Directory

Jonathan V. Sweedler's directory photo.

Jonathan V. Sweedler

Professor

Primary Affiliation

Neurotechnology for Memory and Cognition

Affiliations

Status Part-time Faculty

Home Department of Chemistry

Phone 244-7359

Email jsweedle@illinois.edu

Address 2255 Beckman Institute, 405 North Mathews Avenue

  • Biography

    Jonathan V. Sweedler received his Ph.D. in Chemistry from the University of Arizona in 1988, spent several years at Stanford before moving to the University of Illinois at Urbana-Champaign in 1991 where he has been ever since. At Illinois, he is currently the James R. Eiszner Family Endowed Chair in Chemistry, the Director of the School of Chemical Sciences, and has appointments in Neuroscience, Molecular and Integrative Physiology, Bioengineering and Medicine. His research interests focus on developing new approaches for assaying small volume samples, and in applying these methods to study novel interactions between cells. These analytical approaches include capillary separations, micro and nanofluidics, miniaturized separations, NMR, and mass spectrometry. He has used these tools to characterize small molecules and peptides in a range of animal models across the metazoan and in samples as small as individual cells and cellular domains. Sweedler has published more than 500 manuscripts and presented 500 invited lectures. He is currently the Editor-in-Chief for Analytical Chemistry.

    Jonathan Sweedler's research emphasizes two major thrusts. The first is the development and implementation of new analytical instrumentation and methodology related to metabolomics and peptidomics with much of our efforts directed toward scaling these methods to nanoliter and smaller volume levels. We are currently developing a range of mass spectrometry imaging approaches that allow thousands of individual cells to be characterized for their neuropeptide content, and a unique capillary electrophoresis approach that allows us to sample the cytoplasm for a selected neuron or glia and characterize its metabolome. Many of these measurement capabilities are unique and not currently available elsewhere.

    The second area involves characterizing cell to cell signaling across the metazoan; specific queries address what molecules are present in specific cells and networks, and how they change based on network activity, animal behavior, or even on exposure to drugs. Neuropeptides are perhaps the most diverse category of neuromodulators, and the Sweedler group has characterized the neuropeptides and prohormones in the sea slug, honey bee, urchin, planarian, songbird, and in several mammals. Literally hundreds of new prohormones and even more putative neuropeptides have been discovered, and the bioactivity of several of these novel neuropeptides characterized.  They collaborate with multiple groups at the BI and throughout the broader scientific community. 

    Sweedler's major sources of research funding are the NSF, NIH, DOE, and private foundations. Sweedler has been the PI for the past 15 years of the Neuroproteomics and Neurometabolomics of Cell to Cell Signaling, a P30 Center from NIDA.

  • Honors

    ACS Award in Analytical Chemistry sponsored by Battelle Memorial Institute (2014), American Chemical Society Fellow  (2011), The Heinrich-Emanuel Merck Prize, Merck Co. (2002), The Instrumentation Award, the ACS Analytical Division, (2002), Fellow in the American Association for the Advancement of Science (2001), Gill Prize in Measurement Science, the Gill Center (2000); Beneddetti-Pichler Award in Microanalysis, American Microchemical Society (1998); U of I University Scholar (1997); Arthur Findeis Award, ACS Analytical Division (1997); Camille Dreyfus Teacher Scholar (1996); Alfred P. Sloan Research Fellow (1995); Beckman Fellow, U of I Center for Advanced Study (1993); Searle Scholar Award, Chicago Community Trust (1993); David and Lucile Packard Fellowship (1992); NSF Young Investigator Award (1992); New Faculty Award, Henry and Camille Dreyfus Foundation (1991).

  • Research

    Jonathan Sweedler's research emphasizes the development and implementation of new analytical instrumentation and methodology, and the elucidation of the functional roles of multiple neurotransmitters and neuromodulatory compounds in individual neurons and well defined neuronal networks in the common neuronal model system, Aplysia californica. Much of his research group's work involves scaling a variety of methods to the nanoliter volume regime to allow the identification and quantitation of neuroactive compounds from cellular microenvironments.

