Al Rwahnih, M.; Dolja, V.V.; Daubert, S.; Koonin, E.V.; Rowhani, A. Genomic and biological analysis of Grapevine leafroll-associated virus 7 reveals a possible new genus within the family Closteroviridae. Virus Res. 2012, 163, 302–309. [CrossRef] [PubMed]
Katsiani, A.T.; Maliogka, V.I.; Amoutzias, G.D.; Efthimiou, K.E.; Katis, N.I. Insights into the genetic diversity and evolution of Little cherry virus 1. Plant Pathol. 2015, 64, 817–824. [CrossRef]
Jelkmann, W.; Fechter, B.; Agranovsky, A.A. Complete genome structure and phylogenetic analysis of Little cherry virus, a mealybug- transmissible Closterovirus. J. Gen. Virol. 1997, 78, 2067–2071. [CrossRef] [PubMed]
Rott, M.E.; Jelkmann, W. Detection and partial characterization of a second Closterovirus associated with little cherry disease, Little cherry virus-2. Phytopathology 2001, 91, 261–267. [CrossRef] [PubMed]
FAO. Food and Agriculture organization of the United Nations 2013. Available online: Http://www.fao.org/statistics (accessed on 17 January 2019).
Vavilov, N.I. The origin, variation and breeding of cultivated plants. Chronica Botanica 1951, 72, 482. [CrossRef]
Webster, A.D.; Looney, N.E. The Taxonomic Classification of Sweet and Sour Cherries and a Brief History of Their Cultivation. In Cherries: Crop Physiology, Production and Uses, 1st ed.; CABI: Wallingford, CT, USA, 1996; pp. 3–24, ISBN 9780851989365.
Jelkmann, W.; Eastwell, K.C. Little cherry viruses 1 and 2. In Virus and virus-like diseases of pome fruits and stone fruits; Barba, M., Candresse, T., Hadidi, A., Jelkmann, W., Eds.; APS Press: St. Paul, MN, USA, 2011, ISBN 978-0-89054-396-2.
Raine, J.; McMullen, R.; Forbes, A. Transmission of the agent causing little cherry disease by the apple mealybug Phenacoccus aceris and the dodder Cuscuta lupuliformis. Can. J. Plant Pathol. 1986, 8, 6–11. [CrossRef]
Isogai, M.; Aoyagi, J.; Nakagawa, M.; Kubodera, Y.; Satoh, K.; Katoh, T.; Inamori, M.; Yamashita, K.; Yoshikawa, N. Molecular detection of five cherry viruses from sweet cherry trees in Japan. J. Gen. Plant Pathol. 2004, 70, 288–291. [CrossRef]
Komorowska, B.; Cieslinska, M. First Report of Cherry virus A and Little cherry virus 1 in Poland. Plant Dis. 2004, 88, 909. [CrossRef]
Marais, A.; Faure, C.; Theil, S.; Svanella-Dumas, L.; Brans, Y.; Maurice, I.; Blin, V.; Candresse, T. First Report of Little cherry virus 1 on Plum in France. Plant Dis. 2016, 100, 2544. [CrossRef]
Matic, S.; Myrta, A.; Minafra, A. First report of Little cherry virus 1 in cherry, plum, almond and peach in Italy. J. Plant Pathol. 2007, 8, S69–S76.
