After Joining Rice: † equal contribution; * corresponding author; # undergraduate student.
2024
53. Yuan QC†, Zeng HZ†, Daniel TC†, Osikpa EC, Yang QC, Peddi A, Abramson LM#, Zhang BY, Gao X*. submitted, 2024.
52. Zeng HZ, Daniel TC, Lingineni A#, Chee K#, Talloo K#, and Gao X*. Recent advances in prime editing technologies and their promises for therapeutic applications. Current Opinion in Biotechnology. 2024, accepted (invited review).
2023
51. Deng XY†, Osikpa EC†, Yang J, Smith J, Gao X*, Gao Y*. Structural Basis of a Compact CRISPR-Cas13 Nuclease Activation. Nature Communications. 2023, 14:5845.
50. Gao X and Zeng HZ. Split and inducible base editors for precise in vivo base editing. Provisional patent filed, 2023.
49. Zeng HZ, Yuan QC†, Peng F†, Ma DC†, Lingineni A#, Chee K#, Gilberd P#, Osikpa EC, Sun Z*, Gao X*. A split and inducible adenine base editor for precise in vivo base editing. Nature Communications. 2023, 14:5573.
48. Hajikhani M, Zhang Y, Gao X, Lin MS*. Advances in CRISPR-based SERS detection of food contaminants: A review. Trends in Food Science & Technology. 2023, 138:615-627.
47. Alvarez VL, Tao Y, Li YR, Du W, Whittaker M, Zuris J, Thompson D, Zhu WL, Rameshbabu AP, Shu YL, Gao X, Ju J, Kong WJ, Liu XZ, Wu H, Kleinstiver B, Liu DR*, Chen ZY*. Treatment of monogenic and digenic dominant genetic hearing loss by CRISPR-Cas9 ribonucleoprotein delivery in vivo. Nature Communications. 2023, 14:5573.
46. Zhang Y, Song Y, Weng Z, Yang J, Avery L, Dieckhaus KD, Lai RY, Gao X, Zhang Y*. A point-of-care microfluidic biosensing system for rapid and ultrasensitive nucleic acid detection from clinical samples. Lab on a Chip. 2023, 23(17):3862-3873.
45. Liu S†, Nie QY†. Liu ZW, Patil S#, Gao X*. A fungal P450 deconstructs the 2,5-diazabicyclo[2.2.2]octane ring en route to the complete biosynthesis of 21R-citrinadin A, Journal of the American Chemical Society, 2023, 145(26):14251-14259.
44. Weng ZY†, Zheng Y†, Li HJ†, Wu GF, Song Y, Sun H, Lin MS, Gao X* Zhang Y*. CRISPR-Cas12a Biosensor Array for Ultrasensitive Detection of Unamplified DNA with Single-Nucleotide Polymorphic Discrimination. ACS Sensors, 2023, 8(4):1489-1499.
43. Daniel TC, Zeng HZ, Osikpa EC, Gao X*. Revolutionizing Genetic Disease Treatment Recent Technological Advances in Base Editing. Current Opinion in Biomedical Engineering. 2023, in press.
42. Weng ZY†, Zheng Y†, Yang J, Noor M, Lin MS, Wei QS, Gao, X* Zhang, Y*. CRISPR-Cas Biochemistry and CRISPR-Based Molecular Diagnostics. Angewandte Chemie International Edition. 2023, 62(17):e202214987.
41. Liu ZW†, Rivera S†, Newmister SA†, Sanders JN†, Nie QY, Liu S, Zhao FL, Ferrara J, Shi HW, Patil S#, Xu WJ, Miller MD, Phillips Jr, GN, Houk KN*, Sherman DH*, Gao X*. An NmrA-like enzyme-catalysed redox-mediated Diels-Alder cycloaddition with anti-selectivity. Nature Chemistry. 2023, 15(4):526-534.