    In terms of analytical methodology (primarily BSG research), Sweedler is developing new microseparation methods based on capillary electrophoresis and chromatography, and has demonstrated unique detection modes such as wavelength resolved fluorescence, radiochemical, and NMR. His group, in collaboration with other members of the Biological Sensors Group, improved the sensitivity so that high quality NMR spectra can be reliably obtained on picomole samples. One of the most significant methods under development in his laboratory involves profiling the peptides in individual neurons using matrix-assisted laser desorption/ionization (MALDI) time-of-flight mass spectrometry.

    A large subset of his group's research (primarily within the NeuroTech Group) is designed to understand the molecular (chemical) nature of learning and behavior. Using the techniques described above, they are studying the neurotransmitters and neuromodulatory compounds used in simple and well-defined invertebrate neuronal networks, such as the bag cell neurons that control aspects of reproduction and several groups of neurons involved with feeding in Aplysia californica. They have discovered many cases of previously unknown processing of known neuropeptides, as well as previously unknown peptides. Increasing our understanding of the functional roles of cotransmission in relatively simple neuronal systems directly contributes to the Biological Intelligence research theme at the Beckman Institute.

    Sweedler's major sources of research funding are the NSF, NIH, and private foundations.

  • 2016

    • Dunham, S. J. B.; Comi, T. J.; Ko, K.; Li, B.; Baig, N. F.; Morales-Soto, N.; Shrout, J. D.; Bohn, P. W.; Sweedler, J. V., Metal-Assisted Polyatomic Sims and Laser Desorbtion/Ionization for Enhanced Small Monlecule Imaging of Bacterial Biofilms. Biointerphases 2016, 11, 02A325.
    • Lee, C. Y.; Fan, Y.; Rubakhin, S. S.; Yoon, S.; Sweedler, J. V., A Neuron-in-Capillary Platform for Facile Collection and Mass Spectrometric Characterization of a Secreted Neuropeptide. Scientific Reports 2016, 6.
    • Li, B.; Dunham, S. J. B.; Dong, Y. H.; Yoon, S.; Zeng, M. M.; Sweedler, J. V., Analytical Capabilities of Mass Spectrometry Imaging and Its Potential Applications in Food Science. Trends in Food Science & Technology 2016, 47, 50-63.
    • Ong, T. H.; Romanova, E. V.; Roberts-Galbraith, R. H.; Yang, N.; Zimmerman, T. A.; Collins, J. J.; Lee, J. E.; Kelleher, N. L.; Newmark, P. A.; Sweedler, J. V., Mass Spectrometry Imaging and Identification of Peptides Associated with Cephalic Ganglia Regeneration in Schmidtea Mediterranea. Journal of Biological Chemistry 2016, 291, (15), 8109-8120.
    • Pence, B. D.; Gibbons, T. E.; Bhattacharya, T. K.; Mach, H.; Ossyra, J. M.; Petr, G.; Martin, S. A.; Wang, L.; Rubakhin, S. S.; Sweedler, J. V.; McCusker, R. H.; Kelley, K. W.; Rhodes, J. S.; Johnson, R. W.; Woods, J. A., Effects of Exercise and Dietary Epigallocatechin Gallate and Beta-Alanine on Skeletal Muscle in Aged Mice. Applied Physiology Nutrition and Metabolism 2016, 41, (2), 181-190.
    • Si, T.; Zhang, K.; Li, B.; Xu, Y.; Zhao, H.; Sweedler, J. V., Characterization of Bacillus Subtilis Colony Biofilms Via Mass Spectrometry and Fluorescence Imaging. Journal of Proteome Research 2016, 15, 1955-1962.
    • Wu, Q.; Comi, T. J.; Li, B.; Rubakhin, S. S.; Sweedler, J. V., On-Tissue Derivatization Via Electrospray Deposition for Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry Imaging of Endogenous Fatty Acids in Rat Brain Tissues. Analytical Chemistry 2016, 88, 5988-5995.
    • Yang, C. Y.; Yu, K.; Wang, Y.; Chen, S. A.; Liu, D. D.; Wang, Z. Y.; Su, Y. N.; Yang, S. Z.; Chen, T. T.; Livnat, I.; Vilim, F. S.; Cropper, E. C.; Weiss, K. R.; Sweedler, J. V.; Jing, J., Aplysia Locomotion: Network and Behavioral Actions of Gdffd, a D-Amino Acid-Containing Neuropeptide. Plos One 2016, 11, (1).

