Improving viral annotation with artificial intelligence
ABSTRACT Viruses of bacteria,“phages,” are fundamental, poorly understood components
of microbial community structure and function. Additionally, their dependence on hosts for …
of microbial community structure and function. Additionally, their dependence on hosts for …
What lies beneath? Taking the plunge into the murky waters of phage biology
The sequence revolution revealed that bacteria-infecting viruses, known as phages, are
Earth's most abundant biological entities. Phages have far-reaching impacts on the form and …
Earth's most abundant biological entities. Phages have far-reaching impacts on the form and …
Bidirectional Interactions between Arboviruses and the Bacterial and Viral Microbiota in Aedes aegypti and Culex quinquefasciatus
C Shi, L Beller, L Wang, A Rosales Rosas… - MBio, 2022 - Am Soc Microbiol
Mosquitoes are important vectors for many arboviruses. It is becoming increasingly clear that
various symbiotic microorganisms (including bacteria and insect-specific viruses; ISVs) in …
various symbiotic microorganisms (including bacteria and insect-specific viruses; ISVs) in …
Phage-antibiotic combinations against multidrug-resistant Pseudomonas aeruginosa in in vitro static and dynamic biofilm models
Biofilm-producing Pseudomonas aeruginosa infections pose a severe threat to public health
and are responsible for high morbidity and mortality. Phage-antibiotic combinations (PACs) …
and are responsible for high morbidity and mortality. Phage-antibiotic combinations (PACs) …
A previously undescribed highly prevalent phage identified in a Danish Enteric Virome Catalog
Gut viruses are important, yet often neglected, players in the complex human gut microbial
ecosystem. Recently, the number of human gut virome studies has been increasing; …
ecosystem. Recently, the number of human gut virome studies has been increasing; …
Alphaflexivirus genomes in stony coral tissue loss disease-affected, disease-exposed, and disease-unexposed coral colonies in the US Virgin Islands
Stony coral tissue loss disease (SCTLD) is decimating Caribbean corals. Here, through the
metatranscriptomic assembly and annotation of two alphaflexivirus-like strains, we provide …
metatranscriptomic assembly and annotation of two alphaflexivirus-like strains, we provide …
Ciprofloxacin in combination with bacteriophage cocktails against multi-drug resistant Pseudomonas aeruginosa in ex vivo simulated endocardial vegetation models
Pseudomonas aeruginosa-associated infective endocarditis represents difficult-to-treat,
deep-seated infections. Phage-antibiotic combinations have shown to eradicate multi-drug …
deep-seated infections. Phage-antibiotic combinations have shown to eradicate multi-drug …
Spatial and temporal dynamics of prokaryotic and viral community assemblages in a lotic system (Manatee Springs, Florida)
Flow from high-magnitude springs fed by the Floridan aquifer system contributes hundreds
of liters of water per second to rivers, creating unique lotic systems. Despite their importance …
of liters of water per second to rivers, creating unique lotic systems. Despite their importance …
Comparative genomics reveals the correlations of stress response genes and bacteriophages in develo** antibiotic resistance of Staphylococcus saprophyticus
K Zhang, RF Potter, J Marino, CE Muenks… - Msystems, 2023 - Am Soc Microbiol
Staphylococcus saprophyticus is the leading Gram-positive cause of uncomplicated urinary
tract infections. Recent reports of increasing antimicrobial resistance (AMR) in S …
tract infections. Recent reports of increasing antimicrobial resistance (AMR) in S …
Benchmarking informatics approaches for virus discovery: caution is needed when combining in silico identification methods
Understanding the ecological impacts of viruses on natural and engineered ecosystems
relies on the accurate identification of viral sequences from community sequencing data. To …
relies on the accurate identification of viral sequences from community sequencing data. To …