TPIA2: an updated tea plant information archive for Camellia genomics

文献类型： 外文期刊

第一作者： Gao, Qijuan

作者： Gao, Qijuan;Tong, Wei;Li, Fangdong;Wang, Yanli;Wu, Qiong;Wan, Xiaochun;Xia, Enhua;Gao, Qijuan;Li, Fangdong;Wu, Qiong

作者机构：

期刊名称：NUCLEIC ACIDS RESEARCH （ 影响因子：14.9； 五年影响因子：16.4 ）

ISSN： 0305-1048

年卷期： 2023 年

页码：

收录情况： SCI

摘要： The genus Camellia consists of about 200 species, which include many economically important species widely used for making tea, ornamental flowers and edible oil. Here, we present an updated tea plant information archive for Camellia genomics (TPIA2; http://tpia.teaplants.cn) by integrating more novel large-scale genomic, transcriptomic, metabolic and genetic variation datasets as well as a variety of useful tools. Specifically, TPIA2 hosts all currently available and well assembled 10 Camellia genomes and their comprehensive annotations from three major sections of Camellia. A collection of 15 million SNPs and 950 950 small indels from large-scale genome resequencing of 350 diverse tea accessions were newly incorporated, followed by the implementation of a novel 'Variation' module to facilitate data retrieval and analysis of the functionally annotated variome. Moreover, 116 Camellia transcriptomes were newly assembled and added, leading to a significant extension of expression profiles of Camellia genes to 13 developmental stages and eight abiotic/biotic treatments. An updated 'Expression' function has also been implemented to provide a comprehensive gene expression atlas for Camellia. Two novel analytic tools (e.g. Gene ID Convert and Population Genetic Analysis) were specifically designed to facilitate the data exchange and population genomics in Camellia. Collectively, TPIA2 provides diverse updated valuable genomic resources and powerful functions, and will continue to be an important gateway for functional genomics and population genetic studies in Camellia. Graphical Abstract

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