合成生物学 ›› 2022, Vol. 3 ›› Issue (6): 1250-1261.DOI: 10.12211/2096-8280.2022-024
唐士茗, 胡纪元, 郑穗平, 韩双艳, 林影
收稿日期:
2022-04-21
修回日期:
2022-09-06
出版日期:
2022-12-31
发布日期:
2023-01-17
通讯作者:
林影
作者简介:
基金资助:
Shiming TANG, Jiyuan HU, Suiping ZHENG, Shuangyan HAN, Ying LIN
Received:
2022-04-21
Revised:
2022-09-06
Online:
2022-12-31
Published:
2023-01-17
Contact:
Ying LIN
摘要:
随着代谢工程及合成生物学技术的发展,化学品高效生物合成与绿色制造成为可能。高效生物合成体系的设计与构建是绿色生物制造的核心,其理论体系建立及关键技术突破,将为实现绿色生物制造领域高效生产及资源与环境可持续发展提供有力支撑。本文借助代谢途径模块设计的案例,探讨化合物生物合成过程中潜在通用模块设计原则、设计工具,以及基于无细胞蛋白合成体系的代谢模块快速构建及测试的方法,将突破生物合成途径多基因、多模块“设计-构建-测试”(Design-Build-Test cycle,DBT cycle)高效循环迭代的技术瓶颈。结合机器学习方法的应用,将使“设计-构建-测试”向“设计-构建-测试-学习”(Design-Build-Test-Learn cycle,DBTL cycle)进一步延伸,对高效合成模块的“精准-鲁棒性”设计与构建、推动合成生物学科学与技术发展具有重要意义。
中图分类号:
唐士茗, 胡纪元, 郑穗平, 韩双艳, 林影. 基于无细胞体系的生物合成代谢模块设计、构建与快速途径原型[J]. 合成生物学, 2022, 3(6): 1250-1261.
Shiming TANG, Jiyuan HU, Suiping ZHENG, Shuangyan HAN, Ying LIN. Designing, building and rapid prototyping of biosynthesis module based on cell-free system[J]. Synthetic Biology Journal, 2022, 3(6): 1250-1261.
衡量标准 | 细胞生物合成 | 无细胞生物合成 |
---|---|---|
途径设计 | 胞内代谢网络复杂 | 自由灵活 |
生产效率 | 碳通量被用于细胞生长及产生副产物 | 碳通量最大程度流向目标化合物 |
物质传输 | 具有选择性屏障 | 直接添加底物,产物易提取 |
产物分离纯化 | 副产物较多 | 较容易 |
毒性影响 | 毒性物质影响细胞生长 | 没有生存限制 |
成本 | 较低 | 酶的制备和辅因子成本 |
成熟性 | 多年实践经验 | 初具规模 |
表1 细胞生物合成与无细胞生物合成的比较
Tab. 1 Comparison of cellular and cell-free biosynthesis
衡量标准 | 细胞生物合成 | 无细胞生物合成 |
---|---|---|
途径设计 | 胞内代谢网络复杂 | 自由灵活 |
生产效率 | 碳通量被用于细胞生长及产生副产物 | 碳通量最大程度流向目标化合物 |
物质传输 | 具有选择性屏障 | 直接添加底物,产物易提取 |
产物分离纯化 | 副产物较多 | 较容易 |
毒性影响 | 毒性物质影响细胞生长 | 没有生存限制 |
成本 | 较低 | 酶的制备和辅因子成本 |
成熟性 | 多年实践经验 | 初具规模 |
图1 淀粉生物基无细胞生物合成途径模块化设计GDH—葡萄糖脱氢酶;DHAD—二羟酸脱水酶;KDGA—2-酮-3-脱氧葡萄糖酸醛缩酶;ALDH—甘油醛脱氢酶;L-LDH—L-乳酸脱氢酶;PDC—丙酮酸脱羧酶;ADH—乙醇脱氢酶;ALS—乙酰乳酸合成酶; KARI—酮醇酸还原异构酶;KDC—2-酮酸脱羧酶
Fig. 1 Modular design of cell-free biosynthetic pathway from starch-base materialsGDH—glucose dehydrogenase; DHAD—dihydroxy acid dehydratase; KDGA—2-keto-3-desoxy gluconate aldolase; ALDH—glyceraldehyde dehydrogenase; L-LDH—L-lactate dehydrogenase; PDC—pyruvate decarboxylase; ADH—alcohol dehydrogenase; ALS—acetolactate synthase; KARI—ketolacid reductoisomerase; KDC—2-ketoacid decarboxylase
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