Publications
2024
Peer-reviewed
Marayati BF, Thompson MG, Holley CL, Horner SM, Meyer KD. Programmable protein expression using a genetically encoded m(6)A sensor. Nat Biotechnol. 2024. Epub 20240102. doi: 10.1038/s41587-023-01978-3. PMID: 38168988.
Commentaries
Rasmussen AL, Gronvall GK, Lowen AC, Goodrum F, Alwine J, Andersen KG, Anthony SJ, Baines J, Banerjee A, Broadbent AJ, Brooke CB, Campos SK, Caposio P, Casadevall A, Chan GC, Cliffe AR, Collins-McMillen D, Connell N, Damania B, Daugherty MD, Debbink K, Dermody TS, DiMaio D, Duprex WP, Emerman M, Galloway DA, Garry RF, Goldstein SA, Greninger AL, Hartman AL, Hogue BG, Horner SM, Hotez PJ, Jung JU, Kamil JP, Karst SM, Laimins L, Lakdawala SS, Landais I, Letko M, Lindenbach B, Liu SL, Luftig M, McFadden G, Mehle A, Morrison J, Moscona A, Muhlberger E, Munger J, Munger K, Murphy E, Neufeldt CJ, Nikolich JZ, O'Connor CM, Pekosz A, Permar SR, Pfeiffer JK, Popescu SV, Purdy JG, Racaniello VR, Rice CM, Runstadler JA, Sapp MJ, Scott RS, Smith GA, Sorrell EM, Speranza E, Streblow D, Tibbetts SA, Toth Z, Van Doorslaer K, Weiss SR, White EA, White TM, Wobus CE, Worobey M, Yamaoka S, Yurochko A. Virology-the path forward. J Virol. 2024:e0179123. Epub 20240103. doi: 10.1128/jvi.01791-23. PMID: 38168672.
2023
Peer-reviewed
Aufgebauer CJ, Bland KM, Horner SM. Modifying the antiviral innate immune response by selective writing, erasing, and reading of m(6)A on viral and cellular RNA. Cell Chem Biol. 2023. Epub 20231221. doi: 10.1016/j.chembiol.2023.12.004. PMID: 38176419.
Boerneke MA, Gokhale NS, Horner SM, Weeks KM. Structure-first identification of RNA elements that regulate dengue virus genome architecture and replication. Proc Natl Acad Sci U S A. 2023;120(15):e2217053120. doi: 10.1073/pnas.2217053120. PMID: 37011200; PMCID: PMC10104495.
Commentaries and Previews
Thompson MG, Horner SM. The Evil DExH/D: Chikungunya virus runs but cannot hide from DDX39A. Mol Cell. 2023;83(22):3948-9. PMID: 37977114.
Goodrum F, Lowen AC, Lakdawala S, Alwine J, Casadevall A, Imperiale MJ, Atwood W, Avgousti D, Baines J, Banfield B, Banks L, Bhaduri-McIntosh S, Bhattacharya D, Blanco-Melo D, Bloom D, Boon A, Boulant S, Brandt C, Broadbent A, Brooke C, Cameron C, Campos S, Caposio P, Chan G, Cliffe A, Coffin J, Collins K, Damania B, Daugherty M, Debbink K, DeCaprio J, Dermody T, Dikeakos J, DiMaio D, Dinglasan R, Duprex WP, Dutch R, Elde N, Emerman M, Enquist L, Fane B, Fernandez-Sesma A, Flenniken M, Frappier L, Frieman M, Frueh K, Gack M, Gaglia M, Gallagher T, Galloway D, Garcia-Sastre A, Geballe A, Glaunsinger B, Goff S, Greninger A, Hancock M, Harris E, Heaton N, Heise M, Heldwein E, Hogue B, Horner S, Hutchinson E, Hyser J, Jackson W, Kalejta R, Kamil J, Karst S, Kirchhoff F, Knipe D, Kowalik T, Lagunoff M, Laimins L, Langlois R, Lauring A, Lee B, Leib D, Liu SL, Longnecker R, Lopez C, Luftig M, Lund J, Manicassamy B, McFadden G, McIntosh M, Mehle A, Miller WA, Mohr I, Moody C, Moorman N, Moscona A, Mounce B, Munger J, Munger K, Murphy E, Naghavi M, Nelson J, Neufeldt C, Nikolich J, O'Connor C, Ono A, Orenstein W, Ornelles D, Ou JH, Parker J, Parrish C, Pekosz A, Pellett P, Pfeiffer J, Plemper R, Polyak S, Purdy J, Pyeon D, Quinones-Mateu M, Renne R, Rice C, Schoggins J, Roller R, Russell C, Sandri-Goldin R, Sapp M, Schang L, Schmid S, Schultz-Cherry S, Semler B, Shenk T, Silvestri G, Simon V, Smith G, Smith J, Spindler K, Stanifer M, Subbarao K, Sundquist W, Suthar M, Sutton T, Tai A, Tarakanova V, tenOever B, Tibbetts S, Tompkins S, Toth Z, van Doorslaer K, Vignuzzi M, Wallace N, Walsh D, Weekes M, Weinberg J, Weitzman M, Weller S, Whelan S, White E, Williams B, Wobus C, Wong S, Yurochko A. Virology under the Microscope-a Call for Rational Discourse. mBio. 2023;14(1):e0018823. Epub 20230126. doi: 10.1128/mbio.00188-23. PMID: 36700642; PMCID: PMC9973315.
