Work at JHU
Publications († co-first author; * corresponding author; representative paper)
Coming soon!
Work before JHU
Patents
2. Qingyun Dan, Yan Chiu, Yiou Rong, Jay D Keasling (2026). Hybrid polyketide synthase biosynthesis of ketones and derivatives thereof. (US Provisional Patent Application filed; No. 64/151,560)
1. Qingyun Dan, Namil Lee, Yan Chiu, Jay D Keasling (2025). Hybrid polyketide synthase biosynthesis of alcohols and derivatives thereof. (International PCT Patent Application filed; No. PCT/US2025/028766)
Publications
15. Qingyun Dan*†, Xina Wang†, Yan Chiu†, Soonkyu Hwang, Justin J Baerwald, Yilin Li, Lucas M Waldburger, Chang Dou, Yiou Rong, Xavier B Tao, Chenyi Li, Ning Qin, Zhen Liu, Seokjung Cheong, Yan Chen, Jennifer W Gin, Matthias Schmidt, Rachel E Sullivan, Tyler WH Backman, Christopher J Petzold, Jay D Keasling* (2027). Orchestrating polyketide synthase-derived aldehyde metabolism for Streptomyces biomanufacturing. Metabolic Engineering, 99, 102570. [Link]
14. Kevin Yin, Alexander Landera, Namil Lee, Anthony T Iavarone, Suzanne M Kosina, Thomas D Young, Kai Deng, Justin Baerwald, Yan Chen, Jennifer W Gin, Riley Benedict, Yan Chiu, Ezechinyere Ukabiala, Methun Kamruzzaman, Kunal Poorey, Trent R Northen, Christopher J Petzold, Anthe George, Pablo Cruz-Morales, Qingyun Dan*, & Jay D Keasling* (2026). Polyketide synthase-based controlled synthesis of polycyclopropanated fuel molecules. Nature Communications, 17, 6904. [Link]
13. Chunjun Zhan†, Guangxu Lan†, Qingyun Dan, Ning Qin, Allie Pearson, Peter Mellinger, Yuzhong Liu, Zilong Wang, Seokjung Cheong, Chang Dou, Chenyi Li, Robert W Haushalter*, Jay D Keasling* (2025). Hybrid biological-chemical strategy for converting polyethylene into a recyclable plastic monomer using engineered Corynebacterium glutamicum. Metabolic Engineering, 90, 106-116. [Link]
12. Namil Lee, Woori Kim, Ji Hun Kim, Yongjae Lee, Soonkyu Hwang, Gahyeon Kim, Hyeseong Kim, Qingyun Dan, Matthias Schmidt, Yeo Joon Yoon, Suhyung Cho, Bernhard Palsson*, Jay D Keasling*, Byung-Kwan Cho* (2025). Regulatory orchestration of FK506 biosynthesis in Streptomyces tsukubaensis NRRL 18488 revealed through systematic analysis. iScience, 28(6), 112698. [Link]
11. Qingyun Dan, Yan Chiu, Namil Lee, Jose Henrique Pereira, Behzad Rad, Xixi Zhao, Kai Deng, Yiou Rong, Chunjun Zhan, Yan Chen, Seokjung Cheong, Chenyi Li, Jennifer W Gin, Andria Rodrigues, Trent R Northen, Tyler WH Backman, Edward EK Baidoo, Christopher J Petzold, Paul D Adams, Jay D Keasling* (2025). A polyketide-based biosynthetic platform for diols, amino alcohols and hydroxy acids. Nature Catalysis, 8(2), 147-161. Featured in UCB news. [Link]
10. Elias Englund, Matthias Schmidt, Alberto A Nava, Sarah Klass, Leah Keiser, Qingyun Dan, Leonard Katz, Satoshi Yuzawa, Jay D Keasling* (2023). Biosensor guided polyketide synthases engineering for optimization of domain exchange boundaries. Nature Communications, 14(1), 4871. [Link]
