{"entity": "researcher", "timestamp": "2026-08-22T07:47:40.562Z", "family": "Illera", "given": "Juan Carlos", "initials": "JC", "orcid": "0000-0002-4389-0264", "affiliations": ["Biodiversity Research Institute (CSIC-Oviedo University-Principality of Asturias), University of Oviedo, Mieres, Asturias, Spain."], "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/researcher/9dadcede258f433483701fcd5ebc7c6b.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/researcher/9dadcede258f433483701fcd5ebc7c6b"}}, "publications": [{"entity": "publication", "iuid": "4ca8adcd1e74431689252dad191b9a08", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/4ca8adcd1e74431689252dad191b9a08.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/4ca8adcd1e74431689252dad191b9a08"}}, "title": "Runs of homozygosity reveal past bottlenecks and contemporary inbreeding across diverging populations of an island-colonizing bird.", "authors": [{"family": "Martin", "given": "Claudia A", "initials": "CA", "orcid": "0000-0003-2645-0790", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5014f78c68c842009b18574916dfbc80.json"}}, {"family": "Sheppard", "given": "Eleanor C", "initials": "EC", "orcid": "0000-0002-4986-7268", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e5ac97c522594d7fb550d444dd5d0a08.json"}}, {"family": "Illera", "given": "Juan Carlos", "initials": "JC", "orcid": "0000-0002-4389-0264", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/9dadcede258f433483701fcd5ebc7c6b.json"}}, {"family": "Suh", "given": "Alexander", "initials": "A", "orcid": "0000-0002-8979-9992", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e1790a31477c4376957d8c328299db1c.json"}}, {"family": "Nadachowska-Brzyska", "given": "Krystyna", "initials": "K", "orcid": "0000-0002-8457-310X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/298ac5dba22c4e4bb0c57fbd29ac4486.json"}}, {"family": "Spurgin", "given": "Lewis G", "initials": "LG", "orcid": "0000-0002-0874-9281", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/1f82c5e254f54da593ec900e951b582a.json"}}, {"family": "Richardson", "given": "David S", "initials": "DS", "orcid": "0000-0001-7226-9074", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/b6db737a94aa4af7a8916dc31e3e41ad.json"}}], "type": "journal article", "published": "2023-04-00", "journal": {"title": "Mol. Ecol.", "issn": "1365-294X", "volume": "32", "issue": "8", "pages": "1972-1989", "issn-l": "0962-1083"}, "abstract": "Genomes retain evidence of the demographic history and evolutionary forces that have shaped populations and drive speciation. Across island systems, contemporary patterns of genetic diversity reflect population demography, including colonization events, bottlenecks, gene flow and genetic drift. Here, we investigate genome-wide diversity and the distribution of runs of homozygosity (ROH) using whole-genome resequencing of individuals (>22\u00d7 coverage) from six populations across three archipelagos of Berthelot's pipit (Anthus berthelotii)-a passerine that has recently undergone island speciation. We show the most dramatic reduction in diversity occurs between the mainland sister species (the tawny pipit) and Berthelot's pipit and is lowest in the populations that have experienced sequential bottlenecks (i.e., the Madeiran and Selvagens populations). Pairwise sequential Markovian coalescent (PSMC) analyses estimated that Berthelot's pipit diverged from its sister species ~2 million years ago, with the Madeiran archipelago founded 50,000 years ago, and the Selvagens colonized 8000 years ago. We identify many long ROH (>1 Mb) in these most recently colonized populations. Population expansion within the last 100 years may have eroded long ROH in the Madeiran archipelago, resulting in a prevalence of short ROH (<1 Mb). However, the extensive long and short ROH detected in the Selvagens suggest strong recent inbreeding and bottleneck effects, with as much as 38% of the autosomes consisting of ROH >250 kb. These findings highlight the importance of demographic history, as well as selection and genetic drift, in shaping contemporary patterns of genomic diversity across diverging populations.", "doi": "10.1111/mec.16865", "pmid": "36704917", "labels": [], "xrefs": [{"db": "Dryad", "key": "10.5061/dryad.ksn02v75k"}], "notes": [], "created": "2026-08-21T12:20:53.470Z", "modified": "2026-08-21T12:20:53.612Z"}, {"entity": "publication", "iuid": "554bc59687614e93a67778aaa203718a", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/554bc59687614e93a67778aaa203718a.