Many of these publications are available Open Access. If not, let us know and we will send a pdf.

Preprints

Qu J, Schinkel M, Chiggiato L, Rosendo Machado S, Overheul GJ, Miesen P, Van Rij RP. (2023). The Hsf1-sHsp cascades has pan-antiviral activity in mosquitoes.
bioRxiv DOI: 10.1101/2023.02.21.529413

Besson B*, Overheul GJ*, Wolfinger MT, Junglen S, Van Rij RP. (2022)  Pan-flavivirus analysis reveals that the insect-specific Kamiti River virus produces a new subgenomic RNA and high amounts of 3’ UTR-derived siRNAs.
bioRxiv DOI: 10.1101/2022.08.18.504478

Publications

Lezcano OM, Fuhrmann L, Ramakrishnan G, Beerenwinkel N, Huynen MA, Van Rij RP (2023). Parallel evolution and enhanced virulence upon in vivo passage of an RNA virus in Drosophila melanogaster. Virus Evolution vead074.
DOI: 10.1093.ve.vead074

Föhse FK; Geckin B; Overheul GJ, van de Maat J, Kilic G, Bulut O, Dijkstra H, Lemmers H, Sarlea SA, Reijnders M, Hoogerwerf J, ten Oever J, Simonetti E, van de Veerdonk FL, Joosten LAB, Haagmans BL, van Crevel R, Li Y, van Rij RP, de Jonge MI, Domínguez-Andrés J, Netea MG (2023) The impact of BNT162b2 mRNA vaccine on adaptive and innate immune responses. Clinical Immunology 255: 109762.
DOI: 10.1016/j.clim.2023.109762

Boby ML, Fearon D, Ferla M, Filep M, Koekemoer L, Robinson MC; COVID Moonshot Consortium; Chodera JD, Lee AA, London N, von Delft A, von Delft F, Achdout H, Aimon A, Alonzi DS, Arbon R, Aschenbrenner JC, Balcomb BH, Bar-David E, Barr H, Ben-Shmuel A, Bennett J, Bilenko VA, Borden B, Boulet P, Bowman GR, Brewitz L, Brun J, Bvnbs S, Calmiano M, Carbery A, Carney DW, Cattermole E, Chang E, Chernyshenko E, Clyde A, Coffland JE, Cohen G, Cole JC, Contini A, Cox L, Croll TI, Cvitkovic M, De Jonghe S, Dias A, Donckers K, Dotson DL, Douangamath A, Duberstein S, Dudgeon T, Dunnett LE, Eastman P, Erez N, Eyermann CJ, Fairhead M, Fate G, Fedorov O, Fernandes RS, Ferrins L, Foster R, Foster H, Fraisse L, Gabizon R, García-Sastre A, Gawriljuk VO, Gehrtz P, Gileadi C, Giroud C, Glass WG, Glen RC, Glinert I, Godoy AS, Gorichko M, Gorrie-Stone T, Griffen EJ, Haneef A, Hassell Hart S, Heer J, Henry M, Hill M, Horrell S, Huang QYJ, Huliak VD, Hurley MFD, Israely T, Jajack A, Jansen J, Jnoff E, Jochmans D, John T, Kaminow B, Kang L, Kantsadi AL, Kenny PW, Kiappes JL, Kinakh SO, Kovar B, Krojer T, La VNT, Laghnimi-Hahn S, Lefker BA, Levy H, Lithgo RM, Logvinenko IG, Lukacik P, Macdonald HB, MacLean EM, Makower LL, Malla TR, Marples PG, Matviiuk T, McCorkindale W, McGovern BL, Melamed S, Melnykov KP, Michurin O, Miesen P, Mikolajek H, Milne BF, Minh D, Morris A, Morris GM, Morwitzer MJ, Moustakas D, Mowbray CE, Nakamura AM, Neto JB, Neyts J, Nguyen L, Noske GD, Oleinikovas V, Oliva G, Overheul GJ, Owen CD, Pai R, Pan J, Paran N, Payne AM, Perry B, Pingle M, Pinjari J, Politi B, Powell A, Pšenák V, Pulido I, Puni R, Rangel VL, Reddi RN, Rees P, Reid SP, Reid L, Resnick E, Ripka EG, Robinson RP, Rodriguez-Guerra J, Rosales R, Rufa DA, Saar K, Saikatendu KS, Salah E, Schaller D, Scheen J, Schiffer CA, Schofield CJ, Shafeev M, Shaikh A, Shaqra AM, Shi J, Shurrush K, Singh S, Sittner A, Sjö P, Skyner R, Smalley A, Smeets B, Smilova MD, Solmesky LJ, Spencer J, Strain-Damerell C, Swamy V, Tamir H, Taylor JC, Tennant RE, Thompson W, Thompson A, Tomásio S, Tomlinson CWE, Tsurupa IS, Tumber A, Vakonakis I, van Rij RP, Vangeel L, Varghese FS, Vaschetto M, Vitner EB, Voelz V, Volkamer A, Walsh MA, Ward W, Weatherall C, Weiss S, White KM, Wild CF, Witt KD, Wittmann M, Wright N, Yahalom-Ronen Y, Yilmaz NK, Zaidmann D, Zhang I, Zidane H, Zitzmann N, Zvornicanin SN. (2023) Open science discovery of potent noncovalent SARS-CoV-2 main protease inhibitors. Science 382(6671):eabo7201.
DOI: 10.1126/science.abo7201.

