff5728.json"}}, {"family": "Scofield", "given": "Douglas G", "initials": "DG", "orcid": "0000-0001-5235-6461", "researcher": {"href": "https://publications.scilifelab.se/researcher/62a8063a48a446a7947d55f9900894a6.json"}}, {"family": "Milesi", "given": "Pascal", "initials": "P", "orcid": "0000-0001-8580-4291", "researcher": {"href": "https://publications.scilifelab.se/researcher/1f59e048cc6a4159a1829885b370d978.json"}}, {"family": "Karrenberg", "given": "Sophie", "initials": "S", "orcid": "0000-0002-7146-588X", "researcher": {"href": "https://publications.scilifelab.se/researcher/3a982636b44f4b93b7ec0bd64e5d6bfb.json"}}, {"family": "Sletvold", "given": "Nina", "initials": "N", "orcid": "0000-0002-9868-3449", "researcher": {"href": "https://publications.scilifelab.se/researcher/e342483c6e3f44c29453f9bc5ce5bb05.json"}}], "type": "journal-article", "published": "2025-07-00", "journal": {"title": "Ecography", "issn": "0906-7590", "volume": "2025", "issue": "7", "issn-l": null}, "abstract": null, "doi": "10.1111/ecog.07628", "pmid": null, "labels": {"NGI SNP genotyping": "Service", "NGI Uppsala (SNP&SEQ Technology Platform)": "Service", "National Genomics Infrastructure": "Service", "Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [], "notes": [], "created": "2025-09-08T11:33:58.539Z", "modified": "2025-11-28T10:51:06.434Z"}, {"entity": "publication", "iuid": "ff4c4a6fe0524e3bb928418664c5a917", "links": {"self": {"href": "https://publications.scilifelab.se/publication/ff4c4a6fe0524e3bb928418664c5a917.json"}, "display": {"href": "https://publications.scilifelab.se/publication/ff4c4a6fe0524e3bb928418664c5a917"}}, "title": "Resilience of genetic diversity in forest trees over the Quaternary.", "authors": [{"family": "Milesi", "given": "Pascal", "initials": "P", "orcid": "0000-0001-8580-4291", "researcher": {"href": "https://publications.scilifelab.se/researcher/1f59e048cc6a4159a1829885b370d978.json"}}, {"family": "Kastally", "given": "Chedly", "initials": "C", "orcid": "0000-0002-1820-4752", "researcher": {"href": "https://publications.scilifelab.se/researcher/5d98c61ddd95447186180256d00410bd.json"}}, {"family": "Dauphin", "given": "Benjamin", "initials": "B", "orcid": "0000-0003-0982-4252", "researcher": {"href": "https://publications.scilifelab.se/researcher/8378e4ef12e34498b4f355a5ebcc0f0e.json"}}, {"family": "Cervantes", "given": "Sandra", "initials": "S", "orcid": "0000-0003-0793-5784", "researcher": {"href": "https://publications.scilifelab.se/researcher/9de980d11e35480e90f301e14b2e69df.json"}}, {"family": "Bagnoli", "given": "Francesca", "initials": "F", "orcid": "0000-0001-6909-0006", "researcher": {"href": "https://publications.scilifelab.se/researcher/cc651aee75cf4447a747f642037e813d.json"}}, {"family": "Budde", "given": "Katharina B", "initials": "KB"}, {"family": "Cavers", "given": "Stephen", "initials": "S", "orcid": "0000-0003-2139-9236", "researcher": {"href": "https://publications.scilifelab.se/researcher/2ab207ecaffd4f528dc5b4376ecc1c14.json"}}, {"family": "Fady", "given": "Bruno", "initials": "B"}, {"family": "Faivre-Rampant", "given": "Patricia", "initials": "P", "orcid": "0000-0003-0777-6621", "researcher": {"href": "https://publications.scilifelab.se/researcher/a1ebde17a7204461b9c65dbb6b0fff56.json"}}, {"family": "Gonz\u00e1lez-Mart\u00ednez", "given": "Santiago C", "initials": "SC", "orcid": "0000-0002-4534-3766", "researcher": {"href": "https://publications.scilifelab.se/researcher/f6337448ae7f457fb17f11dabf6e48be.json"}}, {"family": "Grivet", "given": "Delphine", "initials": "D", "orcid": "0000-0001-8168-4456", "researcher": {"href": "https://publications.scilifelab.se/researcher/655a75d7756f41099d9fcbcb17fdb512.json"}}, {"family": "Gugerli", "given": "Felix", "initials": "F", "orcid": "0000-0003-3878-1845", "researcher": {"href": "https://publications.scilifelab.se/researcher/027bd6add3a340c6aaf002c02f464095.json"}}, {"family": "Jorge", "given": "V\u00e9ronique", "initials": "V", "orcid": "0000-0002-5016-3006", "researcher": {"href": "https://publications.scilifelab.se/researcher/34dd9cdd219940fcaf811cc98730e8e6.json"}}, {"family": "Lesur