Komorowska, B.; Cieslinska, M. First Report of Little cherry virus 2 from Sweet Cherry in Poland. Plant Dis. 2008, 92, 1366. [CrossRef] [PubMed]
Rao, W.L.; Li, F.; Zuo, R.J.; Li, R. First report of Little cherry virus 2 in Flowering and Sweet Cherry trees in China. Plant Dis. 2011, 95, 1484. [CrossRef]
Ludvikova, H.; Sucha, J. First Report of Little Cherry Disease from Sweet Cherry (Prunus avium) and Sour Cherry (P. cerasus) in the Czech Republic. Plant Dis. 2011, 95, 1197. [CrossRef] [PubMed]
Lu, M.G.; Gao, R.; Chen, R.R.; Chen, B.; Wu, Z.X.; Zhang, Z.X.; Li, S.F. First Report of Little cherry virus 1 in Sweet Cherry trees in China. Plant Dis. 2015, 99, 1191. [CrossRef]
Voncina, D.; Simon, S.; Razov, J.; Leong, L. First Report of Little cherry virus 2 on Prunus cerasus var. Marasca in Croatia. J. Plant Pathol. 2016, 98, 171–185. [CrossRef]
Ruiz-Garcia, A.B.; Martinez, C.; Santiago, R.; Garcia, M.T.; de Prado, N.; Olmos, A. First report of Little cherry virus 1 (LChV-1) in Sweet Cherry in Spain. Plant Dis. 2016, 100, 2340. [CrossRef]
Safarova, D.; Faure, C.; Candresse, T.; Navratil, M.; Necas, T.; Marais, A. First Report of Little cherry virus 1 infecting Apricot in the Czech Republic. Plant Dis. 2017, 101, 845. [CrossRef]
Fiore, N.; Fernandez, C.; Quiroga, N.; Pino, A.M.; Rivera, L.; Sagredo, K.; Zamorano, A. First report of Little cherry virus 1 in Chile. Plant Dis. 2018, 102, 3. [CrossRef]
Bajet, N.B.; Unruh, T.R.; Druffel, K.L.; Eastwell, K.C. Occurrence of two little cherry viruses in sweet cherry in Washington State. Plant Dis. 2008, 92, 234–238. [CrossRef]
Glasa, M.; Benediková, D.; Predajňa, L. First report of Little cherry virus 1 in Slovakia. J. Plant Pathol. 2015, 97, 542. [CrossRef]
Serce, C.U.; Gazel, M.; Caglayan, K. First report of little cherry virus 1 in Turkey. J. Plant Pathol. 2011, 93, 66.
Legrand, G.; Gilles, G.; Verhoyen, M. Little cherry disease in ornamental cherry trees in Belgium [description, diagnosis, viral disease, epidemiology, transmission by Macrosteles fascifrons, Phenacoccus aceris]. Fruit Belge 1982, 50, 125–131.
Tahzima, R.; Foucart, Y.; Peusens, P.; Beliën, T.; Massart, S.; De Jonghe, K. First Report of Little cherry virus 1 affecting European Plum Prunus domestica (L.) in Belgium. Plant Dis. 2017, 101, 1557. [CrossRef]
Matic, S.; Minafra, A.; Sanchez-Navarro, J.A.; Pallas, V.; Myrta, A.; Martelli, G.P. Kwanzan stunting syndrome: Detection and molecular characterization of an Italian isolate of Little cherry virus 1. Virus Res. 2009, 143, 61–67. [CrossRef] [PubMed]
Eastwell, K.C.; Bernardy, M.; Li, T.S. Comparison between woody indexing and a rapid hybridization assay for the diagnosis of little cherry disease in cherry trees. Ann. Appl. Biol. 1996, 128, 269–277. [CrossRef]
Eastwell, K.C.; Bernardy, M.G. Partial characterization of a Closterovirus associated with apple mealybug-transmitted little cherry disease in North America. Phytopathology 2001, 91, 268–273. [CrossRef]
Jelkmann, W.; Leible, S.; Rott, M. Little Cherry Closteroviruses -1 and -2, their genetic variability and detection by real-time-PCR. Acta Hortic. 2008, 781, 321–330. [CrossRef]
