Publications

2025

Lee JS, Dittmar M, Miller J, Li M, Ayyanathan K, Ferretti M, Hulahan J, Whig K, Etwebi Z, Griesman T, Schultz DC, Cherry S. Pressure to evade cell-autonomous innate sensing reveals interplay between mitophagy, IFN signaling, and SARS-CoV-2 evolution. Cell Rep. 2025 Jan 28;44(1):115115. doi: 10.1016/j.celrep.2024.115115. Epub 2024 Dec 20. PMID: 39708319.

Proal AD, Aleman S, Bomsel M, Brodin P, Buggert M, Cherry S, Chertow DS, Davies HE, Dupont CL, Deeks SG, Ely EW, Fasano A, Freire M, Geng LN, Griffin DE, Henrich TJ, Hewitt SM, Iwasaki A, Krumholz HM, Locci M, Marconi VC, Mehandru S, Muller-Trutwin M, Painter MM, Pretorius E, Price DA, Putrino D, Qian Y, Roan NR, Salmon D, Tan GS, VanElzakker MB, Wherry EJ, Van Weyenbergh J, Yonker LM, Peluso MJ. Targeting the SARS-CoV-2 reservoir in long COVID. Lancet Infect Dis. 2025 Feb 10:S1473-3099(24)00769-2. doi: 10.1016/S1473-3099(24)00769-2. Epub ahead of print. PMID: 39947217.

Poddar S, Chauvin SD, Archer CH, Qian W, Castillo-Badillo JA, Yin X, Disbennett WM, Miner CA, Holley JA, Naismith TV, Stinson WA, Wei X, Ning Y, Fu J, Ochoa TA, Surve N, Zaver SA, Wodzanowski KA, Balka KR, Venkatraman R, Liu C, Rome K, Bailis W, Shiba Y, Cherry S, Shin S, Semenkovich CF, De Nardo D, Yoh S, Roberson EDO, Chanda SK, Kast DJ, Miner JJ. ArfGAP2 promotes STING proton channel activity, cytokine transit, and autoinflammation. Cell. 2025 Mar 20;188(6):1605-1622.e26. doi: 10.1016/j.cell.2025.01.027. Epub 2025 Feb 12. PMID: 39947179; PMCID: PMC11928284.

2024

Chauvin SD, Ando S, Holley JA, Sugie A, Zhao FR, Poddar S, Kato R, Miner CA, Nitta Y, Krishnamurthy SR, Saito R, Ning Y, Hatano Y, Kitahara S, Koide S, Stinson WA, Fu J, Surve N, Kumble L, Qian W, Polishchuk O, Andhey PS, Chiang C, Liu G, Colombeau L, Rodriguez R, Manel N, Kakita A, Artyomov MN, Schultz DC, Coates PT, Roberson EDO, Belkaid Y, Greenberg RA, Cherry S, Gack MU, Hardy T, Onodera O, Kato T, Miner JJ. (2024) Inherited C-terminal TREX1 variants disrupt homology-directed repair to cause senescence and DNA damage phenotypes in Drosophila, mice, and humans Nat Commun 2024 Jun 1;15(1):4696. doi: 10.1038/s41467-024-49066-7.

Griesman T, McMillen CM, Negatu S, Hulahan JJ, Whig, K., Dohnalová, L., Dittmar,M., Thaiss, C.A., Jurado, K.A., Schultz, D.C., Hartman, A.L., and Cherry, S. (2024). The lipopeptide Pam3CSK4 inhibits Rift Valley fever virus infection and protects from encephalitis. PLoS Pathogens. Jun 27;20(6):e1012343.

Braun, RM, Ferretti, MB, Lee, JS, Miller, J, Castellana, L, Whig, K, Lenka Dohnalová, Alex S. Huber, Peter Hewins, Jorge Acuña, Zienab Etwebi, Mark Dittmar, Hélène C. Descamps, Thomasina Cook, David C. Schultz, Perry J. Blackshear, Kellie Ann Jurado, Christoph A. Thaiss, Kristen W. Lynch, Sara Cherry. (2024) Selective decay of interferon mRNAs controls antiviral immunity. Under review

Quesnel-Vallières M, Schultz DC, Orlenko A, Lo Y, Moore J, Ritchie M, Roth D, Carroll M, Barash Y, Lynch KW, Cherry S. (2024) Trametinib Sensitivity is Defined by a Myeloid Differentiation Profile in Acute Myeloid Leukemia. Drugs R D. Sept 24. doi: 10.1007/s40268-024-00491-5.

Zhou, NE, Tang, S, Bian, B, Parai, MK, Krieger, IV, Armando Flores1, Pradeep K. Jaiswal1, Radha Bam1, Jeremy L. Wood1, Zhe Shi1, Laura J. Stevens2, Trevor Scobey3, Meghan V. Diefenbacher3, Fernando R. Moreira3, Thomas J. Baric3, Arjun Acharya1, Joonyoung Shin1, Manish M. Rathi1, Karen C. Wolff4 , Laura Riva4, Malina A. Bakowski4, Case W. McNamara4, Nicholas Catanzaro3, Rachel L. Graham3, David C. Schultz5, Cherry, S., Yoshihiro Kawaoka7, Peter J. Halfmann7, Ralph S. Baric3,8, Mark R. Denison2, Timothy P. Sheahan3,8*, and Sacchettini, J.C. (2024) An oral non-covalent non-peptidic inhibitor of SARS-CoV-2 Mpro ameliorates viral replication and pathogenesis in vivo. Cell Reports. In Press.

2023

Lee, Y.G., Guruprasad, P., Ghilardi, G., Pajarillo, R., Sauter, C., Patel, R., B. Hatcher, Hong, S., Chun, I., Yang, N., Amelsberg, K., Cummins, K., Svoboda, J., Gill, S., Chong, E., North, K., Church, S., Fraietta, J., Chang, W-J., Lacey, S., Lu, X., Zhang, Y., Whig, K., Schultz, D., Cherry, S., Gerson, J., Schuster, S., Porazzi,P., and Ruella, M. (2022). Modulation of BCL-2 in both T Cells and Tumor Cells to Enhance Chimeric Antigen Receptor T cell Immunotherapy against Cancer. Cancer Discovery. Jul 29:CD-21-1026.

