|
|
Complete nucleotide sequence and phylogenetic analysis of the sweet potato virus 2 isolated from China |
QIN Yan-hong, QIAO Qi, WANG Shuang, ZHANG De-sheng, WANG Yong-jiang, TIAN Yu-ting, ZHANG Zhen-chen* |
Institute of Plant Protection, Henan Academy of Agricultural Sciences, Zhengzhou 450002, China; Henan Key Laboratory of Crop Pest Control, Zhengzhou 450002, China; IPM Key Laboratory in Southern part of North China for Ministry of Agriculture, Zhengzhou 450002, China |
|
|
Abstract The complete nucleotide sequence of a Chinese isolate of sweet potato virus 2 (SPV2-Ch1) was determined by using RT-PCR and rapid amplification of cDNA ends methods. Sequence comparisons of complete genomic sequence, polyprotein, and individual protein sequences were performed using DNAMAN. Phylogenetic tree of SPV2-Ch1 isolate with other SPV2 isolates were generated using MEGA7.0 software. Sequence analysis revealed that the complete genome of SPV2-Ch1 was 10 747 nucleotides (nt) including a poly(A) tail at the 3'-end. The 5'-untranslated region (5'-UTR) and 3'-UTR is 107 nt and 239 nt in length, respectively. The genome of SPV2-Ch1 contained an open reading frame of 10 401 nt encoding for a putative polyprotein of 3 466 amino acids. Pairwise comparisons showed that SPV2-Ch1 and other SPV2 isolates available in GenBank database shared 80.3%-98.7% identity at the complete genome nucleotide sequence level. SPV2-Ch1 has the highest nt identity with the isolate SC6 (98.7%) and lowest nt similarity with isolate SSBles-74_ZA (80.3%). Phylogene-tic tree analysis based on polyprotein gene indicated that isolates SPV2-Ch1, AM-MB2, AuScan, CW142, GJ118, GWB-2, HN77, LSU2, SC6, SCN20 and TM37 formed one group. This is the first report of the complete genomic sequence of SPV2 isolated from China.
|
Received: 06 July 2019
|
|
|
|
|
[1] Ateka E M, Barg E, Njeru R W, et al. Biological and molecular variability among geographically diverse isolate of sweet potato virus 2 [J]. Archive of Virology, 2007, 152(3): 479-488. [2] Ateka E M, Barg E, Njeru R W, et al. Further cha-racterization of ‘sweet potato virus 2': suggests that it is a distinct species of the genus Potyvirus [J]. Archive of Virology, 2004, 149(2): 225-239. [3] Clark C A, Hoy M W. Effects of common viruses on yield and quality of Beauregard sweetpotato in Louisiana [J]. Plant Disease, 2006, 90 (1): 83-88. [4] Tairo F, Jones R A C, Valkonen J P T. Potyvirus complexes in sweetpotato: occurrence in Australia, serological and molecular resolution, and analysis of the Sweet potato virus 2 (SPV2) component [J]. Plant Disease, 2006, 90 (9): 1120-1128. [5] Perez-Egusquiza Z, Ward L I, Clover G R G, et al. Detection of sweet potato virus 2 in sweet potato in New Zealand [J]. Plant Disease, 2009, 93(4): 427. [6] Kwak H R, Kim J, Kim M K, et al. Molecular characterization of five potyviruses infecting Korean sweet potatoes based on analyses of complete genome sequences [J]. The Plant Pathology Journal, 2015, 31 (4): 388-401. [7] Qin Y H, Zhang Z C, Qiao Q, et al. Molecular variability of sweet potato chlorotic stunt virus (SPCSV) and five potyviruses infecting sweet potato in China [J]. Archive of Virology, 2013, 158 (2): 491-495. [8] Li F, Xu D, Abad J, et al. Phyogenetic relationships of closely related potyviruses infecting sweet potato determined by genomic characterization of Sweet potato virus G and Sweet potato virus 2 [J]. Virus Genes, 2012, 45(1): 118-125. [9] Kumar S, Stecher G, Tamura K. MEGA7: Molecular evolutionary genetics analysis version 7.0 for bigger datasets [J]. Molecular Biology and Evolution, 2016, 33 (7): 1870-1874. [10]Kokkinos C D, Clark C A. Interactions among Sweet potato chlorotic stunt virus and different potyviruse and potyvirus strains infecting sweet potato in the United State [J]. Plant Disease, 2006, 90(10): 1347-1352. |
[1] |
WEI Huan-yu, WEI Wei, YANG Min, PEI Wei-hua, ZHAO Jian-rong, ZHONG Yu, LIU Jia-ni, SU Yuan, HUANG Fei-yan, WANG Qi-yu, HU Wen-ting, CHEN Hai-ru, YU Lei. Identification of a soft rot disease pathogen of Amorphophallus bulbifer in Yunnan Province[J]. Acta Phytopathologica Sinica, 2020, 50(4): 381-386. |
|
|
|
|