{"entity": "researcher", "timestamp": "2026-09-23T14:43:05.919Z", "family": "Ellegren", "given": "Hans", "initials": "H", "orcid": "0000-0002-5035-1736", "affiliations": ["Department of Evolutionary Biology, Evolutionary Biology Centre, Uppsala University, Norbyv\u00e4gen 18D, SE-752 36, Uppsala, Sweden. Hans.Ellegren@ebc.uu.se."], "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/researcher/f93e2a7be9704a38ba01e49e1b8e8a56.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/researcher/f93e2a7be9704a38ba01e49e1b8e8a56"}}, "publications": [{"entity": "publication", "iuid": "d3422f6e54e6432cbf243b24e84c9dfc", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/d3422f6e54e6432cbf243b24e84c9dfc.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/d3422f6e54e6432cbf243b24e84c9dfc"}}, "title": "Genomic consequences of intensive inbreeding in an isolated wolf population.", "authors": [{"family": "Kardos", "given": "Marty", "initials": "M"}, {"family": "\u00c5kesson", "given": "Mikael", "initials": "M"}, {"family": "Fountain", "given": "Toby", "initials": "T", "orcid": "0000-0002-5501-4691", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/04983953319943509b58227ef13c3efa.json"}}, {"family": "Flagstad", "given": "\u00d8ystein", "initials": "\u00d8"}, {"family": "Liberg", "given": "Olof", "initials": "O"}, {"family": "Olason", "given": "Pall", "initials": "P"}, {"family": "Sand", "given": "H\u00e5kan", "initials": "H"}, {"family": "Wabakken", "given": "Petter", "initials": "P"}, {"family": "Wikenros", "given": "Camilla", "initials": "C", "orcid": "0000-0002-2825-8834", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/b20ca05390d2415b9e486c93aab908f4.json"}}, {"family": "Ellegren", "given": "Hans", "initials": "H", "orcid": "0000-0002-5035-1736", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f93e2a7be9704a38ba01e49e1b8e8a56.json"}}], "type": "journal article", "published": "2018-01-00", "journal": {"title": "Nat Ecol Evol", "issn": "2397-334X", "volume": "2", "issue": "1", "pages": "124-131", "issn-l": "2397-334X"}, "abstract": "Inbreeding (mating between relatives) is a major concern for conservation as it decreases individual fitness and can increase the risk of population extinction. We used whole-genome resequencing of 97 grey wolves (Canis lupus) from the highly inbred Scandinavian wolf population to identify 'identical-by-descent' (IBD) chromosome segments as runs of homozygosity (ROH). This gave the high resolution required to precisely measure realized inbreeding as the IBD fraction of the genome in ROH (F ROH). We found a striking pattern of complete or near-complete homozygosity of entire chromosomes in many individuals. The majority of individual inbreeding was due to long IBD segments (>5 cM) originating from ancestors \u226410 generations ago, with 10 genomic regions showing very few ROH and forming candidate regions for containing loci contributing strongly to inbreeding depression. Inbreeding estimated with an extensive pedigree (F P) was strongly correlated with realized inbreeding measured with the entire genome (r 2 = 0.86). However, inbreeding measured with the whole genome was more strongly correlated with multi-locus heterozygosity estimated with as few as 500 single nucleotide polymorphisms, and with F ROH estimated with as few as 10,000 single nucleotide polymorphisms, than with F P. These results document in fine detail the genomic consequences of intensive inbreeding in a population of conservation concern.", "doi": "10.1038/s41559-017-0375-4", "pmid": "29158554", "labels": [], "xrefs": [{"db": "pii", "key": "10.1038/s41559-017-0375-4"}], "notes": [], "created": "2018-12-05T11:35:25.985Z", "modified": "2026-09-23T06:38:04.726Z"}, {"entity": "publication", "iuid": "c342a446ad91426884ec9609899722c1", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/c342a446ad91426884ec9609899722c1.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/c342a446ad91426884ec9609899722c1"}}, "title": "Genomewide patterns of variation in genetic diversity are shared among populations, species and higher-order taxa.", "authors": [{"family": "Vijay", "given": "Nagarjun", "initials": "N", "orcid": "0000-0003-3955-3369", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ed1ce78266fe4f6489f9fb88969eb18b.json"}}, {"family": "Weissensteiner", "given": "Matthias", "initials": "M"}, {"family": "Burri", "given": "Reto", "initials": "R", "orcid": "0000-0002-1813-0079", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/b8b109ad7c724c3f9db1732c2f93b175.json"}}, {"family": "Kawakami", "given": "Takeshi", "initials": "T"}, {"family": "Ellegren", "given": "Hans", "initials": "H", "orcid": "0000-0002-5035-1736", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f93e2a7be9704a38ba01e49e1b8e8a56.json"}}, {"family": "Wolf", "given": "Jochen B W", "initials": "JBW"}], "type": "journal article", "published": "2017-08-00", "journal": {"title": "Mol. Ecol.", "issn": "1365-294X", "volume": "26", "issue": "16", "pages": "4284-4295", "issn-l": "0962-1083"}, "abstract": "Genomewide screens of genetic variation within and between populations can reveal signatures of selection implicated in adaptation and speciation. Genomic regions with low genetic diversity and elevated differentiation reflective of locally reduced effective population sizes (Ne ) are candidates for barrier loci contributing to population divergence. Yet, such candidate genomic regions need not arise as a result of selection promoting adaptation or advancing reproductive isolation. Linked selection unrelated to lineage-specific adaptation or population divergence can generate comparable signatures. It is challenging to distinguish between these processes, particularly when diverging populations share ancestral genetic variation. In this study, we took a comparative approach using population assemblages from distant clades assessing genomic parallelism of variation in Ne . Utilizing population-level polymorphism data from 444 resequenced genomes of three avian clades spanning 50 million years of evolution, we tested whether population genetic summary statistics reflecting genomewide variation in Ne would covary among populations within clades, and importantly, also among clades where lineage sorting has been completed. All statistics including population-scaled recombination rate (\u03c1), nucleotide diversity (\u03c0) and measures of genetic differentiation between populations (FST , PBS, dxy ) were significantly correlated across all phylogenetic distances. Moreover, genomic regions with elevated levels of genetic differentiation were associated with inferred pericentromeric and subtelomeric regions. The phylogenetic stability of diversity landscapes and stable association with genomic features support a role of linked selection not necessarily associated with adaptation and speciation in shaping patterns of genomewide heterogeneity in genetic diversity.", "doi": "10.1111/mec.14195", "pmid": "28570015", "labels": [], "xrefs": [{"db": "GENBANK", "key": "GCA_000247815"}, {"db": "GENBANK", "key": "GCA_000738735"}, {"db": "GENBANK", "key": "GCA_000277835"}], "notes": [], "created": "2018-12-05T11:25:37.752Z", "modified": "2026-09-23T07:44:48.037Z"}]}