1. Sotomayor-Bonilla J, Tolsá-García MJ, García-Peña GE, Santiago-Alarcon D, Mendoza H, Alvarez-Mendizabal P, Rico-Chávez O, Sarmiento-Silva RE, Suzán G. 2019. Insights into the host specificity of mosquito-borne flaviviruses infecting wild mammals. Ecohealth 16:726-733.
2. Füzik T, Formanová P, Růžek D, Yoshii K, Niedrig M, Plevka P. 2018. Structure of tick-borne encephalitis virus and its neutralization by a monoclonal antibody. Nat Commun 9:436.
3. Chambers TJ, Hahn CS, Galler R, Rice CM. 1990. Flavivirus genome organization, expression, and replication. Annu Rev Microbiol 44:649-88.
4. Blitvich BJ, Firth AE. 2017. A review of flaviviruses that have no known arthropod vector. Viruses 9:154.
5. Wilcox BA, Echaubard P, de Garine-Wichatitsky M, Ramirez B. 2019. Vector-borne disease and climate change adaptation in African dryland social-ecological systems. Infect Dis Poverty 8:36.
6. Ministry of Lands and Natural Resources RoZ. 2018. National policy on wetlands. https://www.mlnr.gov.zm/?wpfb_dl=50. Accessed November 2019.
7. Andy H, Georgina E, Donall CE, Pete B, Francis L, Jakob S, Andrew S, Douglas S, Mark S, Tom W, Chris TJ. 2019. Automatic detection of open and vegetated water bodies using sentinel 1 to map African malaria vector mosquito breeding habitats. Remote sensing 11:593.
8. Babaniyi O, Mazaba-Liwewe ML, Masaninga F, Mwaba P, Mulenga D, Songolo P, Mweene-Ndumba I, Rudatsikira E, Siziya S. 2016. Prevalence of yellow fever in North- Western Province of Zambia. Int J Public Health Epidemiol 8:29-32.
9. Babaniyi OA, Mwaba P, Songolo P, Mazaba-Liwewe ML, Mweene-Ndumba I, Masaninga F, Rudatsikira E, Siziya S. 2015. Seroprevalence of Zika virus infection specific IgG in Western and North-Western Provinces of Zambia. Int J Public Health Epidemiol 4:110-114.
10. Mweene-Ndumba I, Siziya S, Monze M, Mazaba ML, Masaninga F, Songolo P, Mwaba P, Babaniyi OA. 2015. Seroprevalence of West Nile Virus specific IgG and IgM antibodies in North-Western and Western Provinces of Zambia. Afr Health Sci 15:803- 9.
11. Mazaba-Liwewe ML, Siziya S, Monze M, Mweene-Ndumba I, Masaninga F, Songolo P, Malama C, Chizema E, Mwaba P, Babaniyi OA. 2014. First sero-prevalence of Dengue fever specific immunoglobulin G antibodies in Western and North-Western Provinces of Zambia: a population based cross sectional study. Virol J 11:135.
12. Torii S, Orba Y, Hang'ombe BM, Mweene AS, Wada Y, Anindita PD, Phongphaew W, Qiu Y, Kajihara M, Mori-Kajihara A, Eto Y, Harima H, Sasaki M, Carr M, Hall WW, Eshita Y, Abe T, Sawa H. 2018. Discovery of Mwinilunga alphavirus: a novel alphavirus in Culex mosquitoes in Zambia. Virus Res 250:31-36.
13. Orba Y, Hang'ombe BM, Mweene AS, Wada Y, Anindita PD, Phongphaew W, Qiu Y, Kajihara M, Mori-Kajihara A, Eto Y, Sasaki M, Hall WW, Eshita Y, Sawa H. 2018. First isolation of West Nile virus in Zambia from mosquitoes. Transbound Emerg Dis 65:933-938.