Qu J, Betting V, van Iterson R, Kwaschik FM, van Rij RP (2023) Chromatin profiling identifies transcriptional readthrough as a conserved mechanism for piRNA biogenesis in mosquitoes. Cell Reports 42:112257.
DOI: 10.1016/j.celrep.2023.112257.

Moonen JP*, Schinkel M*, Van der Most T*, Miesen P, Van Rij RP (2023). Composition and global distribution of the mosquito virome – a comprehensive database of insect-specific viruses. One Health 16: 100490.
DOI: 10.1016/j.onehlt.2023.100490.

Garishah FM, Boahen CK, Vadaq N, Pramudo SG, Tunjungputri RN, Riswari SF, van Rij RP, Alisjahbana B, Gasem MH, van der Ven AJAM, de Mast Q. 2023. Longitudinal proteomic profiling of the inflammatory response in dengue patients. PLoS Negl Trop Dis. 17:e0011041.
DOI: 10.1371/journal.pntd.0011041.

Besson B, Lezcano OM, Overheul GJ, Jansen K, Spruijt CG, Vermeulen M, Qu J, Van Rij RP (2022). Virus-vector protein interactomics identifies Loquacious as a co-factor for dengue virus replication in Aedes mosquitoes. PLOS Pathogens 18: e1010329.
DOI: 10.1371/journal.ppat.1010329

Reimer KC,  Jansen J, Overheul GJ, Miesen P, van Rij RP, Triana SH, Smeets B, Schneider RK, Kramann R (2022). Using human iPSC-derived kidney organoids to decipher SARS-CoV-2 pathology on single cell level. STAR Protocols. 3: 101612.
DOI: 10.1016/j.xpro.2022.101612

Damen M, Izidoro MA, Okamoto DN, de Oliveira LCG, Amatdjais-Groenen HIV, Van Dongen SFM, Van Cleef KWR, Van Rij RP, Dieteren CEJ, Girones D, Van Buuren BNM, Martina BEE, Osterhaus ADME, Juliano L, Scholte BJ, Feiters MC (2022). Cationic geminoid peptide amphiphiles inhibition DENV2 protease, furin and viral replication. Molecules 27: 3217.
DOI: 10.3390/molecules27103217.

Kurver K, van den Kieboom CH, Lanke K, Diavatopoulos DA, Overheul GJ, Netea MG, ten Oever J, van Crevel R, Mulders-Manders K, van den Veerdonk FL, Wertheim H, Schouten J, Rahamat-Langendoen J, van Rij RP, Bousema T, van Laarhoven A, de Jonge MI (2022). SARS-CoV-2 RNA in exhaled air of hospitalized COVID-19 patients. Sci Reports 12:8991.
DOI: 10.1038/s41598-022-13008-4

Bezemer B, van Cleef KWR, Overheul GJ, Miesen P, Van Rij RP (2022). The calcium channel inhibitor lacidipine inhibits Zika virus replication in neural progenitor cells. Antiviral Res 202:105313.
DOI: 10.1016/j.antiviral.2022.105313

Bousema T, Burtscher L, Berne O; van Rij RP; Barret D, Whitfield K (2022). The critical role of funders in shrinking the carbon footprint of research. The Lancet Planetary Health 6:E4-E6.
DOI: 10.1016/S2542-5196(21)00276-X

