Genome Sequence of <i>Tomato mottle mosaic virus</i> Isolated from Tomato in Hainan, China
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Chinese Journal of Tropical Crops ›› 2019, Vol. 40 ›› Issue (1): 139-144.DOI: 10.3969/j.issn.1000-2561.2019.01.020

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Genome Sequence of Tomato mottle mosaic virus Isolated from Tomato in Hainan, China

LIU Xiaoxuan,LI Weilin,ZHANG Tong,ZHOU Guohui()   

  1. College of Agronomy, South China Agricultural University, Guangzhou, Guangdong 510642, China
  • Received:2018-07-31 Revised:2018-09-08 Online:2019-01-15 Published:2019-01-15
  • Contact: ZHOU Guohui


Small RNA deep sequencing and RT-PCR techniques were used to detect the viral pathogen infecting cherry tomato (Lycopersicon esculentum) samples collected from Lingshui County, Hainan Province in 2016. Tomato mottle mosaic virus (ToMMV) was identified from the plants showing dwarf, leaf chlorotic and mottle symptoms. The virus was preserved on the Nicotiana benthamiana by mechanical inoculation, and named as tomato mottle mosaic virus Hainan isolate (ToMMV-HN). Then its whole genome sequence was obtained by RT-PCR. It was determined that the complete genome of ToMMV-HN was 6399 nt in length and contained 4 open reading frames. The identity of nucleotide and encoded amino acid of this isolate with other reported 9 ToMMV isolates was 98.0%-100% and 99.2%-100%, respectively. The identity of nucleotide with Tomato mosaic virus (ToMV), Tomato brown rugose fruit virus (TBRFV) and Tobacco mosaic virus (TMV) which belonging to the genus Tobamovirus was 84.7%, 80.7% and 79.0%, respectively. Phylogenetic analysis showed that ToMMV-HN shared the closest relationship with pepper isolates from Tibetan and Yunnan, China, followed by tomato isolates from California and South Carolina, USA, and relatively distant from Spanish and Brazilian tomato isolates of this virus. This is the first report of the whole genome sequence of ToMMV isolated from tomato in China, which would provide basic information for the diagnosis and prevention of tomato viral disease in China, especially for disease-resistant variety breeding.

Key words: Tomato mottle mosaic virus, siRNA sequencing, virus genome sequence