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Comparative genomics of clinical and environmental isolates of Vibrio spp.: implications of traits associated with virulence and resistance

dc.contributor.advisorArboleda Valencia, Jorge
dc.contributor.advisorRodriguez-Rey, Ghennie T
dc.contributor.authorPérez Duque, Alejandra María
dc.date.accessioned2021-12-09T15:14:44Z
dc.date.available2022-04-11
dc.date.available2021-12-09T15:14:44Z
dc.date.issued2021-12-02
dc.identifier.urihttps://repositorio.ucaldas.edu.co/handle/ucaldas/17239
dc.descriptionIlustracionesspa
dc.description.abstractspa:El género Vibrio comprende más de 100 especies bacterianas presentes en hábitats acuáticos y marinos como organismos de vida libre o asociados a organismos acuáticos, pese a que la mayoría de estas especies son consideradas no patógenas, existe una preocupación generalizada por el aumento en los casos de infecciones humanas y enfermedades en organismos acuáticos causadas por especies patógenas de Vibrio en el mundo, la emergencia de linajes epidémicos y la gran diversidad del género. Colombia no está exento de posibles brotes de cólera o vibriosis dada su ubicación geográfica y la presencia de las costas Pacífico y Atlántico. Por lo tanto, se ha establecido una vigilancia activa por parte del Instituto Nacional de Salud. En muestreos realizados durante 2010 y 2013, encontraron aislamientos de Vibrio circulando en el país, estos aislamientos no han sido caracterizados a nivel de genoma. Este estudio se enfoca en la diversidad genómica de aislamientos de Vibrio spp. para determinar sus relaciones genéticas e identificar potenciales rasgos de virulencia y resistencia. Sesenta aislamientos de Vibrio spp provenientes de muestras clínicas y ambientales de las costas Pacífico y Atlántico de Colombia fueron secuenciados, ensamblados y anotados. Se llevaron a cabo análisis de pangenoma y filogenómica para cada especie. Se caracterizaron las especies más importantes en salud pública de acuerdo con el esquema de tipificación multilocus y filogenómica. Se encontraron seis especies de Vibrio (V. parahaemolyticus (17), V. vulnificus (9), V. fluvialis (16), V. furnissii (6), V. alginolyticus (10) y V. diabolicus (4). En V. parahaemolyticus encontramos aislamientos pertenecientes al clon pandémico ST3 y ST120 y en V. vulnificus encontramos aislamientos pertenecientes al Linaje 1 y 2. El pangenoma de cada especie mostró que todos los aislamientos compartían importantes categorías relacionadas con virulencia. Se encontraron genes de virulencia homólogos entre las especies incluso en especies clasificadas como no patógenas como V. diabolicus. Se encontraron categorías relacionadas con mobiloma, elementos móviles y genes de resistencia asociados a plásmidos tanto en aislamientos ambientales como en clínicos. Este estudio permitió identificar posibles focos de vibriosis contribuyendo al fortalecimiento del sistema de vigilancia intensificada implementado por el Instituto Nacional de Salud de Colombia para predecir futuros brotes de vibriosis en el país.spa
dc.description.abstracteng: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 sur-veillance 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 an-timicrobial resistance traits. Isolates from environmental and clinical samples were genome se-quenced, 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.eng
dc.description.tableofcontentsAgradecimientos / Resumen Y Abstract / Lista de tablas / Lista de anexos / 1. Introducción / 1.1. Campo temático / 1.2. Planteamiento del problema / 1.3. Justificación / 1.4. Objetivos / 1.4.1. Objetivo general / 1.4.2. Objetivos específicos / 2. Referente teórico y antecedentes / 2.1. Género Vibrio / 2.1.1. Generalidades y hábitat / 2.1.2. Especies patógenas / 2.1.3. Principales especies patógenas de Vibrio / 2.1.3 Genoma de Vibrio / 2.1.4 Patógenos emergentes / 2.1.5 Resistencia a antibióticos / 2.1.6 Herramientas moleculares para el estudio de Vibrio / 2.1.7 Sistemas de vigilancia a nivel mundial / 3 Primer artículo / 4 Conclusiones generales / 4.1 Contribuciones del trabajo de grado / 4.2 Impactos potenciales del trabajo de grado / 4.3 Recomendaciones y trabajos futuros / ANEXOSspa
dc.format.mimetypeapplication/pdfspa
dc.language.isoengspa
dc.language.isospaspa
dc.titleComparative genomics of clinical and environmental isolates of Vibrio spp.: implications of traits associated with virulence and resistanceeng
dc.typeArtículo de revistaspa
dc.typeTrabajo de grado - Maestríaspa
dc.contributor.educationalvalidatorGonzález Muñoz, Andrea
dc.contributor.researcherArboleda Valencia, Jorge
dc.contributor.researcherVivas Aguas, Lizbeth Janet
dc.contributor.researcherCórdoba Meza, Tania
dc.contributor.researcherRodríguez Rey, Ghennie Tatiana
dc.contributor.researcherDíaz Guevara, Paula
dc.contributor.researcherMartinez Urtaza, Jaime
dc.contributor.researcherWiesner Reyes, Magdalena
dc.description.degreelevelMaestríaspa
dc.identifier.instnameUniversidad de Caldasspa
dc.identifier.reponameRepositorio Institucional Universidad de Caldasspa
dc.identifier.repourlhttps://repositorio.ucaldas.edu.cospa
dc.publisher.facultyFacultad de Ingenieríaspa
dc.publisher.placeManizales, Caldasspa
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dc.rights.accessrightsinfo:eu-repo/semantics/closedAccessspa
dc.rights.accessrightsinfo:eu-repo/semantics/closedAccessspa
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dc.subject.proposalVibriosisspa
dc.subject.proposalVirulenciaspa
dc.subject.proposalResistenciaspa
dc.subject.proposalGenómica comparativaspa
dc.subject.proposalSalud públicaspa
dc.subject.proposalVibriosiseng
dc.subject.proposalVirulenceeng
dc.subject.proposalAntibiotic resistanceeng
dc.subject.proposalAntibiotic resistanceeng
dc.subject.proposalPangenomeeng
dc.subject.proposalWhole genome sequencingeng
dc.subject.unescoMicroorganismo
dc.subject.unescoMicrobiología
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dc.type.contentTextspa
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dc.description.degreenameMagister en Bioinformática y Biología Computacional (EN CONVENIO)spa
dc.publisher.programMaestría en Bioinformática y Biología Computacional (En convenio)spa
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