Jansen J, Reimer KC, Nagai JS, Varghese FS, Overheul GJ, de Beer M, Roverts R, Daviran D, Fermin LAS, Willemsen B, Beukenboom M, Djudjaj S, von Stillfried und Rattonitz S, van Eijk LE, Mastik M, Bulthuis M, den Dunnen W, van Goor H, Hillebrands J-L, Triana SH, Alexandrov T, Timm M-C, van den Berge BT, van den Broek M, Nlandu Q, Heijnert J, Mooren F, Kuppe C, Miesen P, Grünberg K, Ijzermans T, Steenbergen EJ, Czogalla J, Schreuder MF, Sommerdijk N, Akiva A, Boor P, Puelles VG, Huber TB,  the COVID Moonshot consortium, van Rij RP, Costa IG, Schneider RK, Smeets B, Kramann R (2021). SARS-CoV-2 infects kidney cells and causes kidney and fibrosis. Cell Stem Cell S1934-5909(21)00520-8.
DOI: 10.1016/j.stem.2021.12.010.

Buijsers B, Fadel M. Garishah FM, Riswari SF, van Ast RM, Pramudo SG, Tunjungputri RN, Overheul GJ, van Rij RP, van der Ven AJAM, Alisjahbana B, Gasem MH, de Mast Q, van der Vlag J (2021). Increased plasma heparanase activity and endothelial glycocalyx degradation in dengue patients is associated with plasma leakage. Frontiers Immunol 12:759570.
DOI: 10.3389/fimmu.2021.759570

Varghese FS*, Meutiawati F*, Teppor M, Jacobs S, de Keyzer K, Taşköprü E, van Woudenbergh E, Overheul GJ, Bouma E, Smit J, den Hartog G, de Jonge MI, Delang L, Merits A, van Rij RP (2022). Posaconazole inhibits multiple steps of the alphavirus replication cycle. Antiviral Research. 197:105223.
DOI: 10.1016/j.antiviral.2021.105223

van Laarhoven A, Kurver L, Overheul GJ, Kooistra EJ, Abdo WF, van Crevel R, Duivenvoorden R, Kox M, ten Oever J, Schouten J, van den Veerdonk FL, van der Hoeven H, Rahamat-Langendoen J, van Rij RP, Pickkers P, Netea MG (2021). Interferon-gamma immunotherapy in five critically ill COVID-19 patients with impaired cellular immunity: a case series. Med 2: 1163-1170.e2.
DOI: 10.1016/j.medj.2021.09.003

Joosten J, Overheul GJ, Van Rij RP*, Miesen P* (2021). Slicing of viral RNA guided by endogenous piRNAs triggers the production of responder and trailer piRNAs in Aedes mosquitoes. Nucl Acids Res. 49:8886-8899.
DOI: 10.1093/nar/gkab640

Betting V*, Joosten J*, Halbach R*, Thaler M, Miesen P, Van Rij RP (2021). A piRNA-lncRNA regulatory network initiates responder and trailer piRNA formation during mosquito embryonic development. RNA. 27:1155–1172.
DOI: 10.1261/rna.078876.121

Halbach R, Miesen P, Van Rij RP (2021). Zooming in on targets of mosquito small RNAs, Trends Parasitol. 37:687-689.
DOI: 10.1016/j.pt.2021.06.002

Garishah FM, Rother N, Riswari SF, Alisjahbana B, Overheul GJ, van Rij RP, van der Ven A, van der Vlag J, de Mast Q (2021). Neutrophil extracellular traps in dengue are mainly generated NOX-independently. Frontiers Immunol. 12.629167.
DOI: 10.3389/fimmu.2021.629167

Joosten J, Taşköprü E, Jansen PWTC, Pennings B, Vermeulen M, Van Rij RP (2021). PIWI proteomics identifies Atari and Pasilla as piRNA biogenesis factors in Aedes mosquitoes. Cell Reports: 35: 109073.
DOI: 10.1016/j.cellrep.2021.109073

Goettsch W, Beerenwinkel N, Deng L, Dölken L, Dutilh BE, Erhard F, Kaderali L, von Kleist M, Marquet R, Matthijnssens J, McCallin S, McMahon D, Rattei T, Van Rij RP, Robertson DL, Schwemmle M, Stern-Ginossar N, Marz M (2021). ITN – VIROINF: understanding (harmful) virus-host interactions by linking virology and bioinformatics. Viruses 13:766.
DOI: 10.3390/v13050766

Varghese FS, Van Woudenbergh E, Overheul GJ, Eleveld MJ, Kurver L, van Heerbeek N, van Laarhoven A, Miesen P, den Hartog G, de Jonge MI, van Rij RP (2021). Berberine and obatoclax inhibit SARS-CoV-2 replication in primary nasal epithelial cell. Viruses 13:282.
DOI: 10.3390/v13020282.

