{"entity": "researcher", "timestamp": "2026-07-13T03:45:14.243Z", "family": "\u00d6hrman", "given": "Caroline", "initials": "C", "orcid": "0000-0001-8489-757X", "affiliations": ["Division of CBRN Security and Defence, FOI-Swedish Defence Research Agency, Ume\u00e5, Sweden."], "links": {"self": {"href": "https://publications.scilifelab.se/researcher/804b654aa0be4d7a9ecdf113487fe443.json"}, "display": {"href": "https://publications.scilifelab.se/researcher/804b654aa0be4d7a9ecdf113487fe443"}}, "publications": [{"entity": "publication", "iuid": "c9468bade168413f9365ee51ab1da260", "links": {"self": {"href": "https://publications.scilifelab.se/publication/c9468bade168413f9365ee51ab1da260.json"}, "display": {"href": "https://publications.scilifelab.se/publication/c9468bade168413f9365ee51ab1da260"}}, "title": "Completed genome and emergence scenario of the multidrug-resistant nosocomial pathogen Staphylococcus epidermidis ST215.", "authors": [{"family": "Kellgren", "given": "Therese", "initials": "T", "orcid": "0000-0002-4911-7037", "researcher": {"href": "https://publications.scilifelab.se/researcher/52c7a5a8c5024d5186f1a4d7385778e2.json"}}, {"family": "Dwibedi", "given": "Chinmay", "initials": "C", "orcid": "0000-0001-6416-4440", "researcher": {"href": "https://publications.scilifelab.se/researcher/a0b0dbf807be449da1856c0c018f13a3.json"}}, {"family": "Widerstr\u00f6m", "given": "Micael", "initials": "M", "orcid": "0000-0002-1483-4255", "researcher": {"href": "https://publications.scilifelab.se/researcher/563f129fdb4e468395de5df2a7e80ee4.json"}}, {"family": "Sundell", "given": "David", "initials": "D", "orcid": "0000-0002-6269-0217", "researcher": {"href": "https://publications.scilifelab.se/researcher/084bd7876637499b929007562d5ac03a.json"}}, {"family": "\u00d6hrman", "given": "Caroline", "initials": "C", "orcid": "0000-0003-0516-7523", "researcher": {"href": "https://publications.scilifelab.se/researcher/a347bde191ef42a98a8aaba829adb553.json"}}, {"family": "Sj\u00f6din", "given": "Andreas", "initials": "A", "orcid": "0000-0001-5350-4219", "researcher": {"href": "https://publications.scilifelab.se/researcher/6398d7c06a414ea6bcaf2579a8587452.json"}}, {"family": "Monsen", "given": "Tor", "initials": "T", "orcid": "0000-0001-8489-757X", "researcher": {"href": "https://publications.scilifelab.se/researcher/804b654aa0be4d7a9ecdf113487fe443.json"}}, {"family": "Ryd\u00e9n", "given": "Patrik", "initials": "P", "orcid": "0000-0002-0577-123X", "researcher": {"href": "https://publications.scilifelab.se/researcher/65e733a3351940749605f054834eebef.json"}}, {"family": "Johansson", "given": "Anders", "initials": "A", "orcid": "0000-0003-0548-5943", "researcher": {"href": "https://publications.scilifelab.se/researcher/e4cd5b852fab4d5da3231939f060e3f5.json"}}], "type": "journal article", "published": "2024-06-19", "journal": {"title": "BMC Microbiol.", "issn": "1471-2180", "volume": "24", "issue": "1", "pages": "215", "issn-l": "1471-2180"}, "abstract": "A multidrug-resistant lineage of Staphylococcus epidermidis named ST215 is a common cause of prosthetic joint infections and other deep surgical site infections in Northern Europe, but is not present elsewhere. The increasing resistance among S. epidermidis strains is a global concern. We used whole-genome sequencing to characterize ST215 from healthcare settings.\n\nWe completed the genome of a ST215 isolate from a Swedish hospital using short and long reads, resulting in a circular 2,676,787 bp chromosome and a 2,326 bp plasmid. The new ST215 genome was placed in phylogenetic context using 1,361 finished public S. epidermidis reference genomes. We generated 10 additional short-read ST215 genomes and 11 short-read genomes of ST2, which is another common multidrug-resistant lineage at the same hospital. We studied recombination's role in the evolution of ST2 and ST215, and found multiple recombination events averaging 30-50 kb. By comparing the results of antimicrobial susceptibility testing for 31 antimicrobial drugs with the genome content encoding antimicrobial resistance in the ST215 and ST2 isolates, we found highly similar resistance traits between the isolates, with 22 resistance genes being shared between all the ST215 and ST2 genomes. The ST215 genome contained 29 genes that were historically identified as virulence genes of S. epidermidis ST2. We established that in the nucleotide sequence stretches identified as recombination events, virulence genes were overrepresented in ST215, while antibiotic resistance genes were overrepresented in ST2.