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Accessory genomic epidemiology of co-circulating Acinetobacter baumannii clones

Valeria Mateo-Estrada, José Luis Fernández-Vázquez, Julia Moreno-Manjón, Ismael L. Hernández-González, Eduardo Rodríguez-Noriega, Rayo Morfín-Otero, María Dolores Alcántar-Curiel, View ORCID ProfileSantiago Castillo-Ramírez
doi: https://doi.org/10.1101/2021.03.26.436874
Valeria Mateo-Estrada
1Programa de Genómica Evolutiva, Centro de Ciencias Genómicas, Universidad Nacional Autónoma de México, Cuernavaca, México
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José Luis Fernández-Vázquez
2Laboratorio de Infectología, Microbiología e Inmunología Clínicas, Unidad de Investigación en Medicina Experimental, Facultad de Medicina, Universidad Nacional Autónoma de México, Ciudad de México, México
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Julia Moreno-Manjón
2Laboratorio de Infectología, Microbiología e Inmunología Clínicas, Unidad de Investigación en Medicina Experimental, Facultad de Medicina, Universidad Nacional Autónoma de México, Ciudad de México, México
4Laboratorio de Bacteriología Médica, Posgrado en Ciencias Quimicobiológicas, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, Carpio y Plan de Ayala SN, Ciudad de México, México
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Ismael L. Hernández-González
1Programa de Genómica Evolutiva, Centro de Ciencias Genómicas, Universidad Nacional Autónoma de México, Cuernavaca, México
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Eduardo Rodríguez-Noriega
3Hospital Civil de Guadalajara Fray Antonio Alcalde e Instituto de Patología Infecciosa y Experimental, Centro Universitario de Ciencias de la Salud, Universidad de Guadalajara, Guadalajara, Jalisco, México
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Rayo Morfín-Otero
3Hospital Civil de Guadalajara Fray Antonio Alcalde e Instituto de Patología Infecciosa y Experimental, Centro Universitario de Ciencias de la Salud, Universidad de Guadalajara, Guadalajara, Jalisco, México
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María Dolores Alcántar-Curiel
2Laboratorio de Infectología, Microbiología e Inmunología Clínicas, Unidad de Investigación en Medicina Experimental, Facultad de Medicina, Universidad Nacional Autónoma de México, Ciudad de México, México
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Santiago Castillo-Ramírez
1Programa de Genómica Evolutiva, Centro de Ciencias Genómicas, Universidad Nacional Autónoma de México, Cuernavaca, México
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  • ORCID record for Santiago Castillo-Ramírez
  • For correspondence: iago@ccg.unam.mx
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Abstract

A. baumannii has become one of the most important multidrug resistant nosocomial pathogens all over the world. Nonetheless, very little is known about the diversity of A. baumannii lineages co-existing in hospital settings. Here, using whole-genome sequencing, epidemiological data and antimicrobial susceptibility tests, we uncover the transmission dynamics of extensive and multidrug resistant A. baumannii in a tertiary hospital for a decade. Our core genome phylogeny of almost 300 genomes suggests that there were several introductions of lineages from international clone 2 into the hospital. The molecular dating analysis shows that these introductions happened between 2004 and 2015. Furthermore, using the accessory genome, we show that these lineages were extensively disseminated across many wards in the hospital. Our results demonstrate that accessory genome variation can be a very powerful tool for conducting genomic epidemiology. We anticipate future studies employing the accessory genome as a phylogenomic marker over very short microevolutionary scales.

Competing Interest Statement

The authors have declared no competing interest.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted March 28, 2021.
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Accessory genomic epidemiology of co-circulating Acinetobacter baumannii clones
Valeria Mateo-Estrada, José Luis Fernández-Vázquez, Julia Moreno-Manjón, Ismael L. Hernández-González, Eduardo Rodríguez-Noriega, Rayo Morfín-Otero, María Dolores Alcántar-Curiel, Santiago Castillo-Ramírez
bioRxiv 2021.03.26.436874; doi: https://doi.org/10.1101/2021.03.26.436874
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Accessory genomic epidemiology of co-circulating Acinetobacter baumannii clones
Valeria Mateo-Estrada, José Luis Fernández-Vázquez, Julia Moreno-Manjón, Ismael L. Hernández-González, Eduardo Rodríguez-Noriega, Rayo Morfín-Otero, María Dolores Alcántar-Curiel, Santiago Castillo-Ramírez
bioRxiv 2021.03.26.436874; doi: https://doi.org/10.1101/2021.03.26.436874

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