14. Simulundu E, Ndashe K, Chambaro HM, Squarre D, Reilly PM, Chitanga S, Changula K, Mukubesa AN, Ndebe J, Tembo J, Kapata N, Bates M, Sinkala Y, Hang'ombe BM, Nalubamba KS, Kajihara M, Sasaki M, Orba Y, Takada A, Sawa H. 2020. West Nile virus in farmed crocodiles, Zambia, 2019. Emerg Infect Dis 26:811-814.
15. Bueno MG, Martinez N, Abdalla L, Duarte Dos Santos CN, Chame M. 2016. Animals in the Zika virus life cycle: what to expect from megadiverse Latin American countries. PLoS Negl Trop Dis 10:e0005073.
16. Musso D, Gubler DJ. 2016. Zika virus. Clin Microbiol Rev 29:487-524.
17. Duffy MR, Chen TH, Hancock WT, Powers AM, Kool JL, Lanciotti RS, Pretrick M, Marfel M, Holzbauer S, Dubray C, Guillaumot L, Griggs A, Bel M, Lambert AJ, Laven J, Kosoy O, Panella A, Biggerstaff BJ, Fischer M, Hayes EB. 2009. Zika virus outbreak on Yap Island, Federated States of Micronesia. N Engl J Med 360:2536-43.
18. Ikejezie J, Shapiro CN, Kim J, Chiu M, Almiron M, Ugarte C, Espinal MA, Aldighieri S. 2017. Zika virus transmission-region of the Americas, May 15, 2015-December 15, 2016. Am J Transplant 17:1681-1686.
19. Monath TP, Vasconcelos PF. 2015. Yellow fever. J Clin Virol 64:160-73.
20. Mir D, Delatorre E, Bonaldo M, Lourenço-de-Oliveira R, Vicente AC, Bello G. 2017. Phylodynamics of yellow fever virus in the Americas: new insights into the origin of the 2017 Brazilian outbreak. Sci Rep 7:7385.
21. Almeida MA, Cardoso JaC, Dos Santos E, da Fonseca DF, Cruz LL, Faraco FJ, Bercini MA, Vettorello KC, Porto MA, Mohrdieck R, Ranieri TM, Schermann MT, Sperb AF, Paz FZ, Nunes ZM, Romano AP, Costa ZG, Gomes SL, Flannery B. 2014. Surveillance for yellow fever virus in non-human primates in southern Brazil, 2001-2011: a tool for prioritizing human populations for vaccination. PLoS Negl Trop Dis 8:e2741.
22. Foy BD, Kobylinski KC, Chilson Foy JL, Blitvich BJ, Travassos da Rosa A, Haddow AD, Lanciotti RS, Tesh RB. 2011. Probable non-vector-borne transmission of Zika virus, Colorado, USA. Emerg Infect Dis 17:880-2.
23. Kindhauser MK, Allen T, Frank V, Santhana RS, Dye C. 2016. Zika: the origin and spread of a mosquito-borne virus. Bull World Health Organ 94:675-686C.
24. Jaeger AS, Murrieta RA, Goren LR, Crooks CM, Moriarty RV, Weiler AM, Rybarczyk S, Semler MR, Huffman C, Mejia A, Simmons HA, Fritsch M, Osorio JE, Eickhoff JC, O'Connor SL, Ebel GD, Friedrich TC, Aliota MT. 2019. Zika viruses of African and Asian lineages cause fetal harm in a mouse model of vertical transmission. PLoS Negl Trop Dis 13:e0007343.
25. Mattar S, Ojeda C, Arboleda J, Arrieta G, Bosch I, Botia I, Alvis-Guzman N, Perez- Yepes C, Gerhke L, Montero G. 2017. Case report: microcephaly associated with Zika virus infection, Colombia. BMC Infect Dis 17:423.
