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Genome evolution an...
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Mageiros, LeonardosUniv Bath, Milner Ctr Evolut, Dept Biol & Biochem, Bath, Avon, England
(author)
Genome evolution and the emergence of pathogenicity in avian Escherichia coli
- Article/chapterEnglish2021
Publisher, publication year, extent ...
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2021-02-03
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Springer Nature,2021
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electronicrdacarrier
Numbers
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LIBRIS-ID:oai:DiVA.org:uu-448194
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https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-448194URI
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https://doi.org/10.1038/s41467-021-20988-wDOI
Supplementary language notes
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Language:English
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Summary in:English
Part of subdatabase
Classification
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Subject category:ref swepub-contenttype
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Subject category:art swepub-publicationtype
Notes
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Chickens are the most common birds on Earth and colibacillosis is among the most common diseases affecting them. This major threat to animal welfare and safe sustainable food production is difficult to combat because the etiological agent, avian pathogenic Escherichia coli (APEC), emerges from ubiquitous commensal gut bacteria, with no single virulence gene present in all disease-causing isolates. Here, we address the underlying evolutionary mechanisms of extraintestinal spread and systemic infection in poultry. Combining population scale comparative genomics and pangenome-wide association studies, we compare E. coli from commensal carriage and systemic infections. We identify phylogroup-specific and species-wide genetic elements that are enriched in APEC, including pathogenicity-associated variation in 143 genes that have diverse functions, including genes involved in metabolism, lipopolysaccharide synthesis, heat shock response, antimicrobial resistance and toxicity. We find that horizontal gene transfer spreads pathogenicity elements, allowing divergent clones to cause infection. Finally, a Random Forest model prediction of disease status (carriage vs. disease) identifies pathogenic strains in the emergent ST-117 poultry-associated lineage with 73% accuracy, demonstrating the potential for early identification of emergent APEC in healthy flocks.
Subject headings and genre
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Méric, GuillaumeUniv Bath, Milner Ctr Evolut, Dept Biol & Biochem, Bath, Avon, England
(author)
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Bayliss, Sion C.Univ Bath, Milner Ctr Evolut, Dept Biol & Biochem, Bath, Avon, England; MRC Cloud Infrastruct Microbial Bioinformat CLIMB, London, England
(author)
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Pensar, JohanUniv Oslo, Dept Biostat, Oslo, Norway; Univ Helsinki, Helsinki Inst Informat Technol, Dept Math & Stat, Helsinki, Finland
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Pascoe, BenUniv Bath, Milner Ctr Evolut, Dept Biol & Biochem, Bath, Avon, England; Univ Oslo, Dept Biostat, Oslo, Norway
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Mourkas, EvangelosUniv Bath, Milner Ctr Evolut, Dept Biol & Biochem, Bath, Avon, England
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Calland, Jessica K.Univ Bath, Milner Ctr Evolut, Dept Biol & Biochem, Bath, Avon, England
(author)
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Yahara, KojiNatl Inst Infect Dis, Antimicrobial Resistance Res Ctr, Tokyo, Japan
(author)
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Murray, SusanUppsala universitet,Institutionen för medicinsk biokemi och mikrobiologi(Swepub:uu)susmu240
(author)
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Wilkinson, Thomas S.Swansea Univ, Inst Life Sci, Med Sch, Swansea SA2 8PP, W Glam, Wales
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Williams, Lisa K.Swansea Univ, Inst Life Sci, Med Sch, Swansea SA2 8PP, W Glam, Wales
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Hitchings, Matthew D.Swansea Univ, Inst Life Sci, Med Sch, Swansea SA2 8PP, W Glam, Wales
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Porter, JonathanEnvironm Agcy, Natl Lab Serv, Starcross, England
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Kemmett, KirstyUniv Liverpool, Inst Infect & Global Hlth, Dept Epidemiol & Populat Hlth, Leahurst Campus, Wirral, Merseyside, England
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Feil, Edward J.Univ Bath, Milner Ctr Evolut, Dept Biol & Biochem, Bath, Avon, England
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Jolley, Keith A.Univ Oxford, Dept Zool, South Parks Rd, Oxford OX1 3PS, England
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Williams, Nicola J.Univ Liverpool, Inst Infect & Global Hlth, Dept Epidemiol & Populat Hlth, Leahurst Campus, Wirral, Merseyside, England
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Corander, JukkaUniv Oslo, Dept Biostat, Oslo, Norway; Univ Helsinki, Helsinki Inst Informat Technol, Dept Math & Stat, Helsinki, Finland; Wellcome Sanger Inst, Parasites & Microbes, Cambridge, England
(author)
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Sheppard, Samuel K.Univ Bath, Milner Ctr Evolut, Dept Biol & Biochem, Bath, Avon, England; MRC Cloud Infrastruct Microbial Bioinformat CLIMB, London, England; Univ Oxford, Dept Zool, South Parks Rd, Oxford OX1 3PS, England
(author)
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Univ Bath, Milner Ctr Evolut, Dept Biol & Biochem, Bath, Avon, EnglandUniv Bath, Milner Ctr Evolut, Dept Biol & Biochem, Bath, Avon, England; MRC Cloud Infrastruct Microbial Bioinformat CLIMB, London, England
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In:Nature Communications: Springer Nature12:12041-1723
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Mageiros, Leonar ...
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Méric, Guillaume
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Bayliss, Sion C.
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Pensar, Johan
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Pascoe, Ben
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Mourkas, Evangel ...
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Calland, Jessica ...
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Yahara, Koji
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Murray, Susan
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Wilkinson, Thoma ...
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Williams, Lisa K ...
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Hitchings, Matth ...
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Porter, Jonathan
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Kemmett, Kirsty
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Feil, Edward J.
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Jolley, Keith A.
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Williams, Nicola ...
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Corander, Jukka
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Sheppard, Samuel ...
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