2025

43) Meizi Liu*, Yunhong Chen*, Junjun Yan, Qi Xiao, Guoping Zhao, Yanfei Zhang^#. Optogenetic Control the Activity of Pyruvate Decarboxylase in Saccharomyces cerevisiae for Tunable Ethanol Production. (2025)

42) Xue Yang^#, Yuyue Ma, Junjun Yan, Guoping Zhao^#, Yanfei Zhang^#. LATCH: a Linear Autocatalytic cycle Tailored for Carbon Harvesting. Green Carbon(2025) https://doi.org/10.1016/j.greenca.2025.10.003

41) Rutao Lin*, Yuyue Ma*, Guanghui Zhang, Xue Yang, Yu Yang^#, Guoping Zhao^#, Yanfei Zhang^#. Enhanced β-Carotene Production in Yarrowia lipolytica via Co-Utilization of Xylose and Acetic Acid. Journal of Agricultural and Food Chemistry (2025) https://doi.org/10.1021/acs.jafc.5c05077

40) Junjun Yan, Yunhong Chen, Yuyue Ma, Xue Yang, Yonghong Yao, Guoping Zhao^#, Yanfei Zhang^#. Efficient ergothioneine production through reconstruction of the methyl and sulfur supply systems in Escherichia coli. Trends in Biotechnology (2025)  https://doi.org/10.1016/j.tibtech.2025.09.014

39) Qi Xiao*, Jingjing Sh*, Lixian Wang, Guoping Zhao, Yanfei Zhang. Coupling genome-wide continuous perturbation with biosensor screening reveals the potential targets in yeast isopentanol synthesis network. Synthetic and Systems Biotechnology 10 (2025) 452–462. https://doi.org/10.1016/j.synbio.2024.12.010

2024

38) Meizi Liu*, Zuhui Li*, Jianfeng Huang*, Junjun Yan, Guoping Zhao^#, Yanfei Zhang^# OptoLacI: Optogenetically Engineered Lactose Operon Repressor LacI Responsive to Light instead of IPTG. Nucleic Acids Research 2024 1-14.  https://doi.org/10.1093/nar/gkae479

37) Qian Chen, Yunhong Chen, Zeming Hou, Yuyue Ma, Jianfeng Huang, Zhidan Zhang, Yefu Chen, Xue Yang^#, Yanfei Zhang^#, Guoping Zhao^#. Unlocking the formate utilization of wild-type Yarrowia lipolytica through adaptive laboratory evolution. Biotechnology Journal 20242400290. https://doi.org/10.1002/biot.202400290

36) Li Zhang*, Ling Tan*, Meizi Liu, Yunhong Chen, Yu Yang^#, Yanfei Zhang^#, Guoping Zhao. Quantitative measurement of cell-surface displayed proteins based on split-GFP assembly. Microbial Cell Factories 2024 23:108.  https://doi.org/10.1186/s12934-024-02386-1

35) Jianfeng Huang, Jinhui Liu, Huaming Dong, Jingjing Shi, Xiaoyan You^#, and Yanfei Zhang^#. Engineering of a substrate affinity reduced S-adenosyl-methionine synthase as a novel biosensor for growth-coupling selection of L-methionine overproducers, Applied Biochemistry and Biotechnology 2024 Vol. 196. https://doi.org/10.1007/s12010-023-04807-0

34) Yang, Xue, Zhang, Yanfei^#, & Zhao, Guoping^#. Artificial carbon assimilation: From unnatural reactions and pathways to synthetic autotrophic systems. Biotechnology Advances 70 (2024) 108294. 

https://doi.org/10.1016/j.biotechadv.2023.108294     

33) Ling Tan, Meizi Liu, Lixian Wang, Guoping Zhao, Yanfei Zhang, Flow cytometry-based high-throughput screening of synthetic peptides for palladium adsorption, Journal of Hazardous Materials 2024 Vol. 461 Pages 132656.  https://doi.org/10.1016/j.jhazmat.2023.132656

2023

32) Yang, X.^#, Mao, Z., Huang, J., Wang, R., Dong, H., Zhang, Y^#., & Ma, H^#. Improving pathway prediction accuracy of constraints-based metabolic network models by treating enzymes as microcompartments. Synthetic and systems biotechnology vol. 8,4 597-605. 12 Sep. 2023, https://doi.org/10.1016/j.synbio.2023.09.002

31) Zuhui Li*, Ran Ge*, Ling Tan, Wuyuan Zhang^#, and Yanfei Zhang^#, Photodecarboxylase Displayed on Microbial Cell-Surface for Enhanced Biocatalytic Performance. ChemCatChem 2023, e202300494. 

