TrichOME: A Comparative Omics Database for Plant Trichomes
TrichOME: A Comparative Omics Database for Plant Trichomes
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DOI：
10.1104/pp.109.145813
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发表时间：
2010-01-01
期刊：
影响因子：
7.4
通讯作者：
Zhao, Patrick Xuechun
中科院分区：
文献类型：
--
作者：
Dai, Xinbin;Wang, Guodong;Zhao, Patrick Xuechun
植物分泌毛状体具有独特的化学合成和分泌能力，被描述为生产天然产物的生物工厂。然而，直到最近，大多数与毛状体发育阶段有关的毛状体特异性代谢途径和基因仍然未知。此外，在分散的数据库中，只有非常有限的植物毛状体基因组信息。我们提出了一个集成的“组学”数据库，TrichOME，以促进植物毛状体的研究。该数据库拥有大量的功能组学数据，包括表达序列标签/单基因序列，来自毛状体和对照组织的微阵列杂交，基于质谱的毛状体代谢物谱，以及从已发表的文献中整理的毛状体相关基因。所表达的序列标签/单基因序列已根据序列与常用数据库（如Gene Ontology、Kyoto Encyclopedia of Genes and Genomes和Transporter Classification Database）的相似性进行了注释。单基因、代谢物、策展基因和探针组已相互映射，以便进行比较分析。该数据库还集成了生物信息学工具，重点是挖掘独特基因中的毛线虫特异性基因和基于微阵列的基因表达谱。由于毛状体中表达的基因和代谢物在常规的非组织靶向cDNA文库中往往代表性不足，因此TrichOME是植物毛状体研究的宝贵而独特的资源。TrichOME可在http://www.planttrichome.org/免费下载。
Plant secretory trichomes have a unique capacity for chemical synthesis and secretion and have been described as biofactories for the production of natural products. However, until recently, most trichome-specific metabolic pathways and genes involved in various trichome developmental stages have remained unknown. Furthermore, only a very limited amount of plant trichome genomics information is available in scattered databases. We present an integrated "omics" database, TrichOME, to facilitate the study of plant trichomes. The database hosts a large volume of functional omics data, including expressed sequence tag/unigene sequences, microarray hybridizations from both trichome and control tissues, mass spectrometry-based trichome metabolite profiles, and trichome-related genes curated from published literature. The expressed sequence tag/unigene sequences have been annotated based upon sequence similarity with popular databases (e.g. Gene Ontology, Kyoto Encyclopedia of Genes and Genomes, and Transporter Classification Database). The unigenes, metabolites, curated genes, and probe sets have been mapped against each other to enable comparative analysis. The database also integrates bioinformatics tools with a focus on the mining of trichome-specific genes in unigenes and microarray-based gene expression profiles. TrichOME is a valuable and unique resource for plant trichome research, since the genes and metabolites expressed in trichomes are often underrepresented in regular non-tissue-targeted cDNA libraries. TrichOME is freely available at http://www.planttrichome.org/.