Crava C, Varghese FS, Pischedda E, Halbach R, Palatini U, Marconcini M, Mattia A, Redmond S, Afrane Y, Ayala D, Paupy C, Carballar-Lejarazu R, Miesen P, Van Rij RP*, Bonizzoni M* (2021). Population genomics in the arboviral vector Aedes aegypti reveals the genomic architecture and evolution of endogenous viral elements. Molecular Ecology 30: 1594-1611. doi: 10.1111/mec.15798Halbach R, Miesen P, Joosten J, Taşköprü E, Pennings B, Vogels C, Merkling SH, Koenraadt CJ, Lambrechts L, Van Rij RP (2020) A satellite repeat-derived piRNA controls embryonic development of Aedes. Nature 580:274–277.
DOI:  10.1038/s41586-020-2159-2

Hermanns K, Marklewitz M, Zirkel F, Overheul GJ, Page RA, Drosten C, Van Rij RP, Junglen S (2020) Agua Salud alphavirus defines a novel lineage of insect-specific alphaviruses discovered in the New World. J Gen Virol. 101:96-104. DOI: 10.1099/jgv.0.001344.

Palatini U, Masri RA, Cosme L, Koren S, Thibaud F, Biedler J, Krstivevic F, Johnston JS, Halbach R, Crawford JE, Antoshechkin I, Failloux A, Pischedda E, Michele M, Ghurye J, Rhie A, Caccone A, Sharma A, Karagodin DA, Jenrette J, Gamez S, Miesen P, Sharakova M, Zhijian Tu, Papathanos P, Van Rij RP, Akbari O, Powell J, Phillippy AM, Bonizzoni M. (2020) Improved reference genome of the arbovirus vector Aedes albopictus. Genome Biology 21:215.
DOI: 10.1186/s13059-020-02141-w.

Suzuki Y, Baidaliuk A, Miesen P, Frangeul L, Crist AB, Merkling SH, Fontaine A, Lequime S, Moltini-Conclois I, Blanc H, Van Rij RP, Lambrechts L, Saleh MC. (2020) Non-retroviral endogenous viral element limits cognate virus replication in Aedes aegypti ovaries. Current Biology 30: 3495-3506.
DOI: 10.1016/j.cub.2020.06.057

Genzel L, Adan R, Berns A, van den Beucken JJJP, Blokland A, Boddeke EHWGM, Bogers WM, Bontrop R, Bulthuis R, Bousema T, Clevers H, Coenen TCJJ, van Dam AM, Deen PMT, van Dijk KW, Eggen BJL, Elgersma Y, Erdogan I, Englitz B, Fentener van Vlissingen JM, la Fleur S, Fouchier R, Fitzsimons CP, Frieling W, Haagmans B, Heesters BA, Henckens MJAG, Herfst S, Hol E, van den Hove D, de Jonge MI, Jonkers J, Joosten LAB, Kalsbeek A, Kamermans M, Kampinga HH, Kas MJ, Keijer JA, Kersten S, Kiliaan AJ, Kooij TWA, Kooijman S, Koopman WJH, Korosi A, Krugers HJ, Kuiken T, Kushner SA, Langermans JAM, Lesscher HMB, Lucassen PJ, Lutgens E, Netea MG, Noldus LPJJ, van der Meer JWM, Meye FJ, Mul JD, van Oers K, Olivier JDA, Pasterkamp RJ, Philippens IHCHM, Prickaerts J, Pollux BJA, Rensen PCN, van Rheenen J, van Rij RP, Ritsma L, Rockx BHG, Roozendaal B, van Schothorst EM, Stittelaar K, Stockhofe N, Swaab DF, de Swart RL, Vanderschuren LJMJ, de Vries TJ, de Vrij F, van Wezel R, Wierenga CJ, Wiesmann M, Willuhn I, de Zeeuw CI, Homberg JR. (2020), How the COVID-19 pandemic highlights the necessity of research. Current Biology 30: R1014-R1018.
DOI: 10.1016/j.cub.2020.08.030.

