Stochastic simulations of a synthetic bacteria-yeast ecosystem.
Stochastic simulations of a synthetic bacteria-yeast ecosystem.
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DOI：
10.1186/1752-0509-6-58
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发表时间：
2012-06-06
影响因子：
--
通讯作者：
Kaznessis YN
中科院分区：
文献类型：
--
作者：
Biliouris K;Babson D;Schmidt-Dannert C;Kaznessis YN
合成生物学领域已经取得了长足的发展，现在可以通过携带适当遗传信息的人工工程细胞来实现许多功能。然而，为了使细胞稳健地执行复杂或多项任务，它们之间的合作可能是必要的。因此，正在设计各种其功能需要细胞间通信的合成生物系统。这些系统，即微生物群落，由工程细胞组成，并表现出广泛的行为。其中包括生长相互依赖的酵母细胞，或者互相杀死或拯救、同步、充当捕食者-猎物生态系统或入侵癌细胞的细菌。在本文中，我们研究了一个由细菌和酵母组成的合成生态系统，它们利用可扩散的小分子相互沟通并从中受益。我们使用随机模型探索了这种由酿酒酵母和大肠杆菌细胞组成的异质微生物群落的行为。随机模型捕获真核细胞和原核细胞内部和之间发生的相关细胞内和细胞间相互作用。将充分表征的分子调控元件整合到这两种微生物中可以通过群体感应进行通信。细菌通过化学信号诱导控制酵母生长的基因，反之亦然。观察到自然生态系统中常见的有趣动态，例如强制性和兼性互利共生、灭绝、共栖和捕食者-猎物动态。我们调查并报告这两个物种能够成功沟通和互相营救的条件。这项研究探讨了工程酵母和细菌细胞共存所表现出的各种行为。该模型的构建方式允许研究由两个通过化学信号相互通信的物种组成的任何系统的动力学。因此，我们的模型获得的关键信息可能会推动各种合成异质生态系统的实验设计。
The field of synthetic biology has greatly evolved and numerous functions can now be implemented by artificially engineered cells carrying the appropriate genetic information. However, in order for the cells to robustly perform complex or multiple tasks, co-operation between them may be necessary. Therefore, various synthetic biological systems whose functionality requires cell-cell communication are being designed. These systems, microbial consortia, are composed of engineered cells and exhibit a wide range of behaviors. These include yeast cells whose growth is dependent on one another, or bacteria that kill or rescue each other, synchronize, behave as predator-prey ecosystems or invade cancer cells. In this paper, we study a synthetic ecosystem comprising of bacteria and yeast that communicate with and benefit from each other using small diffusible molecules. We explore the behavior of this heterogeneous microbial consortium, composed of Saccharomyces cerevisiae and Escherichia coli cells, using stochastic modeling. The stochastic model captures the relevant intra-cellular and inter-cellular interactions taking place in and between the eukaryotic and prokaryotic cells. Integration of well-characterized molecular regulatory elements into these two microbes allows for communication through quorum sensing. A gene controlling growth in yeast is induced by bacteria via chemical signals and vice versa. Interesting dynamics that are common in natural ecosystems, such as obligatory and facultative mutualism, extinction, commensalism and predator-prey like dynamics are observed. We investigate and report on the conditions under which the two species can successfully communicate and rescue each other. This study explores the various behaviors exhibited by the cohabitation of engineered yeast and bacterial cells. The way that the model is built allows for studying the dynamics of any system consisting of two species communicating with one another via chemical signals. Therefore, key information acquired by our model may potentially drive the experimental design of various synthetic heterogeneous ecosystems.
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影响因子：
3.7
作者：
Charlebois, Daniel A.;Intosalmi, Jukka;Kaern, Mads
通讯作者：
Kaern, Mads
影响因子：
--
作者：
Kaznessis, Yiannis N.
通讯作者：
Kaznessis, Yiannis N.
影响因子：
4.4
作者：
Gillespie, DT
通讯作者：
Gillespie, DT
DOI：
10.1038/nrg2775
发表时间：
2010-05
期刊：
Nature reviews. Genetics
影响因子：
--
作者：
通讯作者：
--
影响因子：
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作者：
Biliouris K;Daoutidis P;Kaznessis YN
通讯作者：
Kaznessis YN