Clinical metagenomics—challenges and future prospects

M Batool, J Galloway-Peña - Frontiers in microbiology, 2023 - frontiersin.org
Infections lacking precise diagnosis are often caused by a rare or uncharacterized
pathogen, a combination of pathogens, or a known pathogen carrying undocumented or …

IDseq—An open source cloud-based pipeline and analysis service for metagenomic pathogen detection and monitoring

KL Kalantar, T Carvalho, CFA de Bourcy… - …, 2020 - academic.oup.com
Background Metagenomic next-generation sequencing (mNGS) has enabled the rapid,
unbiased detection and identification of microbes without pathogen-specific reagents …

Fun (gi) omics: Advanced and diverse technologies to explore emerging fungal pathogens and define mechanisms of antifungal resistance

B Ball, M Langille, J Geddes-McAlister - MBio, 2020 - journals.asm.org
The landscape of infectious fungal agents includes previously unidentified or rare
pathogens with the potential to cause unprecedented casualties in biodiversity, food …

Metagenomic next-generation sequencing for diagnosis of pediatric meningitis and encephalitis: a review

K Graff, SR Dominguez… - Journal of the Pediatric …, 2021 - academic.oup.com
Metagenomic next-generation sequencing is a novel diagnostic test with the potential to
revolutionize the diagnosis of pediatric meningitis and encephalitis through unbiased …

Canine meningoencephalitis of unknown origin—the search for infectious agents in the cerebrospinal fluid via deep sequencing

JN Nessler, WK Jo, ADME Osterhaus… - Frontiers in Veterinary …, 2021 - frontiersin.org
Meningoencephalitis of unknown origin (MUO) describes a group of meningoencephalitides
in dogs with a hitherto unknown trigger. An infectious agent has been suggested as one …

[HTML][HTML] Next-generation sequencing for the detection of microbial agents in avian clinical samples

CL Afonso, AM Afonso - Veterinary Sciences, 2023 - mdpi.com
Simple Summary Significant progress in next-generation sequencing (NGS) is positioning
this technology as a key tool to be utilized in clinical diagnosis of disease agents and/or for …

Diagnosis of pathogens causing bacterial meningitis using Nanopore sequencing in a resource-limited setting

SR Pallerla, D Van Dong, LTK Linh, T Van Son… - Annals of Clinical …, 2022 - Springer
Aim The aim of the present study is to compare the performance of 16S rRNA Nanopore
sequencing and conventional culture in detecting infectious pathogens in patients with …

[HTML][HTML] Complete genome sequencing of tick-borne encephalitis virus directly from clinical samples: comparison of shotgun metagenomic and targeted amplicon …

S Zakotnik, N Knap, P Bogovič, TM Zorec, M Poljak… - Viruses, 2022 - mdpi.com
The clinical presentation of tick-borne encephalitis virus (TBEV) infection varies from
asymptomatic to severe meningoencephalitis or meningoencephalomyelitis. The TBEV …

Non-targeted RNA sequencing: towards the development of universal clinical diagnosis methods for human and veterinary infectious diseases

S Spatz, CL Afonso - Veterinary Sciences, 2024 - mdpi.com
Simple Summary With advances in NGS technology, the high ratio of throughput/cost per
base has allowed research laboratories to develop diagnostic protocols that can detect …

Viruses causing aseptic meningitis: a tertiary medical center experience with a multiplex PCR assay

MA Aldriweesh, EA Shafaay, SM Alwatban… - Frontiers in …, 2020 - frontiersin.org
Background: Central nervous system (CNS) infection is associated with high rates of
morbidity and mortality, and despite advancements in molecular testing, aseptic meningitis …