Establishment of publicly available cDNA material and information resource of Chlamydomonas reinhardtii (Chlorophyta) to facilitate gene function analysis
Establishment of publicly available cDNA material and information resource of Chlamydomonas reinhardtii (Chlorophyta) to facilitate gene function analysis
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DOI：
10.2216/i0031-8884-43-6-722.1
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发表时间：
2004-11-01
期刊：
影响因子：
1.6
通讯作者：
Tabata, S
中科院分区：
文献类型：
--
作者：
Asamizu, E;Nakamura, Y;Tabata, S
对单细胞绿色衣藻莱茵衣藻表达序列标签（EST）进行了大规模分析。为了补充先前发表的从光自养生长的细胞和CO2胁迫条件下的细胞获得的EST序列，使用在包括光、温度、盐和有限营养物的各种胁迫条件下生长的细胞的混合物作为构建互补DNA文库的材料。我们已经从该文库中产生了12，842个5'末端序列，使得整个集合为50，832个。为加快数据处理速度，建立了内部半自动操作流水线。使用该系统，对生成的序列进行质量检查、修剪和数据库搜索以进行初级注释。通过BLAST和Phrap对EST序列进行聚类，产生了3748个共有序列和7721个单例序列。为了使这组高质量的集合信息以及克隆可用于研究社区，在http://www.kazusa.or.jp/en/plant/chlamy/EST/上创建了一个具有有用服务的Web数据库。
A large-scale analysis of expressed sequence tags (EST) was conducted in a unicellular green alga, Chlamydomonas reinhardtii. To complement the previously published EST sequences obtained from photoautotrophically grown cells and cells under CO2 stress condition, a mixture of cells grown under various stress conditions including light, temperature, salt and limited nutrient was used as a material to construct the complementary DNA library. We have generated 12,842 5' end sequences from this library, making the collection 50,832 in its entirety. To speed up the data processing step, an internal semiautomatic operation pipeline was constructed. Using this system, quality check of the generated sequences, trimming, and database search for primary annotation was performed. Clustering of the EST sequences by BLAST followed by Phrap has produced 3748 consensus sequences and 7721 singletons. To make this high-quality set of assemblage information as well as clones available to the research community, a Web database with useful services was created at http://www.kazusa.or.jp/en/plant/chlamy/EST/.