For the first time, the near-complete genome sequence of the betacarmovirus, hibiscus chlorotic ringspot virus (HCRSV) isolated from the Americas is disclosed. High throughput sequencing of the total RNA extract from a Hibiscus - rosa sinensis (L.) plant collected in São Paulo state, Brazil, revealed the genome sequence of HCRSV isolate SBO1, which is 3945 nucleotides long and shows 93.1% nucleotide sequence identity with HCRSV_Singapore (X86448), considered the type member of the species. These two viruses display a similar genomic organization and potentially encode seven open reading frames (ORFs). In addition, a phylogenetic analysis based on a fragment with 557 nts of p38 , the coat protein gene, from a cohort of 14 samples collected in Brazil revealed a no clearly defined segregation of South American isolates from those previously detected in geographical areas outside this continent. The practical consequences of the use of p38 ORF-derived amplicons for detection and variability studies of HCRSV are concisely discussed.

中文翻译：

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来自西半球的芙蓉褪绿环斑病毒分离株的第一个基因组序列

首次公开了从美洲分离的 β 轮状病毒、芙蓉褪绿环斑病毒 (HCRSV) 的近乎完整的基因组序列。从巴西圣保罗州采集的芙蓉 - 蔷薇 (L.) 植物总 RNA 提取物的高通量测序揭示了 HCRSV 分离株 SBO1 的基因组序列，该序列长 3945 个核苷酸，与 HCRSV_Singapore 的核苷酸序列同一性为 93.1% (X86448)，被认为是该物种的类型成员。这两种病毒显示出相似的基因组结构，并可能编码七个开放阅读框 (ORF)。此外，基于 p38 的 557 nts 片段的系统发育分析，外壳蛋白基因，来自巴西收集的 14 个样本的队列显示，南美分离株与之前在该大陆以外地理区域检测到的分离株没有明确的分离。简要讨论了使用 p38 ORF 衍生的扩增子进行 HCRSV 检测和变异性研究的实际后果。