https://doi.org/10.1002/cctc.202300494

30) Dong, Huaming*, Xue Yang*, Jingjing Shi, Chunqiao Xiao^#, and Yanfei Zhang^#. Exploring the Feasibility of Cell-Free Synthesis as a Platform for Polyhydroxyalkanoate (PHA) Production: Opportunities and Challenges. Polymers 15, (2023) no. 10: 2333.

https://doi.org/10.3390/polym15102333

29) Ling Tan, Xindi Liu, Yanfei Zhang.Glutaraldehyde fixation promotes palladium and gold nanoparticles formation in yeast and enhances their catalytic activity in 4-nitrophenol reduction.Journal of Hazardous Materials Volume 446, 15 March 2023, 130696. https://doi.org/10.1016/j.jhazmat.2022.130696

2022

28) 褚鑫,王力为,许虹,张燕飞.工业生物技术的前沿科技[J]. 生物工程学报, 2022, 38(11): 4019~4026. DOI: 10.13345/j.cjb.220717

27) Zhang Y., Cortez, J.D. Hammer S.K., Carrasco-Lopez C., Garcia Echauri S.A.,Wiggins J.B., Wang W., Avalos J.L. Biosensor for branched-chain amino acid metabolism in yeast and applications in isobutanol and isopentanol production. Nature Communications 13, 270 (2022). https://doi.org/10.1038/s41467-021-27852-x

2021

26) Scott A Wegner, Jhong-Min Chen, Samantha S Ip, Yanfei Zhang, Deepak Dugar, José L Avalos, Engineering acetyl-CoA supply and ERG9 repression to enhance mevalonate production in Saccharomyces cerevisiae, Journal of Industrial Microbiology and Biotechnology, (2021). https://doi.org/10.1093/jimb/kuab050

2020年以前

25) Sarah K.H., Zhang Y., and Avalos J.L. (2020) Mitochondrial compartmentalization confers specificity to the 2-ketoacid recursive pathway: increasing isopentanol production in Saccharomyces cerevisiae.ACS Synth. Biol. 9, 3, 546-555.

https://doi.org/10.1021/acssynbio.9b00420

24) Zhang Y., Lane, S., Chen, J.-M., Hammer, S.K., Luttinger, J., Yang, L., Jin, Y.-S., Avalos, J.L. (2019) Xylose utilization stimulates mitochondrial production of isobutanol and 2-methyl-1-butanol in Saccharomyces cerevisiae. Biotechnology for Biofuels. 12(1):223. https://doi.org/10.1186/s13068-019-1560-2

23) Álvarez M.S., Zhang Y.. (2019) Sketching neoteric solvents for boosting drugs bioavailability. Journal of Controlled Release. 311-312: 225-232

22) Lane S., Zhang Y., Yun E.J., Ziolkowski L., Zhang G., Jin Y.-S., Avalos J.L. (2019) Xylose assimilation enhances production of isobutanol in engineered Saccharomyces cerevisiae. Biotechnology and Bioengineering. 117:372–381. DOI: 10.1002/bit.27202

21) Zhao E.M., Zhang Y., Mehl J., Park H., Lalwani M.A., Toettcher J.E., Avalos J.L. (2018) Optogenetic regulation of engineered cellular metabolism for microbial chemical production. Nature, 555: 683-687.  https://doi.org/10.1038/nature26141

20) Zhang Y, Avalos J.L. (2017) Traditional and novel tools to probe the mitochondrial metabolism in health and disease. WIREs Syst Biol Med. doi: 10.1002/wsbm.1373

19) Zhang Y., Qadri A. and Weiner J.H. (2015) The quinone-binding site of Acidithiobacillus ferrooxidans sulfide:quinone oxidoreductase controls both sulfide oxidation and quinone reduction. Biochemistry and Cell Biology, 10.1139/bcb-2015-0097

18) Zhang Y., and Weiner J.H. (2014) Characterization of the kinetics and electron paramagnetic resonance spectroscopic properties of Acidithiobacillus ferrooxidans Sulfide:Quinone Oxidoreductase (SQR). Archives of Biochemistry and Biophysics 564:110–119

17) Zhang Y., and Weiner J.H. (2014) A simple semi-quantitative in vivo method using H₂S detection to monitor sulfide metabolizing enzymes. BioTechniques 57:208-210.