Kupin", "given": "Isabelle", "initials": "I"}, {"family": "Ojeda", "given": "Dario I", "initials": "DI"}, {"family": "Olsson", "given": "Sanna", "initials": "S", "orcid": "0000-0002-1199-4499", "researcher": {"href": "https://publications.scilifelab.se/researcher/a5a60a1a580d4634a6ca32dd1d4ba101.json"}}, {"family": "Opgenoorth", "given": "Lars", "initials": "L", "orcid": "0000-0003-0737-047X", "researcher": {"href": "https://publications.scilifelab.se/researcher/6b5ea2081d1341babd837bcfb8a4fd27.json"}}, {"family": "Pinosio", "given": "Sara", "initials": "S", "orcid": "0000-0002-1820-3637", "researcher": {"href": "https://publications.scilifelab.se/researcher/c691c7bb0181439ca1384d27061b59d9.json"}}, {"family": "Plomion", "given": "Christophe", "initials": "C"}, {"family": "Rellstab", "given": "Christian", "initials": "C", "orcid": "0000-0002-0221-5975", "researcher": {"href": "https://publications.scilifelab.se/researcher/d777277731b146da897676fb82ea4d7f.json"}}, {"family": "Rogier", "given": "Odile", "initials": "O", "orcid": "0000-0001-6879-364X", "researcher": {"href": "https://publications.scilifelab.se/researcher/0d3148f27d7f4510a143eaf9eb3ceb1e.json"}}, {"family": "Scalabrin", "given": "Simone", "initials": "S", "orcid": "0000-0001-8686-8385", "researcher": {"href": "https://publications.scilifelab.se/researcher/06cae7b93e7e48c187df2bb95fd3031f.json"}}, {"family": "Scotti", "given": "Ivan", "initials": "I"}, {"family": "Vendramin", "given": "Giovanni G", "initials": "GG", "orcid": "0000-0001-9921-7872", "researcher": {"href": "https://publications.scilifelab.se/researcher/e70f1198e7b4482fabb1a5167eab3c0f.json"}}, {"family": "Westergren", "given": "Marjana", "initials": "M", "orcid": "0000-0002-4204-0161", "researcher": {"href": "https://publications.scilifelab.se/researcher/d082e25234e7480382aa7c068f65ed49.json"}}, {"family": "Lascoux", "given": "Martin", "initials": "M", "orcid": "0000-0003-1699-9042", "researcher": {"href": "https://publications.scilifelab.se/researcher/4ad3fadfb69448f397ad3bf55b2d2cb3.json"}}, {"family": "Pyh\u00e4j\u00e4rvi", "given": "Tanja", "initials": "T", "orcid": "0000-0001-6958-5172", "researcher": {"href": "https://publications.scilifelab.se/researcher/87ba3d35a88442848f22835c85fadbce.json"}}, {"family": "GenTree Consortium", "given": "", "initials": ""}], "type": "journal article", "published": "2024-10-14", "journal": {"title": "Nat Commun", "issn": "2041-1723", "volume": "15", "issue": "1", "pages": "8538", "issn-l": "2041-1723"}, "abstract": "The effect of past environmental changes on the demography and genetic diversity of natural populations remains a contentious issue and has rarely been investigated across multiple, phylogenetically distant species. Here, we perform comparative population genomic analyses and demographic inferences for seven widely distributed and ecologically contrasting European forest tree species based on concerted sampling of 164 populations across their natural ranges. For all seven species, the effective population size, Ne, increased or remained stable over many glacial cycles and up to 15 million years in the most extreme cases. Surprisingly, the drastic environmental changes associated with the Pleistocene glacial cycles have had little impact on the level of genetic diversity of dominant forest tree species, despite major shifts in their geographic ranges. Based on their trajectories of Ne over time, the seven tree species can be divided into three major groups, highlighting the importance of life history and range size in