Stoddart Mechanostereochemistry Group

 

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Jonathan Barnes

jbarnes@u.northwestern.edu

Graduate Student

Hometown: Louisville, KY

Joined group: 2010

Left group: 2014


Education:

PhD - Northwestern University (2014)

MS - University of Kentucky (2006)

BS - University of Kentucky (2004)

Publications:

GOOGLE SCHOLAR PAGE

24) Fathalla, M.; Barnes, J. C.; Young, R. M.; Hartlieb, K. J.; Dyar, S. M.; Eaton, S. W.; Sarjeant, A. A.; Co, D. T.; Wasielewski, M. R.; Stoddart, J. F. Chem. Eur. J. 2014, DOI: 10.1002/chem.201403744.

23) Barnes, J. C.; Frasconi, M.; Young, R. M.; Khdary, N. H.; Liu, W.-G.; Dyar, S. M.; McGonigal, P. R.; Gibbs-Hall, I. C.; Diercks, C. S.; Sarjeant, A. A.; Stern, C. L.; Goddard, W. A., III; Wasielewski, M. R.; Stoddart, J. F. Solid-State Characterization and Photoinduced Intramolecular Electron Transfer in a Nanoconfined Octacationic Homo[2]Catenane. J. Am. Chem. Soc. 2014, 136, 10569—10572.

22) Dale, E. J.; Vermeulen, N. A.; Thomas, A. A.; Barnes, J. C.; Juríček, M.; Blackburn, A. K.; Strutt, N. L.; Sarjeant, A. A.; Stern, C. L.; Denmark, S. E.; Stoddart, J. F. ExCage. J. Am. Chem. Soc. 2014, 136, 10669—10682.

21) Witus, L. S.; Hartlieb, K. J.; Wang, Y.; Prokofjevs, A.; Frasconi, M.; Barnes, J. C.; Dale, E. J.; Fahrenbach, A. C.; Stoddart, J. F. Relative Contractile Motion of the Rings in a Switchable Palindromic [3]Rotaxane in Aqueous Solution Driven by Radical-Pairing Interactions. Org. Biomol. Chem. 2014, 12, 6089—6093.

20) Juríček, M.‡; Barnes, J. C.‡; Strutt, N. L.‡; Vermeulen, N. A.; Ghooray, K. C.; Dale, E. J.; McGonigal, P. R.; Blackburn, A. K.; Avestro, A.-J.; Stoddart, J. F. An ExBox [2]Catenane. Chem. Sci. 2014, 5, 2724—2731. ‡Authors contributed equally

19) Dyar, S. M.; Barnes, J. C.; Juríček, M.; Stoddart, J. F.; Co, D. T.; Young, R. M.; Wasielewski, M. R. Electron Transfer and Multi-Electron Accumulation in ExBox4+. Angew. Chem. Int. Ed. 2014, 53, 5371—5375.

18) Fathalla, M.; Strutt, N. L. Barnes, J. C.; Stern, C. L.; Ke, C.; Stoddart, J. F. Fluorescence Enhancement of a Porphyrin-Viologen Dyad via Pseudorotaxane Formation with Cucurbit[7]uril. Eur. J. Org. Chem. 2014, 2873—2877. Published as the Cover Article

17) Tarn, D.; Ferris, D. P.; Barnes, J. C.; Ambrogio, M. W.; Stoddart, J. F.; Zink, J. I. A Reversible Light-Operated Nanovalve on Mesoporous Silica Nanoparticles. Nanoscale 2014, 6, 3335—3343.

16) Juríček, M.; Strutt, N. L.; Barnes, J. C.; Butterfield, A. M.; Dale, E. J.; Baldridge, K. K.; Stoddart, J. F.; Siegel, J. S. Induced-Fit Catalysis of Corannulene Bowl-to-Bowl Inversion. Nature Chem. 2014, 6, 222—228.

