[HTML][HTML] Understanding bacteriophage tail fiber interaction with host surface receptor: the key “blueprint” for reprogramming phage host range

J Taslem Mourosi, A Awe, W Guo, H Batra… - International Journal of …, 2022 - mdpi.com
Bacteriophages (phages), as natural antibacterial agents, are being rediscovered because
of the growing threat of multi-and pan-drug-resistant bacterial pathogens globally. However …

[HTML][HTML] Microbiome-phage interactions in inflammatory bowel disease

S Federici, D Kviatcovsky, R Valdés-Mas… - Clinical microbiology and …, 2023 - Elsevier
Background Inflammatory bowel disease (IBD) constitutes a group of auto-inflammatory
disorders that impact the gastrointestinal tract and other systemic organs. The gut …

[HTML][HTML] Resolving the structure of phage–bacteria interactions in the context of natural diversity

KM Kauffman, WK Chang, JM Brown… - Nature …, 2022 - nature.com
Microbial communities are shaped by viral predators. Yet, resolving which viruses (phages)
and bacteria are interacting is a major challenge in the context of natural levels of microbial …

[HTML][HTML] PhageScope: a well-annotated bacteriophage database with automatic analyses and visualizations

RH Wang, S Yang, Z Liu, Y Zhang, X Wang… - Nucleic acids …, 2024 - academic.oup.com
Bacteriophages are viruses that infect bacteria or archaea. Understanding the diverse and
intricate genomic architectures of phages is essential to study microbial ecosystems and …

[HTML][HTML] Phage-inducible chromosomal minimalist islands (PICMIs), a novel family of small marine satellites of virulent phages

R Barcia-Cruz, D Goudenège… - Nature …, 2024 - nature.com
Phage satellites are bacterial genetic elements that co-opt phage machinery for their own
dissemination. Here we identify a family of satellites, named Phage-Inducible Chromosomal …

[HTML][HTML] PhageLeads: rapid assessment of phage therapeutic suitability using an ensemble machine learning approach

K Yukgehnaish, H Rajandas, S Parimannan… - Viruses, 2022 - mdpi.com
The characterization of therapeutic phage genomes plays a crucial role in the success rate
of phage therapies. There are three checkpoints that need to be examined for the selection …

[HTML][HTML] Predicting bacteriophage hosts based on sequences of annotated receptor-binding proteins

D Boeckaerts, M Stock, B Criel, H Gerstmans… - Scientific reports, 2021 - nature.com
Nowadays, bacteriophages are increasingly considered as an alternative treatment for a
variety of bacterial infections in cases where classical antibiotics have become ineffective …

Large language models improve annotation of prokaryotic viral proteins

ZN Flamholz, SJ Biller, L Kelly - Nature Microbiology, 2024 - nature.com
Viral genomes are poorly annotated in metagenomic samples, representing an obstacle to
understanding viral diversity and function. Current annotation approaches rely on alignment …

[HTML][HTML] Unique mobile elements and scalable gene flow at the prokaryote–eukaryote boundary revealed by circularized Asgard archaea genomes

F Wu, DR Speth, A Philosof, A Crémière… - Nature …, 2022 - nature.com
Eukaryotic genomes are known to have garnered innovations from both archaeal and
bacterial domains but the sequence of events that led to the complex gene repertoire of …

Genomes of six viruses that infect Asgard archaea from deep-sea sediments

IM Rambo, MV Langwig, P Leão, V De Anda… - Nature …, 2022 - nature.com
Asgard archaea are globally distributed prokaryotic microorganisms related to eukaryotes;
however, viruses that infect these organisms have not been described. Here, using …