Evidence map›Paper›PMID 41155136›Full record

ArticleInternational journal of molecular sciences2025

Assessment of Microbiome-Based Pathogen Detection Using Illumina Short-Read and Nanopore Long-Read Sequencing in 144 Patients Undergoing Bronchoalveolar Lavage in a University Hospital in Germany.

Merle Bitter, Markus Weigel, Jan Philipp Mengel, Benjamin Ott, Anita C Windhorst, Khodr Tello, Can Imirzalioglu, Torsten Hain

Abstract read
In one paragraph

Article in International journal of molecular sciences, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

2 citing papers in PubMed.

  1. Review
  2. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

8 authors.

Merle BitterInstitute of Medical Microbiology, Medical Microbiome-Metagenome Unit (M3U), Justus Liebig University Giessen, 35392 Giessen, Germany.
Markus WeigelInstitute of Medical Microbiology, Medical Microbiome-Metagenome Unit (M3U), Justus Liebig University Giessen, 35392 Giessen, Germany.ORCID 0000-0002-3140-3174
Jan Philipp MengelInstitute of Medical Microbiology, Medical Microbiome-Metagenome Unit (M3U), Justus Liebig University Giessen, 35392 Giessen, Germany.
Benjamin OttInstitute of Medical Microbiology, Medical Microbiome-Metagenome Unit (M3U), Justus Liebig University Giessen, 35392 Giessen, Germany.ORCID 0009-0002-9573-5108
Anita C WindhorstInstitute of Medical Informatics, Justus Liebig University Giessen, 35392 Giessen, Germany.ORCID 0000-0002-7357-2080
Khodr TelloDepartment of Internal Medicine, Universities of Giessen and Marburg Lung Center (UGMLC), German Center for Lung Research (DZL), Justus Liebig University Giessen, 35392 Giessen, Germany.
Can ImirzaliogluInstitute of Medical Microbiology, Medical Microbiome-Metagenome Unit (M3U), Justus Liebig University Giessen, 35392 Giessen, Germany.
Torsten HainInstitute of Medical Microbiology, Medical Microbiome-Metagenome Unit (M3U), Justus Liebig University Giessen, 35392 Giessen, Germany.

Funding

Deutsche Forschungsgemeinschaft TRR 84/3 Innate Immunity of the Lung, B08Faculty of Medicine at Justus Liebig University Giessen MB2021 JLU TRAINEEHessian Ministry of Science and Research, Arts and Culture (HMWK) 519/03/06.001-(0002) LOEWE-Diffusible Signals B03
6 · The paper itself

Abstract

Lower respiratory tract infections (LRTIs) represent a significant global health concern, and the accurate identification of pathogens is crucial for patient care. Culture-based methods are the gold standard, but their detection abilities are limited. Next-generation sequencing (NGS) offers a promising method for comprehensive microbial detection, providing valuable information for clinical practice. In this study, 144 bronchoalveolar lavage fluid samples were collected, culture-based diagnostics were performed, and bacterial microbiome profiles were generated by short-read sequencing of the V4 region of the 16S rRNA gene using Illumina technologies and long-read sequencing with Oxford Nanopore Technologies (ONT) to determine the full-length 16S rRNA gene. The most common genera detected by NGS included Streptococcus,

Indexed as

BacteriaBronchoalveolar Lavage FluidHigh-Throughput Nucleotide SequencingMicrobiotaRespiratory Tract InfectionsAdultAgedAged, 80 and overBronchoalveolar LavageFemaleGermanyHospitals, UniversityHumansMaleMiddle AgedNanopore SequencingRNA, Ribosomal, 16S16S rRNA genebronchoalveolar lavage fluidculture-based diagnosticsIllumina short-read sequencinglower respiratory tract infectionmicrobiomenanopore long-read sequencing

Identifiers

PMID41155136
PMCPMC12564420

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.