Boukari Wardatou, Alcalá-Briseño Ricardo I, Kraberger Simona, Fernandez Emmanuel, Filloux Denis, Daugrois Jean-Heinrich, Comstock Jack C, Lett Jean-Michel, Martin Darren P, Varsani Arvind, Roumagnac Philippe, Polston Jane E, Rott Philippe C
IFAS, Everglades Research & Education Center, University of Florida, Belle Glade, FL, 33430, USA.
IFAS, Plant pathology Department, University of Florida, Gainesville, FL, 32611, USA.
Virol J. 2017 Jul 28;14(1):146. doi: 10.1186/s12985-017-0810-9.
In Africa and Asia, sugarcane is the host of at least seven different virus species in the genus Mastrevirus of the family Geminiviridae. However, with the exception of Sugarcane white streak virus in Barbados, no other sugarcane-infecting mastrevirus has been reported in the New World. Conservation and exchange of sugarcane germplasm using stalk cuttings facilitates the spread of sugarcane-infecting viruses.
A virion-associated nucleic acids (VANA)-based metagenomics approach was used to detect mastrevirus sequences in 717 sugarcane samples from Florida (USA), Guadeloupe (French West Indies), and Réunion (Mascarene Islands). Contig assembly was performed using CAP3 and sequence searches using BLASTn and BLASTx. Mastrevirus full genomes were enriched from total DNA by rolling circle amplification, cloned and sequenced. Nucleotide and amino acid sequence identities were determined using SDT v1.2. Phylogenetic analyses were conducted using MEGA6 and PHYML3.
We identified a new sugarcane-infecting mastrevirus in six plants sampled from germplasm collections in Florida and Guadeloupe. Full genome sequences were determined and analyzed for three virus isolates from Florida, and three from Guadeloupe. These six genomes share >88% genome-wide pairwise identity with one another and between 89 and 97% identity with a recently identified mastrevirus (KR150789) from a sugarcane plant sampled in China. Sequences similar to these were also identified in sugarcane plants in Réunion.
As these virus isolates share <64% genome-wide identity with all other known mastreviruses, we propose classifying them within a new mastrevirus species named Sugarcane striate virus. This is the first report of sugarcane striate virus (SCStV) in the Western Hemisphere, a virus that most likely originated in Asia. The distribution, vector, and impact of SCStV on sugarcane production remains to be determined.
在非洲和亚洲，甘蔗是双生病毒科玉米线条病毒属中至少七种不同病毒物种的寄主。然而，除了巴巴多斯的甘蔗白色条纹病毒外，新世界尚未报道过其他感染甘蔗的玉米线条病毒。使用茎切段进行甘蔗种质的保存和交换促进了甘蔗感染病毒的传播。
采用基于病毒粒子相关核酸（VANA）的宏基因组学方法，检测来自美国佛罗里达州、瓜德罗普岛（法属西印度群岛）和留尼汪岛（马斯克林群岛）的717份甘蔗样本中的玉米线条病毒序列。使用CAP3进行重叠群组装，使用BLASTn和BLASTx进行序列搜索。通过滚环扩增从总DNA中富集玉米线条病毒全基因组，进行克隆和测序。使用SDT v1.2确定核苷酸和氨基酸序列同一性。使用MEGA6和PHYML3进行系统发育分析。
我们在从佛罗里达州和瓜德罗普岛的种质收集中采集的六株植物中鉴定出一种新的感染甘蔗的玉米线条病毒。测定并分析了来自佛罗里达州的三个病毒分离株和来自瓜德罗普岛的三个病毒分离株的全基因组序列。这六个基因组彼此之间的全基因组成对同一性>88%，与最近从中国采集的一株甘蔗中鉴定出的玉米线条病毒（KR150789）的同一性在89%至97%之间。在留尼汪岛的甘蔗植物中也鉴定出了与这些序列相似的序列。
由于这些病毒分离株与所有其他已知玉米线条病毒的全基因组同一性<64%，我们建议将它们归类为一个名为甘蔗条纹病毒的新玉米线条病毒物种。这是西半球首次报道甘蔗条纹病毒（SCStV），这种病毒很可能起源于亚洲。SCStV对甘蔗生产的分布、传播媒介和影响仍有待确定。