Okuda K, Silva Costa Franco MM, Yasunaga A, Gazzinelli R, Rabinovitch M, Cherry S, Silverman N. (2022) Leishmania amazonensis sabotages host cell SUMOylation for intracellular survival. iScience Aug 13;25(9):104909.

Tapescu, I. and Cherry, S. (2024). DDX RNA Helicases: Key Players in Cellular Homeostasis and Innate Antiviral Immunity. JVI, Aug 30:e0004024.

Maio N, Cherry S, Schultz DC, Hurst BL, Linehan WM, Rouault TA. (2022). TEMPOL inhibits SARS-CoV-2 replication and development of lung disease in the Syrian hamster model. iScience. Oct 21;25(10):105074.

Proal, A., VAnElzakker, M.B., Aleman, S., Bach, K., Boribong, B.P., Buggert, M., Cherry, S., Chertow, D.S., Davies, H.E., Dupont, C.L, Deeks, S.G., Eimer, W., Ely, E.W., Fassao, A., Freire, M., Geng, L.Nl., Griffin, D.E., Henrich, T.J., Iwasaki, A., Izquierdo-Garcia, D., Locci, M., Mehandru, S., Painter, M.M., Peluso, .J.,Pretorius, E., Price, D.A.,Putrino, D., Scheuermann, R.H.,Tan, G.S., Tanzi, R.E., VanBrocklin, H.F., Yonker, L.M., Wherry, E.J. (2023). SARS-CoV-2 reservoir in post-acute sequelae of COVID-19 (PASC). Nature Immunology.Oct;24(10):1778. doi: 10.1038/s41590-023-01646-3.

Li, M., Ayyanathan, K., Dittmar, M., Miller, J., Tapescu, I., Lee, J., McGrath, M.E., Xue, Y., Vashee, S., Schultz, D.C., Frieman, M.F. and Cherry, S. (2023). SARS-CoV-2 ORF6 protein does not antagonize interferon signaling in respiratory epithelial Calu-3 cells during infection. mBio. Aug 31;14(4):e0119423. doi: 10.1128/mbio.01194-23. Epub 2023 Jun 28.

Dittmar, M., Whig, K., Miller, J., Kamalia, B., Suppiah, S., Perelygina, L.,Sullivan, K.E., Schultz, D.C., Cherry, S. (2023) Nucleoside analogs NM107 and AT-527 are antiviral against rubella virus. PNASNexus. Aug 3;2(9):pgad256. doi: 10.1093/pnasnexus/pgad256. eCollection 2023 Sep.

Jordan R, Ford-Scheimer SL, Alarcon RM, Atala A, Borenstein JT, Brimacombe KR, Cherry S, Clevers H, Davis MI, Funnell SGP, Gehrke L, Griffith LG, Grossman AC, Hartung T, Ingber DE, Kleinstreuer NC, Kuo CJ, Lee EM, Mummery CL, Pickett TE, Ramani S, Rosado-Olivieri EA, Struble EB, Wan Z, Williams MS, Hall MD, Ferrer M, Markossian S. (2023) Report of the Assay Guidance Workshop on 3-Dimensional Tissue Models for Antiviral Drug Development. J Infect Dis. 2023 Oct 3;228(Suppl 5):S337-S354. doi: 10.1093/infdis/jiad334.

Wong AC, Devason Mol CellAS, Umana IC, Cox TO, Dohnalová L, Litichevskiy L, Perla J, Lundgren P, Etwebi Z, Izzo LT, Kim J, Tetlak M, Descamps HC, Park SL, Wisser S, McKnight AD, Pardy RD, Kim J, Blank N, Patel S, Thum K, Mason S, Beltra JC, Michieletto MF, Ngiow SF, Miller BM, Liou MJ, Madhu B, Dmitrieva-Posocco O, Huber AS, Hewins P, Petucci C, Chu CP, Baraniecki-Zwil G, Giron LB, Baxter AE, Greenplate AR, Kearns C, Montone K, Litzky LA, Feldman M, Henao-Mejia J, Striepen B, Ramage H, Jurado KA, Wellen KE, O'Doherty U, Abdel-Mohsen M, Landay AL, Keshavarzian A, Henrich TJ, Deeks SG, Peluso MJ, Meyer NJ, Wherry EJ, Abramoff BA*, Cherry S*, Thaiss CA*, Levy M*. (2023) Serotonin reduction in post-acute sequelae of viral infection. Cell. Oct 9:S0092-8674(23)01034-6. doi: 10.1016/j.cell.2023.09.013. Online ahead of print. PMID: 37848036

Tapescu, I., Taschuk, F.,Pokharel, S.M., Zginnyk, O., Ferretti, M., Bailer, P.F., Whig, K., Madden, E.A., Heise, M.T.,. Schultz, D.C., Cherry, S. (2023) The RNA helicase DDX39A binds a conserved structure in chikungunya virus RNA to control infection. Mol. Cell. Nov 16;83(22):4174-89.

Lee JS, Dittmar M, Miller J, Li M, Ayyanathan K, Ferretti M, Hulahan J, Whig K, Etwebi Z, Griesman T, Schultz DC, Cherry S. 2023 Evolutionary arms race between SARS-CoV-2 and interferon signaling via dynamic interaction with autophagy. bioRxiv. 2023 Nov 16::2023.11.13.566859. doi: 10.1101/2023.11.13.566859. Preprint.

Reffsin S, Miller J, Ayyanathan K, Dunagin MC, Jain N, Schultz DC, Cherry S* and Raj A*. 2023 Single cell susceptibility to SARS-CoV-2 infection is driven by variable cell states. bioRxiv, Jul 7:2023.07.06.547955. doi: 10.1101/2023.07.06.547955. Preprint.

