"Hot standards" for the thermoacidophilic archaeon Sulfolobus solfataricus.
"Hot standards" for the thermoacidophilic archaeon Sulfolobus solfataricus.
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DOI：
10.1007/s00792-009-0280-0
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发表时间：
2010-01
期刊：
影响因子：
2.9
通讯作者：
Siebers, Bettina
中科院分区：
文献类型：
--
作者：
Zaparty, Melanie;Esser, Dominik;Gertig, Susanne;Haferkamp, Patrick;Kouril, Theresa;Manica, Andrea;Pham, Trong K.;Reimann, Julia;Schreiber, Kerstin;Sierocinski, Pawel;Teichmann, Daniela;van Wolferen, Marleen;von Jan, Mathias;Wieloch, Patricia;Albers, Sonja V.;Driessen, Arnold J. M.;Klenk, Hans-Peter;Schleper, Christa;Schomburg, Dietmar;van der Oost, John;Wright, Phillip C.;Siebers, Bettina
关键词：
在古菌中，嗜热嗜酸crenarchaeote Sulfolobus solfataricus已成为生理学和生物化学，比较和功能基因组学以及最近的系统生物学方法的重要模式生物。在Sulfolobus系统生物学（“Sulfobus”）项目中，通过整合基因组学、转录组学、蛋白质组学、代谢组学和酶信息以产生硅细胞模型，在系统水平上研究了变化的生长温度对代谢网络的影响。所研究的网络是中心碳水化合物代谢。生成高质量的定量数据，这对于生物系统的研究和不同数据集的成功整合至关重要，例如从高通量方法（例如，转录组或蛋白质组分析），需要应用和遵守统一的标准方案，例如，用于生物体的生长和处理以及“组学”方法。在此，我们报告了SulfoSYS项目中应用的不同湿实验室和计算机模拟技术的标准操作程序的建立和实施，我们认为这些技术对未来关于硫化叶菌或（超）嗜热菌的项目有用。除了已建立的技术，它还包括新的方法，如菌株监测，膜蛋白的改进鉴定和crenarchaeal代谢组学的应用。本文的在线版本（doi：10.1007/s 00792 -009-0280-0）包含补充材料，可供授权用户使用。
Within the archaea, the thermoacidophilic crenarchaeote Sulfolobus solfataricus has become an important model organism for physiology and biochemistry, comparative and functional genomics, as well as, more recently also for systems biology approaches. Within the Sulfolobus Systems Biology (“SulfoSYS”)-project the effect of changing growth temperatures on a metabolic network is investigated at the systems level by integrating genomic, transcriptomic, proteomic, metabolomic and enzymatic information for production of a silicon cell-model. The network under investigation is the central carbohydrate metabolism. The generation of high-quality quantitative data, which is critical for the investigation of biological systems and the successful integration of the different datasets, derived for example from high-throughput approaches (e.g., transcriptome or proteome analyses), requires the application and compliance of uniform standard protocols, e.g., for growth and handling of the organism as well as the “–omics” approaches. Here, we report on the establishment and implementation of standard operating procedures for the different wet-lab and in silico techniques that are applied within the SulfoSYS-project and that we believe can be useful for future projects on Sulfolobus or (hyper)thermophiles in general. Beside established techniques, it includes new methodologies like strain surveillance, the improved identification of membrane proteins and the application of crenarchaeal metabolomics. The online version of this article (doi:10.1007/s00792-009-0280-0) contains supplementary material, which is available to authorized users.
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DOI：
10.1023/b:jobb.0000019593.84933.e6
发表时间：
2004-02-01
影响因子：
3
作者：
Albers, SV;Koning, SM;Driessen, AJM
通讯作者：
Driessen, AJM
影响因子：
12.3
作者：
Andersson, Anders F.;Lundgren, Magnus;Nilsson, Peter
通讯作者：
Nilsson, Peter
影响因子：
2.9
作者：
Ettema, Thijs J. G.;Ahmed, Hatim;Siebers, Bettina
通讯作者：
Siebers, Bettina
影响因子：
2.4
作者：
Albers, Sonja-Verena;Driessen, Arnold J. M.
通讯作者：
Driessen, Arnold J. M.
影响因子：
3.2
作者：
Albers, SV;Elferink, MGL;Konings, WN
通讯作者：
Konings, WN