\n\nThis study features the extensive antibiotic resistance and virulence gene content in ST215 genomes. ST215 and ST2 lineages have similarly evolved, acquiring resistance and virulence through genomic recombination. The results highlight the threat of new multidrug-resistant S. epidermidis lineages emerging in healthcare settings.", "doi": "10.1186/s12866-024-03367-5", "pmid": "38890594", "labels": {"NGI Short read": "Service", "NGI Uppsala (SNP&SEQ Technology Platform)": "Service", "National Genomics Infrastructure": "Service", "Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC11186124"}, {"db": "pii", "key": "10.1186/s12866-024-03367-5"}], "notes": [], "created": "2024-06-28T06:39:22.789Z", "modified": "2024-11-25T10:30:17.631Z"}, {"entity": "publication", "iuid": "6ac7c7975ef94079a12757f6846f20a6", "links": {"self": {"href": "https://publications.scilifelab.se/publication/6ac7c7975ef94079a12757f6846f20a6.json"}, "display": {"href": "https://publications.scilifelab.se/publication/6ac7c7975ef94079a12757f6846f20a6"}}, "title": "Co-Occurrence of Francisella, Spotted Fever Group Rickettsia, and Midichloria in Avian-Associated Hyalomma rufipes", "authors": [{"family": "Hoffman", "given": "Tove", "initials": "T", "orcid": "0000-0003-2239-9078", "researcher": {"href": "https://publications.scilifelab.se/researcher/b8baafa073c34cfcbdfb513392373b3f.json"}}, {"family": "Sj\u00f6din", "given": "Andreas", "initials": "A", "orcid": "0000-0001-5350-4219", "researcher": {"href": "https://publications.scilifelab.se/researcher/6398d7c06a414ea6bcaf2579a8587452.json"}}, {"family": "\u00d6hrman", "given": "Caroline", "initials": "C", "orcid": "0000-0001-8489-757X", "researcher": {"href": "https://publications.scilifelab.se/researcher/804b654aa0be4d7a9ecdf113487fe443.json"}}, {"family": "Karlsson", "given": "Linda", "initials": "L"}, {"family": "McDonough", "given": "Ryelan Francis", "initials": "RF"}, {"family": "Sahl", "given": "Jason W", "initials": "JW"}, {"family": "Birdsell", "given": "Dawn", "initials": "D"}, {"family": "Wagner", "given": "David M", "initials": "DM", "orcid": "0000-0003-2684-6007", "researcher": {"href": "https://publications.scilifelab.se/researcher/04dbf7488dc54ca3b7031571b9acc982.json"}}, {"family": "Carra", "given": "Laura G", "initials": "LG"}, {"family": "Wilhelmsson", "given": "Peter", "initials": "P"}, {"family": "Pettersson", "given": "John H O", "initials": "JHO"}, {"family": "Barboutis", "given": "Christos", "initials": "C", "orcid": "0000-0002-5644-4327", "researcher": {"href": "https://publications.scilifelab.se/researcher/9c4a150259c44fe1a79914c1c0605130.json"}}, {"family": "Figuerola", "given": "Jordi", "initials": "J", "orcid": "0000-0002-4664-9011", "researcher": {"href": "https://publications.scilifelab.se/researcher/3832a2f08cec48848cf289134a105840.json"}}, {"family": "Onrubia", "given": "Alejandro", "initials": "A", "orcid": "0000-0001-8860-3524", "researcher": {"href": "https://publications.scilifelab.se/researcher/c73213860576464fafb5b1565d7299cc.json"}}, {"family": "Kiat", "given": "Yosef", "initials": "Y", "orcid": "0000-0002-3485-3517", "researcher": {"href": "https://publications.scilifelab.se/researcher/40519e89d3e44b47bf402078e687a45a.json"}}, {"family": "Piacentini", "given": "Dario", "initials": "D"}, {"family": "Jaenson", "given": "Thomas G T", "initials": "TGT"}, {"family": "Lindgren", "given": "Per Eric", "initials": "PE", "orcid": "0000-0003-2767-3638", "researcher": {"href": "https://publications.scilifelab.se/researcher/a4a6e70c9c514a48a40c3edf446ab5ce.json"}}, {"family": "Moutailler", "given": "Sara", "initials": "S", "orcid": "0000-0003-3010-6968", "researcher": {"href": "https://publications.scilifelab.se/researcher/b332d118556846808a1df98dbd5da020.json"}}, {"family": "Fransson", "given": "Thord", "initials": "T", "orcid": "0000-0002-9721-7024", "researcher": {"href": "https://publications.scilifelab.se/researcher/d17e09b5057d47eb87174f839d16c257.json"}}, {"family": "Forsman", "given": "Mats", "initials": "M", "orcid": "0000-0002-4466-5325", "researcher": {"href": "https://publications.scilifelab.se/researcher/b52b5a759a3e452b80728241c50c76dd.json"}}, {"family": "Nilsson", "given": "Kenneth", "initials": "K"}, {"family": "Lundkvist", "given": "\u00c5ke", "initials": "\u00c5", "orcid": "0000-0001-8608-6551", "researcher": {"href": "https://publications.scilifelab.se/researcher/f3c4bcad692e48dfb25a551f014d8482.json"}}, {"family": "Olsen", "given": "Bj\u00f6rn", "initials": "B"}], "type": "journal-article", "published": "2022-07-11", "journal": {"title": "Microorganisms", "issn": "2076-2607", "issn-l": "2076-2607", "volume": "10", "issue": "7", "pages": "1393"}, "abstract": "The