Betting V & Van Rij RP (2020) Countering counter-defense to antiviral RNAi. Trends in Microbiology 28:600-602.
DOI: 10.1016/j.tim.2020.05.018.

Leonetti P, Miesen P, Van Rij RP, Pantaleo V (2020) Viral And Sub-Viral Derived Small RNAs as Pathogenic Determinants in plants and insects. Adv Virus Res. 107:1-36.
DOI: 10.1016/bs.aivir.2020.04.001.

Bronkhorst AW*, Vogels R*, Overheul GJ*, Pennings B, Gausson-Dorey V, Miesen P, Van Rij RP (2019) A DNA virus-encoded immune antagonist fully masks the potent antiviral activity of RNAi in Drosophila. Proc Natl Acad Sci U S A. 116:24296-24302.
DOI: 10.1073/pnas.1909183116.

Schuster S, Overheul GJ, Lisa Bauer, Van Kuppeveld FJ, van Rij RP. (2019) No evidence for viral siRNA production and antiviral function of Argonaute 2 in human cells. Scientific Reports. 9:13752.
DOI: 10.1038/s41598-019-50287-w.

Schuster S, Miesen P, van Rij RP. (2019) Antiviral RNAi in insects and mammals: parallels and differences. Viruses. 11(5). E448.
DOI: 10.3390/v11050448.

Göertz GP, Miesen P, Overheul GJ, van Rij RP, van Oers MM, Pijlman GP. (2019) Mosquito small RNA responses against West Nile and insect-specific virus infections in Aedes and Culex mosquito cells. Viruses 11:E271.
DOI: 10.3390/v11030271.

Riahi H, Brekelmans C, Foriel S, Merkling SH, Lyons TA, Itskov PM, Kleefstra T, Ribiero C, van Rij RP, Kramer JM, Schenck A. (2019) The histone methyltransferase G9a regulates tolerance to oxidative stress-induced energy consumption. PLoS Biology, 17: e2006146.
DOI: 10.1371/journal.pbio.2006146.

Merkling SH, Riahi H, Overheul GJ, Schenck A, Van Rij RP. (2019) The peroxisome-associated Sgroppino is associated with altered fat metabolism and reduced survival after RNA virus infection in Drosophila. Scientific Reports, 9:2065.
DOI: 10.1038/s41598-019-38559-x.

Miesen P & van Rij RP. (2019) Crossing the mucosal barrier: A bacterial symbiont gives dengue virus a leg-up in the mosquito midgut. Cell Host & Microbe 25:1-2.
DOI: 10.1016/j.chom.2018.12.009.

Riswari SF, Tunjungputri RN, Kullaya V, Garishah FM, Utari GSR, Farhanah N, Overheul GJ, Alisjahbana B, Gasem MH, Urbanus RT, de Groot PG, Lefeber DJ, van Rij RP, van der Ven A, de Mast Q. (2019) Desialylation of platelets induced by VWF is a novel mechanism of platelet clearance in dengue. PLoS Pathogens 15(3): e1007500,
DOI: 10.1371/journal.ppat.1007500.

Joosten J, Miesen P, Tasköprü E, Pennings B, Jansen PW, Huynen MA, Vermeulen M, Van Rij RP. (2019). The Tudor protein Veneno assembles the ping-pong amplification complex that produces viral piRNAs in Aedes mosquitoes. Nucleic Acids Res. 47: 2546–2559,
DOI: 10.1093/nar/gky1266.

Palmer WH, Joosten J, Overheul GJ, Jansen PW, Vermeulen M, Obbard DJ, Van Rij RP. (2018). Induction and Suppression of NF-κB Signalling by a DNA Virus of Drosophila. J Virol. 93(3):e01443-18.
DOI: 10.1128/JVI.01443-18.

Meutiawati F, Bezemer B, Strating JRPM, Overheul GJ, Žusinaite E, van Kuppeveld FJM, van Cleef KWR, van Rij RP (2018). Posaconazole inhibits dengue virus replication by targeting oxysterol-binding protein. Antiviral Res.157:68-79.
DOI: 10.1016/j.antiviral.2018.06.017.

Palmer WH, Varghese FS, van Rij RP (2018). Natural variation in resistance to virus infection in dipteran insects. Viruses. 10(3):E118.
DOI: 10.3390/v10030118.

Varghese FS & van Rij RP (2018). Insect virus discovery by metagenomic and cell culture-based approaches. Methods Mol Biol. 1746:197-213.
DOI: 10.1007/978-1-4939-7683-6_16.

