Yousong Ding

Yousong Ding, Ph.D.

Associate Professor

Department: Medicinal Chemistry
Business Phone: (352) 273-7742
Business Email: yding@cop.ufl.edu

About Yousong Ding

Yousong Ding, Ph.D., an associate professor of medicinal chemistry, received his B.S. in applied chemistry from Peking University. He pursued his M.S. studies about fungal secondary metabolite biosynthesis at the University of Nebraska under the direction of Dr. Liangcheng Du. He further expanded his expertise in the natural product field during his Ph.D. training with Dr. David Sherman at the University of Michigan. Dr. Ding then worked as a postdoctoral scholar in Dr. Frances H. Arnold’s laboratory at the California Institute of Technology. In the Arnold laboratory, he applied principles of protein engineering and synthetic biology to develop biocatalysts for the production of valuable chemicals and to understand herbicide metabolism. His long-term interests in developing drug molecules led him to take a position in Pfizer. This position allowed him to gain experience in pharmaceutical bioprocess development, and correspondingly he generated various types of biocatalysts used in bio-routes for lowering manufacturing costs of several drugs. In 2013, Dr. Ding started his position as an assistant professor in the Department of Medicinal Chemistry at the University of Florida. His research interests include natural product biosynthesis, drug discovery and development, synthetic biology, protein engineering, and chemical biology.

Research Profile

One primary goal of the Ding laboratory is to discover and develop small molecules and biologics as new therapeutic leads that address significant unmet medical needs such as drugs for obesity, cardiovascular, cancer, and infectious diseases. Nature offers a vast array of small molecules that have inspired the development of a number of marketed drugs, and continuously serve as a prolific source of new drug leads. The Ding laboratory is particularly interested in deciphering and employing the biosynthetic logics of these small molecules for drug discovery. One strategy employed in the laboratory involves identification and analysis of natural product biosynthetic systems from microbial genome data, heterologous production of encoded chemicals, structure determination, and bioactivity evaluation. Through designing novel production routes, developing capable hosts, and creating new/improved biocatalysts, the Ding laboratory will optimize chemical productivity and diversify structures of select candidates. In another research area, the Ding laboratory is interested in developing biocatalysts from different types of enzymes in natural products biosynthetic pathways and employing them to produce value-added chemicals. Researchers in the Ding laboratory gain broad training spanning organic chemistry, medicinal chemistry, biochemistry, microbiology, molecular biology, cell biology, protein engineering, synthetic biology, and bioprocess development.

