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The human virome: assembly, composition and host interactions
The human body hosts vast microbial communities, termed the microbiome. Less well
known is the fact that the human body also hosts vast numbers of different viruses …
known is the fact that the human body also hosts vast numbers of different viruses …
Four principles to establish a universal virus taxonomy
A universal taxonomy of viruses is essential for a comprehensive view of the virus world and
for communicating the complicated evolutionary relationships among viruses. However …
for communicating the complicated evolutionary relationships among viruses. However …
A roadmap for genome-based phage taxonomy
Bacteriophage (phage) taxonomy has been in flux since its inception over four decades ago.
Genome sequencing has put pressure on the classification system and recent years have …
Genome sequencing has put pressure on the classification system and recent years have …
Viral community-wide auxiliary metabolic genes differ by lifestyles, habitats, and hosts
Background Viral-encoded auxiliary metabolic genes (AMGs) are important toolkits for
modulating their hosts' metabolisms and the microbial-driven biogeochemical cycles …
modulating their hosts' metabolisms and the microbial-driven biogeochemical cycles …
PHROG: families of prokaryotic virus proteins clustered using remote homology
Viruses are abundant, diverse and ancestral biological entities. Their diversity is high, both
in terms of the number of different protein families encountered and in the sequence …
in terms of the number of different protein families encountered and in the sequence …
Phage diversity, genomics and phylogeny
Recent advances in viral metagenomics have enabled the rapid discovery of an
unprecedented catalogue of phages in numerous environments, from the human gut to the …
unprecedented catalogue of phages in numerous environments, from the human gut to the …
INfrastructure for a PHAge REference database: identification of large-scale biases in the current collection of cultured phage genomes
Background: With advances in sequencing technology and decreasing costs, the number of
phage genomes that have been sequenced has increased markedly in the past decade …
phage genomes that have been sequenced has increased markedly in the past decade …
Tara Oceans: towards global ocean ecosystems biology
A planetary-scale understanding of the ocean ecosystem, particularly in light of climate
change, is crucial. Here, we review the work of Tara Oceans, an international …
change, is crucial. Here, we review the work of Tara Oceans, an international …
Prediction of strain level phage–host interactions across the Escherichia genus using only genomic information
Predicting bacteriophage infection of specific bacterial strains promises advancements in
phage therapy and microbial ecology. Whether the dynamics of well-established phage …
phage therapy and microbial ecology. Whether the dynamics of well-established phage …
Taxonomic assignment of uncultivated prokaryotic virus genomes is enabled by gene-sharing networks
Microbiomes from every environment contain a myriad of uncultivated archaeal and
bacterial viruses, but studying these viruses is hampered by the lack of a universal, scalable …
bacterial viruses, but studying these viruses is hampered by the lack of a universal, scalable …