LeDesma R, Heller B, Biswas A, Maya S, Gili S, Higgins J, Ploss A. Structural features stabilized by divalent cation coordination within hepatitis E virus ORF1 are critical for viral replication. Elife. 2023;12. PMCID: PMC9977285

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

Bisht K, Velthuis A. Decoding the Role of Temperature in RNA Virus Infections. mBio. 2022;13(5):e0202122. PMCID: PMC9600459

Kennedy M, Tyl M, Betsinger C, Federspiel J, Sheng X, Arbuckle J, Kristie T, Cristea I. A TRUSTED targeted mass spectrometry assay for pan-herpesvirus protein detection. Cell Rep. 2022;39(6):110810. PMCID: PMC9245836

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

Tyl M, Betsinger C, Cristea I. Virus-host protein interactions as footprints of human cytomegalovirus replication. Curr Opin Virol. 2022;52:135–147. PMCID: PMC8844139

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

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

Pitre E, Velthuis A. Understanding viral replication and transcription using single-molecule techniques. Enzymes. 2021;49:83–113. PMID: 34696840

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

Meyer M, Wang Y, Edwards D, Smith G, Rubenstein A, Ramanathan P, Mire C, Pietzsch C, Chen X, Ge Y, Cheng W, Henry C, Woods A, Ma L, Stewart-Jones G, Bock K, Minai M, Nagata B, Periasamy S, Shi P-Y, Graham B, Moore I, Ramos I, Troyanskaya O, Zaslavsky E, Carfi A, Sealfon S, Bukreyev A. Attenuated activation of pulmonary immune cells in mRNA-1273-vaccinated hamsters after SARS-CoV-2 infection. J Clin Invest. 2021;131(20). PMCID: PMC8516449

Wei L, Ploss A. Mechanism of Hepatitis B Virus cccDNA Formation. Viruses. 2021;13(8). PMCID: PMC8402782

Betsinger C, Jankowski C, Hofstadter W, Federspiel J, Otter C, Beltran P, Cristea I. The human cytomegalovirus protein pUL13 targets mitochondrial cristae architecture to increase cellular respiration during infection. Proc Natl Acad Sci U S A. 2021;118(32). PMCID: PMC8364163

Wei L, Ploss A. Hepatitis B virus cccDNA is formed through distinct repair processes of each strand. Nat Commun. 2021;12(1):1591. PMCID: PMC7952586

Lum K, Cristea I. Host Innate Immune Response and Viral Immune Evasion During Alphaherpesvirus Infection. Curr Issues Mol Biol. 2021;42:635–686. PMCID: PMC8301600

Tanneti N, Federspiel J, Cristea I, Enquist L. The axonal sorting activity of pseudorabies virus Us9 protein depends on the state of neuronal maturation. PLoS Pathog. 2020;16(12):e1008861. PMCID: PMC7794026

Nimgaonkar I, Archer N, Becher I, Shahrad M, LeDesma R, Mateus A, Caballero-Gómez J, Berneshawi A, Ding Q, Douam F, Gaska J, Savitski M, Kim H, Ploss A. Isocotoin suppresses hepatitis E virus replication through inhibition of heat shock protein 90. Antiviral Res. 2021;185:104997. PMCID: PMC8649941

LeDesma R, Nimgaonkar I, Ploss A. Hepatitis E Virus Replication. Viruses. 2019;11(8). PMCID: PMC6723718

Laval K, Maturana C, Enquist L. Mouse Footpad Inoculation Model to Study Viral-Induced Neuroinflammatory Responses. J Vis Exp. 2020;(160). PMID: 32597850

Kennedy M, Hofstadter W, Cristea I. TRANSPIRE: A Computational Pipeline to Elucidate Intracellular Protein Movements from Spatial Proteomics Data Sets. J Am Soc Mass Spectrom. 2020;31(7):1422–1439. PMCID: PMC7737664

Ramanathan H, Zhang S, Douam F, Mar K, Chang J, Yang P, Schoggins J, Ploss A, Lindenbach B. A Sensitive Yellow Fever Virus Entry Reporter Identifies Valosin-Containing Protein (VCP/p97) as an Essential Host Factor for Flavivirus Uncoating. mBio. 2020;11(2). PMCID: PMC7157815

Wei L, Ploss A. Core components of DNA lagging strand synthesis machinery are essential for hepatitis B virus cccDNA formation. Nat Microbiol. 2020;5(5):715–726. PMCID: PMC7190442

Hartenian E, Gilbertson S, Federspiel J, Cristea I, Glaunsinger B. RNA decay during gammaherpesvirus infection reduces RNA polymerase II occupancy of host promoters but spares viral promoters. PLoS Pathog. 2020;16(2):e1008269. PMCID: PMC7032723

Hashimoto Y, Sheng X, Murray-Nerger L, Cristea I. Temporal dynamics of protein complex formation and dissociation during human cytomegalovirus infection. Nat Commun. 2020;11(1):806. PMCID: PMC7010728

Grose C, Enquist L. The round trip model for severe herpes zoster caused by live attenuated varicella vaccine virus. J Med Virol. 2020;92(8):938–940. PMCID: PMC7354881

Cook K, Moreno J, Beltran P, Cristea I. Peroxisome Plasticity at the Virus-Host Interface. Trends Microbiol. 2019;27(11):906–914. PMCID: PMC6857447

Lum K, Howard T, Pan C, Cristea I. Charge-Mediated Pyrin Oligomerization Nucleates Antiviral IFI16 Sensing of Herpesvirus DNA. mBio. 2019;10(4). PMCID: PMC6650555

Laval K, Van Cleemput J, Vernejoul J, Enquist L. Alphaherpesvirus infection of mice primes PNS neurons to an inflammatory state regulated by TLR2 and type I IFN signaling. PLoS Pathog. 2019;15(11):e1008087. PMCID: PMC6824567