This article was also published in J Virol. 2023;97(2):e0008923. Epub 20230126. doi: 10.1128/jvi.00089-23. PMID: 36700640; PMCID: PMC9972907 and mSphere. 2023;8(2):e0003423. Epub 20230126. doi: 10.1128/msphere.00034-23. PMID: 36700653; PMCID: PMC10117089.
Preprints
Gokhale NS, Somfleth K, Thompson MG, Sam RK, Marciniak DM, Chu LH, Park M, Dvorkin S, Oberst A, Horner SM, Ong S-E, Michael Gale J, Savan R. Cellular RNA Interacts with MAVS to Promote Antiviral Signaling. bioRxiv. 2023:2023.09.25.559083. doi: 10.1101/2023.09.25.559083.
2022
Peer-reviewed
Sacco MT, Bland KM, Horner SM. WTAP Targets the METTL3 m(6)A-Methyltransferase Complex to Cytoplasmic Hepatitis C Virus RNA to Regulate Infection. J Virol. 2022:e0099722. Epub 20221031. doi: 10.1128/jvi.00997-22. PMID: 36314819.
Snider DL, Park M, Murphy KA, Beachboard DC, Horner SM. Signaling from the RNA sensor RIG-I is regulated by ufmylation. Proc Natl Acad Sci U S A. 2022;119(15):e2119531119. Epub 20220408. doi: 10.1073/pnas.2119531119. PMID: 35394863. PMCID: PMC9169834.
Preprints
Sacco MT, Bland KM, Horner SM. WTAP targets the METTL3 m6A-methyltransferase complex to cytoplasmic hepatitis C virus RNA to regulate infection. bioRxiv. 2022:2022.06.27.497872. doi: 10.1101/2022.06.27.497872. Accepted at JVI.
2021
Peer-reviewed
McFadden MJ*, Sacco MT*, Murphy KA, Park M, Gokhale NS, Somfleth KY, Horner SM. FTO suppresses STAT3 activation and modulates proinflammatory interferon-stimulated gene expression. J Mol Biol. 2021:167247. PMID: 34537236. *Co-First.
Thompson MG, Sacco MT, Horner SM. How RNA modifications regulate the antiviral response. Immunol Rev. 2021. Epub 2021/08/19. doi: 10.1111/imr.13020. PMID: 34405413.
Snider DL, Horner SM. RNA modification of an RNA modifier prevents self-RNA sensing. PLoS Biol. 2021;19(7):e3001342. doi: 10.1371/journal.pbio.3001342. PMID: 34329302. PMCID: PMC8323910.
Bechara R, Amatya N, Bailey RD, Li Y, Aggor FEY, Li DD, Jawale CV, Coleman BM, Dai N, Gokhale NS, Taylor TC, Horner SM, Poholek AC, Bansal A, Biswas PS, Gaffen SL. The m(6)A reader IMP2 directs autoimmune inflammation through an IL-17- and TNFalpha-dependent C/EBP transcription factor axis. Sci Immunol. 2021;6(61). PMID: 34215679.
