Benchmarking metagenomics tools for taxonomic classification

HY Simon, KJ Siddle, DJ Park, PC Sabeti - Cell, 2019 - cell.com
Metagenomic sequencing is revolutionizing the detection and characterization of microbial
species, and a wide variety of software tools are available to perform taxonomic …

The enigmatic roles of Anelloviridae and Redondoviridae in humans

LJ Taylor, EL Keeler, FD Bushman… - Current Opinion in …, 2022 - Elsevier
Anelloviridae and Redondoviridae are virus families with small, circular, single-stranded
DNA genomes that are common components of the human virome. Despite their small …

The blood DNA virome in 8,000 humans

A Moustafa, C Xie, E Kirkness, W Biggs, E Wong… - PLoS …, 2017 - journals.plos.org
The characterization of the blood virome is important for the safety of blood-derived
transfusion products, and for the identification of emerging pathogens. We explored non …

Virome in the cloaca of wild and breeding birds revealed a diversity of significant viruses

T Shan, S Yang, H Wang, H Wang, J Zhang, G Gong… - Microbiome, 2022 - Springer
Background Wild birds may harbor and transmit viruses that are potentially pathogenic to
humans, domestic animals, and other wildlife. Results Using the viral metagenomic …

Virome comparisons in wild-diseased and healthy captive giant pandas

W Zhang, S Yang, T Shan, R Hou, Z Liu, W Li, L Guo… - Microbiome, 2017 - Springer
Abstract Background The giant panda (Ailuropoda melanoleuca) is a vulnerable mammal
herbivore living wild in central China. Viral infections have become a potential threat to the …

[HTML][HTML] Virome of> 12 thousand Culex mosquitoes from throughout California

M Sadeghi, E Altan, X Deng, CM Barker, Y Fang… - Virology, 2018 - Elsevier
Metagenomic analysis of whole mosquitoes allows the genetic characterization of all
associated viruses, including arboviruses and insect-specific viruses, plus those in their diet …

Family Genomoviridae: 2021 taxonomy update

A Varsani, M Krupovic - Archives of virology, 2021 - Springer
Abstract The family Genomoviridae (phylum Cressdnaviricota, class Repensiviricetes, order
Geplafuvirales) includes viruses with circular single-stranded DNA genomes encoding two …

Sequence-based taxonomic framework for the classification of uncultured single-stranded DNA viruses of the family Genomoviridae

A Varsani, M Krupovic - Virus evolution, 2017 - academic.oup.com
With the advent of metagenomics approaches, a large diversity of known and unknown
viruses has been identified in various types of environmental, plant, and animal samples …

Viral metagenomics unveiled extensive communications of viruses within giant pandas and their associated organisms in the same ecosystem

M Zhao, C Yue, Z Yang, Y Li, D Zhang, J Zhang… - Science of the Total …, 2022 - Elsevier
Cross-species transmission events were commonplace, with numerous cases of host-
switching during the viral evolutionary history, but relatively little evidence for onward …

Beyond cytomegalovirus and Epstein-Barr virus: a review of viruses composing the blood virome of solid organ transplant and hematopoietic stem cell transplant …

MC Zanella, S Cordey, L Kaiser - Clinical microbiology reviews, 2020 - Am Soc Microbiol
Viral primary infections and reactivations are common complications in patients after solid
organ transplantation (SOT) and hematopoietic stem cell transplantation (HSCT) and are …