Genome organization and variation in the 3′-partial sequence of garlic latent virus in China |
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Authors: | Jiong Chen Hongying Zheng Jianping Chen and Chongliang Yang |
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Institution: | 1. College of Life Sciences, Zhejiang University, Hangzhou 310029, China;Virology Department, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China 2. Department of Plant Protection, Huazhong Agricultural University, Wuhan 430070, China 3. Virology Department, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China 4. Department of Plant Protection, Shandong Academy of Agricultural Sciences, Jinan 250100, China |
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Abstract: | Ten different isolates of a carlavirus were detected by degenerate PCR from 12 garlic samples collected from 6 provinces in China, and the complete genome sequence of the Zhejiang isolate ZJ1 and 3’-terminal sequences of 9 other isolates were determined. The RNA genome of isolate ZJ1 consisted of 8363nts excluding the 3’-poly (A) tail, and the genome organization was similar to other carlaviruses with 6 open reading frames encoding a replicase, TGB1, TGB2, TGB3, CP and NABP respectively. Sequence comparisons showed that all 10 isolates were Garlic latent virus (GarLV). The variations in the TGB2, TGB3 and NABP were more significant than those in the CP. High homology was also detected between those isolates and Shallot latent virus (ShLV). Phylogenetic analysis suggested that GarLV isolates from garlic can be divided into 4 main groups and Chinese isolates belonged to each group. This is the first reported molecular analysis of members of the genus Carlavirus in China. |
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Keywords: | garlic latent virus nucleotide sequence genome organization variation |
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