Project Title
Development of reproducible bioinformatics workflows for comparative microbial genomics
Partner Organisations
Internal ID
11140666
Principal Investigator
JUAN ANTONIO UGALDE CASANOVA
Type
basic research
Status
TERMINADO
Start Date
2014

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    Item type:Publication,
    Reduced microbial diversity of the nasopharyngeal microbiome in household contacts with latent tuberculosis infection
    (2023)
    Cinthya Ruiz-Tagle
    ;
    Juan A. Ugalde
    ;
    Rodrigo Naves
    ;
    ARAOS BRALIC, RAFAEL IGNACIO  
    ;
    Patricia García
    <jats:title>Abstract</jats:title><jats:p>The upper respiratory tract is an obliged pathway for respiratory pathogens and a healthy microbiota may support the host's mucosal immunity preventing infection. We analyzed the nasopharyngeal microbiome in tuberculosis household contacts (HHCs) and its association with latent tuberculosis infection (TBI). A prospective cohort of HHCs was established and latent TBI status was assessed by serial interferon-γ release assay (IGRA). Nasopharyngeal swabs collected at baseline were processed for 16S rRNA gene sequencing. The 82 participants included in the analysis were classified as: (a) non-TBI [IGRA negative at baseline and follow-up, no active TB (n = 31)], (b) pre-TBI [IGRA negative at baseline but converted to IGRA positive or developed active TB at follow-up (n = 16)], and (c) TBI [IGRA positive at enrollment (n = 35)]. Predominant phyla were <jats:italic>Actinobacteriota</jats:italic>, <jats:italic>Proteobacteria</jats:italic>, <jats:italic>Firmicutes</jats:italic> and <jats:italic>Bacteroidota</jats:italic>. TBI group had a lower alpha diversity compared to non-TBI (p<jats:sub>adj</jats:sub> = 0.04) and pre-TBI (p<jats:sub>adj</jats:sub> = 0.04). Only TBI and non-TBI had beta diversity differences (p<jats:sub>adj</jats:sub> = 0.035). Core microbiomes’ had unique genera, and genus showed differential abundance among groups. HHCs with established latent TBI showed reduced nasopharyngeal microbial diversity with distinctive taxonomical composition. Whether a pre-existing microbiome feature favors, are a consequence, or protects against <jats:italic>Mycobacterium tuberculosis</jats:italic> needs further investigation.</jats:p>
    Scopus© Citations 3  3
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    Genome sequence of streptomyces sp. H-KF8, a marine actinobacterium isolated from a northern chilean patagonian fjord
    (2017)
    Agustina Undabarrena
    ;
    JUAN ANTONIO UGALDE CASANOVA
    ;
    Eduardo Castro-Nallar
    ;
    Michael Seeger
    ;
    Beatriz Cámara
    <jats:title>ABSTRACT</jats:title> <jats:p> <jats:italic>Streptomyces</jats:italic> sp. H-KF8 is a fjord-derived marine actinobacterium capable of producing antimicrobial activity. <jats:italic>Streptomyces</jats:italic> sp. H-KF8 was isolated from sediments of the Comau fjord, located in the northern Chilean Patagonia. Here, we report the 7.7-Mb genome assembly, which represents the first genome of a Chilean marine actinobacterium. </jats:p>
      3Scopus© Citations 5
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    A global metagenomic map of urban microbiomes and antimicrobial resistance
    (2021)
    David Danko
    ;
    Daniela Bezdan
    ;
    Evan E. Afshin
    ;
    Sofia Ahsanuddin
    ;
    Chandrima Bhattacharya
    Scopus© Citations 292  6