Journal articles
Metagenomic Analysis of Microdissected Valvular Tissue for Etiologic Diagnosis of Blood Culture Negative Endocarditis
Abstract : Background
Etiological diagnosis is a key to therapeutic adaptation and improved prognosis, particularly for infections such as endocarditis. In blood culture–negative endocarditis (BCNE), 22% of cases remain undiagnosed despite an updated comprehensive syndromic approach. This prompted us to develop a new diagnostic approach.
Methods
Eleven valves from 10 BCNE patients were analyzed using a method that combines human RNA bait-depletion with phi29 DNA polymerase-based multiple displacement amplification and shotgun DNA sequencing. An additional case in which a microbe was serendipitously visualized by immunofluorescence was analyzed using the same method, but after laser capture microdissection.
Results
Background DNA prevented any diagnosis in cases analyzed without microdissection because the majority of sequences were contaminants. Moraxella sequences were dramatically enriched in the stained microdissected region of the additional case. A consensus genome sequence of 2.4 Mbp covering more than 94% of the Moraxella osloensis KSH reference genome was reconstructed with 234X average coverage. Several antibiotic-resistance genes were observed. Etiological diagnosis was confirmed using Western blot and specific polymerase chain reaction with sequencing on a different valve sample.
Conclusions
Microdissection could be a key to the metagenomic diagnosis of infectious diseases when a microbe is visualized but remains unidentified despite an updated optimal approach. Moraxella osloensis should be tested in blood culture–negative endocarditis
Cited literature [27 references]
https://hal-amu.archives-ouvertes.fr/hal-02195898
Contributor : Christelle Desnues Connect in order to contact the contributor
Submitted on : Sunday, July 19, 2020 - 9:51:42 AM
Last modification on : Tuesday, January 25, 2022 - 4:28:03 PM
Long-term archiving on: : Tuesday, December 1, 2020 - 12:55:20 AM
Contributor : Christelle Desnues Connect in order to contact the contributor
Submitted on : Sunday, July 19, 2020 - 9:51:42 AM
Last modification on : Tuesday, January 25, 2022 - 4:28:03 PM
Long-term archiving on: : Tuesday, December 1, 2020 - 12:55:20 AM