A framework for real-time monitoring, analysis and adaptive sampling of viral amplicon nanopore sequencing by Rory Munro, Nadine Holmes, Christopher Moore, Matthew Carlile, Alexander Payne, John R. Tyson, Thomas Williams, Christopher Alder, Luke B. Snell, Gaia Nebbia, Roberto Santos, Matt Loose

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Viral escape mutations do not account for non-protection from SIVmac239 challenge in RhCMV/SIV vaccinated rhesus macaques by Benjamin N. Bimber, Benjamin N. Bimber, Justine Sunshine, G. W. McElfresh, Jason S. Reed, Reese Pathak, Katherine B. Bateman, Colette M. Hughes, Roxanne M. Gilbride, Julia C. Ford, David Morrow, Jeffrey D. Lifson, Jonah B. Sacha, Jonah B. Sacha, Scott G. Hansen, Scott G. Hansen, Louis J. Picker, Louis J. Picker

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Addressing Privacy Concerns in Sharing Viral Sequences and Minimum Contextual Data in a Public Repository During the COVID-19 Pandemic by Lingqiao Song, Hanshi Liu, Fiona S. L Brinkman, Erin Gill, Emma J. Griffiths, William W. L Hsiao, Sarah Savić-Kallesøe, Sandrine Moreira, Gary Van Domselaar, Ma’n H. Zawati, Yann Joly

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A new perspective on risk factors for progressive liver fibrosis in patients with HIV, HBV, HCV superinfection by E. P. Feoktistova, D. Yu. Konstantinov

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The International Virus Bioinformatics Meeting 2022 by Franziska Hufsky, Denis Beslic, Dimitri Boeckaerts, Sebastian Duchene, Enrique González-Tortuero, Andreas J. Gruber, Jiarong Guo, Daan Jansen, John Juma, Kunaphas Kongkitimanon, Antoni Luque, Muriel Ritsch, Gabriel Lencioni Lovate, Luca Nishimura, Célia Pas, Esteban Domingo, Emma Hodcroft, Philippe Lemey, Matthew B. Sullivan, Friedemann Weber, Fernando González-Candelas, Sarah Krautwurst, Alba Pérez-Cataluña, Walter Randazzo, Gloria Sánchez, Manja Marz

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Human Leukocyte Antigen (HLA) Class I Down-Regulation by Human Immunodeficiency Virus Type 1 Negative Factor (HIV-1 Nef): What Might We Learn From Natural Sequence Variants? by Philip Mwimanzi, Tristan J. Markle, Mark A. Brockman, Takamasa Ueno

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Genesis of avian influenza H9N2 in Bangladesh by Karthik Shanmuganatham, Mohammed M Feeroz, Lisa Jones-Engel, David Walker, SMRabiul Alam, MKamrul Hasan, Pamela McKenzie, Scott Krauss, Richard J Webby, Robert G Webster

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Detection and sequencing of Zika virus in normocephalic newborns with congenital Zika infection by Breno Lima de Almeida, Marta Giovanetti, João Vitor Oliveira, Tereza Cristina Xavier Carvalho, Eduardo Manoel Figueiredo, Rosana Pellegrini, Juan Ignacio Calcagno, Marcia Weber Carneiro, Juliana M.G.C. de Oliveira, Adriana Virgínia Barros Faiçal, Iluska Andrade Agra, Cristina Salles, Emília Katiane Embiruçu de Araújo Leão, Rita Lucena, Angelina X. Acosta, Luiz Carlos Junior Alcantara, Isadora Cristina de Siqueira

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Full genomic sequence characterization of the chikungunya virus from an imported case with serum viral concentration below culturable level by Mengling Jiang, Muchun Wan, Qinghong Fan, Yuyi Min, Guofang Tang, Yingfen Wen, Yaqing Lin, Ruiying He, Jiaojiao Li, Yue Tang, Yun Lan, Feng Li

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A laboratory framework for ongoing optimization of amplification-based genomic surveillance programs by Connie Lam, Jessica Johnson-Mackinnon, Kerri Basile, Winkie Fong, Carl J.E. Suster, Mailie Gall, Jessica Agius, Shona Chandra, Jenny Draper, Elena Martinez, Alexander Drew, Qinning Wang, Sharon C. Chen, Jen Kok, Dominic E. Dwyer, Vitali Sintchenko, Rebecca J. Rockett

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An amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar by Nathan D. Grubaugh, Karthik Gangavarapu, Joshua Quick, Nathaniel L. Matteson, Jaqueline Goes De Jesus, Bradley J. Main, Amanda L. Tan, Lauren M. Paul, Doug E. Brackney, Saran Grewal, Nikos Gurfield, Koen K. A. Van Rompay, Sharon Isern, Scott F. Michael, Lark L. Coffey, Nicholas J. Loman, Kristian G. Andersen

Subjects: “…Viral sequencing…”
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Characterisation of novel endogenous geminiviral elements in macadamia by Mohamed C. M. Zakeel, Andrew D. W. Geering, John E. Thomas, Olufemi A. Akinsanmi

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Field and Molecular Epidemiology: How Viral Sequencing Changed Transmission Inferences in the First Portuguese SARS-CoV-2 Infection Cluster by Nicole Pedro, Veronica Fernandes, Bruno Cavadas, João Tiago Guimarães, Henrique Barros, Margarida Tavares, Luisa Pereira

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A Reference Viral Database (RVDB) To Enhance Bioinformatics Analysis of High-Throughput Sequencing for Novel Virus Detection by Norman Goodacre, Aisha Aljanahi, Subhiksha Nandakumar, Mike Mikailov, Arifa S. Khan

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Phylogenetic analysis of HIV-1 archived DNA in blood and gut-associated lymphoid tissue in two patients under antiretroviral therapy by Patricia Recordon-Pinson, Annie Gosselin, Petronela Ancuta, Jean-Pierre Routy, Hervé Fleury

Subjects: “…Phylogenetic comparison of archived viral sequences…”
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The Suitability of RNA from Positive SARS-CoV-2 Rapid Antigen Tests for Whole Virus Genome Sequencing and Variant Identification to Maintain Genomic Surveillance by Annamaria Cucina, Flavia Contino, Giuseppina Brunacci, Valentina Orlando, Mario La Rocca, Sergio Indelicato, Francesca Di Gaudio

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