Theilmann, J.; Mozafari, J.; Reade, R.; Wu, Z.; Xie, W.; Jesperson, G.; Bernardy, M.; Eastwell, K.C.; Rochon, D. Partial nucleotide sequence and genome organization of a Canadian isolate of Little cherry virus and development of an enzyme-linked immunosorbent assay-based diagnostic test. Phytopathology 2002, 92, 87–98. [CrossRef]
Theilmann, J.; Orban, S.; Rocon, D. High Sequence Variability Among Little cherry virus Isolates Occurring in British Columbia. Plant Dis. 2004, 88, 1092–1098. [CrossRef]
Candresse, T.; Marais, A.; Faure, C.; Gentit, P. Association of Little cherry virus 1 (LChV-1) with the Shirofugen Stunt Disease and Characterization of the Genome of a Divergent LChV-1 Isolate. Phytopathology 2013, 103, 293–298. [CrossRef] [PubMed]
Zong, X.; Wang, W.; Wei, H.; Wang, J.; Yan, X.; Hammond, R.W.; Liu, Q. Incidence of sweet cherry viruses in Shandong province, China and a case study on multiple infection with five viruses. J. Plant Pathol. 2015, 97, 61–68. [CrossRef]
Katsiani, A.; Maliogka, V.I.; Katis, N.I.; Svanella-Dumas, L.; Olmos, A.; Ruis-Garcia, A.B.; Marais, A.; Faure, C.; Theil, S.; Lotos, L., et al. High-throughput sequencing reveals further diversity of Little cherry virus 1 with implication for diagnostics. Viruses 2018, 10, 385. [CrossRef] [PubMed]
EFSA. Pest categorization of Little cherry pathogen (non-EU isolates). EFSA J. 2017, 15, 4926. [CrossRef]
Larkin, M.A.; Blackshields, G.; Brown, N.P.; Chenna, R.; McGettigan, P.A.; MCWilliam, H.; Valentin, F.; Wallace, I.M.; Wilm, A.; Lopez, R., et al. CLUSTALW and CLUSTALX version 2.0. Bioinformatics 2007, 23, 2947–2948. [CrossRef] [PubMed]
Tamura, K.; Peterson, D.; Peterson, N.; Stecher, G.; Nei, M.; Kumar, S. MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol. Biol. Evol. 2011, 28, 2731–2739. [CrossRef] [PubMed]
Zheng, Y.; Gao, S.; Padmanabhan, C.; Li, R.; Galvez, M.; Gutierrez, D.; Fuentes, S.; Ling, K.S.; Kreuze, J.; Fei, Z. VirusDetect: An automated pipeline for efficient virus discovery using deep sequencing of small RNAs. Virology 2017, 500, 130–138. [CrossRef] [PubMed]
Katsiani, A.; Pappi, P.; Olmos, A.; Efthimiou, K.E.; Maliogka, V.I.; Katis, N.I. Development of a real-time RT-PCR for the universal detection of Little cherry virus 1 and study of the seasonal fluctuation of the viral titer in sweet cherry cultivars. Plant Dis. 2018, 102, 899–904. [CrossRef]
Koloniuk, I.; Sarkisova, T.; Petrzik, K.; Lenz, O.; Pribylová, J.; Fránová, J.; Špak, J.; Lotos, L.; Beta, C.; Katsiani, A., et al. Variability studies of two Prunus-infecting fabaviruses with the aid of high-throughput sequencing. Viruses 2018, 10, 204. [CrossRef]
Baráth, D.; Jaksa-Czotter, N.; Molnár, J.; Varga, T.; Balássy, J.; Szabó, L.K.; Kirilla, Z.; Tusnády, G.E.; Preininger, É.; Várallyay, É. Small RNA NGS revealed the presence of Cherry virus A and Little cherry virus 1 on apricots in Hungary. Viruses 2018, 10, 318. [CrossRef] [PubMed]
Tahzima, R.; Foucart, Y.; Peusens, P.; Beliën, T.; Massart, S.; De Jonghe, K. First Report of Little cherry virus 1 infecting Flowering Cherry Cultivars using High-Throughput Sequencing in Belgium. Plant Dis. In preparation.