2022

Schultz DC, Johnson RM, Ayyanathan K, Miller J, Whig K, Kamalia B, Dittmar M, Weston S, Hammond HL, Dillen C, Ardanuy J, Taylor L, Lee JS, Li M, Lee E, Shoffler C, Petucci C, Constant S, Ferrer M, Thaiss CA, Frieman MB, Cherry S. Pyrimidine inhibitors synergize with nucleoside analogues to block SARS-CoV-2. Nature. 2022 Apr;604(7904):134-140. doi: 10.1038/s41586-022-04482-x. Epub 2022 Feb 7. PMID: 35130559

Acheampong, K.Schaff, D., Emert, B., Lake, J., Reffsin, S., Shea, E., Comar C., Litzky, L, Khurram, N., Linn, R., Feldman, F., Weiss, W., Montone,K., Cherry, S. and Shaffer, S. 2022. Subcellular detection of SARS-CoV-2 RNA in human tissue reveals distinct localization in alveolar type 2 pneumocytes and alveolar macrophages. MBio. In press.

K., Schultz, D., Cherry, S., Gerson, J., Schuster, S., Porazzi,P., and Ruella, M. (2022). Modulation of BCL-2 in both T Cells and Tumor Cells to Enhance Chimeric Antigen Receptor T cell Immunotherapy against Cancer. Cancer Discovery. Jul 29:CD-21-1026. PMID: 35904479.

Basavappa, M.G., Ferretti, M. Dittmar, M., Stoute, J., Sullivan, M., Whig, K., Shen, H., Liu, K.F., Schultz, D. C., Beiting, D., Lynch, K., Heneo-Mejia, J., Cherry, S., (2022), The novel lncRNA ALPHA specifically targets chikungunya virus to control infection. Molecular Cell. Sep 14:S1097-2765.

Basavappa, M.G., Henao-Mejia, J., Cherry, S. (2022) RNA-Proximity Ligation Assay: A Method to Detect RNA-RNA Interactions in situ. STAR Protocols. In Press.

Segrist, E., and Cherry, S. (2022). Gutcha: The microbiota drives tumor-induced mortality. Immunity. Sept 13;55(9):1581-3. PMID: 36103854

2021

Klionsky, D.J., et. al. (2021). Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition). Autophagy. Feb 9:S0092-867412(1):1-222. 

Hall MD, Anderson JM, Anderson A, Baker D, Bradner J, Brimacombe KR, Campbell EA, Corbett KS, Carter K, Cherry S, Chiang L, Cihlar T, de Wit E, Denison M, Disney M, Fletcher CV, Ford-Scheimer SL, Götte M, Grossman AC, Hayden FG, Hazuda DJ, Lanteri CA, Marston H, Mesecar AD, Moore S, Nwankwo JO, O’Rear J, Painter G, Saikatendu KS, Schiffer CA, Sheahan TP, Shi PY, Smyth HD, Sofia MJ, Weetall M, Weller SK, Whitley R, Fauci AS, Austin CP, Collins FS, Conley AJ, Davis MI. (2021) Report of the National Institutes of Health SARS-CoV-2 Antiviral Therapeutics Summit. J Infect Dis. 2021 Jun 10:jiab305. doi: 10.1093/infdis/jiab305. Online ahead of print. PMID: 34111271 

Stern-Ginossar N, Kanneganti TD, Cameron CE, Lou Z, Cherry S, Abraham J, Martin-Sancho

L. (2021) Rising to the challenge of COVID-19: Working on SARS-CoV-2 during the pandemic. Mol Cell. 2021 Jun 3;81(11):2261-2265. doi: 10.1016/j.molcel.2021.05.021. PMID: 34087174 

Rivera, O.D., Mallory, M.J., Quesnel-Vallieres, M., Schultz, D.C., Carroll, M., Barash, Y.*, Cherry, S.*, and Lynch, K.W.* (2021) Alternative splicing redefines landscape of commonly mutated genes in acute myeloid leukemia. PNAS. Apr 13. 

Anderson EM, Goodwin EC, Verma A, Arevalo CP, Bolton MJ, Weirick ME, Gouma S, McAllister CM, Christensen SR, Weaver J, Hicks P, Manzoni TB, Oniyide O, Ramage H, Mathew D, Baxter AE, Oldridge DA, Greenplate AR, Wu JE, Alanio C, D’Andrea K, Kuthuru O, Dougherty J, Pattekar A, Kim J, Han N, Apostolidis SA, Huang AC, Vella LA, Kuri-Cervantes L, Pampena MB; UPenn COVID Processing Unit, Betts MR, Wherry EJ, Meyer NJ, Cherry S, Bates P, Rader DJ, Hensley SE. (2021) Seasonal human coronavirus antibodies are boosted upon SARS-CoV-2 infection but not associated with protection. Cell. Feb 9:S0092. 

Dittmar, M., Lee, JS., Whig, K., Segrist, E., Li, M. Kamalia, B., Castellana, L., Ayyananathan, K. Cardenas-Diaz, F.L., Morrisey, E.E., Truitt, R., Yang, W., Jurado, K., Samby, K., Ramage, H.,Schultz, D.C., Cherry, S. (2021). Drug repurposing screens reveal cell-type specific entry pathways and FDA approved drugs active against SARS-CoV-2. Cell Reports. Apr 6. 

Choi, R., Zhou, M., Shek, R., Wilson, J.W., Tillery, L., Craig, J.K., Salukhe,I.A., Hickson, S.E., Kumar, N., James, R.M., Buchko, G.W., Wu, R., Huff, S., Nguyen, T., Hurst, B.L., Cherry S., Barrett, L.K., Hyde, J.L., Van Vorrhis, W.C. (2021). High-throughput screening of the ReFRAME, Pandemic Box, and COVID Box drug repurposing libraries against SARS-CoV-2 nsp15 endoribonuclease to identify small-molecule inhibitors of viral activity. PLoSOne. Apr 22. 

Kitamura, N., Sacco, M.D., Ma, C., Hu, Y., Townsend, J.A., Meng, X., Zhang, F., Zhang, X., Ba, M., Szeto, T., Kukuljac, A., Marty, M.T., Schultz, D., Cherry, S., Xiang, Y., Chen, Y. Wang, J. (2021). Expedited approach toward the rational design of noncovalent SARS-CoV-2 Main Protease inhibitors. J. Med. Chem, Apr 23. 