McFadden MJ, McIntyre ABR, Mourelatos H, Abell NS, Gokhale NS, Ipas H, Xhemalçe B, Mason CE, Horner SM. Post-Transcriptional Regulation of Antiviral Gene Expression by N6-Methyladenosine. Cell Rep. 2021;34(9):108798. doi: 10.1016/j.celrep.2021.108798. PMID: 33657363. PMCID: PMC7981787.
Sacco MT, Horner SM. Flipping the script: viral capitalization of RNA modifications. Brief Funct Genomics. 2021. Epub 2021/01/06. doi: 10.1093/bfgp/elaa025. PMID: 33401298.
McFadden MJ, Horner SM. N(6)-Methyladenosine Regulates Host Responses to Viral Infection. Trends Biochem Sci. 2021;46(5):366-77. doi: 10.1016/j.tibs.2020.11.008. PMID: 33309325. PMCID: PMC8052259.
Preprints
Snider DL, Park M, Murphy KA, Beachboard DC, Horner SM. Signaling from the RNA sensor RIG-I is regulated by ufmylation. bioRxiv. 2021:2021.10.26.465929. doi: 10.1101/2021.10.26.465929. Accepted at PNAS.
McFadden MJ*, Sacco MT*, Murphy KA, Park M, Gokhale NS, Somfleth KY, Horner SM. FTO suppresses STAT3 activation and modulates proinflammatory interferon-stimulated gene expression. bioRxiv. 2021:2021.07.23.453596. doi: 10.1101/2021.07.23.453596. *Co-first. Accepted at JMB.
2020
Peer-reviewed
da Silveira WA, Fazelinia H, Rosenthal SB, Laiakis EC, Kim MS, Meydan C, Kidane Y, Rathi KS, Smith SM, Stear B, Ying Y, Zhang Y, Foox J, Zanello S, Crucian B, Wang D, Nugent A, Costa HA, Zwart SR, Schrepfer S, Elworth RAL, Sapoval N, Treangen T, MacKay M, Gokhale NS, Horner SM, Singh LN, Wallace DC, Willey JS, Schisler JC, Meller R, McDonald JT, Fisch KM, Hardiman G, Taylor D, Mason CE, Costes SV, Beheshti A. Comprehensive Multi-omics Analysis Reveals Mitochondrial Stress as a Central Biological Hub for Spaceflight Impact. Cell. 2020;183(5):1185-201 e20. PMID: 33242417.
Price AM, Hayer KE, McIntyre ABR, Gokhale NS, Abebe JS, Della Fera AN, Mason CE, Horner SM, Wilson AC, Depledge DP, Weitzman MD. Direct RNA sequencing reveals m(6)A modifications on adenovirus RNA are necessary for efficient splicing. Nat Commun. 2020;11(1):6016. PMCID: PMC7691994.
Williams GD, Gokhale NS, Snider DL, Horner SM. 2020. The mRNA cap 2'-O-methyltransferase CMTR1 regulates the expression of certain interferon-stimulated genes. mSphere. 2020; 5(3):e00202-20. PMCID: PMC7227766.
McIntyre ABR, Gokhale NS, Cerchietti L, Jaffrey SR, Horner SM*, Mason CE*. Limits in the detection of m(6)A changes using MeRIP/m(6)A-seq. Sci Rep. 2020;10(1):6590. PMCID: PMC7170965.
Kwock JT, Handfield C, Suwanpradid J, Hoang P, McFadden MJ, Labagnara KF, Floyd L, Shannon J, Uppala R, Sarkar MK, Gudjonsson JE, Corcoran DL, Lazear HM, Sempowski G, Horner SM, MacLeod AS. IL-27 signaling activates skin cells to induce innate antiviral proteins and protects against Zika virus infection. Sci Adv. 2020;6(14):eaay3245. PMCID: PMC7112749.
Gokhale NS*, McIntyre ABR*, Mattocks MD, Lazear HM, Holley CL, Mason CE, and Horner SM. Altered m6A modification of cellular transcripts influences Flaviviridae infection. Molecular Cell. 2020;77(3):542-55 e8. PMID: 31810760. Featured on the cover.
Preprints
McFadden MJ, McIntyre ABR, Mourelatos H, Abell NS, Gokhale NS, Ipas H, Xhemalçe B, Mason CE, Horner SM. Post-Transcriptional Regulation of Antiviral Gene Expression by N6-Methyladenosine. bioRxiv. 2020:2020.08.05.238337. doi: 10.1101/2020.08.05.238337. Accepted at Cell Reports.
