文献类型：期刊文献

英文题名：BambooGDB: a bamboo genome database with functional annotation and an analysis platform

作者：Zhao, Hansheng[1] Peng, Zhenhua[1,2,3] Fei, Benhua[1] Li, Lubin[2,3] Hu, Tao[1] Gao, Zhimin[1] Jiang, Zehui[1]

第一作者：Zhao, Hansheng

通信作者：Jiang, ZH[1]

机构：[1]Int Ctr Bamboo & Rattan, State Forestry Adm, Key Open Lab Sci & Technol Bamboo & Rattan, Beijing 100102, Peoples R China;[2]Chinese Acad Forestry, Res Inst Forestry, State Key Lab Tree Genet & Breeding, Beijing 100091, Peoples R China;[3]Chinese Acad Forestry, Res Inst Forestry, Key Lab Tree Breeding & Cultivat, State Forestry Adm, Beijing 100091, Peoples R China

年份：2014

卷号：2014

外文期刊名：DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION

收录：;Scopus(收录号：2-s2.0-84904245528);WOS:【SCI-EXPANDED(收录号:WOS:000334514600001)】；

基金：Funding for open access charge: Special Funds for Scientific Research on Forestry Public Causes [No. 200704001]; National Science Foundation of China [No. 31370588]; Fundamental Research Funds for International Center for Bamboo and Rattan [No. 1632013009].

语种：英文

摘要：Bamboo, as one of the most important non-timber forest products and fastest-growing plants in the world, represents the only major lineage of grasses that is native to forests. Recent success on the first high-quality draft genome sequence of moso bamboo (Phyllostachys edulis) provides new insights on bamboo genetics and evolution. To further extend our understanding on bamboo genome and facilitate future studies on the basis of previous achievements, here we have developed BambooGDB, a bamboo genome database with functional annotation and analysis platform. The de novo sequencing data, together with the full-length complementary DNA and RNA-seq data of moso bamboo composed the main contents of this database. Based on these sequence data, a comprehensively functional annotation for bamboo genome was made. Besides, an analytical platform composed of comparative genomic analysis, protein-protein interactions network, pathway analysis and visualization of genomic data was also constructed. As discovery tools to understand and identify biological mechanisms of bamboo, the platform can be used as a systematic framework for helping and designing experiments for further validation. Moreover, diverse and powerful search tools and a convenient browser were incorporated to facilitate the navigation of these data. As far as we know, this is the first genome database for bamboo. Through integrating high-throughput sequencing data, a full functional annotation and several analysis modules, BambooGDB aims to provide worldwide researchers with a central genomic resource and an extensible analysis platform for bamboo genome. BambooGDB is freely available at http://www.bamboogdb.org/.