ArticlePloS one2018
Detection of pathogenic bacteria in the blood from sepsis patients using 16S rRNA gene amplicon sequencing analysis.
Article in PloS one, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 40 citations in OpenAlex.
- Microbiomes of frozen blood plasma samples reveal potential pathogens in wild birds and rodents.One health (Amsterdam, Netherlands) · 2025Article
- Altered baseline immunological state and impaired immune response to SARS-CoV-2 mRNA vaccination in lung transplant recipients.Cell reports. Medicine · 2025Article
- Characterization of blood microbial population in beef calves with clinical signs of sepsis using 16S rRNA gene sequencing.PloS one · 2025Article
- ColiSeq: a multiplex amplicon assay that provides strain level resolution ofMicrobiology spectrum · 2024Article
- Investigating the etiologies of non-malarial febrile illness in Senegal using metagenomic sequencing.Nature communications · 2024Article
- Novel Diagnostic Methods for Infective Endocarditis.International journal of molecular sciences · 2024Review
- Toward predictive engineering of gene circuits.Trends in biotechnology · 2023Review
- Analysis of genetic structure and function of clustered regularly interspaced short palindromic repeats loci in 110Frontiers in microbiology · 2023Article
- Clinical Application of Metagenomic Next-Generation Sequencing in Patients with Hematologic Malignancies Suffering from Sepsis.Microorganisms · 2021Article
- Targeted metagenomics using next generation sequencing in laboratory diagnosis of culture negative endophthalmitis.Heliyon · 2021Article
- Analysis of pathogens, drug resistance, sensitive antibiotic treatment and risk factors of early-onset sepsis in very low birth weight infants.American journal of translational research · 2021Article
- Key Technologies for Progressing Discovery of Microbiome-Based Medicines.Frontiers in microbiology · 2021Review
- Mass Spectrometry Proteotyping-Based Detection and Identification ofFrontiers in cellular and infection microbiology · 2021Article
- Metagenomic Next-Generation Sequencing of Bloodstream Microbial Cell-Free Nucleic Acid in Children With Suspected Sepsis in Pediatric Intensive Care Unit.Frontiers in cellular and infection microbiology · 2021Article
- Targeted Metagenomics Offers Insights into Potential Tick-Borne Pathogens.Journal of clinical microbiology · 2020Article
- Advantages and Limitations of 16S rRNA Next-Generation Sequencing for Pathogen Identification in the Diagnostic Microbiology Laboratory: Perspectives from a Middle-Income Country.Diagnostics (Basel, Switzerland) · 2020Review
- Systems biological assessment of immunity to mild versus severe COVID-19 infection in humans.Science (New York, N.Y.) · 2020Article
- Classical Microbiological Diagnostics of Bacteremia: Are the Negative Results Really Negative? What is the Laboratory Result Telling Us About the "Gold Standard"?Microorganisms · 2020Article
- Identification and quantitation of clinically relevant microbes in patient samples: Comparison of three k-mer based classifiers for speed, accuracy, and sensitivity.PLoS computational biology · 2019Article
- Rules of anti-infection therapy for sepsis and septic shock.Chinese medical journal · 2019Review
Corrections and comments
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Authors and funding
12 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Prompt identification of causative pathogenic bacteria is imperative for the treatment of patients suffering from infectious diseases, including sepsis and pneumonia. However, current culture-based methodologies have several drawbacks including their limitation of use to culturable bacterial species. To circumvent these problems, we attempted to detect bacterial DNA in blood using next-generation DNA sequencing (NGS) technology. We conducted metagenomic and 16S ribosomal RNA (rRNA) gene amplicon sequencing of DNA extracted from bacteria-spiked blood using an Ion Personal Genome Machine. NGS data was analyzed using our in-house pipeline Genome Search Toolkit and database GenomeSync. The metagenomic sequencing analysis successfully detected three gram-positive and three gram-negative bacteria spiked in the blood, which was associated with a significant portion of non-bacterial reads, even though human blood cells were separated by low-speed centrifugation prior to DNA extraction. Sequencing analysis of seven variable regions of the 16S rRNA gene amplicon also successfully detected all six bacteria spiked in the blood. The methodology using 16S rRNA gene amplicon analysis was verified using DNA from the blood of six patients with sepsis and four healthy volunteers with potential pathogenic bacteria in the blood being identified at the species level. These findings suggest that our system will be a potential platform for practical diagnosis in the future.
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