Publications

2021
A Modular Synthetic Route Involving N-Aryl-2-nitrosoaniline Intermediates Leads to a New Series of 3-Substituted Halogenated Phenazine Antibacterial Agents.
Journal of medicinal chemistry. [DOI] 10.1021/acs.jmedchem.1c00168. [PMID] 33881312.
2021
Aldoximes are precursors of auxins in Arabidopsis and maize.
The New phytologist. [DOI] 10.1111/nph.17447. [PMID] 33959967.
2021
Fungal Epithiodiketopiperazines Carrying α,β-Polysulfide Bridges from Penicillium steckii YE, and Their Chemical Interconversion.
Chembiochem : a European journal of chemical biology. 22(2):416-422 [DOI] 10.1002/cbic.202000403. [PMID] 32816319.
2021
Heterologous production of cyanobacterial compounds.
Journal of industrial microbiology & biotechnology. [DOI] 10.1093/jimb/kuab003. [PMID] 33928376.
2020
Cyanobacterial Dihydroxyacid Dehydratases Are a Promising Growth Inhibition Target.
ACS chemical biology. 15(8):2281-2288 [DOI] 10.1021/acschembio.0c00507. [PMID] 32786290.
2020
Recent advances in the biosynthesis of RiPPs from multicore-containing precursor peptides.
Journal of industrial microbiology & biotechnology. 47(9-10):659-674 [DOI] 10.1007/s10295-020-02289-1. [PMID] 32617877.
2020
Waikikiamides A-C: Complex Diketopiperazine Dimer and Diketopiperazine-Polyketide Hybrids from a Hawaiian Marine Fungal Strain Aspergillus sp. FM242.
Organic letters. 22(11):4408-4412 [DOI] 10.1021/acs.orglett.0c01411. [PMID] 32433885.
2019
A Promiscuous Cytochrome P450 Hydroxylates Aliphatic and Aromatic C-H Bonds of Aromatic 2,5-Diketopiperazines.
Chembiochem : a European journal of chemical biology. 20(8):1068-1077 [DOI] 10.1002/cbic.201800736. [PMID] 30604585.
2019
Chemical and Metagenomic Studies of the Lethal Black Band Disease of Corals Reveal Two Broadly Distributed, Redox-Sensitive Mixed Polyketide/Peptide Macrocycles.
Journal of natural products. 82(1):111-121 [DOI] 10.1021/acs.jnatprod.8b00804. [PMID] 30636420.
2019
Direct Aromatic Nitration System for Synthesis of Nitrotryptophans in Escherichia coli.
ACS synthetic biology. 8(4):857-865 [DOI] 10.1021/acssynbio.8b00534. [PMID] 30865826.
2019
Effects of irisin on the differentiation and browning of human visceral white adipocytes.
American journal of translational research. 11(12):7410-7421 [PMID] 31934288.
View on: PubMed
2019
Rapid kill assessment of an N-arylated NH125 analogue against drug-resistant microorganisms.
MedChemComm. 10(5):712-716 [DOI] 10.1039/c8md00613j. [PMID] 31191861.
2018
A distributive peptide cyclase processes multiple microviridin core peptides within a single polypeptide substrate.
Nature communications. 9(1) [DOI] 10.1038/s41467-018-04154-3. [PMID] 29725007.
2018
Genetic background affects pathogenicity island function and pathogen emergence in Streptomyces.
Molecular plant pathology. 19(7):1733-1741 [DOI] 10.1111/mpp.12656. [PMID] 29316196.
2018
Heterologous Production of Microbial Ribosomally Synthesized and Post-translationally Modified Peptides.
Frontiers in microbiology. 9 [DOI] 10.3389/fmicb.2018.01801. [PMID] 30135682.
2018
High-Yield Production of Herbicidal Thaxtomins and Thaxtomin Analogs in a Nonpathogenic Streptomyces Strain.
Applied and environmental microbiology. 84(11) [DOI] 10.1128/AEM.00164-18. [PMID] 29602787.
2018
One-Pot Biocombinatorial Synthesis of Herbicidal Thaxtomins
ACS Catalysis. 8(11):10761-10768 [DOI] 10.1021/acscatal.8b03317.
2018
Photosynthetic Production of Sunscreen Shinorine Using an Engineered Cyanobacterium.
ACS synthetic biology. 7(2):664-671 [DOI] 10.1021/acssynbio.7b00397. [PMID] 29304277.
2018
Rational engineering of Streptomyces albus J1074 for the overexpression of secondary metabolite gene clusters.
Microbial cell factories. 17(1) [DOI] 10.1186/s12934-018-0874-2. [PMID] 29454348.
2018
Redesigning thiamin synthesis: Prospects and potential payoffs.
Plant science : an international journal of experimental plant biology. 273:92-99 [DOI] 10.1016/j.plantsci.2018.01.019. [PMID] 29907313.
2017
Antimicrobial peptide-inspired NH125 analogues: bacterial and fungal biofilm-eradicating agents and rapid killers of MRSA persisters.
Organic & biomolecular chemistry. 15(26):5503-5512 [DOI] 10.1039/c7ob01028a. [PMID] 28534905.
2017
Cyanobacterial Sfp-type phosphopantetheinyl transferases functionalize carrier proteins of diverse biosynthetic pathways.
Scientific reports. 7(1) [DOI] 10.1038/s41598-017-12244-3. [PMID] 28928426.
2017
Cytotoxic protein from the mushroom Coprinus comatus possesses a unique mode for glycan binding and specificity.
Proceedings of the National Academy of Sciences of the United States of America. 114(34):8980-8985 [DOI] 10.1073/pnas.1706894114. [PMID] 28784797.
2017
Engineered P450 biocatalysts show improved activity and regio-promiscuity in aromatic nitration.
Scientific reports. 7(1) [DOI] 10.1038/s41598-017-00897-z. [PMID] 28405004.
2016
An artificial self-sufficient cytochrome P450 directly nitrates fluorinated tryptophan analogs with a different regio-selectivity.
Biotechnology journal. 11(5):624-32 [DOI] 10.1002/biot.201500416. [PMID] 26743860.
2016
In vitro antifungal and antibiofilm activities of halogenated quinoline analogues against Candida albicans and Cryptococcus neoformans.
International journal of antimicrobial agents. 48(2):208-11 [DOI] 10.1016/j.ijantimicag.2016.04.019. [PMID] 27256584.
2016
Irisin exerts dual effects on browning and adipogenesis of human white adipocytes.
American journal of physiology. Endocrinology and metabolism. 311(2):E530-41 [DOI] 10.1152/ajpendo.00094.2016. [PMID] 27436609.
2016
Palladium-catalysed direct C-2 methylation of indoles.
Organic & biomolecular chemistry. 14(31):7443-6 [DOI] 10.1039/c6ob01281g. [PMID] 27424955.
2016
Promiscuous Pathogenicity Islands and Phylogeny of Pathogenic Streptomyces spp.
Molecular plant-microbe interactions : MPMI. 29(8):640-50 [DOI] 10.1094/MPMI-04-16-0068-R. [PMID] 27502745.
2016
Structural basis for precursor protein-directed ribosomal peptide macrocyclization.
Nature chemical biology. 12(11):973-979 [DOI] 10.1038/nchembio.2200. [PMID] 27669417.
2015
Irisin Controls Growth, Intracellular Ca2+ Signals, and Mitochondrial Thermogenesis in Cardiomyoblasts.
PloS one. 10(8) [DOI] 10.1371/journal.pone.0136816. [PMID] 26305684.
2014
Recent advances in biocatalyst discovery, development and applications.
Bioorganic & medicinal chemistry. 22(20):5604-12 [DOI] 10.1016/j.bmc.2014.06.033. [PMID] 25042559.
2006
Biosynthetic characterization and chemoenzymatic assembly of the cryptophycins. Potent anticancer agents from cyanobionts.
ACS chemical biology. 1(12):766-79 [PMID] 17240975.
View on: PubMed

