Tardigrade workbench: comparing stress-related proteins, sequence-similar and functional protein clusters as well as RNA elements in tardigrades
Tardigrade workbench: comparing stress-related proteins, sequence-similar and functional protein clusters as well as RNA elements in tardigrades
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DOI：
10.1186/1471-2164-10-469
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发表时间：
2009-10-12
期刊：
影响因子：
4.4
通讯作者：
Dandekar, Thomas
中科院分区：
文献类型：
--
作者：
Foerster, Frank;Liang, Chuanguang;Dandekar, Thomas
背景资料：缓步动物是一种对环境压力具有非凡抵抗力的动物门。为了深入了解它们的压力特异性适应潜力，鉴定了相关和相似蛋白质的主要簇，以及比较所有缓步动物和单个物种的特定功能簇（Milnesium tardigradrum，Hypsibius dujardini，Echiniscus testudo，Tulinus stephaniae，Richtersius coronifer）和缓步动物mRNA中的功能元件进行分析。我们发现，39.3%的总序列聚集在58个聚类超过20个蛋白质。其中有10个水熊虫特异性蛋白质簇以及一些压力特异性蛋白质簇。缓步动物特有的功能适应包括强蛋白质、DNA和氧化还原保护、维持和蛋白质回收。特异性调节元件调节缓步动物mRNA的稳定性，如lox P DICE元件，而高等真核生物的其他14种RNA元件未被发现。http://waterbear.bioapps.biozentrum.uni-wuerzburg.de工作台提供了启动子和调控元件检测（缓步动物特异性; nrdb），以及快速COG搜索功能分配，包括物种特异性库的所有分析data.Conclusion：不同的蛋白质簇和调控元件涉及缓步动物的压力适应分析，包括未发表的缓步动物序列。
Background: Tardigrades represent an animal phylum with extraordinary resistance to environmental stress.Results: To gain insights into their stress-specific adaptation potential, major clusters of related and similar proteins are identified, as well as specific functional clusters delineated comparing all tardigrades and individual species (Milnesium tardigradum, Hypsibius dujardini, Echiniscus testudo, Tulinus stephaniae, Richtersius coronifer) and functional elements in tardigrade mRNAs are analysed. We find that 39.3% of the total sequences clustered in 58 clusters of more than 20 proteins. Among these are ten tardigrade specific as well as a number of stress-specific protein clusters. Tardigrade-specific functional adaptations include strong protein, DNA- and redox protection, maintenance and protein recycling. Specific regulatory elements regulate tardigrade mRNA stability such as lox P DICE elements whereas 14 other RNA elements of higher eukaryotes are not found. Further features of tardigrade specific adaption are rapidly identified by sequence and/or pattern search on the web-tool tardigrade analyzer http://waterbear.bioapps.biozentrum.uni-wuerzburg.de. The work-bench offers nucleotide pattern analysis for promotor and regulatory element detection (tardigrade specific; nrdb) as well as rapid COG search for function assignments including species-specific repositories of all analysed data.Conclusion: Different protein clusters and regulatory elements implicated in tardigrade stress adaptations are analysed including unpublished tardigrade sequences.