Department of Plant Protection, College of Agriculture, Shahid Bahonar University of Kerman, Kerman, 7616914111, Iran.
Research and Technology Institute of Plant Production (RTIPP), Shahid Bahonar University of Kerman, Kerman, Iran.
BMC Genomics. 2024 Feb 15;25(1):181. doi: 10.1186/s12864-024-10057-z.
Next-generation Sequencing (NGS) combined with bioinformatic analyses constitutes a powerful approach for identifying and characterizing previously unknown viral genomes. In this study, leaf samples from bitter apple plants (Citrullus colocynthis (L.) Schrad) exhibiting symptoms such as dwarfing, leaf crinkling, and chlorosis were collected from the southern part of Kerman province, Iran.
Putative infecting viruses were identified through de novo assembly of sequencing reads using various tools, followed by BLAST analysis. Complete genomes for Squash vein yellowing virus (SqVYV), Citrus-associated rhabdovirus (CiaRV), and a novel polerovirus-related strain termed Bitter apple aphid-borne yellows virus (BaABYV) were assembled and characterized. Additionally, a partial genome for Watermelon mosaic virus (WMV) was assembled. The genomic organization of the BaABYV was determined to be 5'-ORF0-ORF1-ORF1,2-ORF3a-ORF3-ORF3,5-ORF4-3'. Amino acid sequence identities for inferred proteins (P0 and P1, P1,2) with known poleroviruses were found to be the 90% species delineation limit, implying that BaABYV should be considered a new member of the genus Polerovirus. Recombination events were observed in the BaABYV and WMV strains; such events were not found in the CiaRV strain.
Molecular evidence from this study suggests that C. colocynthis is a reservoir host of several plant viruses. Among them, BaABYV is proposed as a new member of the genus Polerovirus. Furthermore, the CiaRV strain has been reported for the first time from Iran.
下一代测序（NGS）结合生物信息学分析是鉴定和描述以前未知病毒基因组的有力方法。在这项研究中，从伊朗克尔曼省南部采集到表现出矮化、叶片卷曲和黄化等症状的苦苹果植株（Citrullus colocynthis（L.）Schrad）的叶片样本。
通过使用各种工具对测序reads 进行从头组装，并进行 BLAST 分析，鉴定出潜在的感染病毒。组装并表征了葫芦科脉黄化病毒（SqVYV）、柑橘相关弹状病毒（CiaRV）和一种新的韧皮部多瘤病毒相关株，称为苦苹果蚜虫传播的黄化病毒（BaABYV）。此外，还组装了西瓜花叶病毒（WMV）的部分基因组。确定 BaABYV 的基因组组织为 5'-ORF0-ORF1-ORF1,2-ORF3a-ORF3-ORF3,5-ORF4-3'。与已知韧皮部多瘤病毒推断蛋白（P0 和 P1、P1,2）的氨基酸序列同一性为 90%的种系界限，表明 BaABYV 应被视为韧皮部多瘤病毒属的一个新成员。在 BaABYV 和 WMV 株中观察到重组事件；在 CiaRV 株中未发现此类事件。
本研究的分子证据表明，C. colocynthis 是几种植物病毒的宿主库。其中，BaABYV 被提议为韧皮部多瘤病毒属的一个新成员。此外，CiaRV 株首次在伊朗报道。