Rice News | Eurekalert | Newsbreak
40. Ma DC†, Yuan QC†, Peng F†, Paredes V, Zeng HZ, Osikpa EC, Yang QC, Peddi A#, Patel A#, Liu MS#, Sun Z*, Gao X*. Engineered PROTAC-CID systems for mammalian inducible gene regulation. Journal of the American Chemical Society. 2023, 145, 3, 1593–1606.
39. Zhao FL†, Sun, CX†, Liu ZW, Cabrera A, Escobar M, Huang SY, Yuan QC, Nie QY, Lee Luo K, Lin A#, Vanegas J A#, Zhu T, Hilton IB, Gao X*. Multiplex base-editing enables combinatorial epigenetic regulation for genome mining of fungal natural products. Journal of the American Chemical Society. 2023, 145, 1, 413–421.
Rice News | ScienceDaily | Drugdiscoveryonline
38. Yang J†, Song Y†, Xiang D, Vanegas JA, You, Z, Zhang YX, Weng Z, Avery L, Dieckhaus KD, Peddi A, Gao Y*, Zhang Y*, and Gao X*. Engineered LwaCas13a with enhanced collateral activity for nucleic acid detection. Nature Chemical Biology. 2023, 19, 45-54.
2022
37. Gao X, Yuan QC, Drive-and-process arrays for multiplex genome engineering. Provisional patent filed, 2022.
36. Nie, Q.Y., Guo, S.Q., and Gao, X.* Unraveling the biosynthesis of penicillenols by genome mining polyketide synthase and nonribosomal peptide synthetase gene clusters in Penicillium citrinum. AIChE J. 2022, e17885. (invited research article)
35. Ditzel, A., Zhao, F.L., Gao, X., Phillips, G.N. Utilizing a Cell-free Protein Synthesis Platform for Natural Product Synthesis. preprint 2022, doi: 10.1101/2022.07.22.501086.
34. Gao X, Ma DC. PROTAC-CID systems for inducible gene regulations in mammalian cells, Provisional patent filed, 2022.
33. Li HJ†, Yang J†, Wu GF†, Weng ZY†, Song Y, Venegas JA#, Avery L, Gao Z, Sun H, Dieckhaus KD, Gao X* and Zhang Y*. Amplification-free and ultrasensitive nucleic acid detection via the synergy of CRISPR Cas13a and graphene field-effect transistors. Angewandte Chemie International Edition. 2022, e202203826.
32. Yuan QC and Gao X*. Multiplex base- and prime-editing with drive-and-process CRISPR arrays. Nature Communications. 2022, 13 (1), 1-13.
ScienceDaily | EurekAlert | Rice News and more…
31. Fu RJ, He W, Dou JZ, Villarreal OD, Bedford E, Wang H, Hou C, Zhang L, Wang YL, Ma DC, Chen YW, Gao X, Depken M, Xu H*. Systematic decomposition of sequence determinants governing CRISPR/Cas9 specificity. Nature Communications. 2022, 13, 474.
2021
30. Gao X, Yang J, and Gao Y, “Engineered Cas13 for ultrasensitive nucleic acid detection”, U.S. Provisional Application No. 63/285,304, 2021
29. Wang Q†, Yang J†, Zhong ZC, Vanegas JA#, Gao X*, Kolomeisky AB* A general theoretical framework to design base editors with reduced bystander effects. Nature Communications. 2021, 12, 6529.
Eurekalert | ScienceDaily | Frontlinegenomics Rice News
28. Liu ZW†, Zhao FL†, Zhao BY†, Yang J, Ferrara J, Sankaran B, Prasad BVV, Phillips GN Jr, Gao Y, Hu L, Zhu T*, Gao X*. “Structural and molecular basis of the stereoselective formation of the spirooxindole rings in the biosynthesis of citrinadins.” Nature Communications. 2021, 12, 4158.