Abbey,D., Conlon,D., Rainville,C., Elwyn,S., Quiroz-Figueroa,K., Billheimer,J., Schultz,D.C., Hand,N.J., Cherry,S., Rader, D.J. (2021). Lipid droplet screen in human hepatocytes identifies TRRAP as a regulator of cellular triglyceride metabolism. Clinical and Translational Science. 22 June. 

Vazquez, C., Swanson, S.E., Negatu, S.G., Dittmar, M., Ramage, H.R., Cherry, S., Jurado, KA. (2021) SARS-CoV-2 viral proteins NSP1 and NSP13 inhibit interferon activation through distinct mechanisms PLoS One. Jun 24;16(6):e0253089.. 

Li, M. Ferretic, M., Ying, B., Descamps, H., Lee, E., Dittmar, M., Lee, J.S., Whig, K., Kamalia, B., Dohnalova, L., Uhr, G., Zarkoob, H., Chen Y., Ramage, H., Ferrer, M., Lynch, K., Schultz, D.C., Thaiss, C.A., Diamong, M.S., Cherry, S. (2021) Pharmacological activation of STING blocks SARS-CoV-2 infection. Science Immunology. May 18; Vol 6, 59 eabi9007. 

Segrist, E, Dittman, M., Gold, B. and Cherry, S. (2021) Orally acquired cyclic dinucleotides drive dSTING-dependent antiviral immunity in enterocytes. Cell Reports. In press

2020

O’Garra, A. Belkaid, Y, Sharpe, A. Kaech, S. Cherry, S. and Passegue (2020) JEM women in STEM: Unique journeys with a common purpose. E. J Exp Med Mar 

Palmer, W.H., Dittmar, M, Gordesky-Gold, B. Hofmann, J. and Cherry, S. (2020). Drosophila melanogaster as a model for arbovirus infection of adult salivary glands. Virology. April; 543; 1-6. 

Carro, S.D., and Cherry S. (2020) Beyond the surface: Endocytosis of mosquito-borne flaviviruses. Viruses. Dec 23:e55500. 

Taschuk, F. and Cherry, S. (2020). DEAD-box helicases: sensors regulators and effectors for antiviral defenses. Viruses.12 (2): 10.3390/v12020181 

Segrist, E. and Cherry, S. (2020). Using diverse model systems to define intestinal epithelial defenses to enteric viral infections. Cell Host Microbe. March 12. 

Li, M., Ramage, H., and Cherry, S.(2020). Deciphering flavivirus-host interactions using quantitative proteomics. Curr. Opin. Immunol. Jul 15. 

Cherry, S. and Lynch, K.W. (2020). Alternative splicing and cancer: insights, opportunities and challenges from an expanding view of the transcriptome. Genes and Dev. Aug. 3. 

Taschuk, F., Moy, R.H. and Cherry, S. (2020). DDX56 binds to chikungunya virus RNA to control infection. mBIO. Oct 27. 

Thompson, M.G., Dittmar, M., Mallory, M.J., Bhat, P., Fontoura, B.M.A., Cherry, S. and Lynch, K. (2020). Viral-induced alternative splicing of host genes promotes influenza replication. eLife Dec 3:9:e55500..  

Kim AS, Zimmerman O, Fox JM, Nelson CA, Basore K, Zhang R, Durnell L, Desai C, Bullock C, Deem SL, Oppenheimer J, Shapiro B, Wang T, Cherry S, Coyne CB, Handley SA, Landis MJ, Fremont DH, Diamond MS. (2020) An Evolutionary Insertion in the Mxra8 Receptor-Binding Site Confers Resistance to Alphavirus Infection and Pathogenesis Cell Host Microbe Mar 11 

Mathew D, Giles JR, Baxter AE, Oldridge DA, Greenplate AR, Wu JE, Alanio C, Kuri-Cervantes L, Pampena MB, D’Andrea K, Manne S, Chen Z, Huang YJ, Reilly JP, Weisman AR, Ittner CAG, Kuthuru O, Dougherty J, Nzingha K, Han N, Kim J, Pattekar A, Goodwin EC, Anderson EM, Weirick ME, Gouma S, Arevalo CP, Bolton MJ, Chen F, Lacey SF, Ramage H, Cherry S, Hensley SE, Apostolidis SA, Huang AC, Vella LA; UPenn COVID Processing Unit, Betts MR, Meyer NJ, Wherry EJ. (2020) Deep immune profiling of COVID-19 patients reveals distinct immunotypes with therapeutic implications. Science Jul 15. 

2019

Tatomer, D.C., Henriques, T., Elrod, N.D., Liang,D., Baillat, D., Jonathan, M., Wagner, E.J.,  Cherry, S.,* Wilusz, JE.*. (2019). The Integrator complex cleaves nascent mRNAs to attenuate transcription. Genes and Development. Sept 17. 

Zhang, R., Earnest, J.T., Kim, A.S., Winkler, E.S., Desai, P., Adams, L.J., Hu, G., Bullock, C., Gold, B., Cherry, S., Diamond. M.S. (2019). Expression of Mxra8 receptor promotes alphavirus infection and pathogenesis in mice and Drosophila. Cell. Rep. Sep 3; 28 (10):2647-58. 

Basavappa, M., Cherrys, S. and Henao-Mejia, J. (2019) Long Noncoding RNAs and Regulation of Innate Immunity and Host Virus Interactions. Journal of Leukocyte Biology. Feb 28. 

Cherry, S. (2019). Encephalomyocarditis Virus Entry Unveiled. mBio. Mar 26; 10(2). 

Basavappa, M.G. and Cherry, S. (2019) Going in circles: The black box of circular RNA immunogenicity. Mol Cell. Oct 3; 76(1):3-5. 

Liu, Y. and Cherry, S. (2019). Zika virus infection activates STING-dependent autophagy in the Drosophila brain. Autophagy. Jan; 15(1):174-5. 

Li, M., Johnson, JR., Truong, B., Kim, G., Weinbren, N., Dittmar, M., Shah, P.S., Von Dollen, J., Newton, B., Jang, G., Krogan, NJ.*, Cherry, S.*, and Ramage, H*. (2019). Identification of Antiviral Roles for the Exon-Junction Complex and Nonsense-Mediated Decay in Flaviviral Infection. Nature Microbiology. Mar 4.

