Metagenomics for pathogen detection in public health
Traditional pathogen detection methods in public health infectious disease surveillance rely
upon the identification of agents that are already known to be associated with a particular …
upon the identification of agents that are already known to be associated with a particular …
Bacterial genome sequencing in clinical microbiology: a pathogen-oriented review
In recent years, whole-genome sequencing (WGS) has been perceived as a technology with
the potential to revolutionise clinical microbiology. Herein, we reviewed the literature on the …
the potential to revolutionise clinical microbiology. Herein, we reviewed the literature on the …
Next-generation sequencing diagnostics of bacteremia in septic patients
S Grumaz, P Stevens, C Grumaz, SO Decker… - Genome medicine, 2016 - Springer
Background Bloodstream infections remain one of the major challenges in intensive care
units, leading to sepsis or even septic shock in many cases. Due to the lack of timely …
units, leading to sepsis or even septic shock in many cases. Due to the lack of timely …
Rapid whole-genome sequencing for detection and characterization of microorganisms directly from clinical samples
Whole-genome sequencing (WGS) is becoming available as a routine tool for clinical
microbiology. If applied directly on clinical samples, this could further reduce diagnostic …
microbiology. If applied directly on clinical samples, this could further reduce diagnostic …
Nonculture molecular techniques for diagnosis of bacterial disease in animals: a diagnostic laboratory perspective
The past decade has seen remarkable technical advances in infectious disease diagnosis,
and the pace of innovation is likely to continue. Many of these techniques are well suited to …
and the pace of innovation is likely to continue. Many of these techniques are well suited to …
Whole-genome sequencing targets drug-resistant bacterial infections
NV Punina, NM Makridakis, MA Remnev, AF Topunov - Human genomics, 2015 - Springer
During the past two decades, the technological progress of whole-genome sequencing
(WGS) had changed the fields of Environmental Microbiology and Biotechnology, and …
(WGS) had changed the fields of Environmental Microbiology and Biotechnology, and …
Diagnostic metagenomics: potential applications to bacterial, viral and parasitic infections
MJ Pallen - Parasitology, 2014 - cambridge.org
The term 'shotgun metagenomics' is applied to the direct sequencing of DNA extracted from
a sample without culture or target-specific amplification or capture. In diagnostic …
a sample without culture or target-specific amplification or capture. In diagnostic …
Whole-genome enrichment and sequencing of Chlamydia trachomatisdirectly from clinical samples
Background Chlamydia trachomatis is a pathogen of worldwide importance, causing more
than 100 million cases of sexually transmitted infections annually. Whole-genome …
than 100 million cases of sexually transmitted infections annually. Whole-genome …
Environmental metagenomic assemblies reveal seven new highly divergent chlamydial lineages and hallmarks of a conserved intracellular lifestyle
The Chlamydiae phylum exclusively encompasses bacteria sharing a similar obligate
intracellular life cycle. Existing 16S rDNA data support a high diversity within the phylum …
intracellular life cycle. Existing 16S rDNA data support a high diversity within the phylum …
Cross-correlation of virome–bacteriome–host–metabolome to study respiratory health
A comprehensive understanding of the microbiome–host relationship in respiratory diseases
can be elucidated by exploring the landscape of virome–bacteriome–host metabolome data …
can be elucidated by exploring the landscape of virome–bacteriome–host metabolome data …