Identification, characterization and full-length sequence analysis of a novel dsRNA virus isolated from the arboreal ant Camponotus yamaokai

Journal of General Virology

Volumn 96, Issue 7, 2015, Pages 1930-1937

  Koyama, Satoshi ^a   Urayama, Syun Ichi ^a   Ohmatsu, Tsutomu ^a   Sassa, Yukiko ^a   Sakai, Chihiro ^a   Takata, Mamoru ^a   Hayashi, Shinya ^a   Nagai, Makoto ^a   Furuya, Tetsuya ^a   Moriyama, Hiromitsu ^a   Satoh, Toshiyuki ^a   Ono, Shin Ichi ^b   Mizutani, Testuya ^a  

^a TOKYO UNIVERSITY OF AGRICULTURE AND TECHNOLOGY   (Japan)

^b TOKAI UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

RNA DIRECTED RNA POLYMERASE; DOUBLE STRANDED RNA; VIRUS RNA;

AMINO ACID SEQUENCE; AMINO ACID SUBSTITUTION; ARBOREAL SPECIES; ARTICLE; CAMPONOTUS YAMAOKAI VIRUS; DOUBLE-STRANDED RNA VIRUS; FEMALE; FRAMESHIFT MUTATION; HYMENOPTERA; MALE; MOLECULAR PHYLOGENY; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PARTICLE SIZE; PRIORITY JOURNAL; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RNA SEQUENCE; START CODON; TOTIVIRUS; TRANSMISSION ELECTRON MICROSCOPY; VIRUS GENOME; VIRUS IDENTIFICATION; VIRUS ISOLATION; ANIMAL; ANT; CLASSIFICATION; CLUSTER ANALYSIS; DNA SEQUENCE; GENETICS; ISOLATION AND PURIFICATION; MOLECULAR GENETICS; PHYLOGENY; RNA VIRUS; SEQUENCE HOMOLOGY; ULTRASTRUCTURE; VIRION; VIROLOGY;

ARTHROPODA; CAMPONOTUS YAMAOKAI; DSRNA VIRUSES; FORMICIDAE; MIRIDAE; TOTIVIRIDAE; TOTIVIRUS;

AMINO ACID SEQUENCE; ANIMALS; ANTS; BASE SEQUENCE; CLUSTER ANALYSIS; FEMALE; GENOME, VIRAL; MALE; MICROSCOPY, ELECTRON, TRANSMISSION; MOLECULAR SEQUENCE DATA; OPEN READING FRAMES; PHYLOGENY; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA VIRUSES; RNA, DOUBLE-STRANDED; RNA, VIRAL; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY; VIRION;

EID: 84938327049     PISSN: 00221317     EISSN: 14652099     Source Type: Journal    
DOI: 10.1099/vir.0.000126     Document Type: Article

References (25)

