65da3e5245c8903444cf708310407794 pmc_34959560.pdf ae36885239d5dfb2ac4d87b958acdb125d4cdbc8 pmc_34959560.pdf 7805688318aa1fb791ae1a89ab92c782f9ddc70eee0bb67af4cd5b8ad522cfcd pmc_34959560.pdf Title: Comparative Genomics of Clinical and Environmental Isolates of Vibrio spp. of Colombia: Implications of Traits Associated with Virulence and Resistance Subject: There is widespread concern about the increase in cases of human and animal infections caused by pathogenic Vibrio species due to the emergence of epidemic lineages. In Colombia, active surveillance by the National Institute of Health (INS) has confirmed the presence of Vibrio; however, in routine surveillance, these isolates are not genomically characterized. This study focused on the pangenome analysis of six Vibrio species: V. parahaemolyticus, V. vulnificus, V. alginolyticus, V. fluvialis, V. diabolicus and V. furnissii to determine the genetic architectures of potentially virulent and antimicrobial resistance traits. Isolates from environmental and clinical samples were genome sequenced, assembled and annotated. The most important species in public health were further characterized by multilocus sequence typing and phylogenomics. For V. parahaemolyticus, we found the virulent ST3 and ST120 genotypes. For V. vulnificus, we identified isolates belonging to lineages 1 and 2. Virulence gene homologues between species were found even in non-pathogenic species such as V. diabolicus. Annotations related to the mobilome, integrative mobile and conjugative elements and resistance genes were obtained from environmental and clinical isolates. This study contributes genomic information to the intensified surveillance program implemented by the INS to establish potential sources of vibriosis in Colombia. Keywords: vibriosis; virulence; antibiotic resistance; pangenome; whole genome sequencing Author: Alejandra Pérez-Duque, Andrea Gonzalez-Muñoz, Jorge Arboleda-Valencia, Lizbeth Janet Vivas-Aguas, Tania Córdoba-Meza, Ghennie Tatiana Rodriguez-Rey, Paula Díaz-Guevara, Jaime Martinez-Urtaza and Magdalena Wiesner-Reyes Creator: LaTeX with hyperref Producer: pdfTeX-1.40.21 CreationDate: Fri Dec 10 02:46:32 2021 CET ModDate: Fri Dec 10 03:00:20 2021 CET Tagged: no UserProperties: no Suspects: no Form: none JavaScript: no Pages: 22 Encrypted: no Page size: 595.276 x 841.89 pts (A4) Page rot: 0 File size: 5489907 bytes Optimized: no PDF version: 1.7 name type encoding emb sub uni object ID ------------------------------------ ----------------- ---------------- --- --- --- --------- CVLPNU+VnURWPalladioL Type 1 Custom yes yes no 10 0 POFBIG+URWPalladioL-Ital Type 1 Custom yes yes no 15 0 JUXPMJ+URWPalladioL-Bold Type 1 Custom yes yes no 20 0 JDLDVY+URWPalladioL-BoldItal Type 1 Custom yes yes no 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JBTTSN+VnURWPalladioL-Italic Type 1 Custom yes yes no 1087 0 OVNEXW+EURM10 Type 1 Builtin yes yes no 1091 0 Jhove (Rel. 1.22.1, 2019-04-17) Date: 2023-05-27 02:52:22 CEST RepresentationInformation: pmc_34959560.pdf ReportingModule: PDF-hul, Rel. 1.12.1 (2019-04-17) LastModified: 2023-03-31 12:08:10 CEST Size: 5489907 Format: PDF Version: 1.7 Status: Well-Formed and valid SignatureMatches: PDF-hul MIMEtype: application/pdf PDFMetadata: Objects: 1364 FreeObjects: 1 IncrementalUpdates: 0 DocumentCatalog: PageLayout: SinglePage PageMode: UseNone Outlines: Item: Title: Introduction Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@44c8afef Item: Title: Results Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@7b69c6ba Children: Item: Title: Characteristics of the Assembled Genomes of Vibrio spp. Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@46daef40 Item: Title: Vibrio parahaemolyticus Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@12f41634 Item: Title: Vibrio vulnificus Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@13c27452 Item: Title: Vibrio alginolyticus Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@262b2c86 Item: Title: Vibrio diabolicus Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@371a67ec Item: Title: Vibrio fluvialis Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@5ed828d Item: Title: Vibrio furnissii Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@50d0686 Item: Title: Discussion Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@7a3d45bd Item: Title: Materials and Methods Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@1e7c7811 Children: Item: Title: Study Area and Sampling Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@77ec78b9 Item: Title: Whole Genome Sequencing, De Novo Assembly and Annotation Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@1a3869f4 Item: Title: Characterization of the Most Important Species in Public Health Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@a38d7a3 Item: Title: Pangenome and Phylogenomic Analyses Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@77f99a05 Item: Title: Identification of Virulence Factors and Antimicrobial Resistance Determinants Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@63440df3 Item: Title: References Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@3aeaafa6 Info: Title: Comparative Genomics of Clinical and Environmental Isolates of Vibrio spp. of Colombia: Implications of Traits Associated with Virulence and Resistance Author: Alejandra Pérez-Duque, Andrea Gonzalez-Muñoz, Jorge Arboleda-Valencia, Lizbeth Janet Vivas-Aguas, Tania Córdoba-Meza, Ghennie Tatiana Rodriguez-Rey, Paula Díaz-Guevara, Jaime Martinez-Urtaza and Magdalena Wiesner-Reyes Subject: There is widespread concern about the increase in cases of human and animal infections caused by pathogenic Vibrio species due to the emergence of epidemic lineages. In Colombia, active surveillance by the National Institute of Health (INS) has confirmed the presence of Vibrio; however, in routine surveillance, these isolates are not genomically characterized. This study focused on the pangenome analysis of six Vibrio species: V. parahaemolyticus, V. vulnificus, V. alginolyticus, V. fluvialis, V. diabolicus and V. furnissii to determine the genetic architectures of potentially virulent and antimicrobial resistance traits. Isolates from environmental and clinical samples were genome sequenced, assembled and annotated. The most important species in public health were further characterized by multilocus sequence typing and phylogenomics. For V. parahaemolyticus, we found the virulent ST3 and ST120 genotypes. For V. vulnificus, we identified isolates belonging to lineages 1 and 2. Virulence gene homologues between species were found even in non-pathogenic species such as V. diabolicus. Annotations related to the mobilome, integrative mobile and conjugative elements and resistance genes were obtained from environmental and clinical isolates. This study contributes genomic information to the intensified surveillance program implemented by the INS to establish potential sources of vibriosis in Colombia. 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