Fareh M, van Lopik J, Katechis I, Bronkhorst AW, Haagsma AC, van Rij RP*, Joo C* (2018). Viral suppressors of RNAi employ a rapid screening mode to discriminate viral RNA from cellular small RNA. Nucleic Acids Res. 46:3187-3197.
DOI: 10.1093/nar/gkx1316.

Melia CE, van der Schaar HM, Lyoo H, Limpens RWAL, Feng Q, Wahedi M, Overheul GJ, van Rij RP, Snijder EJ, Koster AJ, Bárcena M, van Kuppeveld FJM (2017). Escaping host factor PI4KB inhibition: enterovirus genomic RNA replication in the absence of replication organelles. Cell Rep. 21(3):587-599. DOI: 10.1016/j.celrep.2017.09.068.

Schuster S, Tholen LE, Overheul GJ, van Kuppeveld FJM, van Rij RP (2017). Deletion of cytoplasmic double-stranded RNA sensors does not uncover viral small interfering RNA production in human cells. mSphere. 2(4): e00333-17. DOI: 10.1128/mSphere.00333-17.

Halbach R, Junglen S, van Rij RP (2017). Mosquito-specific and mosquito-borne viruses: evolution, infection, and host defense. Curr Opin Insect Sci. 22:16-27.
DOI:10.1016/j.cois.2017.05.004.

Palatini U*, Miesen P*, Carballar-Lejarazu R, Ometto L, Rizzo E, Tu Z, van Rij RP, Bonizzoni M (2017) Comparative genomics shows that viral integrations are abundant and express piRNAs in the arboviral vectors Aedes aegypti and Aedes albopictus. BMC Genomics. 18:512. DOI:10.1186/s12864-017-3903-3.
* Equal contribution

Doublet V, Poeschl Y, Gogol-Döring A, Alaux C, Annoscia D, Aurori C, Barribeau SM, Bedoya-Reina OC, Brown MJ, Bull JC, Flenniken ML, Galbraith DA, Genersch E, Gisder S, Grosse I, Holt HL, Hultmark D, Lattorff HM, Le Conte Y, Manfredini F, McMahon DP, Moritz RF, Nazzi F, Niño EL, Nowick K, van Rij RP, Paxton RJ, Grozinger CM (2017). Unity in defence: honeybee workers exhibit conserved molecular responses to diverse pathogens. BMC Genomics. 18(1):207. DOI:10.1186/s12864-017-3597-6

Girardi E*, Miesen P*, Pennings B, Frangeul L, Saleh MC, van Rij RP (2017). Histone-derived piRNA biogenesis depends on the ping-pong partners Piwi5 and Ago3 in Aedes aegypti. Nucleic Acids Res. 45(8):4881-4892.
DOI: 10.1093/nar/gkw1368.
*Equal contribution.

Miesen P, Joosten J, van Rij RP (2016). PIWIs Go Viral: Arbovirus-Derived piRNAs in Vector Mosquitoes. PLoS Path. 12, e1006017.
DOI: 10.1371/journal.ppat.1006017.

Martina BE, Barzon L, Pijlman GP, de la Fuente J, Rizzoli A, Wammes LJ, Takken W, van Rij RP, Papa A (2016). Human to human transmission of arthropod-borne pathogens. Curr Opin Virol. 22:13-21.
DOI: 10.1016/j.coviro.2016.11.005.

Göertz GP, Fros JJ, Miesen P, Vogels CB, van der Bent ML, Geertsema C, Koenraadt CJ, van Rij RP, van Oers MM, Pijlman GP (2016) Non-coding subgenomic flavivirus RNA is processed by the mosquito RNAi machinery and determines West Nile virus transmission by Culex pipiens mosquitoes. J Virol, 90, 10145-59.

Miesen P, Ivens A, Buck AH, van Rij RP (2016) Small RNA Profiling in Dengue Virus 2-Infected Aedes Mosquito Cells Reveals Viral piRNAs and Novel Host miRNAs. PLoS Negl Trop Dis, 10, e0004452. DOI:10.1371/journal.pntd.0004452.

Van Cleef KW, Overheul GJ, Thomassen MC, Marjakangas JM, van Rij RP (2016) Escape Mutations in NS4B Render Dengue Virus Insensitive to the Antiviral Activity of the Paracetamol Metabolite AM404. Antimicrob Agents Chemother., 60, 2554-7. DOI: 10.1128/AAC.02462-15.