9. Chunjun Zhan, Namil Lee, Guangxu Lan, Qingyun Dan, Aidan Cowan, Zilong Wang, Edward EK Baidoo, Ramu Kakumanu, Bridget Luckie, Rita C Kuo, Joshua McCauley, Yuzhong Liu, Luis Valencia, Robert W Haushalter*, Jay D Keasling* (2023). Improved polyketide production in C. glutamicum by preventing propionate-induced growth inhibition. Nature Metabolism, 5(7), 1127-1140. [Link]
8. Jing Huang, Andrew Quest, Pablo Cruz-Morales, Kai Deng, Jose Henrique Pereira, Devon Van Cura, Ramu Kakumanu, Edward EK Baidoo, Qingyun Dan, Yan Chen, Christopher J Petzold, Trent R Northen, Paul D Adams, Douglas S Clark*, Emily P Balskus, John F Hartwig*, Aindrila Mukhopadhyay*, Jay D Keasling* (2023). Complete integration of carbene-transfer chemistry into biosynthesis. Nature, 617, 403–408. [Link]
7. Samantha P Kelly†, Vikram V Shende†, Autumn R Flynn, Qingyun Dan, Ying Ye, Janet L Smith, Sachiko Tsukamoto, Matthew S Sigman*, David H Sherman* (2022). Data science-driven analysis of substrate-permissive diketopiperazine reverse prenyltransferase NotF: applications in protein engineering and cascade biocatalytic synthesis of (−)-eurotiumin A. Journal of the American Chemical Society, 144(42), 19326-19336. [Link]
6. Yuzhong Liu†, Pablo Cruz-Morales†, Amin Zargar, Michael S Belcher, Bo Pang, Elias Englund, Qingyun Dan, Kevin Yin, Jay D Keasling* (2021). Biofuels for a sustainable future. Cell, 184(6), 1636-1647. [Link]
5. Meredith A Skiba, Collin L Tran, Qingyun Dan, Andrew P Sikkema, Zachary Klaver, William H Gerwick, David H Sherman, Janet L Smith* (2020). Repurposing the GNAT fold in the initiation of polyketide biosynthesis. Structure, 28(1), 63-74. [Link]
4. Qingyun Dan†, Sean A Newmister†, Kimberly R Klas, Amy E Fraley, Timothy J McAfoos, Amber D Somoza, James D Sunderhaus, Ying Ye, Vikram V Shende, Fengan Yu, Jacob N Sanders, W Clay Brown, Le Zhao, Robert S Paton, KN Houk, Janet L Smith, David H Sherman*, Robert M Williams* (2019). Fungal indole alkaloid biogenesis through evolution of a bifunctional reductase/Diels–Alderase. Nature Chemistry, 11(11), 972-980. Cover article; Evaluated by F1000. [Link]
3. Meredith A Skiba†, Marissa M Bivins†, John R Schultz, Steffen M Bernard, William D Fiers, Qingyun Dan, Sarang Kulkarni, Peter Wipf, William H Gerwick, David H Sherman, Courtney C Aldrich, Janet L Smith* (2018). Structural basis of polyketide synthase O-methylation. ACS Chemical Biology, 13(12), 3221-3228. [Link]
2. Meredith A Skiba, Finn P Maloney, Qingyun Dan, Amy E Fraley, Courtney C Aldrich, Janet L Smith*, W Clay Brown* (2018). PKS–NRPS enzymology and structural biology: considerations in protein production. Methods in Enzymology, 604, 45-88. [Link]
1. Amy E Fraley, Marc Garcia-Borràs, Ashootosh Tripathi, Dheeraj Khare, Eduardo V Mercado-Marin, Hong Tran, Qingyun Dan, Gabrielle P Webb, Katharine R Watts, Phillip Crews, Richmond Sarpong, Robert M Williams, Janet L Smith, KN Houk*, David H Sherman* (2017). Function and structure of MalA/MalA′, iterative halogenases for late-stage C–H functionalization of indole alkaloids. Journal of the American Chemical Society, 139(34), 12060-12068. [Link]