May Patrick, Christian Jan-Ole, Kempa Stefan, Walther Dirk
Max-Planck-Institute of Molecular Plant Physiology, Potsdam, Germany.
BMC Genomics. 2009 May 4;10:209. doi: 10.1186/1471-2164-10-209.
The unicellular green alga Chlamydomonas reinhardtii is an important eukaryotic model organism for the study of photosynthesis and plant growth. In the era of modern high-throughput technologies there is an imperative need to integrate large-scale data sets from high-throughput experimental techniques using computational methods and database resources to provide comprehensive information about the molecular and cellular organization of a single organism.
In the framework of the German Systems Biology initiative GoFORSYS, a pathway database and web-portal for Chlamydomonas (ChlamyCyc) was established, which currently features about 250 metabolic pathways with associated genes, enzymes, and compound information. ChlamyCyc was assembled using an integrative approach combining the recently published genome sequence, bioinformatics methods, and experimental data from metabolomics and proteomics experiments. We analyzed and integrated a combination of primary and secondary database resources, such as existing genome annotations from JGI, EST collections, orthology information, and MapMan classification.
ChlamyCyc provides a curated and integrated systems biology repository that will enable and assist in systematic studies of fundamental cellular processes in Chlamydomonas. The ChlamyCyc database and web-portal is freely available under http://chlamycyc.mpimp-golm.mpg.de.
单细胞绿藻莱茵衣藻是用于光合作用和植物生长研究的重要真核模式生物。在现代高通量技术时代，迫切需要使用计算方法和数据库资源整合来自高通量实验技术的大规模数据集，以提供关于单个生物体分子和细胞组织的全面信息。
在德国系统生物学计划GoFORSYS的框架下，建立了一个衣藻途径数据库和门户网站（ChlamyCyc），目前其具有约250条代谢途径以及相关基因、酶和化合物信息。ChlamyCyc采用综合方法进行组装，该方法结合了最近公布的基因组序列、生物信息学方法以及代谢组学和蛋白质组学实验的实验数据。我们分析并整合了主要和次要数据库资源的组合，如来自联合基因组研究所（JGI）的现有基因组注释、EST文库、直系同源信息和MapMan分类。
ChlamyCyc提供了一个经过整理和整合的系统生物学知识库，将有助于对莱茵衣藻基本细胞过程进行系统研究。ChlamyCyc数据库和门户网站可通过http://chlamycyc.mpimp-golm.mpg.de免费获取。