26. Lim SK, Lim JK, Yoon IK. 2017. An update on Zika virus in Asia. Infect Chemother 49:91-100.
27. Cao-Lormeau VM, Blake A, Mons S, Lastere S, Roche C, Vanhomwegen J, Dub T, Baudouin L, Teissier A, Larre P, Vial AL, Decam C, Choumet V, Halstead SK, Willison HJ, Musset L, Manuguerra JC, Despres P, Fournier E, Mallet HP, Musso D, Fontanet A, Neil J, Ghawché F. 2016. Guillain-Barré syndrome outbreak associated with Zika virus infection in French Polynesia: a case-control study. Lancet 387:1531- 1539.
28. Parra B, Lizarazo J, Jiménez-Arango JA, Zea-Vera AF, González-Manrique G, Vargas J, Angarita JA, Zuñiga G, Lopez-Gonzalez R, Beltran CL, Rizcala KH, Morales MT, Pacheco O, Ospina ML, Kumar A, Cornblath DR, Muñoz LS, Osorio L, Barreras P, Pardo CA. 2016. Guillain-Barré syndrome associated with Zika virus infection in Colombia. N Engl J Med 375:1513-1523.
29. Esposito S, Longo MR. 2017. Guillain-Barré syndrome. Autoimmun Rev 16:96-101.
30. WHO. 2016. Guillain–Barré syndrome. https://www.who.int/en/news-room/fact- sheets/detail/guillain-barré-syndrome. Accessed November 11th, 2020.
31. Hirsch AJ, Smith JL, Haese NN, Broeckel RM, Parkins CJ, Kreklywich C, DeFilippis VR, Denton M, Smith PP, Messer WB, Colgin LM, Ducore RM, Grigsby PL, Hennebold JD, Swanson T, Legasse AW, Axthelm MK, MacAllister R, Wiley CA, Nelson JA, Streblow DN. 2017. Zika virus infection of Rhesus macaques leads to viral persistence in multiple tissues. PLoS Pathog 13:e1006219.
32. Coffey LL, Pesavento PA, Keesler RI, Singapuri A, Watanabe J, Watanabe R, Yee J, Bliss-Moreau E, Cruzen C, Christe KL, Reader JR, von Morgenland W, Gibbons AM, Allen AM, Linnen J, Gao K, Delwart E, Simmons G, Stone M, Lanteri M, Bakkour S, Busch M, Morrison J, Van Rompay KK. 2017. Zika virus tissue and blood compartmentalization in acute infection of Rhesus macaques. PLoS One 12:e0171148.
33. Osuna CE, Lim SY, Deleage C, Griffin BD, Stein D, Schroeder LT, Omange RW, Best K, Luo M, Hraber PT, Andersen-Elyard H, Ojeda EF, Huang S, Vanlandingham DL, Higgs S, Perelson AS, Estes JD, Safronetz D, Lewis MG, Whitney JB. 2016. Zika viral dynamics and shedding in Rhesus and Cynomolgus macaques. Nat Med 22:1448-1455.
34. Buechler CR, Bailey AL, Weiler AM, Barry GL, Breitbach ME, Stewart LM, Jasinska AJ, Freimer NB, Apetrei C, Phillips-Conroy JE, Jolly CJ, Rogers J, Friedrich TC, O'Connor DH. 2017. Seroprevalence of Zika virus in wild African green monkeys and baboons. mSphere 2:e00392-16.
35. Sasaki M, Ishii A, Orba Y, Thomas Y, Hang'ombe BM, Moonga L, Mweene AS, Ogawa H, Nakamura I, Kimura T, Sawa H. 2013. Human parainfluenza virus type 3 in wild nonhuman primates, Zambia. Emerg Infect Dis 19:1500.
36. Carr M, Kawaguchi A, Sasaki M, Gonzalez G, Ito K, Thomas Y, Hang'ombe BM, Mweene AS, Zhao G, Wang D, Orba Y, Ishii A, Sawa H. 2017. Isolation of a simian immunodeficiency virus from a malbrouck (Chlorocebus cynosuros). Arch Virol 162:543-548.
