Identification of Pathogens in the Intraocular Fluid Samples of Patients With Endogenous Endophthalmitis Using Rapid Nanopore Targeted Sequencing

Hao, Xinlei; Wang, Ming; Yuan, Man; Zhang, Rui; Jin, Wei; Yang, Anhuai

doi:10.1097/iae.0000000000003719

Retina

2022

DOI: 10.1097/iae.0000000000003719

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Identification of Pathogens in the Intraocular Fluid Samples of Patients With Endogenous Endophthalmitis Using Rapid Nanopore Targeted Sequencing

Xinlei Hao¹,

Ming Wang²,

Man Yuan³

et al.

Abstract: Nanopore targeted sequencing showed a higher positivity rate and a shorter turnaround time than did traditional culture in identifying pathogens in the intraocular fluid samples of patients with endogenous endophthalmitis.

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2023

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Genomic Features and Comparative Genomic Analysis of Streptococcus sp. v1. nov., Isolated from an Endophthalmitis Patient

Zheng,

Kang,

Shen

et al. 2023

Curr Microbiol

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Endophthalmitis is an acute in ammatory intraocular condition that can cause permanent vision loss.The treatment strategy and visual outcome partly depend on the identi cation of the pathogenic agents. In this study, metagenomic sequencing was conducted to investigate the microbiome of the vitreous of an endophthalmitis patient whose disease progressed rapidly and was accompanied by severe pain.Metagenomic sequencing data revealed that the vitreous sample was predominated by Streptococcus, with a low-diversity microbiome. The main antibiotic resistance gene (ARG) types included beta-lactam, macrolide-lincosamide-streptogramin, and multidrug resistance genes. Additionally, the metagenomeassembled genome sequence of Streptococcus sp. v1. nov. was isolated. The average nucleotide identities (ANI) and DNA-DNA hybridization (DDH) analysis between the genomes of Streptococcus sp. v1. nov and related species revealed that Streptococcus sp. v1. nov belongs to a new species. Pan/core genome analysis for Streptococcus sp. v1. nov. and tetra correlation search (TCS) top 25 hit strains revealed that most unique genes of Streptococcus sp. v1. nov. were linked to the ABC transporter system, which could indicate the unique virulence and pathogenic potential of Streptococcus sp. v1. nov. In addition, 7 virulence factors were identi ed in total, and most of them were classi ed as "offensive virulence factors". The high pathogenicity of Streptococcus sp. v1. nov. could explain the patient's rapid disease progression. Our study rst isolated an ocular pathogen with high virulence based on metagenomic sequencing and bioinformatics analysis, which has important reference value for revealing the composition and genome characteristics of pathogens in endophthalmitis patients in the future.

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Genomic Features and Comparative Genomic Analysis of Streptococcus sp. v1. nov., Isolated from an Endophthalmitis Patient

Zheng,

Kang,

Shen

et al. 2023

Curr Microbiol

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Identification of Pathogens in the Intraocular Fluid Samples of Patients With Endogenous Endophthalmitis Using Rapid Nanopore Targeted Sequencing

Abstract: Nanopore targeted sequencing showed a higher positivity rate and a shorter turnaround time than did traditional culture in identifying pathogens in the intraocular fluid samples of patients with endogenous endophthalmitis.

Cited by 1 publication

References 22 publications

Genomic Features and Comparative Genomic Analysis of Streptococcus sp. v1. nov., Isolated from an Endophthalmitis Patient

Genomic Features and Comparative Genomic Analysis of Streptococcus sp. v1. nov., Isolated from an Endophthalmitis Patient

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