Your browser doesn't support javascript.
loading
Genetic diversity within diagnostic sputum samples is mirrored in the culture of Mycobacterium tuberculosis across different settings.
Mariner-Llicer, Carla; Goig, Galo A; Torres-Puente, Manuela; Vashakidze, Sergo; Villamayor, Luis M; Saavedra-Cervera, Belén; Mambuque, Edson; Khurtsilava, Iza; Avaliani, Zaza; Rosenthal, Alex; Gabrielian, Andrei; Shurgaia, Marika; Shubladze, Natalia; García-Basteiro, Alberto L; López, Mariana G; Comas, Iñaki.
Afiliación
  • Mariner-Llicer C; Instituto de Biomedicina de Valencia, IBV, CSIC, València, Spain.
  • Goig GA; University of Basel, Basel, Switzerland.
  • Torres-Puente M; Swiss Tropical and Public Health Institute, Allschwil, Switzerland.
  • Vashakidze S; Instituto de Biomedicina de Valencia, IBV, CSIC, València, Spain.
  • Villamayor LM; National Center for Tuberculosis and Lung Diseases, Tbilisi, Georgia.
  • Saavedra-Cervera B; The University of Georgia, Tbilisi, Georgia.
  • Mambuque E; FISABIO, Fundación para el Fomento de la Investigación Sanitaria y Biomédica de la Comunitat Valenciana, València, Spain.
  • Khurtsilava I; ISGlobal, Hospital Clínic, Universitat de Barcelona, Barcelona, Spain.
  • Avaliani Z; Centro de Investigação em Saúde de Manhiça (CISM), Maputo, Mozambique.
  • Rosenthal A; Wellcome Sanger Institute, Hinxton, UK.
  • Gabrielian A; Centro de Investigação em Saúde de Manhiça (CISM), Maputo, Mozambique.
  • Shurgaia M; National Center for Tuberculosis and Lung Diseases, Tbilisi, Georgia.
  • Shubladze N; National Center for Tuberculosis and Lung Diseases, Tbilisi, Georgia.
  • García-Basteiro AL; European University, Tbilisi, Georgia.
  • López MG; Office of Cyber Infrastructure and Computational Biology, National Institute of Allergy and Infectious Diseases, Bethesda, MD, USA.
  • Comas I; Office of Cyber Infrastructure and Computational Biology, National Institute of Allergy and Infectious Diseases, Bethesda, MD, USA.
Nat Commun ; 15(1): 7114, 2024 Sep 05.
Article en En | MEDLINE | ID: mdl-39237504
ABSTRACT
Culturing and genomic sequencing of Mycobacterium tuberculosis (MTB) from tuberculosis (TB) cases is the basis for many research and clinical applications. The alternative, culture-free sequencing from diagnostic samples, is promising but poses challenges to obtain and analyse the MTB genome. Paradoxically, culture is assumed to impose a diversity bottleneck, which, if true, would entail unexplored consequences. To unravel this paradox we generate high-quality genomes of sputum-culture pairs from two different settings after developing a workflow for sequencing from sputum and a tailored bioinformatics analysis. Careful downstream comparisons reveal sources of sputum-culture incongruences due to false positive/negative variation associated with factors like low input MTB DNA or variable genomic depths. After accounting for these factors, contrary to the bottleneck dogma, we identify a 97% variant agreement within sputum-culture pairs, with a high correlation also in the variants' frequency (0.98). The combined analysis from five different settings and more than 100 available samples shows that our results can be extrapolated to different TB epidemic scenarios, demonstrating that for the cases tested culture accurately mirrors clinical samples.
Asunto(s)
Texto completo
Añadir a Mi BVS
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Esputo / Variación Genética / Mycobacterium tuberculosis Límite: Humans Idioma: En Revista: Nat Commun Asunto de la revista: BIOLOGIA / CIENCIA Año: 2024 Tipo del documento: Article País de afiliación: España Pais de publicación: Reino Unido
Texto completo
Añadir a Mi BVS
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Esputo / Variación Genética / Mycobacterium tuberculosis Límite: Humans Idioma: En Revista: Nat Commun Asunto de la revista: BIOLOGIA / CIENCIA Año: 2024 Tipo del documento: Article País de afiliación: España Pais de publicación: Reino Unido