Williams GD, Gokhale NS, Snider DL, Horner SM. 2020. The mRNA cap 2'O methyltransferase CMTR1 regulates the expression of certain interferon-stimulated genes. bioRxiv 980045. March 6, 2020. https://doi.org/10.1101/2020.03.05.980045. Accepted at mSphere; see above.
2019
Peer-reviewed
Vazquez C, Tan CY, and Horner SM. Hepatitis C virus infection can be inhibited by a non-canonical antiviral signaling pathway targeted by NS3-NS4A. J. Virol. 2019;93(23):e00725-19. PMID: 31534039.
Beachboard DC, Park M, Vijayan M, Snider DL, Fernando DJ, Williams GD, Stanley S, McFadden MJ, Horner SM. The small GTPase RAB1B promotes antiviral innate immunity by interacting with TNF receptor-associated factor 3 (TRAF3). J Biol Chem. 2019;294(39):14231-40. PMCID: PMC6768648.
Williams GD, Gokhale NS, Horner SM. Regulation of Viral Infection by the RNA Modification N6-Methyladenosine. Annu Rev Virol. 2019;6(1):235-53. PMID: 31283446.
Roder AE, Vazquez C, Horner SM. The acidic domain of the hepatitis C virus NS4A protein is required for viral assembly and envelopment through interactions with the viral E1 glycoprotein. PLoS Pathog. 2019;15(2):e1007163. PMID: 30730994.
Roder AE, Horner SM. Measuring Hepatitis C Virus Envelopment by Using a Proteinase K Protection Assay. Methods Mol Biol. 2019;1911:209-17. PMID: 30593628.
Preprints
Price AM, Hayer KE, McIntyre ABR, Gokhale NS, Szeto J, Della Ferra AN, Mason CE, Horner SM, Wilson AC, Depledge DP, Weitzman MD. Direct RNA sequencing reveals m6A modifications on adenovirus RNA are necessary for efficient splicing. BioRxiv 865485; December 05, 2019, doi: https://doi.org/10.1101/865485. Accepted at Nature Communications; see above.
McIntyre ABR, Gokhale NS, Cerchietti L, Jaffrey SR, Horner SM, Mason CE. Limits in the detection of m6A changes using MeRIP/m6A-seq. BioRxiv 657130. June 03, 2019. doi: https://doi.org/10.1101/657130. Accepted at Scientific Reports; see above.
Gokhale NS*, McIntyre ABR*, Mattocks MD, Lazear HM, Holley CL, Mason CE, and Horner SM. Altered m6A modification of cellular transcripts influences Flaviviridae infection. BioRxiv 670984. June 13, 2019. doi: https://doi.org/10.1101/670984. Accepted at Molecular Cell; see above.
Vazquez C, Tan CY, and Horner SM. Hepatitis C virus infection can be inhibited by a non-canonical antiviral signaling pathway targeted by NS3-NS4A. BioRxiv 625640. May 02, 2019. doi: https://doi.org/10.1101/625640. Accepted at JVI; see above.
Beachboard DC, Park M, Vijayan M, Fernando DJ, Williams GD, Horner SM. RAB1B interacts with TRAF3 to promote antiviral innate immunity. BioRxiv 542050. February 05, 2019. doi: https://doi.org/10.1101/542050. Accepted at JBC; see above.
2018
Dethoff EA*, Boerneke MA*, Gokhale NS, Muhire BM, Martin DP, Sacco MT, McFadden MJ, Weinstein JA, Messer WB**, Horner SM**, Weeks KM**. Pervasive tertiary structure in the dengue virus RNA genome. Proc Natl Acad Sci U S A. 2018;115(45):11513-8. PMID: 30341219. *Equal contribution **Co-corresponding
Imam H, Khan M, Gokhale NS, McIntyre ABR, Kim GW, Jang JY, Kim SJ, Mason CE, Horner SM, Siddiqui A. N6-methyladenosine modification of hepatitis B virus RNA differentially regulates the viral life cycle. Proc Natl Acad Sci U S A. 2018. doi: 10.1073/pnas.1808319115. PMID: 30104368.