15) Kung, C.-W.; Wang, T. C.; Mondloch, J. E.; Fairen-Jimenez, D.; Gardner, D. M.; Bury, W.; Klingsporn, J. M.; Barnes, J. C.; Van Duyne, R.; Stoddart, J. F.; Wasielewski, M. R.; Farha, O. K.; Hupp, J. T. Metal-Organic Framework Thin Films Composed of Free-Standing Acicular Nanorods Exhibiting Reversible Electrochromism. Chem. Mater. 2013, 25, 5012—5017.

14) Young, R. M.; Dyar, S. M.; Barnes, J. C.; Juríček, M.; Stoddart, J. F.; Co, D. T.; Wasielewski, M. R. Ulftrafast Conformational Dynamics of Electron Transfer in ExBox4+—Perylene. J. Phys. Chem. A 2013, 117, 12438—12448.

13) Barnes, J. C.; Juríček, M.; Vermeulen, N. A.; Dale, E. J.; Stoddart, J. F. Synthesis of ExnBox Cyclophanes. J. Org. Chem. 2013, 78, 11962—11969.

12) Juríček, M.‡; Barnes, J. C.‡; Dale, E. J.; Liu, W.-G.; Strutt, N. L.; Bruns, C. J.; Vermeulen, N. A.; Ghooray, K. C.; Sarjeant, A. A.; Stern, C. L.; Botros, Y. Y.; Goddard, W. A., III; Stoddart, J. F. Ex2Box: Interdependent Modes of Binding in a Two-Nanometer-Long Synthetic Receptor. J. Am. Chem. Soc. 2013, 135, 12736—12746. ‡Authors contributed equally

11) Barnes, J. C.; Fahrenbach, A. C.; Cao, D.; Dyar, S. M.; Frasconi, M.; Giesener, M. A.; Benitez,D.; Tkatchouk, E.; Chernyashevskyy, O.; Shin, W. H.; Li, H.; Sampath, S.; Stern, C. L.; Sarjeant, A. A.; Hartlieb, K. J.; Liu, Z.; Carmieli, R.; Botros, Y. Y.; Choi, J. W.; Slawin, A. M. Z.; Ketterson, J. B.; Wasielewski, M. R.; Goddard, W. A., III; Stoddart, J. F. A Radically Configurable Six-State Compound. Science, 2013, 339, 429—433.

10) Li, H.; Zhu, Z.; Fahrenbach, A. C.; Savoie, B. M.; Ke, C.; Barnes, J. C.; Lei, J.; Zhao, Y.-L.; Lilley, L. M.; Marks, T. J.; Ratner, M. A.; Stoddart, J. F. Mechanical Bond-Induced Radical Stabilization. J. Am. Chem. Soc. 2013, 135, 456—467.

9) Barnes, J. C.‡; Juricek, M‡; Strutt, N. L.; Frasconi, M.; Sampath, S.; Giesener, M. A.; McGrier, P. L.; Bruns, C. J.; Stern, C. L.; Sarjeant, A. A.; Stoddart, J. F. ExBox: A Polycyclic Aromatic Hydrocarbon Scavenger. J. Am. Chem. Soc., 2013, 135, 183–192. Published as the Cover Article ‡Authors contributed equally

8) Fahrenbach, A. C.; Warren, S. C.; Incorvati, J. T.; Avestro, A.-J.; Barnes, J. C.; Stoddart, J. F.; Grzybowski, B. A. Organic Switches for Surfaces and Devices. Adv. Mater., 2013, 3, 331–348.

7) Fahrenbach, A. C.; Sampath, S.; Late, D. J.; Barnes, J. C.; Kleinman, S. L.; Valley, N.; Hartlieb, K. J.; Liu, Z.; Dravid, V. P.; Schatz, G. C.; Van Duyne, R. P.; Stoddart, J. F. A Semiconducting Organic Radical Cationic Host-Guest Complex. ACS Nano, 2012, 6, 9964–9971.