1. Bekaert, M., Bidou, L., Denise, A., Duchateau-Nguyen, G., Forest, J. P., Froidevaux, C., Hatin, I., Rousset, J. P. & Termier, M. (2003). Towards a computational model for 21 eukaryotic frameshifting sites. Bioinformatics 19, 327–335
2. Darriba, D., Taboada, G. L., Doallo, R. & Posada, D. (2011). ProtTest 3: fast selection of best-fit models of protein evolution. Bioinformatics 27, 1164–1165
3. Gouy, M., Guindon, S. & Gascuel, O. (2010). SeaView version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building. Mol Biol Evol 27, 221–224
4. Guindon, S. & Gascuel, O. (2003). A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52, 696–704
5. Guindon, S., Dufayard, J. F., Lefort, V., Anisimova, M., Hordijk, W. & Gascuel, O. (2010). New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst Biol 59, 307–321
6. Haugland, O., Mikalsen, A. B., Nilsen, P., Lindmo, K., Thu, B. J., Eliassen, T. M., Roos, N., Rode, M. & Evensen, O. (2011). Cardiomyopathy syndrome of atlantic salmon (Salmo salar L.) is caused by a double-stranded RNA virus of the Totiviridae family. J Virol 85, 5275–5286
7. Isawa, H., Kuwata, R., Hoshino, K., Tsuda, Y., Sakai, K., Watanabe, S., Nishimura, M., Satho, T., Kataoka, M. & other authors (2011). Identification and molecular characterization of a new nonsegmented double-stranded RNA virus isolated from Culex mosquitoes in Japan. Virus Res 155, 147–155
8. Jacks, T., Power, M. D., Masiarz, F. R., Luciw, P. A., Barr, P. J. & Varmus, H. E. (1988). Characterization of ribosomal frameshifting in HIV-1 gag-pol expression. Nature 331, 280–283
9. Larkin, M. A., Blackshields, G., Brown, N. P., Chenna, R., McGettigan, P. A., McWilliam, H., Valentin, F., Wallace, I. M., Wilm, A. & other authors (2007). Clustal W and Clustal X version 2.0. Bioinformatics 23, 2947–2948
10. Liu, H., Fu, Y., Jiang, D., Li, G., Xie, J., Cheng, J., Peng, Y., Ghabrial, S. A. & Yi, X. (2010). Widespread horizontal gene transfer from double-stranded RNA viruses to eukaryotic nuclear genomes. J Virol 84, 11876–11887
11. Miyazaki, S., Iwabuchi, K., Pak, J., Fukuhara, T. & Nitta, T. (1996). Selective occurrence of endogenous double-stranded RNAs in insects. Insect Biochem Mol Biol 26, 955–961
12. Morris, T. J. & Dodds, J. A. (1979). Isolation and analysis of doublestranded RNA from virus-infected plant and fungal tissue. Phytopathology 69, 854–858
13. Nibert, M. L. (2007). ‘2A-like’ and ‘shifty heptamer’ motifs in penaeid shrimp infectious myonecrosis virus, a monosegmented doublestranded RNA virus. J Gen Virol 88, 1315–1318
14. Posada, D. & Buckley, T. R. (2004). Model selection and model averaging in phylogenetics: advantages of Akaike information criterion and Bayesian approaches over likelihood ratio tests. Syst Biol 53, 793–808
15. Roossinck, M. J. (2011). The good viruses: viral mutualistic symbioses. Nat Rev Microbiol 9, 99–108
16. Sasaki, K., Satoh, T. & Obara, Y. (1995). Sperm utilization by honey bee queens; DNA fingerprinting analysis. Appl Entomol Zool (Jpn) 30, 335–341
17. Satoh, T. (1989). Comparisons between two apparently distinct forms of Camponotus nawai ITO (Hymenoptera, Formicidae). Insectes Soc 36, 277–292
18. Satoh, T., Masuko, K. & Matsumoto, T. (1997). Colony genetic structure in the mono-and polygynous sibling species of the ants Camponotus nawai and Camponotus yamaokai: DNA fingerprint analysis. Ecol Res 12, 71–76
19. Tamura, K., Stecher, G., Peterson, D., Filipski, A. & Kumar, S. (2013). MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. Mol Biol Evol 30, 2725–2729
20. Terayama, M. & Satoh, T. (1990). A new species of the genus Camponotus from Japan, with notes on two known forms of the subgenus Myrmamblys (Hymenoptera, Formicidae). Jpn J Ent 58, 405–414
21. Valles, S. M. & Hashimoto, Y. (2009). Isolation and characterization of Solenopsis invicta virus 3, a new positive-strand RNA virus infecting the red imported fire ant, Solenopsis invicta. Virology 388, 354–361
22. Valles, S. M., Porter, S. D. & Firth, A. E. (2014). Solenopsis invicta virus 3: pathogenesis and stage specificity in red imported fire ants. Virology 460-461, 66–71
23. Wickner, R., Wang, C. & Patterson, J. (2012). Family Totiviridae. In Virus Taxonomy Eighth Report of the International Committee on Taxonomy of Viruses, pp. 639–650, Edited by C. Fauquet, M. Mayo, J. Maniloff, U. Desselberger & L. Ball. London: Academic Press
24. Wu, Q., Luo, Y., Lu, R., Lau, N., Lai, E. C., Li, W. X. & Ding, S. W. (2010). Virus discovery by deep sequencing and assembly of virus-derived small silencing RNAs. Proc Natl Acad Sci U S A 107, 1606–1611
25. Zhai, Y., Attoui, H., MohdJaafar, F., Wang, H. Q., Cao, Y. X., Fan, S. P., Sun, Y. X., Liu, L. D., Mertens, P. P. & other authors (2010). Isolation and full-length sequence analysis of Armigeres subalbatus totivirus, the first totivirus isolate from mosquitoes representing a proposed novel genus (Artivirus) of the family Totiviridae. J Gen Virol 91, 2836–2845.