37. Takashima I, Morita K, Chiba M, Hayasaka D, Sato T, Takezawa C, Igarashi A, Kariwa H, Yoshimatsu K, Arikawa J, Hashimoto N. 1997. A case of tick-borne encephalitis in Japan and isolation of the the virus. J Clin Microbiol 35:1943-7.
38. Lanciotti RS, Kosoy OL, Laven JJ, Velez JO, Lambert AJ, Johnson AJ, Stanfield SM, Duffy MR. 2008. Genetic and serologic properties of Zika virus associated with an epidemic, Yap State, Micronesia, 2007. Emerg Infect Dis 14:1232-9.
39. Domingo C, Patel P, Yillah J, Weidmann M, Méndez JA, Nakouné ER, Niedrig M. 2012. Advanced yellow fever virus genome detection in point-of-care facilities and reference laboratories. J Clin Microbiol 50:4054-60.
40. Stiasny K, Kiermayr S, Holzmann H, Heinz FX. 2006. Cryptic properties of a cluster of dominant flavivirus cross-reactive antigenic sites. J Virol 80:9557-68.
41. Morales MA, Fabbri CM, Zunino GE, Kowalewski MM, Luppo VC, Enría DA, Levis SC, Calderón GE. 2017. Detection of the mosquito-borne flaviviruses, West Nile, Dengue, Saint Louis encephalitis, Ilheus, Bussuquara, and yellow fever in free-ranging black howlers (Alouatta caraya) of Northeastern Argentina. PLoS Negl Trop Dis 11:e0005351.
42. Keasey SL, Pugh CL, Jensen SM, Smith JL, Hontz RD, Durbin AP, Dudley DM, O'Connor DH, Ulrich RG. 2017. Antibody responses to Zika virus infections in environments of flavivirus endemicity. Clin Vaccine Immunol 24:e00036-17.
43. Favoretto SR, Araujo DB, Duarte NFH, Oliveira DBL, da Crus NG, Mesquita F, Leal F, Machado RRG, Gaio F, Oliveira WF, Zanotto PMA, Durigon EL. 2019. Zika virus in peridomestic neotropical primates, Northeast Brazil. Ecohealth 16:61-69.
44. Wolfe ND, Kilbourn AM, Karesh WB, Rahman HA, Bosi EJ, Cropp BC, Andau M, Spielman A, Gubler DJ. 2001. Sylvatic transmission of arboviruses among Bornean orangutans. Am J Trop Med Hyg 64:310-6.
45. Moreira-Soto A, Carneiro IO, Fischer C, Feldmann M, Kümmerer BM, Silva NS, Santos UG, Souza BFCD, Liborio FA, Valença-Montenegro MM, Laroque PO, da Fontoura FR, Oliveira AVD, Drosten C, de Lamballerie X, Franke CR, Drexler JF. 2018. Limited evidence for infection of urban and peri-urban nonhuman primates with Zika and chikungunya viruses in Brazil. mSphere 3:e00523-17.
46. de Oliveira-Filho EF, Oliveira RAS, Ferreira DRA, Laroque PO, Pena LJ, Valença- Montenegro MM, Mota RA, Gil LHVG. 2018. Seroprevalence of selected flaviviruses in free-living and captive capuchin monkeys in the state of Pernambuco, Brazil. Transbound Emerg Dis 4:1094-1097.
47. Diallo D, Sall AA, Diagne CT, Faye O, Ba Y, Hanley KA, Buenemann M, Weaver SC, Diallo M. 2014. Zika virus emergence in mosquitoes in Southeastern Senegal, 2011. PLoS One 9:e109442.
48. Terzian ACB, Zini N, Sacchetto L, Rocha RF, Parra MCP, Del Sarto JL, Dias ACF, Coutinho F, Rayra J, da Silva RA, Costa VV, Fernandes NCCA, Réssio R, Díaz- Delgado J, Guerra J, Cunha MS, Catão-Dias JL, Bittar C, Reis AFN, Santos INPD, Ferreira ACM, Cruz LEAA, Rahal P, Ullmann L, Malossi C, Araújo JP, Widen S, de Rezende IM, Mello É, Pacca CC, Kroon EG, Trindade G, Drumond B, Chiaravalloti- Neto F, Vasilakis N, Teixeira MM, Nogueira ML. 2018. Evidence of natural Zika virus infection in neotropical non-human primates in Brazil. Sci Rep 8:16034.
