Harry Thorpe

• Calland, Jessica Kate; Haukka, Kaisa; Kpordze, Stephen W; Brusah, Atanyiwoen; Corbella, Marta & Merla, Cristina [Vis alle 13 forfattere av denne artikkelen] (2023). Population structure and antimicrobial resistance among Klebsiella isolates sampled from human, animal, and environmental sources in Ghana: a cross-sectional genomic One Health study. Lancet Microbe. ISSN 2666-5247. 4(11), s. e943–e952. doi: 10.1016/S2666-5247(23)00208-2. Fulltekst i vitenarkiv
• Mäklin, Tommi; Thorpe, Harry Arthur Frank Wright; Pöntinen, Anna Kaarina; Gladstone, Rebecca Ashley; Shao, Yan & Pesonen, Maiju [Vis alle 12 forfattere av denne artikkelen] (2022). Strong pathogen competition in neonatal gut colonisation. Nature Communications. ISSN 2041-1723. 13(1). doi: 10.1038/s41467-022-35178-5. Fulltekst i vitenarkiv Vis sammendrag

  Opportunistic bacterial pathogen species and their strains that colonise the human gut are generally understood to compete against both each other and the commensal species colonising this ecosystem. Currently we are lacking a population-wide quantification of strain-level colonisation dynamics and the relationship of colonisation potential to prevalence in disease, and how ecological factors might be modulating these. Here, using a combination of latest high-resolution metagenomics and strain-level genomic epidemiology methods we performed a characterisation of the competition and colonisation dynamics for a longitudinal cohort of neonatal gut microbiomes. We found strong inter- and intra-species competition dynamics in the gut colonisation process, but also a number of synergistic relationships among several species belonging to genus Klebsiella, which includes the prominent human pathogen Klebsiella pneumoniae. No evidence of preferential colonisation by hospital-adapted pathogen lineages in either vaginal or caesarean section birth groups was detected. Our analysis further enabled unbiased assessment of strain-level colonisation potential of extra-intestinal pathogenic Escherichia coli (ExPEC) in comparison with their propensity to cause bloodstream infections. Our study highlights the importance of systematic surveillance of bacterial gut pathogens, not only from disease but also from carriage state, to better inform therapies and preventive medicine in the future.

• Thorpe, Harry Arthur Frank Wright; Booton, Ross; Kallonen, Teemu; Gibbon, Marjorie J.; Couto, Natacha & Passet, Virginie [Vis alle 21 forfattere av denne artikkelen] (2022). A large-scale genomic snapshot of Klebsiella spp. isolates in Northern Italy reveals limited transmission between clinical and non-clinical settings. Nature Microbiology. ISSN 2058-5276. 7, s. 2054–2067. doi: 10.1038/s41564-022-01263-0. Fulltekst i vitenarkiv
• Thorpe, Harry Arthur Frank Wright; Tourrette, Elise; Yahara, Koji; Vale, Filipa F.; Liu, Siqi & Oleastro, Mónica [Vis alle 24 forfattere av denne artikkelen] (2022). Repeated out-of-Africa expansions of Helicobacter pylori driven by replacement of deleterious mutations. Nature Communications. ISSN 2041-1723. 13(1). doi: 10.1038/s41467-022-34475-3. Fulltekst i vitenarkiv Vis sammendrag

  Helicobacter pylori lives in the human stomach and has a population structure resembling that of its host. However, H. pylori from Europe and the Middle East trace substantially more ancestry from modern African populations than the humans that carry them. Here, we use a collection of Afro-Eurasian H. pylori genomes to show that this African ancestry is due to at least three distinct admixture events. H. pylori from East Asia, which have undergone little admixture, have accumulated many more non-synonymous mutations than African strains. European and Middle Eastern bacteria have elevated African ancestry at the sites of these mutations, implying selection to remove them during admixture. Simulations show that population fitness can be restored after bottlenecks by migration and subsequent admixture of small numbers of bacteria from non-bottlenecked populations. We conclude that recent spread of African DNA has been driven by deleterious mutations accumulated during the original out-of-Africa bottleneck.

• Biffignandi, Gherard Batisti; Gibbon, Marjorie J.; Corbella, Marta; Thorpe, Harry Arthur Frank Wright; Merla, Cristina & Castelli, Michele [Vis alle 13 forfattere av denne artikkelen] (2021). Genome of Superficieibacter maynardsmithii, a novel, antibiotic susceptible representative of Enterobacteriaceae. G3: Genes, Genomes, Genetics. ISSN 2160-1836. 11(2). doi: 10.1093/g3journal/jkab019. Fulltekst i vitenarkiv
• Gibbon, Marjorie J.; Couto, Natacha; David, Sophia; Barden, Ruth; Standerwick, Richard & Jagadeesan, Kishore Kumar [Vis alle 17 forfattere av denne artikkelen] (2021). A high prevalence of bla OXA-48 in Klebsiella (Raoultella) ornithinolytica and related species in hospital wastewater in South West England. Microbial Genomics. ISSN 2057-5858. 7(3). doi: 10.1099/mgen.0.000509. Fulltekst i vitenarkiv
• Calland, Jessica K.; Pascoe, Ben; Bayliss, Sion; Mourkas, Evangelos; Berthenet, Elvire & Thorpe, Harry Arthur Frank Wright [Vis alle 12 forfattere av denne artikkelen] (2021). Quantifying bacterial evolution in the wild: A birthday problem for Campylobacter lineages. PLoS Genetics. ISSN 1553-7390. 17(9). doi: 10.1371/journal.pgen.1009829. Fulltekst i vitenarkiv
• Merla, Cristina; Rodrigues, Carla; Passet, Virginie; Corbella, Marta; Thorpe, Harry A & Kallonen, Teemu [Vis alle 13 forfattere av denne artikkelen] (2019). Description of Klebsiella spallanzanii sp. nov. and of Klebsiella pasteurii sp. nov. Frontiers in Microbiology. ISSN 1664-302X. 10(2360), s. 1–9. doi: 10.3389/fmicb.2019.02360. Fulltekst i vitenarkiv

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