determining synchronous variation in genetic diversity over time. Altogether, our results indicate that forest trees have been able to retain their evolutionary potential over very long periods of time despite strong environmental changes.", "doi": "10.1038/s41467-024-52612-y", "pmid": "39402024", "labels": {"Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC11473659"}, {"db": "pii", "key": "10.1038/s41467-024-52612-y"}], "notes": [], "created": "2024-11-25T10:18:08.923Z", "modified": "2024-11-25T10:18:09.656Z"}, {"entity": "publication", "iuid": "73903819e7d04c8080b1d59bc8404916", "links": {"self": {"href": "https://publications.scilifelab.se/publication/73903819e7d04c8080b1d59bc8404916.json"}, "display": {"href": "https://publications.scilifelab.se/publication/73903819e7d04c8080b1d59bc8404916"}}, "title": "How broad is the selfing syndrome? Insights from convergent evolution of gene expression across species and tissues in the Capsella genus.", "authors": [{"family": "Zhang", "given": "Zebin", "initials": "Z", "orcid": "0000-0002-9828-4245", "researcher": {"href": "https://publications.scilifelab.se/researcher/5ff9ac7ea672401eafa52c91fd57173d.json"}}, {"family": "Kryvokhyzha", "given": "Dmytro", "initials": "D", "orcid": "0000-0001-6498-1977", "researcher": {"href": "https://publications.scilifelab.se/researcher/a3ca1c441506436282871ecd40f7be35.json"}}, {"family": "Orsucci", "given": "Marion", "initials": "M", "orcid": "0000-0001-8516-1361", "researcher": {"href": "https://publications.scilifelab.se/researcher/386ae7a5a09640ff850a8bc62a31202c.json"}}, {"family": "Gl\u00e9min", "given": "Sylvain", "initials": "S", "orcid": "0000-0001-7260-4573", "researcher": {"href": "https://publications.scilifelab.se/researcher/0ce5a8d7ac9a490eb2e261aeb75088d4.json"}}, {"family": "Milesi", "given": "Pascal", "initials": "P", "orcid": "0000-0001-8580-4291", "researcher": {"href": "https://publications.scilifelab.se/researcher/1f59e048cc6a4159a1829885b370d978.json"}}, {"family": "Lascoux", "given": "Martin", "initials": "M", "orcid": "0000-0003-1699-9042", "researcher": {"href": "https://publications.scilifelab.se/researcher/4ad3fadfb69448f397ad3bf55b2d2cb3.json"}}], "type": "journal article", "published": "2022-09-12", "journal": {"title": "New Phytol.", "issn": "1469-8137", "issn-l": "0028-646X"}, "abstract": "The shift from outcrossing to selfing is one of the main evolutionary transitions in plants. It is accompanied by profound effects on reproductive traits, the so-called selfing syndrome. Because the transition to selfing also implies deep genomic and ecological changes, one also expects to observe a genomic selfing syndrome. We took advantage of the three independent transitions from outcrossing to selfing in the Capsella genus to characterize the overall impact of mating system change on RNA expression, in flowers but also in leaves and roots. We quantified the extent of both selfing and genomic syndromes, and tested whether changes in expression corresponded to adaptation to selfing or to relaxed selection on traits that were constrained in outcrossers. Mating system change affected gene expression in all three tissues but more so in flowers than in roots and leaves. Gene expression in selfing species tended to converge in flowers but diverged in the two other tissues. Hence, convergent adaptation to selfing dominates in flowers, whereas genetic drift plays a more important role in leaves and roots. The effect of mating system transition is not limited to reproductive tissues and corresponds to both adaptation to selfing and relaxed selection on previously constrained traits.", "doi": "10.1111/nph.18477", "pmid": "36089898", "labels": {"Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [], "notes": [], "created": "2022-11-09T15:46:32.614Z", "modified": "2024-01-16T13:48:35.027Z"}]}