49. Fritzell C, Rousset D, Adde A, Kazanji M, Van Kerkhove MD, Flamand C. 2018. Current challenges and implications for Dengue, chikungunya and Zika seroprevalence studies worldwide: a scoping review. PLoS Negl Trop Dis 12:e0006533.
50. Chua CL, Chan YF, Andu ESGS, Rovie-Ryan JJ, Sitam FT, Verasahib K, Sam IC. 2019. Little evidence of Zika virus infection in wild long-tailed macaques, Peninsular Malaysia. Emerg Infect Dis 25:374-376.
51. Maeda A, Maeda J. 2013. Review of diagnostic plaque reduction neutralization tests for flavivirus infection. Vet J 195:33-40.
52. Plowright RK, Parrish CR, McCallum H, Hudson PJ, Ko AI, Graham AL, Lloyd-Smith JO. 2017. Pathways to zoonotic spillover. Nat Rev Microbiol 15:502-510.
53. Hallmaier-Wacker LK, Munster VJ, Knauf S. 2017. Disease reservoirs: from conceptual frameworks to applicable criteria. Emerg Microbes Infect 6:e79.
54. Marano G, Pupella S, Vaglio S, Liumbruno GM, Grazzini G. 2016. Zika virus and the never-ending story of emerging pathogens and transfusion medicine. Blood Transfus 14:95-100.
55. Gao D, Lou Y, He D, Porco TC, Kuang Y, Chowell G, Ruan S. 2016. Prevention and control of Zika as a mosquito-borne and sexually transmitted disease: a mathematical modeling analysis. Sci Rep 6:28070.
56. Bolling BG, Weaver SC, Tesh RB, Vasilakis N. 2015. Insect-specific virus discovery: significance for the arbovirus community. Viruses 7:4911-28.
57. 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.
58. Huhtamo E, Moureau G, Cook S, Julkunen O, Putkuri N, Kurkela S, Uzcátegui NY, Harbach RE, Gould EA, Vapalahti O, de Lamballerie X. 2012. Novel insect-specific flavivirus isolated from Northern Europe. Virology 433:471-8.
59. Kenney JL, Solberg OD, Langevin SA, Brault AC. 2014. Characterization of a novel insect-specific flavivirus from Brazil: potential for inhibition of infection of arthropod cells with medically important flaviviruses. J Gen Virol 95:2796-808.
60. Romo H, Kenney JL, Blitvich BJ, Brault AC. 2018. Restriction of Zika virus infection and transmission in Aedes aegypti mediated by an insect-specific flavivirus. Emerg Microbes Infect 7:181.
61. Liu H, Gao X, Liang G. 2011. Newly recognized mosquito-associated viruses in mainland China, in the last two decades. Virol J 8:68.
62. Huhtamo E, Putkuri N, Kurkela S, Manni T, Vaheri A, Vapalahti O, Uzcátegui NY. 2009. Characterization of a novel flavivirus from mosquitoes in Northern Europe that is related to mosquito-borne flaviviruses of the tropics. J Virol 83:9532-40.
63. Pauvolid-Corrêa A, Solberg O, Couto-Lima D, Kenney J, Serra-Freire N, Brault A, Nogueira R, Langevin S, Komar N. 2015. Nhumirim virus, a novel flavivirus isolated from mosquitoes from the Pantanal, Brazil. Arch Virol 160:21-7.
64. Kolodziejek J, Pachler K, Bin H, Mendelson E, Shulman L, Orshan L, Nowotny N. 2013. Barkedji virus, a novel mosquito-borne flavivirus identified in Culex perexiguus mosquitoes, Israel, 2011. J Gen Virol 94:2449-57.