Chen S, Shenk T, Nogalski M. P2Y2 purinergic receptor modulates virus yield, calcium homeostasis, and cell motility in human cytomegalovirus-infected cells. Proc Natl Acad Sci U S A. 2019;116(38):18971–18982. PMCID: PMC6754545

Maya S, Ploss A. Master of Disguise: Hepatitis Delta Virus Packaging and Spread Facilitated by Diverse Viral Envelope Proteins. Hepatology. 2020;71(1):380–382. PMID: 31465549

Gaska J, Balev M, Ding Q, Heller B, Ploss A. Differences across cyclophilin A orthologs contribute to the host range restriction of hepatitis C virus. Elife. 2019;8. PMCID: PMC6510530

Lee Y-S, Wong A, Tadych A, Hartmann B, Park C, DeJesus V, Ramos I, Zaslavsky E, Sealfon S, Troyanskaya O. Interpretation of an individual functional genomics experiment guided by massive public data. Nat Methods. 2018;15(12):1049–1052. PMCID: PMC6941785

Murray L, Sheng X, Cristea I. Orchestration of protein acetylation as a toggle for cellular defense and virus replication. Nat Commun. 2018;9(1):4967. PMCID: PMC6251895

Cook K, Cristea I. Location is everything: protein translocations as a viral infection strategy. Curr Opin Chem Biol. 2019;48:34–43. PMCID: PMC6382524

Beltran P, Cook K, Hashimoto Y, Galitzine C, Murray L, Vitek O, Cristea I. Infection-Induced Peroxisome Biogenesis Is a Metabolic Strategy for Herpesvirus Replication. Cell Host Microbe. 2018;24(4):526–541.e7. PMCID: PMC6195127

Douam F, Fusil F, Enguehard M, Dib L, Nadalin F, Schwaller L, Hrebikova G, Mancip J, Mailly L, Montserret R, Ding Q, Maisse C, Carlot E, Xu K, Verhoeyen E, Baumert T, Ploss A, Carbone A, Cosset F-L, Lavillette D. A protein coevolution method uncovers critical features of the Hepatitis C Virus fusion mechanism. PLoS Pathog. 2018;14(3):e1006908. PMCID: PMC5854445

Koyuncu O, MacGibeny M, Hogue I, Enquist L. Compartmented neuronal cultures reveal two distinct mechanisms for alpha herpesvirus escape from genome silencing. PLoS Pathog. 2017;13(10):e1006608. PMCID: PMC5658187

Hogue I, Jean J, Esteves A, Tanneti N, Scherer J, Enquist L. Functional Carboxy-Terminal Fluorescent Protein Fusion to Pseudorabies Virus Small Capsid Protein VP26. J Virol. 2018;92(1). PMCID: PMC5730785

Shirvani-Dastgerdi E, Winer B, Celià-Terrassa T, Kang Y, Tabernero D, Yagmur E, Rodríguez-Frías F, Gregori J, Luedde T, Trautwein C, Ploss A, Tacke F. Selection of the highly replicative and partially multidrug resistant rtS78T HBV polymerase mutation during TDF-ETV combination therapy. J Hepatol. 2017;67(2):246–254. PMCID: PMC6016549

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

Hung G, Flint S. Normal human cell proteins that interact with the adenovirus type 5 E1B 55kDa protein. Virology. 2017;504:12–24. PMCID: PMC5337154

Rowles D, Tsai Y-C, Greco T, Lin A, Li M, Yeh J, Cristea I. DNA methyltransferase DNMT3A associates with viral proteins and impacts HSV-1 infection. Proteomics. 2015;15(12):1968–82. PMCID: PMC4550099

Winer B, Huang T, Low B, Avery C, Pais M-A, Hrebikova G, Siu E, Chiriboga L, Wiles M, Ploss A. Recapitulation of treatment response patterns in a novel humanized mouse model for chronic hepatitis B virus infection. Virology. 2017;502:63–72. PMCID: PMC5414730

Ding Q, Heller B, Capuccino J, Song B, Nimgaonkar I, Hrebikova G, Contreras J, Ploss A. Hepatitis E virus ORF3 is a functional ion channel required for release of infectious particles. Proc Natl Acad Sci U S A. 2017;114(5):1147–1152. PMCID: PMC5293053

Diner B, Lum K, Toettcher J, Cristea I. Viral DNA Sensors IFI16 and Cyclic GMP-AMP Synthase Possess Distinct Functions in Regulating Viral Gene Expression, Immune Defenses, and Apoptotic Responses during Herpesvirus Infection. mBio. 2016;7(6). PMCID: PMC5111403

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

Beltran P, Mathias R, Cristea I. A Portrait of the Human Organelle Proteome In Space and Time during Cytomegalovirus Infection. Cell Syst. 2016;3(4):361–373.e6. PMCID: PMC5083158

Crow M, Lum K, Sheng X, Song B, Cristea I. Diverse mechanisms evolved by DNA viruses to inhibit early host defenses. Crit Rev Biochem Mol Biol. 2016;51(6):452–481. PMCID: PMC5285405

Bosse J, Hogue I, Feric M, Thiberge S, Sodeik B, Brangwynne C, Enquist L. Remodeling nuclear architecture allows efficient transport of herpesvirus capsids by diffusion. Proc Natl Acad Sci U S A. 2015;112(42):E5725–33. PMCID: PMC4620878

Chahal J, Gallagher C, DeHart C, Flint S. The repression domain of the E1B 55-kilodalton protein participates in countering interferon-induced inhibition of adenovirus replication. J Virol. 2013;87(8):4432–44. PMCID: PMC3624377