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Phylogenetic analysis and recombination events in full genome sequences of apple stem grooving virus

Chen, H.; Chen, S.; Li, Y.; Ye, T.; Hao, L.; Fan, Z.; Guo, L.; Zhou, T.

Acta Virologica 58(4): 309-316

2014

ISSN/ISBN: 0001-723X
PMID: 25518711
Document Number: 674623
Apple stem grooving virus (ASGV) is one of the most important viral pathogens infecting pome and stone fruit trees worldwide. In this study, with the complete nucleotide sequence of isolate ASGV-T47, which we generated, molecular variation and recombination in ASGV full genomic sequences worldwide were analyzed. ASGV-T47 shared 79.7-97.6% nucleotide identity with the other isolates worldwide and had the highest identity with an isolate from Japan. Phylogenetic analysis based on whole genome clustered all 16 isolates from around the world into two groups with no correlation to host or geographical origin. Four isolates were detected to be recombinants. Selection pressure estimation indicated that the two codons at positions 1756 and 1798 are under positive selection, while purifying selection is the primary evolutionary dynamics for ASGV.

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Li, Z.; Yang, Y.; Wei, J.; Feng, Y.; Xing, H.; He, X.; Shao, Y.-M. 2012: Comparison between different gene and near full-length genome on the phylogenetic analyses of HIV-1 subtype B' in China Bing du Xue Bao 28(4): 366-371
Lavrent'ev, M.V.; Prilipov, A.G.; L'vov, S.D.; L'vov, D.K. 2008: Phylogenetic analysis of the nucleotide sequences of Chatanga virus strains, the new representative of California encephalitis serocomplex, isolated in different regions of the Russian Federation Voprosy Virusologii 53(6): 25-29
Harris, M.E.; Serwadda, D.; Sewankambo, N.; Kim, B.; Kigozi, G.; Kiwanuka, N.; Phillips, J.B.; Wabwire, F.; Meehen, M.; Lutalo, T.; Lane, J.R.; Merling, R.; Gray, R.; Wawer, M.; Birx, D.L.; Robb, M.L.; McCutchan, F.E. 2002: Among 46 near full length HIV type 1 genome sequences from Rakai District, Uganda, subtype D and AD recombinants predominate Aids Research and Human Retroviruses 18(17): 1281-1290
Lai, H.-w.; Qi, Y.-d.; Liu, H.-t.; Liu, J.-s.; Zhang, B.-g. 2014: Phylogenetic analysis for Fritillaria hupehensis: evidence from ITS, rpl16 and matK sequences Zhongguo Zhong Yao Za Zhi 39(17): 3269-3273
Katayama, K.; Horikoshi-Shirato, H.; Takeda, N. 2002: Phylogenetic analysis of 14 strains of Norwalk-like viruses: identification of the region in the genome for genotyping Nihon Rinsho. Japanese Journal of Clinical Medicine 60(6): 1165-1174
Hu, Y.-F.; Zhao, L.-N.; Dong, J.; Wu, Z.-Q.; Du, J.; Xue, Y.; Yang, F. 2010: Complete genome sequence of Coxsackievirus B5 (CVB5/09) strain isolated in China and its phylogenetic analysis Bing du Xue Bao 26(4): 283-289
Mertens, P.P.; Sangar, D.V. 1985: Analysis of the terminal sequences of the genome segments of four orbiviruses Progress in Clinical and Biological Research 178: 371-387
Chanchaem, P.; Poovorawan, Y.; Payungporn, S. 2015: Complete genome characterization and phylogenetic analysis of WU polyomavirus in Thai pediatric patients with respiratory tract infections in 2013 Journal of the Medical Association of Thailand 98(Suppl 1): S29-S35
Chernov, B.K.; Merits, A.; Mizenina, O.A.; Morozov, S.Iu. 1992: Chemical-enzymatic synthesis and cloning of the full-length genome of a DNA-containing plant virus Bioorganicheskaia Khimiia 18(12): 1487-1495
Jiang, H.-Y.; Li, M.-H.; Yang, X.-B.; Li, P.-L.; Zhang, J.; Meng, F.-X.; Guo, Y.-H.; Mei, L.-Z.; Fu, S.-H.; He, Y.-Y.; Wang, H.-Y.; Wang, Z.-J.; Yang, W.-Z.; Wang, Z.-Y.; Liang, G.-D. 2010: Molecular characteristics of the full-length genome of two new Japanese encephalitis virus isolated from mosquitoes in Hubei province Zhonghua Yu Fang Yi Xue Za Zhi 44(5): 438-443
Feng, Y.; Zhang, Y.; Yang, W.; Zhang, H. 2016: Characterization and Analyses of the Full-length Genome of a Strain of the Akabane Virus Isolated from Mosquitoes in Yunnan Province, China Bing du Xue Bao 32(2): 161-169
Gudkov, A.V.; Kopnin, B.P. 1983: Amplification of portions of the genome in mammalian somatic cells resistant to colchicine. VI. Restriction analysis of the amplified DNA sequences Genetika 19(7): 1045-1053
Jin, S.-Q.; Meng, C.-C.; Deng, J.-L.; Zhang, X.-L.; Qiu, X.-S.; Tan, L.; Yu, S.-Q.; Zuo, Z.-C.; Ding, C. 2012: Full-length genome analysis of four genotype 3 letogenic Newcastle disease viruses isolated from different hosts Bing du Xue Bao 28(4): 394-402
Papathanasopoulos, M.A.; Cilliers, T.; Morris, L.; Mokili, J.L.; Dowling, W.; Birx, D.L.; McCutchan, F.E. 2002: Full-length genome analysis of HIV-1 subtype C utilizing CXCR4 and intersubtype recombinants isolated in South Africa Aids Research and Human Retroviruses 18(12): 879-886
Takehisa, J.; Osei-Kwasi, M.; Ayisi, N.K.; Hishida, O.; Miura, T.; Igarashi, T.; Brandful, J.; Ampofo, W.; Netty, V.B.; Mensah, M.; Yamashita, M.; Ido, E.; Hayami, M. 1997: Phylogenetic analysis of human immunodeficiency virus 1 in Ghana Acta Virologica 41(1): 51-54
Elsheikha, H.; Hafez, A.O.; Zaalouk, T.K.H.; El Shazly, A.M.; Khalil, H.H.H.; Morsy, T.A. 2008: Phylogenetic evidence for recombination in SAG5 locus in Toxoplasma gondii Journal of the Egyptian Society of Parasitology 38(2): 371-384
Hrynchuk, K.V.; Antipov, I.A.; Parii, M.F.; Kyrychenko, A.M. 2016: Phylogenetic Analysis of Ukrainian Isolate of Beet Necrotic Yellow Vein Virus Mikrobiolohichnyi Zhurnal 78(2): 111-118
Freire-Picos, M.A.; Rodríguez-Torres, A.M.; Esperanza Cerdán, M. 1995: Yeast phylogenetic relationships based on cytochrome c sequences Microbios 81(326): 23-27
Vellard, M.; Soret, J.; Viegas-Pequignot, E.; Galibert, F.; Nguyen, V.C.; Dutrillaux, B.; Perbal, B. 1991: C-myb proto-oncogene: evidence for intermolecular recombination of coding sequences Oncogene 6(4): 505-514
Oliveira, C.M.G.; Hübschen, J.; Brown, D.J.F.; Ferraz, L.C.C.B.; Wright, F.; Neilson, R. 2004: Phylogenetic Relationships Among Xiphinema and Xiphidorus Nematode Species from Brazil Inferred from 18S rDNA Sequences Journal of Nematology 36(2): 153-159