Gene expression profiles in tadpole larvae of Ciona intestinalis
Gene expression profiles in tadpole larvae of Ciona intestinalis
复制标题
DOI：
10.1006/dbio.2002.0538
复制
发表时间：
2002-02-15
影响因子：
2.7
通讯作者：
Satou, Y
中科院分区：
文献类型：
--
作者：
Kusakabe, T;Yoshida, R;Satou, Y
将来自玻璃海鞘蝌蚪5 '端和T端的12，779个表达序列标签（expressedsequencetags，ESTs）分为3521个独立的簇，从其中随机选择1013个簇对应的9424个克隆进行遗传信息和基因表达谱分析。当与数据库中的序列比较时，545个簇显示与报道的蛋白质显著匹配（P < E-15），而153个簇显示与推定的蛋白质匹配，这些蛋白质没有足够的信息对其功能进行分类，315个簇与已知蛋白质没有显著的序列相似性。对545个簇的生物学功能的序列相似性分析表明，其中407个簇具有多种细胞使用的功能，104个簇与细胞间通讯有关，34个簇是转录因子或其他基因调控蛋白。序列流行率分布分析表明，超过一半的mRNA是速率mRNA。对全部1013个簇进行整体原位杂交，以分析蝌蚪幼虫中的基因表达谱。共有361个簇显示特定于某一组织或器官的表达：96个显示表皮特异性表达，60个特异于神经系统，108个特异于内胚层，34个特异于间充质，5个特异于躯干侧细胞，4个特异于躯干腹侧细胞，23个特异于脊索，28个特异于肌肉，3个特异于虹吸管雏形。此外，190个簇显示在多种组织中表达。此外，神经系统特异性基因显示出依赖于簇的有趣的表达模式。本研究突出了用于形成最原始的脊索动物身体计划之一以及用于各种类型的组织和器官的功能的广泛的基因，并且还提供了构成玻璃海鞘幼虫的单个组织和器官的分子标记。(C)2002 Elsevier Science（美国）。
A set of 12,779 expressed sequence tags (ESTs), both the 5'-most and T-most ends, derived from Ciona intestinalis tadpole larvae was categorized into 3521 independent clusters, from which 1013 clusters corresponding to 9424 clones were randomly selected to analyze genetic information and gene expression profiles. When compared with sequences in databases, 545 of the clusters showed significant matches (P < E-15) with reported proteins, while 153 showed matches with putative proteins for which there is not enough information to categorize their function, and 315 had no significant sequence similarities to known proteins. Sequence-similarity analyses of the 545 clusters in relation to the biological functions demonstrated that 407 of them have functions that many kinds of cells use, 104 are associated with cell-cell communication, and 34 are transcription factors or other gene-regulatory proteins. Sequence prevalence distribution analysis demonstrated that more than one-half of the mRNAs are rate mRNAs. All of the 1013 clusters were subjected to whole-mount in situ hybridization to analyze the gene expression profile in the tadpole larva. A total of 361 clusters showed expression specific to a certain tissue or organ: 96 showed epidermis-specific expression, 60 were specific to the nervous system, 108 to endoderm, 34 to mesenchyme, 5 to trunk lateral cells, 4 to trunk ventral cells, 23 to notochord, 28 to muscle, and 3 to siphon rudiments. In addition, 190 clusters showed expression in multiple tissues. Moreover, nervous system-specific genes showed intriguing expression patterns dependent on the cluster. The present study highlights a broad spectrum of genes that are used in the formation of one of the most primitive chordate body plans as well as for the function of various types of tissue and organ and also provides molecular markers for individual tissues and organs constituting the Ciona larva. (C) 2002 Elsevier Science (USA).