6) Zhu, Z.; Fahrenbach, A. C.; Li, H.; Barnes, J. C.; Liu, Z.; Dyar, S. M.; Zhang, H.; Lei, J.; Carmieli, R.; Sarjeant, A.; Stern, C.; Wasielewski, M. R.; Stoddart, J. F.; Controlling Switching in Bistable [2]Catenanes by Combining Donor-Acceptor and Radical-Radical Interactions. J. Am. Chem. Soc. 2012, 134, 11709–11720.

5) Barnes, J. C., Fahrenbach, A. C.; Dyar, S. M.; Frasconi, M.; Giesener, M. A.; Zhu, Z.; Liu, Z.; Hartlieb, K. J.; Carmieli, R.; Wasielewski, M. R.; Stoddart, J. F. Mechanically-Induced Intramolecular Electron Transfer in a Mixed-Valence Molecular Shuttle. Proc. Natl. Acad. Sci. USA 2012, 109, 11546–11551. Published as the Cover Article

4) Li, Z.; Barnes, J. C., Bosoy, A.; Stoddart, J. F.; Zink, J. I. Mesoporous Silica Nanoparticles in Biomedical Applications. Chem. Soc. Rev. 2012, 41, 2590–2605.

3) Fahrenbach, A. C.; Barnes, J. C.; Lanfranchi, D. A.; Li, H.; Coskun, A.; Gassensmith, J. J.; Liu, Z.; Benítez, D.; Trabolsi, A.; Goddard, W. A., III; Elhabiri, M.; Stoddart, J. F. Solution–Phase Mechanistic Study and Solid–State Structure of a Tris(Bipyridinium Radical Cation) Inclusion Complex. J. Am. Chem. Soc. 2012, 134, 3061–3072.

2) Fahrenbach, A. C.; Barnes, J. C.; Li, H.; Benítez, D.; Basuray, A. N.; Fang, L.; Sue, C.-H.; Barin, G.; Dey, S. K.; Goddard, W. A., III; Stoddart, J. F. Measurement of the Ground-State Distributions in Bistable Mechanically Interlocked Molecules Using Slow Scan Rate Cyclic Voltammetry. Proc. Natl. Acad. Sci. USA 2011, 108, 20416–20421.

1) Dirk, L. M. A.; Schmidt, J. J.; Cai, Y.; Barnes, J. C., et al. Insights into the Substrate Specificity of Plant Peptide Deformylase, an Essential Enzyme with Potential for the Development of Novel Biotechnology Applications in Agriculture. Biochem. J. 2008, 413, 417–427.

Message:

I was born and raised in Louisville, KY. I obtained BS/MS degrees from the University of Kentucky where my research entailed the modeling, design, synthesis, and biological analysis of inhibitors of the enzyme peptide deformylase.

After graduation, I worked for a biotech company in Los Angeles - Synedgen,Inc. - developing novel antimicrobial derivatives of chitosan and I also designed biocompatible, hemostatic foams for the US military.

I then decided to go back to graduate school at Northwestern University in order to pursue that all-enabling degree. I officially joined the renowned Stoddart group in the fall of 2010 and my research focused on co–creating the ExBox series of molecular receptors, utilizing the radical molecular recognition of viologens to develop integrated materials, and exploring the emergent electrochemical and magnetic properties that result from nano–confinement of intimately stacked viologens.

In April of 2012, I was awarded a National Defense Science and Engineering Graduate (NDSEG) Fellowship by the Department of Defense. Additionally, I was awarded a Ryan Fellowship in July 2012 through the International Institute for Nanotechnology (IIN) at Northwestern University.

Chemistry aside, I love watching movies, reading, and playing basketball. I am an avid Lakers and UK basketball fan, and I am so proud of Calipari's first, and the school's eighth championship!

After graduating from the Stoddart group in February of 2014, I moved on to the Chemistry Department at MIT where I am currently a Howard Hughes Medical Institute - Life Sciences Research Foundation (HHMI-LSRF) Postdoctoral Fellow in Jeremiah Johnson's group. I am happy to explore the world of polymers and drug delivery and excited to see where the road takes me!

 

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