Bar-Joseph, M. Closteroviridae: The beginning. Frontiers Microbiol. 2014, 5, 1–2. [CrossRef]
Karasev, A.V. Genetic diversity and evolution of Closteroviruses. Annu. Rev. Phytopathol. 2000, 38, 293–324. [CrossRef] [PubMed]
Osman, F.; Al Rwahnih, M.; Golino, D.; Pitman, T.; Cordero, F.; Preece, J.E.; Rowhani, A. Evaluation of the phytosanitary status of the Prunus species in the national clonal germplasm repository in California: Survey of viruses and viroids. J. Plant Pathol. 2012, 94, 249–253. [CrossRef]
Mekuria, T.A.; Smith, T.J.; Beers, E.; Watson, G.W.; Eastwell, K.C. First Report of Transmission of Little cherry virus 2 to Sweet Cherry by Pseudococcus maritimus (Ehrhorn) (Hemiptera: Pseudococcidae). Plant Dis. 2013, 97, 851. [CrossRef]
Whitfield, A.E.; Falk, B.W.; Rotenberg, D. Insect vector-mediated transmission of plant viruses. Virology 2015, 479–480, 278–289. [CrossRef]
Domingo, E.; Sheldon, J.; Perales, C. Viral Quasi-species Evolution. Microbiol. Mol. Biol. R. 2012, 76, 159–216. [CrossRef]
Schneider, W.L.; Roossinck, M.J. Genetic variation in RNA virus quasispecies is controlled by host-virus interactions. J. Virol. 2001, 75, 6566–6571. [CrossRef]
Maliogka, V.I.; Dovas, C.I.; Katis, N.I. Evolutionary relationships of virus species belonging to a distinct lineage within the Ampelovirus genus. Virus Res. 2008, 135, 125–135. [CrossRef] [PubMed]
Martelli, G.P.; Agranovsky, A.A.; Bar-Joseph, M.; Boscia, D.; Candresse, T.; Coutts, R.H.A.; Dolja, V.V.; Hu, J.S.; Jelkmann, W.; Karasev, A.V., et al. Family Closteroviridae. In Virus Taxonomy. Ninth Report of the International Committee on Taxonomy of Viruses; King, A., Adams, M.J., Carstens, E.B., Lefkowitz, E., Eds.; Elsevier-Academic Press: Amsterdam, The Netherlands, 2011; pp. 987–1001, ISBN 9780123846846.
Dolja, V.V.; Kreuze, J.F.; Valkonen, J.P. Comparative and functional genomics of Closteroviruses. Virus Res. 2006, 117, 38–51. [CrossRef] [PubMed]
Lyu, M.D.; Li, X.M.; Guo, R.; Li, M.J.; Liu, X.M.; Wang, Q.; Cheng, Y.Q. Prevalence and distribution of Grapevine leafroll-associated virus 7 in China detected by an improved reverse transcription polymerase chain reaction assay. Plant Pathol. 2014, 63, 1168–1176. [CrossRef]
Rowhani, A.; Uyemoto, K.K.; Golino, D.A.; Martelli, G.P. Pathogen testing and certification of Vitis and Prunus species. Annu. Rev. Phytopathol. 2005, 43, 261–278. [CrossRef]
Massart, S.; Olmos, A.; Jijakli, H.; Candresse, T.; Olmos, A.; Jijakli, H.; Candresse, T. Current impact and future directions of high throughput sequencing in plant virus diagnostics. Virus Res. 2014, 188, 90–96. [CrossRef]
Massart, S.; Candresse, T.; Gil, J.; Lacomme, C.; Predajna, L.; Ravnikar, M.; Reynard, J.S.; Rumbou, A.; Saldarelli, P.; Škorić, D., et al. A framework for the evaluation of biosecurity, commercial, regulatory, and scientific impacts of plant viruses and viroids identified by NGS technologies. Front. Microbiol. 2017, 8, 45. [CrossRef]
Eastwell, K.C.; Bernardy, M.G. Relationship of Cherry virus A to Little cherry virus disease in British Columbia. Acta Hortic. 1998, 472, 305–314. [CrossRef]
Sabanadzovic, S.; Abou Ghanem-Sabanadzovic, N.; Rowhani, A.; Grant, A.; Uyemoto, K. Detection of Cherry virus A, cherry necrotic rusty mottle virus and Little cherry virus 1 in California orchards. Plant Pathol. 2005, 87, 173–177. [CrossRef]
Bhuvaneshwar, K.; Song, L.; Madhavan, S.; Gusev, Y. viGEN: An Open Source Pipeline for the Detection and Quantification of Viral RNA in Human Tumors. Front. Microbiol. 2018, 9, 1172. [CrossRef] [PubMed]
