French H, Pitre E, Oade M, Elshina E, Bisht K, King A, Bauer D, Velthuis A. Transient RNA structures cause aberrant influenza virus replication and innate immune activation. Sci Adv. 2022;8(36):eabp8655. PMCID: PMC9462681

Roden C, Dai Y, Giannetti C, Seim I, Lee M, Sealfon R, McLaughlin G, Boerneke M, Iserman C, Wey S, Ekena J, Troyanskaya O, Weeks K, You L, Chilkoti A, Gladfelter A. Double-stranded RNA drives SARS-CoV-2 nucleocapsid protein to undergo phase separation at specific temperatures. Nucleic Acids Res. 2022;50(14):8168–8192. PMCID: PMC9371935

Pitre E, Velthuis A. Tinker, tailor, antiviral: RNA virus inhibition by induced recombination. Trends Biochem Sci. 2022;47(6):456–458. PMID: 35123872

Nilsson-Payant B, tenOever B, Velthuis A. The Host Factor ANP32A Is Required for Influenza A Virus vRNA and cRNA Synthesis. J Virol. 2022;96(4):e0209221. PMCID: PMC8865535

Alnaji F, Reiser W, Rivera-Cardona J, Velthuis A, Brooke C. Influenza A Virus Defective Viral Genomes Are Inefficiently Packaged into Virions Relative to Wild-Type Genomic RNAs. mBio. 2021;12(6):e0295921. PMCID: PMC8609359

Chitrakar A, Solorio-Kirpichyan K, Prangley E, Rath S, Du J, Korennykh A. Introns encode dsRNAs undetected by RIG-I/MDA5/interferons and sensed via RNase L. Proc Natl Acad Sci U S A. 2021;118(46). PMCID: PMC8609619

Elshina E, Velthuis A. The influenza virus RNA polymerase as an innate immune agonist and antagonist. Cell Mol Life Sci. 2021;78(23):7237–7256. PMCID: PMC8532088

Fodor E, Velthuis A. Structure and Function of the Influenza Virus Transcription and Replication Machinery. Cold Spring Harb Perspect Med. 2020;10(9). PMCID: PMC7334866

Iserman C, Roden C, Boerneke M, Sealfon R, McLaughlin G, Jungreis I, Fritch E, Hou Y, Ekena J, Weidmann C, Theesfeld C, Kellis M, Troyanskaya O, Baric R, Sheahan T, Weeks K, Gladfelter A. Genomic RNA Elements Drive Phase Separation of the SARS-CoV-2 Nucleocapsid. Mol Cell. 2020;80(6):1078–1091.e6. PMCID: PMC7691212

Freije C, Myhrvold C, Boehm C, Lin A, Welch N, Carter A, Metsky H, Luo C, Abudayyeh O, Gootenberg J, Yozwiak N, Zhang F, Sabeti P. Programmable Inhibition and Detection of RNA Viruses Using Cas13. Mol Cell. 2019;76(5):826–837.e11. PMCID: PMC7422627

Myhrvold C, Freije C, Gootenberg J, Abudayyeh O, Metsky H, Durbin A, Kellner M, Tan A, Paul L, Parham L, Garcia K, Barnes K, Chak B, Mondini A, Nogueira M, Isern S, Michael S, Lorenzana I, Yozwiak N, MacInnis B, Bosch I, Gehrke L, Zhang F, Sabeti P. Field-deployable viral diagnostics using CRISPR-Cas13. Science. 2018;360(6387):444–448. PMCID: PMC6197056

Douam F, Ploss A. Yellow Fever Virus: Knowledge Gaps Impeding the Fight Against an Old Foe. Trends Microbiol. 2018;26(11):913–928. PMCID: PMC6340642

Ding Q, Nimgaonkar I, Archer N, Bram Y, Heller B, Schwartz R, Ploss A. Identification of the Intragenomic Promoter Controlling Hepatitis E Virus Subgenomic RNA Transcription. mBio. 2018;9(3). PMCID: PMC5941075

Douam F, Hrebikova G, Albrecht Y, Sellau J, Sharon Y, Ding Q, Ploss A. Single-cell tracking of flavivirus RNA uncovers species-specific interactions with the immune system dictating disease outcome. Nat Commun. 2017;8:14781. PMCID: PMC5424064

Ziehr B, Lenarcic E, Vincent H, Cecil C, Garcia B, Shenk T, Moorman N. Human cytomegalovirus TRS1 protein associates with the 7-methylguanosine mRNA cap and facilitates translation. Proteomics. 2015;15(12):1983–94. PMCID: PMC4492309

Viktorovskaya O, Greco T, Cristea I, Thompson S. Identification of RNA Binding Proteins Associated with Dengue Virus RNA in Infected Cells Reveals Temporally Distinct Host Factor Requirements. PLoS Negl Trop Dis. 2016;10(8):e0004921. PMCID: PMC4996428

Han Y, Donovan J, Rath S, Whitney G, Chitrakar A, Korennykh A. Structure of human RNase L reveals the basis for regulated RNA decay in the IFN response. Science. 2014;343(6176):1244–8. PMCID: PMC4731867

Hwang J, Purdy J, Wu K, Rabinowitz J, Shenk T. Estrogen-related receptor α is required for efficient human cytomegalovirus replication. Proc Natl Acad Sci U S A. 2014;111(52):E5706–15. PMCID: PMC4284536

Papenfort K, Förstner K, Cong J-P, Sharma C, Bassler B. Differential RNA-seq of Vibrio cholerae identifies the VqmR small RNA as a regulator of biofilm formation. Proc Natl Acad Sci U S A. 2015;112(7):E766–75. PMCID: PMC4343088