Complete genome sequence of the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 and comparison with Pyrococcus genomes
Complete genome sequence of the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 and comparison with Pyrococcus genomes
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DOI：
10.1101/gr.3003105
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发表时间：
2005-03-01
期刊：
影响因子：
7
通讯作者：
Imanaka, T
中科院分区：
文献类型：
--
作者：
Fukui, T;Atomi, H;Imanaka, T
由硫还原超嗜热古菌组成的热球菌属（Thermococcus），属于广古菌门中的热球菌目（Thermococcales）沿着与热球菌属（Pyrococcus）密切相关。热球菌属的成员普遍存在于自然高温环境中，因此被认为在热水生态系统中微生物聚生体的生态学和代谢活动中发挥重要作用。为了深入了解这个重要的属，我们确定并注释了Kodakaraensis菌株KOD1的完整的2，088，737个碱基的基因组，然后与Pyrococcus spp.的三个完整的基因组进行比较。共鉴定了2306个编码DNA序列（coding DNA sequences，CDS），其中一半（1165个CDS）可注释，而41%（936个CDS）的功能不能从一级结构预测。基因组包含7个可能的转座酶基因和4个病毒相关区域。这些遗传元件中的几种蛋白质与火球菌属物种中的蛋白质具有高度相似性，这意味着热球菌目中这种移动的分子水平基因转移的自然发生。比较基因组学阐明了1204个蛋白质，包括信息处理和基本代谢的蛋白质，在T。kodakaraensis和三种Pyrococcus spp.另一方面，在T.在Kodakaraensis中，有几种有趣的蛋白质可能与热球菌属的特定性状有关，如参与额外丙酮酸氧化、核苷酸代谢、独特或额外的金属离子转运蛋白、改善的应激反应系统和独特的限制系统的蛋白质。
The genus Thermococcus, comprised Of sulfur-reducing hyperthermophillic archaea, belongs to the order Thermococcales in Euryarchaeota along with the closely related genus Pyrococcus. The members of Thermococcus are ubiquitously present in natural high-temperature environments, and are therefore considered to play a major role in the ecology and metabolic activity of microbial consortia within hot-water ecosystems. To obtain insight into this important genus, we have determined and annotated the complete 2,088,737-base genome of Thermococcus kodakaraensis strain KOD1, followed by a comparison with the three complete genomes of Pyrococcus spp. A total of 2306 coding DNA sequences (CDSs) have been identified, among which half (1165 CDSs) are annotatable, whereas the functons of 41% (936 CDSs) cannot be predicted from the primary structures. The genome contains seven genes for probable transposases and four virus-related regions. Several proteins within these genetic elements show high similarities to those in Pyrococcus spp., implying the natural Occurrence of horizontal gene transfer Of such mobile elements among the order Thermococcales. Comparative genomics clarified that 1204 proteins, including those for information processing and basic metabolisms, are shared among T. kodakaraensis and the three Pyrococcus spp. On the other hand, among the set of 689 proteins unique to T. kodakaraensis, there are several intriguing proteins that might be responsible for the specific trait of the genus Thermococcus, Such as proteins involved in additional pyruvate oxidation, nucleotide metabolisms, unique or additional metal ion transporters, improved stress response system, and a distinct restriction system.