65. Ryan SJ, Carlson CJ, Mordecai EA, Johnson LR. 2019. Global expansion and redistribution of Aedes-borne virus transmission risk with climate change. PLoS Negl Trop Dis 13:e0007213.
66. Samy AM, Elaagip AH, Kenawy MA, Ayres CF, Peterson AT, Soliman DE. 2016. Climate change influences on the global potential distribution of the mosquito Culex quinquefasciatus, vector of West Nile virus and lymphatic filariasis. PLoS One 11:e0163863.
67. Alaniz AJ, Carvajal MA, Bacigalupo A, Cattan PE. 2018. Global spatial assessment of Aedes aegypti and Culex quinquefasciatus: a scenario of Zika virus exposure. Epidemiol Infect 10:e0163863.
68. Kent RJ. 2006. The mosquitoes of Macha, Zambia. http://www.jhsph.edu/malaria. Accessed October 2012.
69. Gillet J. 1972. Common African mosquitoes and their medical importance. William Heinemann Medical Books LTD, London.
70. Folmer O, Black M, Hoeh W, Lutz R, Vrijenhoek R. 1994. DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates. Mol Mar Biol Biotechnol 3:294-9.
71. Patel P, Landt O, Kaiser M, Faye O, Koppe T, Lass U, Sall AA, Niedrig M. 2013. Development of one-step quantitative reverse transcription PCR for the rapid detection of flaviviruses. Virol J 10:58.
72. Stecher G, Tamura K, Kumar S. 2020. Molecular evolutionary genetics analysis (MEGA) for macOS. Mol Biol Evol 37:1237-1239.
73. Kumar S, Stecher G, Li M, Knyaz C, Tamura K. 2018. MEGA X: molecular evolutionary genetics analysis across computing platforms. Mol Biol Evol 35:1547- 1549.
74. Tamura K, Nei M. 1993. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol Biol Evol 10:512-26.
75. Pickett BE, Greer DS, Zhang Y, Stewart L, Zhou L, Sun G, Gu Z, Kumar S, Zaremba S, Larsen CN, Jen W, Klem EB, Scheuermann RH. 2012. Virus pathogen database and analysis resource (ViPR): a comprehensive bioinformatics database and analysis resource for the coronavirus research community. Viruses 4:3209-26.
76. Edgar RC. 2004. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32:1792-7.
77. Kuno G, Chang GJ, Tsuchiya KR, Karabatsos N, Cropp CB. 1998. Phylogeny of the genus Flavivirus. J Virol 72:73-83.
78. Guzman H, Contreras-Gutierrez MA, Travassos da Rosa APA, Nunes MRT, Cardoso JF, Popov VL, Young KI, Savit C, Wood TG, Widen SG, Watts DM, Hanley KA, Perera D, Fish D, Vasilakis N, Tesh RB. 2018. Characterization of three new insect-
specific flaviviruses: their relationship to the mosquito-borne flavivirus pathogens. Am J Trop Med Hyg 98:410-419.
79. Ndiaye EH, Diallo D, Fall G, Ba Y, Faye O, Dia I, Diallo M. 2018. Arboviruses isolated from the Barkedji mosquito-based surveillance system, 2012-2013. BMC Infect Dis 18:642.
80. Camp JV, Karuvantevida N, Chouhna H, Safi E, Shah JN, Nowotny N. 2019. Mosquito biodiversity and mosquito-borne viruses in the United Arab Emirates. Parasit Vectors 12:153.
81. Garcia-Rejon JE, Blitvich BJ, Farfan-Ale JA, Loroño-Pino MA, Chi Chim WA, Flores- Flores LF, Rosado-Paredes E, Baak-Baak C, Perez-Mutul J, Suarez-Solis V, Fernandez-Salas I, Beaty BJ. 2010. Host-feeding preference of the mosquito, Culex quinquefasciatus, in Yucatan State, Mexico. J Insect Sci 10:32.
