Assembling stable syntrophic Escherichia coli communities by comprehensively identifying beneficiaries of secreted goods.
Assembling stable syntrophic Escherichia coli communities by comprehensively identifying beneficiaries of secreted goods.
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DOI：
10.1016/j.cels.2021.08.002
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发表时间：
2021-11-17
期刊：
影响因子：
9.3
通讯作者：
Mitchell A
中科院分区：
文献类型：
--
作者：
Noto Guillen M;Rosener B;Sayin S;Mitchell A
代谢交叉喂养经常是天然微生物群落中互利关系的基础，并且经常被用来组装合成微生物群落。我们系统地鉴定了所有适合在大肠杆菌中进行交叉喂养的单基因敲除，并利用这些信息来组装互养群落。大多数受益于共享物品的菌株在氨基酸、核苷酸和维生素的生物合成方面存在功能障碍，或者在中心碳代谢中存在突变体。我们测试了 1,444 个菌株对的交叉喂养效力，并绘制了突变体所有功能组之间的相互作用网络。该网络表明维生素营养缺陷型是最佳合作者。最后，我们监测了由数十个营养缺陷型组成的集合如何随时间变化，并观察到它们快速且反复地合并成主要由维生素营养缺陷型组成的七个菌株群落。新兴财团的组成表明，它们是通过多重交叉喂养相互作用而稳定下来的。我们的结论是，维生素是理想的共享物品，因为它们优化联盟的增长，同时仍然强加成员的相互依赖。
Metabolic cross-feeding frequently underlies mutualistic relationships in natural microbial communities and is often exploited to assemble synthetic microbial consortia. We systematically identified all single-gene knockouts suitable for imposing cross-feeding in Escherichia coli and used this information to assemble syntrophic communities. Most strains benefitting from shared goods were dysfunctional in biosynthesis of amino-acids, nucleotides, and vitamins or mutants in central carbon metabolism. We tested cross-feeding potency in 1,444 strain pairs and mapped the interaction network between all functional groups of mutants. This network revealed that auxotrophs for vitamins are optimal cooperators. Lastly, we monitored how assemblies composed of dozens of auxotrophs change over time and observed they rapidly and repeatedly coalesced to seven strain consortia composed primarily from vitamin auxotrophs. The composition of emerging consortia suggests they were stabilized by multiple cross-feeding interactions. We conclude that vitamins are ideal shared goods since they optimize consortium growth while still imposing member co-dependence.
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