Genetic diversity analysis reveals new badnaviruses infecting banana in South China
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ORIGINAL ARTICLE
Genetic diversity analysis reveals new badnaviruses infecting banana in South China Xue-Qin Rao 1 & Zi-Lin Wu 1 & Wan Wang 1 & Lin Zhou 1 & Jie Sun 1 & Hua-Ping Li 1 Received: 22 March 2020 / Accepted: 26 August 2020 # Società Italiana di Patologia Vegetale (S.I.Pa.V.) 2020
Abstract Banana streak virus (BSV) is the causal agent of the most prevalent diseases in banana and causes serious economic losses to banana production worldwide. To examine variability in BSV, 65 isolates were obtained from 99 samples collected from Guangdong, Hainan, Guangxi and Yunnan provinces in South China. The 65 BSV isolates shared 62.8–97.8% nt identity over the RT/RNase H regions when compared to eight BSV species with published complete genomes. Sequence and phylogenetic analyses based on the RT/RNase H region indicated that there was great genetic diversity among BSV isolates in South China, and some isolates belonged to species of badnavirus that had never before been reported in China, including banana streak OL virus (BSOLV) (DN6–2), banana streak IM virus (BSIMV) (DN1–7 and DN5–1), and banana streak VN virus (BSVNV) (YLJ8). The full genomes of two isolates (DN5–1and DN5–4) were cloned and sequenced. The genetic characteristics of both isolates were very close to those of typical badnaviruses. Based on percentage nucleotide sequence identity and phylogenetic relationships, DN5–1 was categorized as BSIMV. Interestingly, while DN5–4 was similar to both sugarcane bacilliform viruses (SCBVs) and BSVs based on sequence identities of the RT/RNase H region, analysis of its complete sequence and genome organization revealed that it can be further classified as sugarcane bacilliform Guadeloupe A virus-2 (SCBGAV-2). To our knowledge, this is the first report of natural infection of banana by SCBGAV-2 in China. In addition, our results suggest that considering the complete genomic sequence rather than the RT/RNase H region alone is important when classifying badnavirus isolates. Keywords Badnavirus . Banana streak virus (BSV) . Sugarcane bacilliform Guadeloupe a virus-2 (SCBGAV-2) . Complete genome . Genetic diversity
Introduction Outbreaks of banana streak disease (BSD) have been reported in many banana-producing countries worldwide in recent years. Banana streak virus (BSV), which belongs to the genus Badnavirus in the family Caulimoviridae, has significant Xue-Qin Rao and Zi-Lin Wu contributed equally to this work. Electronic supplementary material The online version of this article (https://doi.org/10.1007/s42161-020-00646-8) contains supplementary material, which is available to authorized users. * Hua-Ping Li [email protected] 1
State Key Laboratory of Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Agriculture, South China Agricultural University, Guangzhou 510642, China
negative impact on banana (Musa spp.) production in many countries. BSV can be naturally transmitted by mealybugs (Saccharicoccus sacchari) in
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