Wang L, Pittman KJ, Barker JR, Salinas RE, Stanaway IB, Williams GD, Carroll RJ, Balmat T, Ingham A, Gopalakrishnan AM, Gibbs KD, Antonia AL, e MN, Heitman J, Lee SC, Jarvik GP, Denny JC, Horner SM, DeLong MR, Valdivia RH, Crosslin DR, Ko DC. An Atlas of Genetic Variation Linking Pathogen-Induced Cellular Traits to Human Disease. Cell Host Microbe. 2018;24(2):308-23 e6. PMID: 30092202
Liu B, Merriman DK, Choi SH, Schumacher MA, Plangger R, Kreutz C, Horner SM, Meyer KD, Al-Hashimi HM. A potentially abundant junctional RNA motif stabilized by m(6)A and Mg(2). Nat Commun. 2018;9(1):2761. doi: 10.1038/s41467-018-05243-z. PMID: 30018356
McFadden MJ, Mitchell-Dick A, Vazquez C, Roder AE, Labagnara KF, McMahon JJ, Silver DL, Horner SM. (2018) A Fluorescent Cell-Based System for Imaging Zika Virus Infection in Real-Time. Viruses. 2018;10(2). doi: 10.3390/v10020095. PMID: 29495257
2017
Gokhale NS, Horner SM. 2017. RNA modifications go viral. PLoS Pathog 13:e1006188. PMCID: PMC5344520
Vazquez C, Beachboard DC, Horner SM. 2017. Methods to Visualize MAVS Subcellular Localization. Methods Mol Biol 1656:131-142. PMID: 28808966
Gokhale NS, Horner SM. Knotty Zika virus blocks exonuclease to produce subgenomic flaviviral RNAs. Cell Host Microbe. 2017. 21(1). PMID: 28081439
McFadden MJ, Gokhale NS, Horner SM. Protect this house: cytosolic sensing of viruses. Curr Opin Virology. 2017; 22:36-43. PMID: 27951430.
2016
Gokhale NS, McIntyre ABR, McFadden MJ, Roder AE, Kennedy EM, Gandara JA, HopcraftSE, Quicke KM, Vazquez C, Willer J, Ilkayeva OR, Law BA, Holley CL, Garcia-Blanco MA,Evans MJ, Suthar MS, Bradrick SS, Mason CE*, Horner SM*. N6-methyladenosine in Flaviviridae viral RNA genomes regulates infection. Cell Host Microbe. 2016. 20(5):654-665. PMID: 27773535. *Co-corresponding. Featured on the Cover.
Beachboard DC, Horner SM. Innate immune evasion strategies of DNA and RNA viruses. Curr Opin Microbiol. 2016; 32:113-119. PMCID: 4983539
Kennedy EM, Bogerd HP, Kornepati AVR, Kang B, Ghoshal D, Marshall JB, Poling BC, Tsai G, Gokhale N, Horner SM, Cullen BR. Post-transcriptional m6A editing of HIV-1 mRNAs enhances viral gene expression. Cell Host Microbe. 2016; 19(5): 675-85. PMCID: 4867121
2015
Aligeti M*, Roder A*, Horner SM. Cooperation between the Hepatitis C Virus p7 and NS5B Proteins Enhances Virion Infectivity. J Virol. 2015;89(22):11523-33. PMCID: 4645646. *Equal Contribution
Vazquez C, Horner SM. MAVS Coordination of Antiviral Innate Immunity. J Virol. 2015;89(14):6974-7. PMCID: 4473567.
Horner SM*, Naggie S*. Successes and Challenges on the Road to Cure Hepatitis C. PLoS Pathog. 2015;11(6):e1004854. PMCID: 4472668. *Corresponding Author
Horner SM*, Wilkins C, Badil S, Iskarpatyoti J, Gale M, Jr. Proteomic Analysis of Mitochondrial-Associated ER Membranes (MAM) during RNA Virus Infection Reveals Dynamic Changes in Protein and Organelle Trafficking. PLoS One. 2015;10(3):e0117963. PMCID: 4348417. *Corresponding Author
Horner SM. Insights into antiviral innate immunity revealed by studying hepatitis C virus. Cytokine. 2015;74(2):190-7. PMCID: 4475425.