Merkling SH, Overheul GJ, van Mierlo JT, Arends D, Gilissen C, van Rij RP (2015) The heat shock response restricts virus infection in Drosophila. Scientific Reports, 5, 12758. DOI:10.1038/srep12758.

Fros JJ, Miesen O, Vogels CB, Gaibani P, Sambri V, Martina BE, Koenraadt CJ, Van Rij RP, Vlak JM, Takken W, Pijlman GP (2015). Comparative Usutu and West Nile virus transmission potential by local Culex pipiens mosquitoes in north-western Europe. One Health, 1, 31-36. DOI:10.1016/j.onehlt.2015.08.002.

Merkling SH & van Rij RP (2015) Analysis of resistance and tolerance to virus infection in Drosophila. Nature Protocols, 10(7), 1084–1097. DOI:10.1038/nprot.2015.071.

Miesen P, Girardi E, van Rij RP (2015) Distinct sets of PIWI proteins produce arbovirus and transposon-derived piRNAs in Aedes aegypti mosquito cells. Nucleic Acids Research, 43:6545-56. DOI:10.1093/nar/gkv590.

Merkling SH, Bronkhorst AW, Kramer JM, Overheul GJ, Schenck A, van Rij RP. (2015) The Epigenetic Regulator G9a Mediates Tolerance to RNA Virus Infection in Drosophila.  PLoS Pathogens 11(4):e1004692. DOI:10.1371/journal.ppat.1004692.

Bronkhorst AW, Van Cleef KWR, Venselaar H, Van Rij RP. (2014) A dsRNA-binding protein from a complex DNA virus suppresses the Drosophila RNAi response. Nucleic Acids Res, 42:12237-48. DOI:10.1093/nar/gku910.

Schuster S, Zirkel F, Kurth A, van Cleef KW, Drosten C, van Rij RP*, Junglen S*. 2014. A unique Nodavirus with novel features: Mosinovirus expresses two subgenomic RNAs, a capsid gene of unknown origin, and a suppressor of the antiviral RNAi pathway. J Virol, 88:13447-13459.
*Corresponding authors

Van Mierlo JT, Overheul GJ, Obadia B, van Cleef KW, Webster CL, Saleh MC, Obbard DJ, van Rij RP. (2014) Novel Drosophila viruses encode host-specific suppressors of RNAi. PLoS Pathogens, 10: e1004256. DOI:10.1371/journal.ppat.1004256.

Van Cleef KW, van Mierlo JT, Miesen P, Overheul GJ, Fros JJ, Schuster S, Marklewitz M, Pijlman GP, Junglen S, van Rij RP. (2014) Mosquito and Drosophila entomobirnaviruses suppress dsRNA and siRNA-induced RNAi. Nucleic Acids Res, 42(13):8732-44. DOI:10.1093/nar/gku528.

Bronkhorst AW & van Rij RP. (2014) The long and short of antiviral defense: small RNA-based immunity in insects. Current Opinion in Virology, 7C, 19–28. DOI:10.1016/j.coviro.2014.03.010.

Bronkhorst AW, Miesen P, Van Rij RP (2013) Small RNAs tackle large viruses: RNA interference-based antiviral defense against DNA viruses in insects. Fly, 7(4), 216–223. 

Van Cleef KWR, Overheul GJ, Thomassen MC, Kaptein SJF, Davidson AD, Jacobs M, Neyts J, Van Kuppeveld FJ, Van Rij RP (2013) Identification of a new dengue virus inhibitor that targets the viral NS4B protein and restricts genomic RNA replication. Antiviral research, 99(2), 165–171. DOI:10.1016/j.antiviral.2013.05.011

Libri V*, Miesen P*, Van Rij RP**, Buck AH (2013)** Regulation of microRNA biogenesis and turnover by animals and their viruses. Cellular and molecular life sciences, 70, 3525–3544. DOI:10.1007/s00018-012-1257-1.
*equal contribution; **corresponding authors. 

