Full-length genome sequence of segmented RNA virus from ticks was obtained using small RNA sequencing data

BMC Genomics

Defu Chen¹  Shan Gao¹  Jiayuan Chen¹  Jinlong Bei²  Xiaoai Zhang²  Ze Chen³  Yibo Xuan³  Xiaofeng Xu³  Stephen C. Barker⁴  Samuel Kelava⁴ 

[1] College of Life Sciences, Nankai University, 300071, Tianjin, Tianjin, People’s Republic of China;Guangdong Provincial Key Laboratory for Crop Germplasm Resources Preservation and Utilization, Agro-Biological Gene Research Center, Guangdong Academy of Agricultural Sciences, 510640, Guangzhou, Guangdong, People’s Republic of China;Guangdong Laboratory for Lingnan Modern Agriculture, 510642, Guangzhou, Guangdong, People’s Republic of China;Hebei Key Laboratory of Animal Physiology, Biochemistry and Molecular Biology, College of Life Sciences, Hebei Normal University, 050024, Shijiazhuang, Hebei, People’s Republic of China;School of Chemistry and Molecular Biosciences, The University of Queensland, 4072, Brisbane, QLD, Australia;

关键词: MGTV;    JMTV;    Full-length genome;    5′ sRNA;    3′ sRNA;   

DOI  :  10.1186/s12864-020-07060-5

来源: Springer

【 摘 要 】

BackgroundIn 2014, a novel tick-borne virus of the Flaviviridae family was first reported in the Mogiana region of Brazil and named the Mogiana tick virus (MGTV). Thereafter, the Jingmen tick virus (JMTV), Kindia tick virus (KITV), and Guangxi tick virus (GXTV)—evolutionarily related to MGTV—were reported.ResultsIn the present study, we used small RNA sequencing (sRNA-seq) to detect viruses in ticks and discovered a new MGTV strain in Amblyomma testudinarium ticks collected in China’s Yunnan Province in 2016. We obtained the full-length genome sequence of this MGTV strain Yunnan2016 (GenBank: MT080097, MT080098, MT080099 and MT080100) and recommended it for its inclusion in the NCBI RefSeq database for future studies on MGTV, JMTV, KITV and GXTV. Phylogenetic analysis showed that MGTV, JMTV, KITV and GXTV are monophyletic and belong to a MGTV group. Furthermore, this MGTV group of viruses may be phylogenetically related to geographical regions that were formerly part of the supercontinents Gondwana and Laurasia.ConclusionsTo the best of our knowledge, this is the first study in which 5′ and 3′ sRNAs were used to generate full-length genome sequences of, but not limited to, RNA viruses. We also demonstrated the feasibility of using the sRNA-seq based method for the detection of viruses in pooled two and even possible one small ticks. MGTV may preserve the characteristic of ancient RNA viruses, which can be used to study the origin and evolution of RNA viruses. In addition, MGTV can be used as novel species for studies in phylogeography.

【 授权许可】

CC BY