Futurity | Scienmag | Technology Networks
27. Gao X, Lee S, and Ding N, Single base editing tools with precise accuracy. US Patent App. 17/104,562, 2021
2020
26. Lee SS†, Ding N†, Sun YD, Yuan TL, Li J, Yuan QC, Liu LZ, Yang J, Wang Q, Kolomeisky AB, Hilton IB, Zuo EW*, Gao X*. Single C-to-T substitution using engineered APOBEC3G-nCas9 base editors with minimum genome- and transcriptome-wide off-target effects. Science Advances. 2020, 15, 6(29), eaba1773.
25. Zhao FL, Liu ZW, Yang SY, Ding, Gao X*. Quinolactacin Biosynthesis Involves NRPSs Catalyzed Dieckmann Condensation to Form the Quinolone‐γ‐lactam Hybrid. Angewandte Chemie International Edition. 2020, 19, 59(43), 1910819114. (VIP Paper)
24. Liu WW, An CY, Shu X, Meng XX, Yao YP, Zhang J, Chen FS, Xiang H, Yang SY, Gao X*, and Gao SS*. A dual-plasmid CRISPR/Cas system for mycotoxin elimination in polykaryotic industrial fungi. ACS Synthetic Biology. 2020, 9, 8, 2087-2095.
23. Ding N, Lee SS†, Lieber-Kotz M, Yang J, Gao X*. Advances in Genome Editing for Genetic Hearing Loss. Advanced Drug Delivery Reviews. 2020, 168, 118-133.
22. Wan T, Chen Y, Pan Q, Xu X, Kang Y, Gao X, Huang F, Wu C, Ping Y*. Genome editing of mutant KRAS through supramolecular polymer-mediated delivery of Cas9 ribonucleoprotein for colorectal cancer therapy. Journal of Control Release. 2020, 322, 236-247.
2018
21. Hu JH, Miller SM, Geurts MH, Tang W, Chen L, Sun N, Zeina CM, Gao X, Rees HA, Lin Z, Liu DR*. Evolved Cas9 variants with broad PAM compatibility and high DNA specificity. Nature 2018, 556, 57-63.
20. Gao X†, Tao Y†, Lamas V, Huang M, Yeh WH, Pan B, Hu YJ, Hu JH, Thompson DB, Shu Y, Li Y, Wang H, Yang S, Xu Q, Polley DB, Liberman MC, Kong WJ, Holt JR, Chen ZY*, Liu DR*. Treatment of autosomal progressive hearing loss by in vivo delivery of genome editing agents. Nature 2018, 553, 217-221.
Before Rice:
19. Wang M, Zuris JA, Meng F, Rees HA, Sun S, Deng P, Han Y, Gao X, Pouli D, Wu Q, Georgakoudi I, Liu DR*, Xu Q*. Efficient Delivery of Genome-Editing Proteins using Bioreducible Lipid Nanoparticles. Proc. Natl. Acad. Sci. USA 2016, 113(11), 2868-2873.
18. Jiménez-Osés G†, Osuna S†, Gao X†, Sawaya MR, Gilson L, Collier SJ, Huisman GW*, Yeates TO*, Tang Y*, Houk KN*. The Role of Distant Mutations and Allosteric Regulation on LovD Active Site Dynamics. Nat. Chem. Biol. 2014, (6), 431-436.
17. Gao X, Jiang W, Jiménez-Osés G, Choi SM, Houk KN, Tang Y*, Walsh CT*. An Iterative, Bimodular Nonribosomal Peptide Synthetase that Converts Anthranilate and Tryptophan into Tetracyclic Asperlicins. Chem. Biol. 2013, 20, 870-878.
16. Walsh CT*, Haynes SW, Ames BD, Gao X, Tang Y. Short Pathways to Complexity Generation: Fungal Peptidyl Alkaloid Multicyclic Scaffolds from Anthranilate Building Blocks. ACS Chem. Biol. 2013, 19, 1366-1382.
