文献信息
为什么放进合成菌群专题
从分子线路、信号串扰、正交调控到群落层级，理解 bottom-up 组装功能菌群。
核心解读
要点 1
群落功能可以通过代谢物、信号分子、转录/翻译调控和正交线路被协调。
要点 2
单细胞线路优化和群落比例控制必须同步考虑。
要点 3
bottom-up 组装适合把微生物生态问题转化为可工程化模块。
和专题导读的连接
- 概念层：帮助区分“多个菌一起培养”和“成员/功能/互作可定义的合成菌群”。
- 方法层：为成员选择、代谢分工、交叉喂养、群体控制或 DBTL 迭代提供一个切入点。
- 应用层：可作为后续判断生物制造、农业、环境修复或宿主系统文章是否值得深入解读的参考框架。
摘要级内容摘记
Microbes compete and cooperate with each other via a variety of chemicals and circuits. Recently, to decipher, simulate, or reconstruct microbial communities, many researches have been engaged in engineering microbiomes with bottom-up synthetic biology approaches for diverse applications. However, they have been separately focused on individual perspectives including genetic circuits, communications tools, microbiome engineering, or promising applications. The strategies for coordinating microbial ecosystems based on different regulation circuits have not been systematically summarized, which calls for a more comprehensive framework for the assembly of microbial communities. In this review, we summarize diverse cross-talk and orthogonal regulation modules for de novo bottom-up assembling functional microbial ecosystems, thus promoting further consortia-based applications. First, we review the cross-talk communication-based regulations among various microbial communities from intra-species and inter-species aspects. Then, orthogonal regulations are summarized at metabolites, transcription, translation, and post-translation levels, respectively. Furthermore, to give more details for better design and optimize various microbial ecosystems, we propose a more comprehensive design-build-test-learn procedure including function specification, chassis selection, interaction design, system build, performance test, modeling analysis, and global optimization. Finally, current challenges and opportunities are discussed for the further development and application of microbial ecosystems.