Chambers, B.S., Heaton, B.E., Rausch, K., Dumm, R.E., Hamilton, J.R. Cherry, S.,*, and Heaton, N.S,* (2019). DNA mismatch repair is required for the host innate response and controls cellular fate after viral infection. In Press.

Hackett, Mark Dittmar, Elisha Segrist, Nathan Pittenger, Julie To, Trevor Griesman, BethGordesky-Gold, David C. Schultz, Sara Cherry Sirtuin Inhibitors Are Broadly Antiviral against Arboviruses Brent mBio Jul 2019, 10 (4) e01446-19; DOI:10.1128/mBio.01446-19

2018

Yuan Liu and Sara Cherry (2018) Zika virus infection activates Sting-dependent antiviral autophagy in the Drosophila brain, Autophagy, DOI: 10.1080/15548627.2018.1528813

Hackett, B.A. and Cherry S. (2018). Flavivirus internalization is regulated by a size-dependent endocytic pathway. PNAS. April 2.pii:201720032.

Liu, Y., Gordesky-Gold, B., Leney-Greene, M., Weinbren, N. L., Tudor, M., & Cherry, S. (2018). Inflammation-Induced, STING-Dependent Autophagy Restricts Zika Virus Infection in the Drosophila Brain. Cell Host & Microbe, 24(1). DOI:10.1016/j.chom.2018.05.022

Song J, Pandian V, Mauk MG, Bau HH, Cherry S, Tisi LC, Liu C. (2018). Smartphone-Based Mobile Detection Platform for Molecular Diagnostics and Spatiotemporal Disease Mapping. Anal Chem. Mar 22. DOI: 10.1021/acs.analchem.8b00283.

Shah PS, Link N, Jang GM, Sharp PP, Zhu T, Swaney DL, Johnson JR, Von Dollen J, Ramage HR, Satkamp L, Newton B, Hüttenhain R, Petit MJ, Baum T, Everitt A, Laufman O, Tassetto M, Shales M, Stevenson E, Iglesias GN, Shokat L, Tripathi S, Balasubramaniam V, Webb LG, Aguirre S, Willsey AJ, Garcia-Sastre A, Pollard KS, Cherry S, Gamarnik AV, Marazzi I, Taunton J, Fernandez-Sesma A, Bellen HJ, Andino R, Krogan NJ. (2018). Comparative Flavivirus-Host Protein Interaction Mapping Reveals Mechanisms of Dengue and Zika Virus Pathogenesis. Cell. Dec 13; 175(7):1931-45.

2017

Shin, S. and Cherry, S. (2017). A RHIM with a view: FLYing with functional amyloids. Immunity. Oct17;47(4):604-606.

Sansone, C., Cohen, J., Gold, B., Zhu, W., Misic, A., Beiting, D.P., Winter, S.E., Cherry, S. (2017) Aging-associated dysbiosis increases susceptibility to enteric viral infection in Drosophila. BIORXIV/2017/156455. June 27, 2017.

Molleston, J.M. and Cherry, S. (2017) Attacked from all sides: RNA decay in antiviral defense. Viruses. Jan4;9(1):pii:E2.

Pajcini, K.V., Xu, L., Shao, L., Petrovic, J., Palasiewicz, K., Ohtani, Y., Bailis, W., Lee, C., Wertheim, G.B., Mani, R., Musuthamy, N., Li, Y., Meijerink, J.P.P.,Blacklow, S.C., Faryabi, R.B., Cherry, S., Pear, W.S. (2017). MaftB enhances oncogenic Notch signaling in T cell acute lymphoblastic leukemia. Science Signaling. Nov 14; 10(55).

Hughes, E.R., Winter, M.G., Duerkop, B.A., Spiiga, L., Furtado de Carvalho, T,. Zhu,W., Gillis, C.C., Buttner, L., Smoot, M.P., Behrendt, C.L., Cherry, S., Santos, R.L., Hooper, L.V., Winter, S.E. (2017). Microbial Respiration and Formate Oxidation as Metabolic Signatures of Inflammation-Associated Dysbiosis. Cell Host Microbe. Feb 8; 21 (2): 208-19.

Aguado, L.C., Schmid, S., May, J., Sabin, L.R., Panis, M., Blanco-Melo, D., Shim, J.V., Sachs, D., Cherry, S., Simon, A.E., Levraud, J-P., tenOever, B.R. (2017) RNase III nucleases from diverse kingdoms serve as antiviral effectors. Nature. 547(7661):114-7.

Rausch, K., Hackett, B.A., Weinbren, N.L., Reeder, S.M., Sadofsky, Y., Hunter, C.A., Schultz, D.C., Coyne, C.B., Cherry, S. (2017) Screening bioactives reveals nanchangmycin as a broad spectrum antiviral active against Zika virus. Cell Reports. Jan 17;18(3):804-815.

Liang, D., Tatomer, D.E., Luo, Z., Wu, H., Yang, L., Chen, L.-L., Cherry, S., and Wilusz, J.E. (2017) The output of protein-coding genes shifts to circular RNAs when the pre-mRNA processing machinery is limiting. Molecular Cell. Nov 9.

2016

Molleston, J.M., Sabin, L.R., Moy, R.H., Menghani, S.V., Rausch, K., Gordesky-Gold, B., Hopkins, K.C., Zhou, R., Jensen, T.H., Wilusz, R.E., Cherry, S. (2016) A conserved virus-induced cytoplasmic TRAMP-like complex recruits the exosome to target viral RNA for degradation. Genes and Development. July 19;88(14):7289-94. (Research highlight Nature Reviews Molecular Cell Biology).

Zhang, R., Miner, J.J., Gorman, M.J., Rausch, K., Ramage, H., White, J.P., Zuiani, A., Zhang, P., Fernandez, E., Zhang, Q., Dowd, K.A., Pierson, T.C., Cherry, S. and Diamond, M.S. (2016) A CRISPR screen defines a signal peptide processing pathway required by flaviviruses. Nature. July 7;535(7610):164-8.

Klionsky, D.J., et. al. (2016). Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition). Autophagy. 12(1):1-222.