migratory behavior of wild birds contributes to the geographical spread of ticks and their microorganisms. In this study, we aimed to investigate the dispersal and co-occurrence of Francisella and spotted fever group Rickettsia (SFGR) in ticks infesting birds migrating northward in the African-Western Palaearctic region (AWPR). Birds were trapped with mist nests across the Mediterranean basin during the 2014 and 2015 spring migration. In total, 575 ticks were collected from 244 birds. We screened the ticks for the species Francisella tularensis, the genus Francisella, and SFGR by microfluidic real-time PCR. Confirmatory analyses and metagenomic sequencing were performed on tick samples that putatively tested positive for F. tularensis during initial screenings. Hyalomma rufipes was the most common tick species and had a high prevalence of Francisella, including co-occurrence of Francisella and SFGR. Metagenomic analysis of total DNA extracted from two H. rufipes confirmed the presence of Francisella, Rickettsia, and Midichloria. Average nucleotide identity and phylogenetic inference indicated the highest identity of the metagenome-assembled genomes to a Francisella-like endosymbiont (FLE), Rickettsia aeschlimannii, and Midichloria mitochondrii. The results of this study suggest that (i) FLE- and SFGR-containing ticks are dispersed by northbound migratory birds in the AWPR, (ii) H. rufipes likely is not involved in transmission of F. tularensis in the AWPR, and (iii) a dual endosymbiosis of FLEs and Midichloria may support some of the nutritional requirements of H. rufipes.", "doi": "10.3390/microorganisms10071393", "pmid": "35889112", "labels": {"NGI Short read": "Service", "NGI Uppsala (SNP&SEQ Technology Platform)": "Service", "National Genomics Infrastructure": "Service", "Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC9323704"}, {"db": "pii", "key": "microorganisms10071393"}], "notes": [], "created": "2022-11-09T15:44:20.894Z", "modified": "2024-01-16T13:48:35.835Z"}, {"entity": "publication", "iuid": "48a454b337234b679147081013a4d06c", "links": {"self": {"href": "https://publications.scilifelab.se/publication/48a454b337234b679147081013a4d06c.json"}, "display": {"href": "https://publications.scilifelab.se/publication/48a454b337234b679147081013a4d06c"}}, "title": "Complete Genome Sequence of Francisella halioticida Type Strain DSM 23729 (FSC1005).", "authors": [{"family": "Uneklint", "given": "Ingrid", "initials": "I"}, {"family": "\u00d6hrman", "given": "Caroline", "initials": "C", "orcid": "0000-0001-8489-757X", "researcher": {"href": "https://publications.scilifelab.se/researcher/804b654aa0be4d7a9ecdf113487fe443.json"}}, {"family": "Karlsson", "given": "Linda", "initials": "L"}, {"family": "Bystr\u00f6m", "given": "Mona", "initials": "M"}, {"family": "H\u00e4gglund", "given": "Emil", "initials": "E"}, {"family": "Forsman", "given": "Mats", "initials": "M"}, {"family": "Sj\u00f6din", "given": "Andreas", "initials": "A", "orcid": "0000-0001-5350-4219", "researcher": {"href": "https://publications.scilifelab.se/researcher/6398d7c06a414ea6bcaf2579a8587452.json"}}], "type": "journal article", "published": "2020-09-10", "journal": {"title": "Microbiol Resour Announc", "issn": "2576-098X", "volume": "9", "issue": "37", "pages": null, "issn-l": "2576-098X"}, "abstract": "Here, we announce the complete genome sequence of the Francisella halioticida type strain DSM 23729 (FSC1005), isolated from a diseased cultured giant abalone in Japan in 2005. The genome is composed of a 2,197,430-bp-long circular chromosome, with a G+C content of 31.2%.", "doi": "10.1128/MRA.00541-20", "pmid": "32912905", "labels": {"NGI Uppsala (Uppsala Genome Center)": "Service", "National Genomics Infrastructure": "Service"}, "xrefs": [{"db": "pii", "key": "9/37/e00541-20"}, {"db": "pmc", "key": "PMC7484064"}], "notes": [], "created": "2020-09-15T06:07:36.536Z", "modified": "2021-11-10T12:47:21.455Z"}]}