Grants

Jun 2020 ACTIVE
NMR console upgrade for structural biology and metabolomics
Role: Faculty
Funding: NATL INST OF HLTH OD
Oct 2018 – Jul 2019
Testing of Early Feasibility of Streptomyces albus J1074-thx2 as a Production Strain of the Herbicide Thaxtomin
Role: Principal Investigator
Funding: KOCH BIOLOGICAL SOLUTIONS LLC
Jul 2018 ACTIVE
Accessing and expanding microbial chemical diversity by synthetic biology and new enzymology
Role: Principal Investigator
Funding: NATL INST OF HLTH NIGMS
Jun 2016 – May 2018
Developing synthetic biology approaches for the production of nitroaromatics
Role: Principal Investigator
Funding: UF DSR OPPORTUNITY FUND
May 2016 – May 2019
Engineering Biosystems for aromatic nitration
Role: Principal Investigator
Funding: US AIR FORCE RESEARCH LABORATORY
Jul 2015 – Dec 2017
Engineering Irisin for Understanding its Benefits to Obestiy
Role: Principal Investigator
Funding: US ARMY MED RES ACQUISITION
Jun 2015 – May 2016
Developing Biotechnological approaches for producing
Role: Principal Investigator
Funding: OAK RIDGE ASSO UNIVERSITIES
Jan 2012 – Dec 2016
Institutional Research Grant
Role: Project Manager
Funding: AMER CANCER SOC

Patents

Issued November 2018
Artificial Self-Sufficient Cytochrome P450S
#10,138,205

Education

Principal Scientist
2012-2013 · Bioprocess Development Group, Pfizer
Postdoctoral Fellow
2010-2012 · California Institute of Technology
Ph.D.
2010 · University of Michigan, Ann Arbor
M.S.
2004 · University of Nebraska
B.S.
2000 · Peking University

Teaching Profile

Courses Taught
2014-2021
PHA7980 Research for Doctoral Dissertation
2016-2017,2019-2020
PHA6435 Biosynthetic Logic of Medicinal Natural Products
2014-2020
PHA7979 Advanced Research
2015,2020
PHA6971 Research for Master’s Thesis
2014-2018,2020-2021
PHA6905C Research Procedures in Medicinal Chemistry
2015,2018-2021
PHA6935 Selected Topics in Pharmacy
2015-2016,2018-2021,2020-2021
GMS6009 Principles of Drug Action and Therapeutics
2014-2018,2020
PHA6910 Supervised Research
2015-2018,2020
PHA5439 Prin Med Chem-Pcol I
2014-2015,2018
PHA6447 Drug Design
2018
CHM7979 Advanced Research
2018
CHM7980 Research for Doctoral Dissertation
2016-2017
PHA5878C Pt Care 3: Cv and Pulm
2016-2017
PHA5782C Patient Care 2
2016-2017
PHA6934 Seminar in Medicinal Chemistry
2016
PHA4913 Undergraduate Research in Medicinal Chemistry
2016
PHA5906 Research in Med Chem
2015-2016
PHA5438 Medicinal Chemistry 2
2014
PHA5433 Funda Medicinal Chem
2021
PHA6894 Introduction to Graduate Studies

Contact Details

Phones:
Business:
(352) 273-7742
Emails:
Business:
yding@cop.ufl.edu