Molecular Plant Pathology Laboratory, Beltsville Agricultural Research Center, Agricultural Research Service, United States Department of Agriculture (USDA), Beltsville, MD 20705, USA.
AGROSAVIA, Centro de Investigación La Libertad, Km.17 vía Pto. Lopez, Villavicencio, Meta, Colombia.
Viruses. 2024 Feb 7;16(2):267. doi: 10.3390/v16020267.
Hibiscus is not native to Colombia but well suited to its arid soil and dry climates. A single hibiscus plant from Risaralda, showing black spots on upper and lower sides of its leaves, was collected for virome analysis using meta-transcriptomic high-throughput sequencing technology. Bioinformatic analysis identified 12.5% of the total reads in the Ribo-Zero cDNA library which mapped to viral genomes. BLAST searches revealed the presence of carlavirus, potexvirus, and of known members of the genera , , , and in the sample; confirmed by RT-PCR with virus-specific primers followed by amplicon sequencing. Furthermore, in silico analysis suggested the possibility of a novel soymovirus, and a new hibiscus strain of citrus leprosis virus C2 in the mixed infection. Both RNA dependent RNA polymerase and coat protein gene sequences of the potex and carla viruses shared less than 72% nucleotide and 80% amino acid identities with any alphaflexi- and betaflexi-virus sequences available in GenBank, identifying three novel carlavirus and one potexvirus species in the plant. The detection of physalis vein necrosis nepovirus and passion fruit green spot cilevirus in hibiscus are also new reports from Colombia. Overall, the meta-transcriptome analysis identified the complex virome associated with the black spot symptoms on hibiscus leaves and demonstrated the diversity of virus genera tolerated in the mixed infection of a single plant.
芙蓉并非哥伦比亚的原生植物，但它非常适应哥伦比亚干旱的土壤和干燥的气候。我们从里萨拉尔达采集了一株芙蓉植物，其叶片的上下两面都有黑斑，用于使用宏转录组高通量测序技术进行病毒组分析。生物信息学分析鉴定出 Ribo-Zero cDNA 文库中总读取数的 12.5%与病毒基因组相对应。BLAST 搜索显示，样品中存在 carlavirus、potexvirus 和属 、 、 、 的已知成员；通过 RT-PCR 用病毒特异性引物进行验证，然后进行扩增子测序。此外，计算机分析表明，在混合感染中存在一种新的 soymovirus 和一种新型的芙蓉柑橘衰退病毒 C2 。该 potex 和 carla 病毒的 RNA 依赖性 RNA 聚合酶和外壳蛋白基因序列与 GenBank 中任何 alfaflexi- 和 betaflexi-病毒序列的核苷酸相似度均低于 72%，氨基酸相似度均低于 80%，鉴定出 3 种新型的 carlavirus 和 1 种 potexvirus 物种。在芙蓉中检测到的辣椒叶脉坏死芜菁花叶病毒和百香果绿斑细脉络病毒也是哥伦比亚的新报告。总的来说，宏转录组分析鉴定出与芙蓉叶片黑斑症状相关的复杂病毒组，并证明了在单个芙蓉植物的混合感染中耐受的病毒属的多样性。