15. Wang P, Bashiri G, Sawaya MR, Gao X, Yeates TO, Tang, Y*. Uncovering the Enzymatic Basis of the Final Steps in Oxytetracycline Biosynthesis.J. Am. Chem. Soc. 2013, 135, 7138-7141.
14. Haynes SW, Gao X, Tang Y*, Walsh CT*. Complexity Generation in Fungal Peptidyl Alkaloid Biosynthesis: a Two Enzyme Pathway to the Hexacyclic MDR Export Pump Inhibitor Ardeemin. ACS Chem. Biol. 2013, 19, 8(4),741-748.
13. Gao X, Haynes SW, Ames BD, Wang P, Vien LP, Walsh CT*, Tang Y*. Cyclization of fungal nonribosomal peptides by a terminal condensation-Like domain. Nat. Chem. Biol. 2012, 8, 823-830.
12. Wang P.†, Gao X.†, Tang Y.* Redox enzymes to generate complexity of natural products. Curr. Opin. Chem. Biol. 2012, 16, 362-369.
11. Haynes SW, Gao X, Tang Y*, Walsh CT* Assembly of asperlicin peptidyl alkaloids from anthranilate and tryptophan: a two-enzyme pathway generates heptacyclic scaffold complexity in asperlicin E. J. Am. Chem. Soc. 2012, 134, 17444-17447.
10. Wang P, Kim W, Pickens LB, Gao X, Tang Y*. Heterologous expression and manipulation of three tetracycline biosynthetic pathways. Angew. Chem. Int. Ed. 2012, 51, 11136-11140.
9. Gao X, Chooi Y, Ames BD, Wang P, Walsh CT, Tang Y*. Fungal quinazoline alkaloid biosynthesis: Genetic and biochemical investigation of the tryptoquialanine pathway in Penicillium aethiopicum. J. Am. Chem. Soc. 2011, 133, 2729-2741. (Highlighted by Nat. Chem. Biol.)
8. Haynes SW, Ames BD, Gao X, Tang Y, Walsh CT*. Unraveling terminal C-domain-mediated condensation in fungal biosynthesis of imidazoindolone metabolites. Biochemistry 2011, 50, 5668–5679.
7. Yang J, Yang S, Gao X, Yuan YJ*. Integrative investigation of lipidome and signal pathways in human endothelial cells under oxidative stress. Mol. Biosyst. 2011, 7, 2428-2440.
6. Ames BD, Haynes SW, Gao X, Tang Y, Walsh CT*. Complexity generation in fungal peptidyl alkaloid biosynthesis: oxidation of fumiquinazoline A to the heptacyclic hemiaminal fumiquinazoline C by the flavoenzyme Af12070 from Aspergillus fumigatus. Biochemistry 2011, 50, 8392-8406.
5. Wang P, Gao X, Deng Z*, Tang Y*. Genetic characterization of enzymes involved in the priming steps of oxytetracycline biosynthesis in Streptomyces rimosus. Microbiology 2011, 157, 2401-2409.
4. Gao X†, Wang P†, Tang Y*. Engineered polyketides biosynthesis and biocatalysis in Escherichia coli. App. Microbiol. Biotechnol. 2010, 88, 1233-1242.
3. Xie X, Pashkov I, Gao X, Guerrero J, Yeates TO, Tang Y*. Rational improvement of simvastatin synthase solubility in Escherichia coli leads to higher whole-cell biocatalytic activity. Biotechnol. Bioeng. 2009, 102, 20-28.
2. Gao X†, Xie X†, Pashkov I, Sawaya RM, Laidmen J, Zhang W, Cacho R, Yeates TO*, Tang Y*. Directed evolution and structural characterization of a simvastatin synthase. Chem. Biol. 2009, 16, 1064-1074. (2012 Presidential Green Chemistry Challenge Award)
1. Tang Y, Gao X, Xie X. LovD mutants exhibiting improved properties towards simvastatin synthesis. U.S. Patent No. 8,981,056 (Licensed)