主要从事Crabtree阴性酵母合成进化生物学研究。利用理性设计与基因组编辑进化，结合系统生物学解析，阐明酵母底盘细胞生理代谢特性的分子基础，以设计-构建-测试-学习(DBTL)的方式循环迭代提升酵母底盘的代谢效能，构筑高效化学品细胞工厂。
具体研究内容包括：
1. 快速生长酵母的设计与调控
2. 酵母群体进化与多组学分析
3. 萜类合酶的趋同与趋异进化
4. 基因组编辑与进化工具开发
代表论著：
Muneer Ahmed Qazi, Qinhong Wang, Zongjie Dai*, Sophorolipids bioproduction in the yeast Starmerella bombicola: Current trends and perspectives. Bioresource Technology, 2022, 346:126593.
Ge Zhang, Huan Wang, Ze Zhang, Kevin J Verstrepen, Qinhong Wang, Zongjie Dai*: Metabolic engineering of Yarrowia lipolytica for terpenoids production: advances and perspectives. Critical Reviews in Biotechnology, 2021:1-16.
Zongjie Dai#, Yan Zhu#, Hongjun Dong, Chunhua Zhao, Yanping Zhang*, Yin Li, Enforcing ATP hydrolysis enhanced anaerobic glycolysis and promoted solvent production in Clostridium acetobutylicum, Microbial Cell Factories 2021, 20(1):149.
Lu Shan, Zongjie Dai*, Qinhong Wang: Advances and opportunities of CRISPR/Cas technology in bioengineering non-conventional yeasts. Frontiers in Bioengineering and Biotechnology 2021, 9:765396.
Zongjie Dai, Mingtao Huang, Yun Chen, Verena Siewers, Jens Nielsen*，Global rewiring of cellular metabolism renders Saccharomyces cerevisiae Crabtree negative, Nature Communications, 2018, 9(1): 3059.
 
Zongjie Dai, Hongjun Dong, Yanping Zhang*, Yin Li, Elucidating the contributions of multiple alcohol dehydrogenases to butanol and ethanol production in Clostridium acetobutylicum, Scientific Reports, 2016, 6(1): 28189.
 
Mathew M Jessop-Fabre#, Tadas Jako？iūnas#, Vratislav Stovicek, Zongjie Dai, Michael K Jensen, Jay D Keasling, Irina Borodina*, EasyClone-MarkerFree: A vector toolkit for marker-less integration of genes into Saccharomyces cerevisiae via CRISPR-Cas9, Biotechnology Journal, 2016, 11(8): 1110-1117.
Yiming Zhang, Zongjie Dai, Anastasia Krivoruchko, Yun Chen, Verena Siewers, Jens Nielsen*, Functional pyruvate formate lyase pathway expressed with two different electron donors in Saccharomyces cerevisiae at aerobic growth, FEMS Yeast Research, 2015, 15(4).
Zongjie Dai, Jens Nielsen*，Advancing metabolic engineering through systems biology of industrial microorganisms, Current Opinion in Biotechnology, 2015, 36: 8-15.
Zongjie Dai, Hongjun Dong, Yan Zhu, Yanping Zhang, Yin Li*, Yanhe Ma, Introducing a single secondary alcohol dehydrogenase into butanol-tolerant Clostridium acetobutylicum Rh8 switches ABE fermentation to high level IBE fermentation, Biotechnology for Biofuels, 2012, 5(1): 44.
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