a5e199895ccb7bf8ba45d5c06210d39a pmc_10666105.pdf dad366e84783d82365f2c931afc97734ffcc43c8 pmc_10666105.pdf 87dceeca42ab76b07302007a865ec84ab09ce0dbd024b116b5a93516a9fac3f3 pmc_10666105.pdf Title: The emergence and diversification of a zoonotic pathogen from within the microbiota of intensively farmed pigs Author: Creator: Adobe InDesign 15.1 (Windows) Producer: Adobe PDF Library 15.0 CreationDate: Fri Nov 10 08:44:21 2023 CET ModDate: Fri Nov 10 08:44:27 2023 CET Tagged: no UserProperties: no Suspects: no Form: none JavaScript: no Pages: 11 Encrypted: no Page size: 584.784 x 783 pts Page rot: 0 File size: 3661285 bytes Optimized: yes PDF version: 1.4 name type encoding emb sub uni object ID ------------------------------------ ----------------- ---------------- --- --- --- --------- ANCKTY+OpenSans-Semibold CID TrueType Identity-H yes yes yes 275 0 XGOSDE+OpenSans CID TrueType Identity-H yes yes yes 276 0 YSBTRC+OpenSans-Light CID TrueType Identity-H yes yes yes 277 0 HQPVNK+OpenSans-Bold CID TrueType Identity-H yes yes yes 278 0 LELORC+Montserrat-Bold Type 1C Custom yes yes yes 279 0 LUMORC+STIX-Regular Type 1C Custom yes yes yes 280 0 XZJDDE+AGaramondPro-Semibold Type 1C Custom yes yes yes 304 0 TRFAZM+AGaramondPro-SemiboldItalic Type 1C WinAnsi yes yes yes 305 0 WGRNKG+AGaramondPro-Regular Type 1C Custom yes yes yes 306 0 JVADKG+AGaramondPro-Italic Type 1C Custom yes yes yes 317 0 XWPNDE+OpenSans-Bold TrueType WinAnsi yes yes yes 285 0 MVCZFA+OpenSans-Light TrueType WinAnsi yes yes yes 301 0 BQERCW+OpenSans-Italic TrueType WinAnsi yes yes yes 308 0 DXOXJS+OpenSans TrueType WinAnsi yes yes yes 309 0 FWHPGO+OpenSans-Italic CID TrueType Identity-H yes yes yes 190 0 YKJKMC+AvenirNextLTPro-Cn Type 1C Custom yes yes yes 198 0 ZEULAA+AvenirNextLTPro-CnIt Type 1C Custom yes yes yes 199 0 MVELAA+STIX-Bold Type 1C WinAnsi yes yes yes 193 0 DFTEES+AvenirNextLTPro-DemiCn Type 1C WinAnsi yes yes yes 204 0 Jhove (Rel. 1.28.0, 2023-05-18) Date: 2024-03-09 02:33:49 CET RepresentationInformation: pmc_10666105.pdf ReportingModule: PDF-hul, Rel. 1.12.4 (2023-03-16) LastModified: 2024-03-01 02:38:18 CET Size: 3661285 Format: PDF Version: 1.4 Status: Well-Formed and valid SignatureMatches: PDF-hul MIMEtype: application/pdf Profile: Linearized PDF PDFMetadata: Objects: 415 FreeObjects: 1 IncrementalUpdates: 1 DocumentCatalog: ViewerPreferences: HideToolbar: false HideMenubar: false HideWindowUI: false FitWindow: false CenterWindow: false DisplayDocTitle: false NonFullScreenPageMode: UseNone Direction: L2R ViewArea: CropBox ViewClip: CropBox PrintArea: CropBox PageClip: CropBox PageLayout: SinglePage PageMode: UseNone Language: en-US Outlines: Item: Title: The emergence and diversification of a zoonotic pathogen from within the microbiota of intensively farmed pigs Children: Item: Title: Significance Item: Title: Results Children: Item: Title: Pathogenic Lineages Emerged from a Subpopulation of a Diverse and Largely Commensal Species. Item: Title: Consistent Genomic Changes Reveal Evolutionary Constraints on Pathogen Emergence. Item: Title: The Emergence and Spread of Pathogenic Lineages Are Linked to Growth in Pig Farming and International Trade. Item: Title: Pathogenic Lineages Have Variable Associations with Systemic Disease and Carry Unique Genes. Item: Title: Pathogenic Lineages Continue to Diverge from Commensal Lineages and Diversify. Item: Title: Discussion Item: Title: Methods Children: Item: Title: Sampling of Isolates and Characterisation of Disease Association. Item: Title: Whole Genome Sequencing and Assembly. Item: Title: Serotyping and Sequence-Typing. Item: Title: Identification of Homologous Genes and Analysis of Pathogenicity-Associated Genomic Islands. Item: Title: Analysis of Population Structure, Phylogeny, and Geographic Spread. 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