2022
DOI: 10.3389/fmicb.2022.855988
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Diagnosis and Surveillance of Neonatal Infections by Metagenomic Next-Generation Sequencing

Abstract: Microbial infections cause significant morbidity and mortality in neonates. Metagenomic next-generation sequencing is a hypothesis-free and culture-free test that enables broad identification of pathogens and antimicrobial resistance genes directly from clinical samples within 24 h. In this study, we used mNGS for etiological diagnosis and monitoring the efficacy of antibiotic treatment in a cohort of neonatal patients with severe infections. The median age was 19.5 (3–52) days, median gestational age was 37.9… Show more

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Cited by 11 publications
(12 citation statements)
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“… 22 The concentration of the libraries was quantified by performing real-time PCR (KAPA) and was pooled. 28 Then, the libraries were sequenced on the Illumina NextSeq 550 sequencer (San Diego, California, USA) using a 75-cycle sequencing kit. A total of 10–20 million reads were obtained for each sample for subsequent bioinformatics analysis.…”
Section: Methodsmentioning
confidence: 99%
See 2 more Smart Citations
“… 22 The concentration of the libraries was quantified by performing real-time PCR (KAPA) and was pooled. 28 Then, the libraries were sequenced on the Illumina NextSeq 550 sequencer (San Diego, California, USA) using a 75-cycle sequencing kit. A total of 10–20 million reads were obtained for each sample for subsequent bioinformatics analysis.…”
Section: Methodsmentioning
confidence: 99%
“… 22 For each run, one negative control (artificial plasma mixed with fragmented human genomic DNA) and one positive control (a mixture of inactivated bacteria, fungi, and pseudoviral particles containing synthesised DNA or RNA fragments of adenovirus and influenza A virus, respectively) were used. 28 …”
Section: Methodsmentioning
confidence: 99%
See 1 more Smart Citation
“…Standardization of the methodological and analytical workflows has just started [ 109 , 110 ]. Proof-of-concept studies have shown the potential clinical impact in pathogen identification within culture-negative samples of, e.g., meningitis and encephalitis [ 111 ], sepsis [ 112 , 113 , 114 ], pneumonia [ 115 , 116 ], and prosthetic joint infections [ 117 , 118 ]. The detection limit of shotgun metagenomics is affected by slow-growing microorganisms or if the potential pathogen is present in low abundance.…”
Section: Focus On Bacterial Communitiesmentioning
confidence: 99%
“…In recent years, unbiased metagenomic next-generation sequencing (mNGS) has been used in medical microbiology as an emerging and powerful technique due to its low cost, rapid turnaround time, and convenience. mNGS can generate millions to billions of DNA/RNA sequences per run, enabling metagenomic analysis, and providing a significant advantage over traditional Sanger sequencing (Guan et al, 2016 ; Fang et al, 2020 ; Hu et al, 2021 ; Zhang et al, 2022 ). Given that next-generation metagenomic sequencing is associated with higher sensitivity (mNGS; Chen et al, 2020 ; Duan et al, 2021 ) and is less affected by prior antibiotic exposure, it has been used to diagnose infections after solid organ transplantation.…”
Section: Introductionmentioning
confidence: 99%