Bronkhorst AW, van Cleef KWR, Vodovar N, Ince IA, Blanc H, Vlak JM, Saleh MC, Van Rij RP (2012) The DNA virus Invertebrate iridescent virus 6 is a target of the Drosophila RNAi machinery. Proceedings of the National Academy of Sciences of the United States of America 109:E3604-13. DOI:10.1073/pnas.1207213109

Feng Q, Hato SV, Langereis MA, Zoll J, Virgen-Slane R, Peisley A, Hur S, Semler BL, Van Rij RP, Van Kuppeveld FJ (2012). MDA5 Detects the Double-Stranded RNA Replicative Form in Picornavirus-Infected Cells. Cell reports, 2(5), 1187–1196. DOI:10.1016/j.celrep.2012.10.005

Grimm D, Dalmay T, van Rij RP (2012)  Everybody wins! Poland hosts thrilling competitions of viruses, RNAi and football teams. EMBO reports, 13(10), 874–6. DOI:10.1038/embor.2012.136

Van Mierlo JT, Bronkhorst AW, Overheul GJ, Sadanandan SA, Ekström J-O, Heestermans M, Hultmark D, Antoniewski C, Van Rij RP (2012) Convergent evolution of argonaute-2 slicer antagonism in two distinct insect RNA viruses. PLoS pathogens, 8(8), e1002872. DOI:10.1371/journal.ppat.1002872

Merkling SH & van Rij RP (2012) Beyond RNAi: Antiviral defense strategies in Drosophila and mosquito. Journal of insect physiology 59:159-70. DOI:10.1016/j.jinsphys.2012.07.004

Vodovar N, Bronkhorst AW, van Cleef KWR, Miesen P, Blanc H, van Rij RP*, Saleh MC* (2012). Arbovirus-derived piRNAs exhibit a ping-pong signature in mosquito cells. PloS ONE, 7, e30861. DOI:10.1371/journal.pone.0030861 *Corresponding authors.

Van Mierlo JT, van Cleef KW, van Rij RP (2011) Defense and counter-defense in the Drosophila RNAi-based antiviral immune system. Methods Mol Biol, 721: 3-22.

Van Cleef KW, van Mierlo JT, van den Beek M, van Rij RP (2011) Identification of viral suppressors of RNAi using reporter assays in Drosophila S2 cell culture. Methods Mol Biol, 721: 201-213.

Van Mierlo JT, van Cleef KWR, van Rij RP (2010) Small Silencing RNAs: Piecing Together a Viral Genome. Cell host & microbe, 7(2), 87–9. DOI:10.1016/j.chom.2010.02.001

Van Rij RP & Berezikov E (2009) Small RNAs and the control of transposons and viruses in Drosophila. Trends in microbiology, 17(4), 163–71. DOI:10.1016/j.tim.2009.01.003

Saleh MR, Tassetto M*, van Rij RP*, Goic B, Gausson V, Berry B, Jacquier C, Antoniewski C, Andino R (2009) Antiviral immunity in Drosophila requires systemic RNA interference spread. Nature, 458(7236), 346–50. DOI:10.1038/nature07712.
* equal contribution.

Van Rij RP (2008) Virus meets RNAi. Symposium on antiviral applications of RNA interference. EMBO reports, 9, 725–9. DOI:10.1038/embor.2008.133

Van Rij RP, Saleh MC, Berry B, Foo C, Houk A, Antoniewski C, Andino R (2006) The RNA silencing endonuclease Argonaute 2 mediates specific antiviral immunity in Drosophila melanogaster. Genes & development, 20(21), 2985–95. DOI:10.1101/gad.1482006

Saleh MC*, Van Rij RP*, Hekele A, Gillis A, Foley E, O’Farrell PH, Andino R (2006) The endocytic pathway mediates cell entry of dsRNA to induce RNAi silencing. Nature cell biology, 8, 793–802. DOI:10.1038/ncb1439
*equal contribution.

Van Rij RP & Andino R (2008) Complex interactions of viruses and the RNAi machinery: a driving force in viral evolution. In Origin and Evolution of Viruses. E. Domingo, C. Parrish, J.J. Holland, editors., 2nd edition, Elsevier.

Van Rij RP & Andino R (2006) The silent treatment: RNAi as a defense against virus infection in mammals. Trends Biotechnol 24:186-193.

Van Rij RP & Andino R (2005) RNAi as an antiviral mechanism and therapeutic approach. In Molecular pathogenesis of viral infections, Society for General Microbiology Symposia No. 64. P. Digard, A.A. Nash, and R.E. Randall, editors. Cambridge University Press.

Saleh MC*, Van Rij RP*, and Andino R (2004) RNA silencing in viral infections: insights from poliovirus. Virus Res 102:11-17.
*Equal contribution.

Complete list of publications in PubMed or Google Scholar.