LettuceGDB

Here, we report the establishment of a comprehensive lettuce database, LettuceGDB (https://www.lettucegdb.com/). As an omics data hub, the current LettuceGDB includes two reference genomes with detailed annotations; re-sequencing data from over 1000 lettuce varieties; a collection of more than 1300 worldwide germplasms and millions of accompanying phenotypic records obtained with manual and cutting-edge phenomics technologies; re-analyses of 256 RNA sequencing datasets; a complete miRNAome; extensive metabolite information for representative varieties and wild relatives; epigenetic data on the genome-wide chromatin accessibility landscape; and various lettuce research papers published in the last decade. Five hierarchically accessible functions (Genome, Genotype, Germplasm, Phenotype, and O-Omics) have been developed with a user-friendly interface to enable convenient data access.

本研究报道了综合性生菜数据库LettuceGDB（https://www.lettucegdb.com/）的构建。作为组学数据枢纽，当前的LettuceGDB收录了两份带有详细注释的参考基因组、1000余份生菜品种的重测序数据、1300余份全球范围的种质资源集合，以及通过人工操作与前沿表型组学技术获取的百万级配套表型记录；涵盖256套RNA测序数据集的重新分析结果、完整的microRNA组（miRNAome）、代表性品种与野生近缘种的全面代谢物信息、覆盖全基因组的染色质可及性图谱表观遗传学数据，以及近十年发表的各类生菜研究文献。该数据库开发了五大分级访问功能模块：基因组（Genome）、基因型（Genotype）、种质资源（Germplasm）、表型（Phenotype）与组学（O-Omics），并配备友好的用户界面以实现便捷的数据访问。