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Non-typeable <jats:italic>H. influenzae<\/jats:italic> are highly heterogeneous, but few studies have analysed the genomic variability of capsulated strains. This study aims to examine the genetic diversity of 37 serotype f isolates from the Netherlands, Portugal, and Spain, and to compare all capsulated genomes available on public databases. Serotype f isolates belonged to CC124 and shared few single nucleotide polymorphisms (SNPs) (n\u2009=\u200910,999), but a high core genome (&gt;\u200980%). Three main clades were identified by the presence of 75, 60 and 41 exclusive genes for each clade, respectively. Multi-locus sequence type analysis of all capsulated genomes revealed a reduced number of clonal complexes associated with each serotype. Pangenome analysis showed a large pool of genes (n\u2009=\u20096360), many of which were accessory genome (n\u2009=\u20095323). Phylogenetic analysis revealed that serotypes a, b, and f had greater diversity. The total number of SNPs in serotype f was significantly lower than in serotypes a, b, and e (p\u2009&lt;\u20090.0001), indicating low variability within the serotype f clonal complexes. Capsulated <jats:italic>H. influenzae<\/jats:italic> are genetically homogeneous, with few lineages in each serotype. Serotype f has high genetic stability regardless of time and country of isolation.<\/jats:p>","DOI":"10.1038\/s41598-022-07185-5","type":"journal-article","created":{"date-parts":[[2022,2,24]],"date-time":"2022-02-24T11:02:48Z","timestamp":1645700568000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":6,"title":["Comparative pangenome analysis of capsulated Haemophilus influenzae serotype f highlights their high genomic stability"],"prefix":"10.1038","volume":"12","author":[{"given":"Aida","family":"Gonzalez-Diaz","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Anna","family":"Carrera-Salinas","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Miguel","family":"Pinto","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Meritxell","family":"Cubero","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Arie","family":"van der Ende","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jeroen D.","family":"Langereis","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"M. \u00c1ngeles","family":"Dom\u00ednguez","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Carmen","family":"Ardanuy","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Paula","family":"Bajanca-Lavado","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sara","family":"Marti","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2022,2,24]]},"reference":[{"key":"7185_CR1","doi-asserted-by":"publisher","first-page":"214","DOI":"10.1128\/CMR.00103-13","volume":"27","author":"N N\u00f8rskov-Lauritsen","year":"2014","unstructured":"N\u00f8rskov-Lauritsen, N. 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