16) Zhang, Y., Yang, Y., Liu, J., and Qiu, G. (2013) Isolation and Characterization of Acidithiobacillus ferrooxidans Strain QXS-1 Capable of unusual Ferrous Iron and Sulfur Utilization. Hydrometallurgy. 136:51-57.

15) Zhang, Y., Peng, A., Yang, Y., Liu, J., and Qiu, G. (2013) Isolation, characterization of Acidiphilium sp. DX1-1 and ore bioleaching by this acidophilic mixotrophic organism. Trans Nonferrous Met Soc. China. 23:1774-1782.

14) Cherney, M.M., Zhang, Y., James, M.J. and Weiner, J.H.(2012) Structure-activity characterization of sulfide:quinone oxidoreductase variants. Journal of Structural Biology, 178: 319-328.

13) Cherney M.M.*, Zhang Y.*, Solomonson M., Weiner J.H., James M.N. (2010) Crystal structure of sulfide:quinone oxidoreductase from Acidithiobacillus ferrooxidans: insights into sulfidotrophic respiration and detoxification. J Mol Biol 398:292-305

(* Cherney M.M. and Zhang Y. contributed equally to this study.)

12) Zhang Y., Cherney M.M., Solomonson M., Liu J., James .MN., Weiner J.H. (2009) Preliminary X-ray crystallographic analysis of sulfide:quinone oxidoreductase from Acidithiobacillus ferrooxidans. Acta Crystallogr Sect F Struct Biol Cryst Commun 65:839-842

11) Zheng C., Zhang Y., Liu, Y.Wu, A.Xia, L.Zeng, J.Liu, J.Qiu, G. (2009) Characterization and reconstitute of a [Fe₄S₄] adenosine 5'-phosphosulfate reductase from Acidithiobacillus ferrooxidans. Curr Microbiol 58:586-592

10) Zeng L., Huang J., Zhang Y., Qiu G., Tong J., Chen D., Zhou J., Luo X. (2008) An effective method of DNA extraction for bioleaching bacteria from acid mine drainage. Appl Microbiol Biotechnol 79:881-888

9) Wu A., Zhang Y., Zheng C., Dai Y., Liu Y., Zeng J. (2008) Purification and enzymatic characteristics of cysteine desulfurase, IscS, in Acidithiobacillus ferrooxidans ATCC 23270. Trans. Nonferrous Met. Soc. China 18:1450-1457

8) Yang Y., Shi W., Wan M., Zhang Y., Zou L., Huang J., Qiu G. and Liu X. (2008) Diversity of bacterial communities in acid mine drainage from the Shen-bu copper mine, Gansu province, China. Electron. J. Biotechnol.11:108–117

7) Zeng J.*, Zhang Y.*, Liu Y., Zhang X., Xia L., Liu J. and Qiu G. (2007) Expression, purification and characterization of a cysteine desulfurase, IscS, from Acidithiobacillus ferrooxidans. Biotechnology Letters29(12):1983-90

(*Yanfei Zhang and Jia Zeng contributed equally to this work)

6) Zhang Y., Yang Y., Liu J. and Qiu G. (2007) Isolation, Characterization and Phylogenetic Analysis of Acidiphilium-like Bacteria from Acid Mine Drainage. Advanced Materials Research Vols. 20-21:473-476

5) Zhang Y., Zhang X., Wang Y., Yang Y., Liu J. (2007) Isolation, Characterization and Phylogenetic Analysis of an Acidophilic Heterotrophic Bacterium, Progress in Modern Biomedicine 7(11):1600~1604 (In Chinese)

4) Zhang Y., He H., Shi W., Wan M., Yang Y. (2006) Freeze-drying Cryoprotectant Optimized by Orthogonal Experiment for Acidithiobacillus ferrooxidans, Progress in Modern Biomedicine 6(5):5~7 (In Chinese)

3) Yang Y.，Zhang Y.，He H., Wan M.，Shi W., Qiu G. (2006) Optimization of frozen storage cryoprotectant for Acidithiobacillus ferrooxidans by orthogonal experiment, J. Cent. South Univ. (Science and Technology)37(5):891~895 (In Chinese)

2) Yang Y., Zhang Y., Huang J., Jiang D., Chen Y., Qiu G. (2006) Preservation of Acidithiobacillus ferrooxidans,J. Cent. South Univ. (Science and Technology) 37(3):472~475 (In Chinese)

1) Yang Y., Shi W., Zhang Y., Xu A., Liu J., Zou L., Qiu G.(2006)Biodesulfurization of coal by Acidithiobacillus ferrooxidans, Ecology and Environmnet 15(2):261~264 (In Chinese)

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