Song, J., Mauk, M., Hackett, B., Cherry, S. Bau, H., and Liu, C. (2016) Instrument-Free Point-of-Care Molecular Detection of Zika Virus. Analytical Chemistry. July 19;88(14):7289-94.

Bayer, A., Lennemann, N.J., Ouyang, Y., Bramley, J.C., Morosky, S., Marques, E.T. Jr, Cherry, S., Sadovsky, Y., Coyne, C.B. (2016) Type III interferons produced by human placental trophoblasts confer protection against Zika virus infection. Cell Host and Microbe. May 11; 19(5):705-12

2015

Panda, D. and Cherry, S. (2015). A Genome-wide RNAi screening method to discover novel genes involved in virus infection. Methods. Jul8. pii:S1046-2023(15)30014-1.

Beiting, D.P., Hidano, S. Fang, Q. Baggs, J.E., Geskes, J.M., Wherry, J.E., Hunter, C.A., Roos, D.S., and Cherry, S. (2015). A Genomic Screen Identifies the Orphan Nuclear Receptor TLX as an Enhancer of STAT1-mediated Transcription and Immunity to Toxoplasma gondii. PLoS Biology. 13(7): e1002200. (Synopsis in PLoS Biology)

Kramer, M.C., Liang, D., Tatomer, D.C., Gold, B., March, A.M., Cherry, S.*, Wilusz, J.E.* (2015) Combinatorial control of Drosophila circular RNA expression by intronic repeats, hnRNPs, and SR proteins. Genes and Development. Oct 15; 29 (20):2168-82. (*co-corresponding authors).

Brennan, B, et al. (2015). In memoriam- Richard Elliot (1954-2015). J Gen Virol. Aug; 96(8):1975-8.

Sansone, C., Cohen, J., Yasunaga, A., Xu, J., Osborn, G., Subramanian, H., Gold, B., Buchon, N. and Cherry, S. (2015) Microbiota-dependent priming of antiviral intestinal immunity in Drosophila. Cell Host Microbe. Nov 11;18(5):571-81. (Spotlight in Trends in Microbiology, News and Views, Nature Microbiology)

Harris, K.G., Morosky, S.A., Drummond, C., Patel, M., Kim, C., Stolz, D.B., Bergelson, J.M., Cherry, S. and Coyne, C.B. (2015). RIP3 regulates autophagy and is required for Coxsackievirus B3 infection of polarized intestinal epithelial cells. Cell Host Microbe. Aug 12; 18(22):221-32.

Hackett, B.A., Yasunaga, A., Panda, D., Tartell, M., Hopkins, K., Hensley, S.E., and Cherry S. (2015). RNASEK is required for internalization of diverse acid-dependent viruses. Proc. Natl. Acad. Sci. USA. Jun 8. pii: 201424098.

Panda, D., Gold, B., Tartell, M.A., Rausch, K., Casas-Tinto, S. and Cherry, S. (2015). The transcription factor FoxK participates with Nup98 to regulate antiviral gene expression. mBio. Apr 7;6(2). pii: e02509-14.

Ramage, H. and Cherry, S. (2015). Virus-host interactions: from unbiased genetic screens to function. Annual Reviews in Virology. Nov;2(1): 497-524/

Hopkins, K.C., Tartell, M.A., Herrmann, C., Hackett, B.A., Taschuk, F., Panda, D., Menghani, S., Sabin, L.R., Cherry, S. (2015). Virus-induced translational arrest through 4EBP1/2-dependent decay of 5’TOP mRNAs restricts viral infection. Proc. Natl. Acad. Sci. USA. Jun 2;112(22):E2920-9.

2014

Petersen, J. Drake, M.J., Bruce, E.A., Riblett, A.M., Didigu, C.A., Wilen, C.B., Malani, N., Male, F., Lee, F-H., Bushman, F.D., Cherry, S., Doms R.W., Bates, P., Briley, K. (2014). A sterol regulator pathway is required for entry of the pathogenic New World hantavirus, Andes virus. PLoS Pathogens. Feb 6;10(2):e1003911. PMCID:PMC3916400

Zhang, J., Fan, J.,Venneti, S., Cross, J.R., Takagi, T., Bhinder, B., Djaballah, H., Kanai, M., Cheng, E.H., Judkins, A.R., Pawel, B., Baggs, J., Cherry, S., Rabinowitz, J.D., Thompson, C.B. (2014). Asparagine Plays a Critical Role in Regulating Cellular Adaptation to Glutamine Depletion. Molecular Cell. 56(2): 205-18. PMCID:PMC4224619

Moy, R. and Cherry, S. (2014). DDX17: Structured RNA recognition drives diverse outputs. Cell Cycle. 13 (22): 346708.

Yasunaga, A., Hanna, S.L., Li, J., Cho, H., Rose. P.P., Spiridigliozzi, A. Gold, B., Diamond, M.S. and Cherry, S. (2014) Genome-wide RNAi screen identifies broadly-acting anti-arboviral host factors. PLoS Pathogens. Feb 13;10(2):e1003914. PMCID:PMC3923753

Buchon, N., Silverman, N. and Cherry S. (2104). Immunity in Drosophila melanogaster- from microbial recognition to whole-organism physiology. Nature Reviews Immunology. 14(12): 796-810.

Panda, D., Pascual-Garcia, P., Dunagin, D., Tudor, M., Hopkins, K.C., Xu, J., Gold, B., Raj, A., Capelson, M. and Cherry, S. (2014) Nup98 promotes antiviral gene expression to restrict RNA virus infection in Drosophila. Proc. Natl. Acad. Sci. USA. 111(37): E3890- 9. PMCID:PMC4169978

Moy, R.H., Gold, B., Molleston, J.M., Schad, V., Langer, K., Salzano, M-V., Yagi, Y., Stanger, B.Z., Soldan, S.S., and Cherry, S. (2014). Restriction of Rift Valley fever virus infection by autophagy is conserved from flies to mammals. Immunity. Jan 16;40(1):51-65. PMCID:PMC3951734.

