TPIA2: an updated tea plant information archive for Camellia genomics

Abstract

The genus Camellia consists of about 200 species, which include many economically important species widely used for making tea, ornamental flo w ers and edible oil. Here, we present an updated tea plant information archive for Camellia genomics (TPIA2; http://tpia.teaplants.cn ) by inte-grating more no v el large-scale genomic, transcriptomic, metabolic and genetic v ariation datasets as w ell as a v ariety of useful tools. Specifically, TPIA2 hosts all currently a v ailable and w ell 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 w ere ne wly incorporated, f ollo w ed b y the implementation of a no v el 'V ariation ' module to facilit ate dat a retrie v al and analy sis of the functionally annotated v ariome. Moreo v er, 116 Camellia transcriptomes w ere ne wly assembled and added, leading to a significant extension of expression profiles of Camellia genes to 13 de v elopment al st ages 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 Con v ert and Population Genetic Analysis) were specifically designed to facilitate the data e x change and population genomics in Camellia . Collectively, TPIA2 provides div erse updated v aluable genomic resources and po w erful functions, and will continue to be an important gate w a y f or functional genomics and population genetic studies in Camellia .