聚焦基于代谢网络的数字细胞建模，整合“干”“湿”实验技术手段，实现细胞的精准模拟，指导生物系统的理性设计。

   

071005-微生物学
071010-生物化学与分子生物学
086000-生物与医药

合成生物学
系统生物学
代谢工程

2012-09--2018-06   华东理工大学   博士学位
2008-09--2012-06   华中农业大学   学士学位

   

2024-01~现在, 中国科学院深圳先进技术研究院, 研究员
2023-02~2024-01,中国科学院深圳先进技术研究院, 副研究员
2018-02~2022-12,查尔姆斯理工大学, 博士后

近年来，一作或通讯文章发表于PNAS（4篇）、Nature Protocols、Molecular Systems Biology、Nucleic Acids Research等期刊；合作文章发表于Cell、Nature Catalysis、Nature Chemical Biology等期刊。

（1） Single-cell omics analysis with genome-scale metabolic modeling, CURRENT OPINION IN BIOTECHNOLOGY, 2024, 通讯作者
（2） Flux regulation through glycolysis and respiration is balanced by inositol pyrophosphates in yeast, CELL, 2023, 第 5 作者
（3） Engineering yeast mitochondrial metabolism for 3-hydroxypropionate production, BIOTECHNOLOGY FOR BIOFUELS AND BIOPRODUCTS, 2023, 第 3 作者
（4） Engineering yeast for high-level production of diterpenoid sclareol, METABOLIC ENGINEERING, 2023, 第 3 作者
（5） Deep learning-based k(cat) prediction enables improved enzyme-constrained model reconstruction, NATURE CATALYSIS, 2022, 第 5 作者
（6） Engineering cofactor supply and recycling to drive phenolic acid biosynthesis in yeast (vol 18, pg 520, 2022), NATURE CHEMICAL BIOLOGY, 2022, 第 6 作者
（7） Yeast has evolved to minimize protein resource cost for synthesizing amino acids, PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2022, 第 1 作者
（8） Improving recombinant protein production by yeast through genome-scale modeling using proteome constraints, NATURE COMMUNICATIONS, 2022, 第 2 作者
（9） Genome-scale modeling of yeast metabolism: retrospectives and perspectives, FEMS YEAST RESEARCH, 2022, 第 1 作者
（10） GotEnzymes: an extensive database of enzyme parameter predictions, NUCLEIC ACIDS RESEARCH, 2022, 第 2 作者
（11） Proteome allocations change linearly with the specific growth rate of Saccharomyces cerevisiae under glucose limitation, NATURE COMMUNICATIONS, 2022, 第 3 作者
（12） Proteome constraints reveal targets for improving microbial fitness in nutrient-rich environments, MOLECULAR SYSTEMS BIOLOGY, 2021, 第 1 作者
（13） Mathematical modelling of proteome constraints within metabolism, CURRENT OPINION IN SYSTEMS BIOLOGY, 2021, 第 1 作者
（14） Yeast optimizes metal utilization based on metabolic network and enzyme kinetics, PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2021, 第 1 作者
（15） Yeast metabolic innovations emerged via expanded metabolic network and gene positive selection, MOLECULAR SYSTEMS BIOLOGY, 2021, 第 8 作者
（16） Engineering yeast metabolism for the discovery and production of polyamines and polyamine analogues, NATURE CATALYSIS, 2021, 第 4 作者
（17） In vitro turnover numbers do not reflect in vivo activities of yeast enzymes, PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2021, 第 1 作者
（18） Genome-scale modeling forBacillus coagulansto understand the metabolic characteristics, BIOTECHNOLOGY AND BIOENGINEERING, 2020, 第 1 作者
（19） Combining mechanistic and machine learning models for predictive engineering and optimization of tryptophan metabolism, NATURE COMMUNICATIONS, 2020, 第 9 作者
（20） Rewiring carbon metabolism in yeast for high level production of aromatic chemicals, NATURE COMMUNICATIONS, 2019, 第 4 作者
（21） Energy metabolism controls phenotypes by protein efficiency and allocation, PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2019, 第 1 作者
（22） Systematic inference of functional phosphorylation events in yeast metabolism, BIOINFORMATICS, 2017, 第 1 作者
（23） Flux control through protein phosphorylation in yeast, FEMS YEAST RESEARCH, 2016, 第 1 作者
（24） Effect of pH, glucoamylase, pullulanase and invertase addition on the degradation of residual sugar in L-lactic acid fermentation by Bacillus coagulans HL-5 with corn flour hydrolysate, JOURNAL OF THE TAIWAN INSTITUTE OF CHEMICAL ENGINEERS, 2016, 第 4 作者
（25） Systematic development and optimization of chemically defined medium supporting high cell density growth of Bacillus coagulans, APPLIED MICROBIOLOGY AND BIOTECHNOLOGY, 2016, 第 1 作者

现指导学生

李永珠  硕士研究生  086000-生物与医药