Visualization of the individual blood microbiome to study the etiology of sarcoidosis.
Lung diseases
Metagenome analysis
Microbiome
Sankey diagram
Sarcoidosis
Visualization
Journal
Computational and structural biotechnology journal
ISSN: 2001-0370
Titre abrégé: Comput Struct Biotechnol J
Pays: Netherlands
ID NLM: 101585369
Informations de publication
Date de publication:
2023
2023
Historique:
received:
19
06
2023
revised:
14
10
2023
accepted:
16
10
2023
medline:
6
11
2023
pubmed:
6
11
2023
entrez:
6
11
2023
Statut:
epublish
Résumé
Single microbial pathogens or host-microbiome dysbiosis are the causes of lung diseases with suspected infectious etiology. Metagenome sequencing provides an overview of the microbiome content. Due to the rarity of most granulomatous lung diseases collecting large systematic datasets is challenging. Thus, single-patient data often can only be summarized visually. To increase the information gain from a single-case metagenome analysis we suggest a quantitative and qualitative approach. The 16S metagenomic results of 7 patients with pulmonary sarcoidosis were compared with those of 22 healthy individuals. From lysed blood, total microbial DNA was extracted and sequenced. Cleaned data reads were identified taxonomically using Kraken 2 software. Individual metagenomic data were visualized with a Sankey diagram, Krona chart, and a heat-map. We identified five genera that were exclusively present or significantly enhanced in patients with sarcoidosis - Our approach can characterize the blood microbiome composition and diversity in rare diseases at an individual level. Investigation of the blood microbiome in patients with granulomatous lung diseases of unknown etiology, such as sarcoidosis could enhance our comprehension of their origin and pathogenesis and potentially uncover novel personalized therapeutics.
Identifiants
pubmed: 37928975
doi: 10.1016/j.csbj.2023.10.027
pii: S2001-0370(23)00385-9
pmc: PMC10624578
doi:
Types de publication
Journal Article
Langues
eng
Pagination
50-57Informations de copyright
© 2023 The Authors.
Déclaration de conflit d'intérêts
All authors notify that there's no financial/personal interest or belief that could affect our objectivity. We state that potential competing interests don't exist. The authors declare that generative AI and AI-assisted technologies were not used in the writing process.
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