82. Junglen S, Kopp A, Kurth A, Pauli G, Ellerbrok H, Leendertz FH. 2009. A new flavivirus and a new vector: characterization of a novel flavivirus isolated from uranotaenia mosquitoes from a tropical rain forest. J Virol 83:4462-8.
83. Sharp PA. 2009. The centrality of RNA. Cell 136:577-80.
84. Ding SW. 2010. RNA-based antiviral immunity. Nat Rev Immunol 10:632-44.
85. Lindsay MA. 2008. microRNAs and the immune response. Trends Immunol 29:343- 51.
86. McKiernan J, Donovan MJ, O'Neill V, Bentink S, Noerholm M, Belzer S, Skog J, Kattan MW, Partin A, Andriole G, Brown G, Wei JT, Thompson IM, Carroll P. 2016. A novel urine exosome gene expression assay to predict high-grade prostate cancer at initial biopsy. JAMA Oncol 2:882-9.
87. Tinoco I, Bustamante C. 1999. How RNA folds. J Mol Biol 293:271-81.
88. Draper DE. 2004. A guide to ions and RNA structure. RNA 10:335-343.
89. Villordo SM, Carballeda JM, Filomatori CV, Gamarnik AV. 2016. RNA Structure duplications and flavivirus host adaptation. Trends Microbiol 24:270-283.
90. Parsch J, Braverman JM, Stephan W. 2000. Comparative sequence analysis and patterns of covariation in RNA secondary structures. Genetics 154:909-21.
91. Bernhart SH, Hofacker IL. 2009. From consensus structure prediction to RNA gene finding. Brief Funct Genomic Proteomic 8:461-71.
92. Filomatori CV, Lodeiro MF, Alvarez DE, Samsa MM, Pietrasanta L, Gamarnik AV. 2006. A 5' RNA element promotes Dengue virus RNA synthesis on a circular genome. Genes Dev 20:2238-49.
93. Lodeiro MF, Filomatori CV, Gamarnik AV. 2009. Structural and functional studies of the promoter element for Dengue virus RNA replication. J Virol 83:993-1008.
94. Huber RG, Lim XN, Ng WC, Sim AYL, Poh HX, Shen Y, Lim SY, Sundstrom KB, Sun X, Aw JG, Too HK, Boey PH, Wilm A, Chawla T, Choy MM, Jiang L, de Sessions PF, Loh XJ, Alonso S, Hibberd M, Nagarajan N, Ooi EE, Bond PJ, Sessions OM, Wan Y. 2019. Structure mapping of Dengue and Zika viruses reveals functional long-range interactions. Nat Commun 10:1408.
95. Ochsenreiter R, Hofacker IL, Wolfinger MT. 2019. Functional RNA structures in the 3'UTR of tick-borne, insect-specific and no-known-vector flaviviruses. Viruses 11:298.
96. Ng WC, Soto-Acosta R, Bradrick SS, Garcia-Blanco MA, Ooi EE. 2017. The 5' and 3' untranslated regions of the flaviviral genome. Viruses 9:137.
97. Slonchak A, Khromykh AA. 2018. Subgenomic flaviviral RNAs: what do we know after the first decade of research. Antiviral Res 159:13-25.
98. Eddy SR, Durbin R. 1994. RNA sequence analysis using covariance models. Nucleic Acids Res 22:2079-88.
99. Nawrocki EP, Eddy SR. 2013. Infernal 1.1: 100-fold faster RNA homology searches. Bioinformatics 29:2933-5.
100. Will S, Reiche K, Hofacker IL, Stadler PF, Backofen R. 2007. Inferring noncoding RNA families and classes by means of genome-scale structure-based clustering. PLoS Comput Biol 3:e65.
101. Bernhart SH, Hofacker IL, Will S, Gruber AR, Stadler PF. 2008. RNAalifold: improved consensus structure prediction for RNA alignments. BMC Bioinformatics 9:474.
