IDseq—An open source cloud-based pipeline and analysis service for metagenomic pathogen detection and monitoring

KL Kalantar, T Carvalho, CFA de Bourcy… - …, 2020 - academic.oup.com
Background Metagenomic next-generation sequencing (mNGS) has enabled the rapid,
unbiased detection and identification of microbes without pathogen-specific reagents …

Advances in Understanding Leishmania Pathobiology: What Does RNA-Seq Tell Us?

T Salloum, S Tokajian, RP Hirt - Frontiers in Cell and Developmental …, 2021 - frontiersin.org
Leishmaniasis is a vector-borne disease caused by a protozoa parasite from over 20
Leishmania species. The clinical manifestations and the outcome of the disease vary …

Simultaneous codon usage, the origin of the proteome, and the emergence of de-novo proteins

CW Carter Jr - Current Opinion in Structural Biology, 2021 - Elsevier
Highlights•Codon–amino acid assignments and their redundancies are consistent with
simultaneous use in all 6 reading frames.•In-frame bidirectional coding entails unique …

[PDF][PDF] The discovery, distribution, and diversity of DNA viruses associated with Drosophila melanogaster in Europe

MA Wallace, KA Coffman, C Gilbert, S Ravindran… - Virus …, 2021 - academic.oup.com
Drosophila melanogaster is an important model for antiviral immunity in arthropods, but very
few DNA viruses have been described from the family Drosophilidae. This deficiency limits …

Persistence of ambigrammatic narnaviruses requires translation of the reverse open reading frame

H Retallack, KD Popova, MT Laurie… - Journal of …, 2021 - Am Soc Microbiol
Narnaviruses are RNA viruses detected in diverse fungi, plants, protists, arthropods, and
nematodes. Though initially described as simple single-gene nonsegmented viruses …

Enhanced arbovirus surveillance with high-throughput metatranscriptomic processing of field-collected mosquitoes

J Batovska, PT Mee, TI Sawbridge, BC Rodoni… - Viruses, 2022 - mdpi.com
Surveillance programs are essential for the prevention and control of mosquito-borne
arboviruses that cause serious human and animal diseases. Viral metatranscriptomic …

Polymorphism of genetic ambigrams

G Dudas, G Huber, M Wilkinson, D Yllanes - Virus Evolution, 2021 - academic.oup.com
Double synonyms in the genetic code can be used as a tool to test competing hypotheses
regarding ambigrammatic narnavirus genomes. Applying the analysis to recent observations …

[PDF][PDF] IDseq-An open source cloud-based pipeline and analysis service for metagenomic

KL Kalantar, T Carvalho, CFA de Bourcy - GigaScience, 9 (10), 2020 - scholar.archive.org
Background: Metagenomic next-generation sequencing (mNGS) has enabled the rapid,
unbiased detection and identification of microbes without pathogen-specific reagents …