Moy, R.H, Cole, B.S., Yasunaga, A., Gold, B., Shankarling, G., Varble, A. Molleston, J., tenOever, B.R., Lynch, K.W. and Cherry S. (2014). Stem loop recognition by DDX17 facilitates miRNA processing and antiviral defense. Cell. Aug 14; 178(4):764-77. PMCID:PMC4134512

2013

Hopkins, K.C., McLane, L.M., Maqbool, T., Panda, D., Gordesky-Gold, B., and Cherry, S. (2013). A genome-wide RNAi screen reveals that mRNA decapping restricts bunyavirial replication by limiting the pools of Dcp2-accessible targets for cap-snatching. Genes & Development. Jul 1; 27(13):1151-25. PMCID:PMC3713431

Moy, R. and Cherry, S. (2013). Antimicrobial autophagy: a conserved innate immune response in Drosophila. Journal of Innate Immunity. May 8. PMID:23689401

Hopkins, K. and Cherry, S. (2013). s.Bunyaviral cap-snatching vs decapping: Recycling cell cycle mRNA Cell Cycle. 12:24.

Sabin, L.R., Zheng, Q., Thekkat, P., Yang, J., Hannon, G.J., Gregory, B.D., Tudor, M., and Cherry, S. (2013). Dicer-2 processes diverse viral RNA species. PLoS One. 8(2): e55458. PMID: 23424633.

Durdevic, Z., Hanna, K., Gold, B., Pollex, T., Cherry, S., Lyko, F., and Schaefer, M. (2013) Efficient RNA virus control in Drosophila requires the RNA methyltransferase Dnmt2. EMBO Reports. Mar1; 14(3):269-75. PMID: 23370384

Xu, J., Hopkins, K., Sabin, L.R., Yasunaga, A., Lamborn, I., Gordesky-Gold, B., and Cherry, S. (2013). ERK signaling couples nutrient status to antiviral defense in the insect gut. Proc. Natl. Acad. Sci. USA. Sept 10; 110(37): 15025-30. PMCID:PMC3773808

Panda, D., Rose, P.P., Hanna, S.L., Gold, B., Hopkins, K.C., Lyde, R.B., Marks, M.S., and Cherry, S. (2013). Genome-wide screen identifies conserved regulators of Sindbis virus entry. Cell Reports. Dec 26; 5(1-12). PMCID:PMC3920290

Cullen, B.R., Cherry, S. and Tenoever, B.R. (2013). Is RNA interference a physiologically relevant innate antiviral immune response in mammals? Cell Host and Microbe. 14(4):374-8

Madakasira, L., Cuevas, C.D., Thomas, M., Cherry, S., and Ross, S.R. (2013) siRNA screen for human genes that affect Junin virus entry uncovers a new therapeutic target. Science Translational Medicine. Sept 25; 5(204):204ra131. PMCID:PMC4104171

Sabin, L.R. and Cherry, S. (2013). Small creatures use small RNAs for antiviral defenses. European Journal of Immunology. Jan; 43(1):27-33. PMID: 23322691

Xu, J. and Cherry, S. (2013). Viruses and Antiviral Immunity in Drosophila. Developmental and Comparative Immunology. May 13. PMID: 23680639

2012

Moser, T., Schieffer, D., and Cherry, S. (2012). AMP-Activated Kinase Restricts Rift Valley Fever Virus Infection by Inhibiting Fatty Acid Synthesis. PLoS Pathogens. April 19. PMCID:PMC3330235

Kondratowicz, A.S., Hunt, C.L., Davey, R.A., Cherry, S., and Maury W.J. (2012). AMP-activated protein kinase is required for the macropinocytic internalization of Ebolavirus. Journal of Virology. Oct 31. PMID: 23115293

Panda, D. and Cherry, S. (2012). Cell-based genomic screening: elucidating virus-host interactions. Current Opinion in Virology. 2(6):778-86. PMCID: PMC3512112

Li, F., Zheng, Q., Ryvkin, R., Dragomir, I., Desai, Y., Aiyer, S., Valladares, O., Yang, J., Bambina, S., Sabin, L.R., Murray, J.I., Lamitina, T., Raj, A., Cherry, S., Wang, L-S, and Gregory, B.D. (2012). Global analysis of RNA secondary structure in two metazoans. Cell Reports. 1(1); 69-82.

Klionsky, D.J., et al. (2012). Guidelines for the use and interpretation of assays for monitoring autophagy. Autophagy. 8:4, 1-100

Hall, A.O., Beiting, D.P., Tato, C., John, B., Oldenhove, G., Lombana, C.G., Pritchard, G.H., Silver, J.S., Bouladoux, N., Stumhofer, J.S., Harris, T.H., Grainger, J., Tait E., Wojno, D., Wagage, S., Roos, D.S., Scott, P., Turka, L.A., Cherry, S., Reiner, S.L, Cua, D., Belkaid, Y., Elloso, M.M., Hunter, C.A. (2012) The cytokines interleukin 27 and interferon-gamma promote distinct Treg cell populations required to limit infection-induced pathology. Immunity. 37 (3): 511-523.

Xu, J., Grant, G., Sabin, L.R., Gordesky-Gold, B., Yasunaga, A., Tudor, M., and Cherry, S. (2012) Transcriptional Pausing Controls a Rapid Antiviral Innate Immune Response in Drosophila. Cell Host Microbe. 12 (4): 531-43. PMCID:PMC3479682

Moser TS and Cherry S (2012). Viral immunofluorescence with Rift Valley Fever virus infected MEFs in a 96 well plate. bio-protocol.org http://www.bio-protocol.org/wenzhang.aspx?id=297

Nakamoto, M., Moy, R., Xu, J., Bambina, S., Yasunaga, A., Shelly, S., Gold, B., and Cherry, S. (2012). Virus recognition by Toll-7 activates antiviral autophagy in Drosophila. Immunity. 36: 658-667. PMCID:PMC3334418

Backes, S., Shapiro, J.S., Sabin, L.R., Pham, A.M., Reyes, I., Moss, B., Cherry, S.* and tenOever, B.R.*. (2012) Degradation of host microRNAs by poxvirus poly(A) polymerase reveals terminal RNA methylation as a protective antiviral mechanism. Cell Host Microbe. 12(2); 200-10. PMCID:PMC3782087. (*co-corresponding authors). (F1000 highlight)