102. Lorenz R, Bernhart SH, Höner Zu Siederdissen C, Tafer H, Flamm C, Stadler PF, Hofacker IL. 2011. ViennaRNA package 2.0. Algorithms Mol Biol 6:26.
103. Wolfinger MT, Fallmann J, Eggenhofer F, Amman F. 2015. ViennaNGS: a toolbox for building efficient next- generation sequencing analysis pipelines. F1000Res 4:50.
104. Dilweg IW, Gultyaev AP, Olsthoorn RC. 2019. Structural features of an Xrn1-resistant plant virus RNA. RNA Biol 16:838-845.
105. Chapman EG, Moon SL, Wilusz J, Kieft JS. 2014. RNA structures that resist degradation by Xrn1 produce a pathogenic Dengue virus RNA. Elife 3:e01892.
106. Clyde K, Harris E. 2006. RNA secondary structure in the coding region of Dengue virus type 2 directs translation start codon selection and is required for viral replication. J Virol 80:2170-82.
107. Clyde K, Barrera J, Harris E. 2008. The capsid-coding region hairpin element (cHP) is a critical determinant of Dengue virus and West Nile virus RNA synthesis. Virology 379:314-23.
108. Schneider AB, Ochsenreiter R, Hostager R, Hofacker IL, Janies D, Wolfinger MT. 2019. Updated phylogeny of chikungunya virus suggests lineage-specific RNA architecture. Viruses 11:798.
109. Funk A, Truong K, Nagasaki T, Torres S, Floden N, Balmori Melian E, Edmonds J, Dong H, Shi PY, Khromykh AA. 2010. RNA structures required for production of subgenomic flavivirus RNA. J Virol 84:11407-17.
110. Pijlman GP, Funk A, Kondratieva N, Leung J, Torres S, van der Aa L, Liu WJ, Palmenberg AC, Shi PY, Hall RA, Khromykh AA. 2008. A highly structured, nuclease- resistant, noncoding RNA produced by flaviviruses is required for pathogenicity. Cell Host Microbe 4:579-91.
111. Roby JA, Pijlman GP, Wilusz J, Khromykh AA. 2014. Noncoding subgenomic flavivirus RNA: multiple functions in West Nile virus pathogenesis and modulation of host responses. Viruses 6:404-27.
112. Akiyama BM, Laurence HM, Massey AR, Costantino DA, Xie X, Yang Y, Shi PY, Nix JC, Beckham JD, Kieft JS. 2016. Zika virus produces noncoding RNAs using a multi- pseudoknot structure that confounds a cellular exonuclease. Science 354:1148-1152.
113. Sztuba-Solinska J, Teramoto T, Rausch JW, Shapiro BA, Padmanabhan R, Le Grice SF. 2013. Structural complexity of Dengue virus untranslated regions: cis-acting RNA motifs and pseudoknot interactions modulating functionality of the viral genome. Nucleic Acids Res 41:5075-89.
114. MacFadden A, O'Donoghue Z, Silva PAGC, Chapman EG, Olsthoorn RC, Sterken MG, Pijlman GP, Bredenbeek PJ, Kieft JS. 2018. Mechanism and structural diversity of exoribonuclease-resistant RNA structures in flaviviral RNAs. Nat Commun 9:119.
115. Schneider AB, Wolfinger MT. 2019. Musashi binding elements in Zika and related Flavivirus 3'UTRs: a comparative study in silico. Sci Rep 9:6911.
116. Brinton MA. 2013. Replication cycle and molecular biology of the West Nile virus. Viruses 6:13-53.
117. Göertz GP, van Bree JWM, Hiralal A, Fernhout BM, Steffens C, Boeren S, Visser TM, Vogels CBF, Abbo SR, Fros JJ, Koenraadt CJM, van Oers MM, Pijlman GP. 2019. Subgenomic flavivirus RNA binds the mosquito DEAD/H-box helicase ME31B and determines Zika virus transmission by. Proc Natl Acad Sci U S A 116:19136-19144.
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