2014
Gokhale NS, Vazquez C, Horner SM. Hepatitis C virus: Strategies to evade antiviral responses. Future Virol. 2014;9(12):1061-75. PMCID: 4430848.
Horner SM. Defining the spatial relationship between hepatitis C virus infection and interferon stimulated gene induction in the human liver. Hepatology. 2014 APR: doi: 10.1002/hep.26960. PMID: 24375835.
Horner SM. Activation and evasion of antiviral innate immunity by hepatitis C virus. J Mol Biol. 2014 MAR: 426(6):1198-209. PMID: 24184198.
Stacy PhD and Post-doc papers
Jarret A, McFarland AP*, Horner SM*, Kell A, Schwerk J, Hong M, Badil S, Joslyn RC, Baker DP, Carrington M, Hagedorn CH, Gale M, Jr., Savan R. Hepatitis C virus-induced microRNAs dampen interferon mediated antiviral signaling. Nat Med. 2016. 22: 1475-1481. PMID: 27841874. *Equal contribution
McFarland AP, Horner SM, Jarret A, Joslyn RC, Bindewald E, Shapiro BA, Delker DA, Hagedorn C, Carrington M, Gale M, Jr., Savan R. IFNL3 (IL28B) favorable genotype escapes HCV-induced microRNAs and mRNA decay. Nat Immunol. 2014 Jan;15(1):72-9. PMID: 24241692.
Horner SM, Gale, M, Jr. Regulation of hepatic innate immunity by hepatitis C virus. Nat Med. 2013; 19(7): 879-88. PMID: 23836238.
Horner SM, Gale M, Jr. Regulation of innate immunity and interferon defenses by hepatitis C virus. In Chronic Hepatitis B and C. Edited by C. Shih. World Scientific Publishing Co., Singapore, 2012. pp. 245-270.
Liu HM, Loo YM, Horner SM, Zornetzer GA, Katze MG, Gale M, Jr. The Mitochondrial Targeting Chaperone 14-3-3epsilon Regulates a RIG-I Translocon that Mediates Membrane Association and Innate Antiviral Immunity. Cell Host Microbe. 2012;11(5):528-37. PMID: 22607805.
Patel MR, Loo YM, Horner SM, Gale M, Jr., Malik HS. Convergent evolution of escape from hepaciviral antagonism in primates. PLoS Biol. 2012;10(3):e1001282. PMCID: 3302847.
Horner SM, Park HS, Gale M, Jr. Control of innate immune signaling and membrane targeting by the Hepatitis C virus NS3/4A protease are governed by the NS3 helix alpha0. J Virol. 2012;86(6):3112-20. PMCID: 22238314.
Horner SM, Liu HM, Park HS, Briley J, Gale M, Jr. Mitochondrial-associated endoplasmic reticulum membranes (MAM) form innate immune synapses and are targeted by hepatitis C virus. Proc Natl Acad Sci U S A. 2011. PMID: 21844353.
Horner SM, Gale M, Jr. Intracellular innate immune cascades and interferon defenses that control hepatitis C virus. J Interferon Cytokine Res. 2009;29(9):489-98.PMID: 19708811.
DiMaio, D, Johung, K, Goodwin, EC, Horner, SM and Yates, KE. Senescence induced by repression of human papillomavirus oncogenes in cervical cancer cells. In Beyond Apoptosis: Cellular Outcomes of Cancer Therapy. Edited by IB Roninson, JM Brown, and DE Bredesen. Informa Healthcare, New York, 2008. pp209-222.
Horner SM, DiMaio D. The DNA binding domain of a papillomavirus E2 protein programs a chimeric nuclease to cleave integrated human papillomavirus DNA in HeLa cervical carcinoma cells. J Virol. 2007;81(12):6254-64. PMCID: 17392356.
Horner SM, DeFilippis RA, Manuelidis L, DiMaio D. Repression of the human papillomavirus E6 gene initiates p53-dependent, telomerase-independent senescence and apoptosis in HeLa cervical carcinoma cells. J Virol. 2004;78(8):4063-73. PMCID: 15047823.
Sherer NM, Lehmann MJ, Jimenez-Soto LF, Ingmundson A, Horner SM, Cicchetti G, et al. Visualization of retroviral replication in living cells reveals budding into multivesicular bodies. Traffic. 2003;4(11):785-801. PMID: 14617360.