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/554bc59687614e93a67778aaa203718a"}}, "title": "Genomic associations with poxvirus across divergent island populations in Berthelot's pipit.", "authors": [{"family": "Sheppard", "given": "Eleanor C", "initials": "EC", "orcid": "0000-0002-4986-7268", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e5ac97c522594d7fb550d444dd5d0a08.json"}}, {"family": "Martin", "given": "Claudia A", "initials": "CA", "orcid": "0000-0003-2645-0790", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5014f78c68c842009b18574916dfbc80.json"}}, {"family": "Armstrong", "given": "Claire", "initials": "C", "orcid": "0000-0003-3874-4243", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/346175dc1a114e308a55d17ae48ff36a.json"}}, {"family": "Gonz\u00e1lez-Quevedo", "given": "Catalina", "initials": "C", "orcid": "0000-0003-0256-6721", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/de0c3e349746483c9e2b2e7b974de947.json"}}, {"family": "Illera", "given": "Juan Carlos", "initials": "JC", "orcid": "0000-0002-4389-0264", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/9dadcede258f433483701fcd5ebc7c6b.json"}}, {"family": "Suh", "given": "Alexander", "initials": "A", "orcid": "0000-0002-8979-9992", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e1790a31477c4376957d8c328299db1c.json"}}, {"family": "Spurgin", "given": "Lewis G", "initials": "LG", "orcid": "0000-0002-0874-9281", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/1f82c5e254f54da593ec900e951b582a.json"}}, {"family": "Richardson", "given": "David S", "initials": "DS", "orcid": "0000-0001-7226-9074", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/b6db737a94aa4af7a8916dc31e3e41ad.json"}}], "type": "journal article", "published": "2022-06-00", "journal": {"title": "Mol. Ecol.", "issn": "1365-294X", "volume": "31", "issue": "11", "pages": "3154-3173", "issn-l": "0962-1083"}, "abstract": "Understanding the mechanisms and genes that enable animal populations to adapt to pathogens is important from an evolutionary, health and conservation perspective. Berthelot's pipit (Anthus berthelotii) experiences extensive and consistent spatial heterogeneity in avian pox infection pressure across its range of island populations, thus providing an excellent system with which to examine how pathogen-mediated selection drives spatial variation in immunogenetic diversity. Here, we test for evidence of genetic variation associated with avian pox at both an individual and population-level. At the individual level, we find no evidence that variation in MHC class I and TLR4 (both known to be important in recognising viral infection) was associated with pox infection within two separate populations. However, using genotype-environment association (Bayenv) in conjunction with genome-wide (ddRAD-seq) data, we detected strong associations between population-level avian pox prevalence and allele frequencies of single nucleotide polymorphisms (SNPs) at a number of sites across the genome. These sites were located within genes involved in cellular stress signalling and immune responses, many of which have previously been associated with responses to viral infection in humans and other animals. Consequently, our analyses indicate that pathogen-mediated selection may play a role in shaping genomic variation among relatively recently colonised island bird populations and highlight the utility of genotype-environment associations for identifying candidate genes potentially involved in host-pathogen interactions.", "doi": "10.1111/mec.16461", "pmid": "35395699", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC9321574"}, {"db": "Dryad", "key": "10.5061/dryad.6t1g1jx0r"}], "notes": [], "created": "2026-08-21T12:20:47.020Z", "modified": "2026-08-21T12:20:47.313Z"}]}