Additional file 1: of RNA viromes of the oriental hybrid lily cultivar “Sorbonne”

Table S1. Information of RNA-Seq libraries for lily cultivar “Sorbonne.” Index indicates name of individual library from three different projects, which can be further divided into A, B, and C. Raw data can be downloaded from SRA database using respective accession numbers. Table S2. Summary of virus-associated reads, contigs, and FPKM values. Raw sequence reads in SRA format were converted to FASTA format using the SRA Toolkit. MEGABLAST was conducted using raw sequence reads and assembled contigs against virus reference genomes using e-value 1e-6 as a cutoff. To calculate FPKM values, raw sequence reads were mapped on the reference virus genome using the BWA program followed by the pileup program implemented in the BBMap package. Table S3. Assembled virus genome sequences. Orange shells indicate assembled virus genomes covering ORFs, while light yellow shells indicate partial virus genome sequences. (XLSX 116 kb)

表S1 百合品种‘索邦’（Sorbonne）的RNA测序（RNA-Seq）文库信息
表中索引栏指代来自三个不同研究项目的单个文库名称，可将这些文库进一步划分为A、B、C三组。原始数据可通过各自的登录号从SRA数据库（Sequence Read Archive）下载。

表S2 病毒相关序列读数、重叠群（contigs）与FPKM值（每百万映射读取的每千碱基转录本片段数，Fragments Per Kilobase of transcript per Million mapped reads）统计
采用SRA工具包将SRA格式的原始序列读数转换为FASTA格式。以e值1e-6作为比对阈值，将原始序列读数与组装得到的重叠群作为查询序列，与病毒参考基因组开展MEGABLAST比对。为计算FPKM值，先使用BWA软件将原始序列读数比对至病毒参考基因组，随后调用BBMap工具包中的pileup程序完成后续分析。

表S3 组装完成的病毒基因组序列
橙色填充单元格代表覆盖开放阅读框（ORFs，Open Reading Frames）的完整组装病毒基因组，浅黄色填充单元格代表部分病毒基因组序列。（XLSX格式，文件大小116 KB）