2011

Cherry S. (2011). RNAi screening for host factors involved in viral infection using Drosophila cells. In Ronald P. van Rij (ed.), Antiviral RNAi: Concepts, Methods, and Applications, Methods in Molecular Biology, vol. 721, DOI 10.1007/978-1-61779-037-9_23

Rose, P.P., Hanna, S.L., Spiridigliozzi, A., Wannissorn, N., Beiting, D.P., Ross, S.R., Hardy, R.W., Bambina, S.A., Heise, M.T. and Cherry, S. (2011). Natural Resistance-associated Macrophage Protein (NRAMP) is a cellular receptor for Sindbis virus in both insect and mammalian hosts. Cell Host Microbe. 10(2): 97-104. PMCID: PMC3164510 (Preview in Cell Host Microbe)

Coyne, C.B. and Cherry S. (2011). RNAi screening in mammalian cells to identify novel host cell molecules involved in the regulation of viral infections. In Ronald P. van Rij (ed.), Antiviral RNAi: Concepts, Methods, and Applications, Methods in Molecular Biology, vol. 721, DOI 10.1007/978-1-61779-037-9_25

Liu N, Abe M, Sabin LR, Hendriks GJ, Naqvi AS, Yu Z, Cherry S*, Bonini NM*. The Exoribonuclease Nibbler Controls 3′ End Processing of MicroRNAs in Drosophila. Curr Biol. 2011 Nov 2. PMCID: PMC3255556 (*co-corresponding authors). (Research Highlight In Brief Nature Reviews Genetics)

2010

Moser, T., Jones, R., Thompson, C.B, Coyne, C.B. and Cherry S. (2010). A kinome RNAi screen identified AMPK as required for poxvirus infection through the control of actin dynamics. PLoS Pathogens. 6(6): e1000954. PMCID: PMC2887478.

Sabin L.R., Hanna S.L., and Cherry S. (2010). Innate antiviral immunity in Drosophila. Current Opinion in Immunology. 22:4-9. PMCID: PMC2831143.

Bagashev A, Fitzgerald MC, LaRosa DF, Rose PP, Cherry S, Johnson AC and Sullivan KE. (2010) Leucine-Rich Repeat (in Flightless I) Interacting Protein-1 Regulates a Rapid Type I Interferon Response. J. Interferon and Cytokine Research. Jun 29.

Filone, C.M., Hanna, S., Moser, T., Caino, M.C., Bambina, S., Doms, R.W. and Cherry S. (2010). Protein Kinase C epsilon promotes Rift Valley Fever Virus infection of human and insect hosts. PLoS One. 5(11): e15483. PMCID:PMC2991366

Bozym, R.A., Morosky, S.A., Kim, K.S., Cherry, S., and Coyne, C.B. (2010) Release of Intracellular Calcium Stores Facilitates Coxsackievirus Entry into Polarized Endothelial Cells. PLoS Pathogens. 6(10). pii: e1001135. (F1000 highlight)

Moser TS, Sabin LR, and Cherry S (2010). RNAi Screening for Host Factors Involved in Vaccinia Virus Infection using Drosophila Cells. JoVE. 42. http://www.jove.com/index/details.stp?id=2137

Coyne, C.B., Bozym, R., Morosky, S.A., Hanna, S.L., Mukherjee, A., Tudor, M., Kim, K.S., and Cherry S. (2010). RNAi screening reveals host factors involved in enteroviruses infection of polarized endothelial monolayers. Cell Host Microbe.9(1): 70-82. PMCID:PMC3048761. (F1000 highlight)

  2009

Gruber, J.J., Zatechka, D.S.*, Sabin, L.R.*, Yong, J., Lum, J.J., Kong, M., Zong, W-X., Zhang, Z., Lau, C-K., Rawlings, J., Cherry S, Ihle, J.N., Dreyfuss, G., and Thompson, C.B. (2009). Ars2 links the nuclear cap binding complex to RNA interference and cell proliferation. Cell. 138:328-339. PMCID: PMC2717034. (Preview in Cell, Research Highlight in Nature Reviews Molecular Cell Biology, Research Highlight in Disease Models and Mechanisms, F1000 hightlight)

Sabin, L.R., Zhou, R., Gruber, J.J., Lukinova N, Bambina, S., Berman A, Thompson, C.B. and Cherry S. (2009). Ars2 regulates both miRNA- and siRNA-dependent silencing and suppresses RNA virus infection in Drosophila. Cell. 138:340-351. PMCID: PMC2717035. (Preview in Cell, Preview in Cell Host Microbe, Research Highlight in Nature Reviews Molecular Cell Biology, Research Highlight in Disease Models and Mechanisms, F1000 hightlight)

DiAngelo J, Bland, M. Bambina, S. Cherry S*, and Birnbaum M.* (2009). The immune response attenuates growth and nutrient storage in Drosophila by reducing insulin signaling. Proc. Natl. Acad. Sci. USA. 106:20853-20858. (*co-corresponding authors). PMCID: PMC2791644. (Editor’s choice in Science Signaling)

Cherry S. (2009). VSV infection is sensed by Drosophila, attenuates nutrient signaling, and thereby activates antiviral autophagy. Autophagy. 5:1062-1063.

Cherry S. (2009). What have RNAi screens taught us about viral-host interactions? Current Opinion in Microbiology. 12:446-452. PMCID: PMC2766546.

Shelly S, Lukinova N, Bambina, S., Berman A, and Cherry S. (2009). Autophagy is an Essential Component of Drosophila Immunity against Vesicular Stomatitis Virus. Immunity. 30:588-598. PMCID: PMC2754303. (Preview in Immunity)

2008

Lamitina, T., and Cherry, S. (2008) Dangerous liaisons: the apoptotic engulfment receptor CED-1 links innate immunity to the unfolded protein response. Dev. Cell. 15:3-4.

Cherry, S. (2008) Genomic RNAi screening in drosophila S2 cells: what have we learned about host-pathogen interactions? Current Opinion in Microbiology. 11:262-270. PMCID: PMC2525573