    2015

    • Baig, N. F.; Dunham, S. J. B.; Morales-Soto, N.; Shrout, J. D.; Sweedler, J. V.; Bohn, P. W., Multimodal Chemical Imaging of Molecular Messengers in Emerging Pseudomonas Aeruginosa Bacterial Communities. Analyst 2015, 140, (19), 6544-6552.
    • Colombo, M. L.; Sweedler, J.V.; Shen, M., Nanopipet-Based Liquid-Liquid Interface Probes for the Electrochemical Detection of Acetylcholine, Tryptamine, and Serotonin Via Ionic Transfer. Analytical Chemistry 2015, 87, (10), 5095-5100. DOI:10.1021/ac504151e
    • Erdman, J. W. J.; Smith, J. W.; Kuchan, M. J.; Mohn, E. S.; Johnson, E. J.; Rubakhin, S. S.; Wang, L.; Sweedler, J. V.; Neuringer, M., Lutein and Brain Function. Foods 2015, 4, 547-564.
    • Garty, G.; Ehsan, M. U.; Buonanno, M.; Yang, Z.; Sweedler, J. V.; Brenner, D. J., Microbeam-Coupled Capillary Electrophoresis. Radiation Protection Dosimetry 2015, 166, (1-4), 188-191.
    • Ong, T. H.; Kissick, D. J.; Jansson, E. T.; Comi, T. J.; Romanova, E. V.; Rubakhin, S. S.; Sweedler, J. V., Classification of Large Cellular Populations and Discovery of Rare Cells Using Single Cell Matrix-Assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry. Analytical Chemistry 2015, 87, (14), 7036-7042.
    • Romanova, E. V.; Rubakhin, S. S.; Ossyra, J. R.; Zombeck, J. A.; Nosek, M. R.; Sweedler, J. V.; Rhodes, J. S., Differential Peptidomics Assessment of Strain and Age Differences in Mice in Response to Acute Cocaine Administration. Journal of Neurochemistry 2015, 135, (5), 1038-1048.
    • Romanova, E. V.; Sweedler, J. V., Peptidomics for the Discovery and Characterization of Neuropeptides and Hormones. Trends in Pharmacological Sciences 2015, 36, (9), 579-586.
    • Rubakhin, S. S.; Ulanov, A.; Sweedler, J.V., Mass Spectrometry Imaging and Gc-MS Profiling of the Mammalian Peripheral Sensory-Motor Circuit. Journal of the American Society for Mass Spectrometry 2015, 26, (6), 958-966. DOI:10.1007/s13361-015-1128-8
    • Smith, J.; Rogers, R.; Jeon, S.; Rubakhin, S.; Wang, L.; Sweedler, J.; Kuchan, M.; Erdman, J., Production of Uniformly Labeled C-13-Lutein and C-13-Alpha-Tocopherol in Vitro Using Carrot Cell Suspension Culture. Faseb Journal 2015, 29.
    • Tillmaand, E. G.; Yang, N.; Kindt, C. A. C.; Romanova, E. V.; Rubakhin, S. S.; Sweedler, J. V., Peptidomics and Secretomics of the Mammalian Peripheral Sensory-Motor System. Journal of the American Society for Mass Spectrometry 2015, 26, (12), 2051-2061.
    • Yoon, M. S.; Rosenberger, C. L.; Wu, C.; Truong, N.; Sweedler, J.V.; Chen, J., Rapid Mitogenic Regulation of the mTORC1 Inhibitor, DEPTOR, by Phosphatidic Acid. Molecular Cell 2015, 58, (3), 549-556. DOI:10.1016/j.molcel.2015.03.028

    2014

    • Aerts, J. T.; Louis, K. R.; Crandall, S. R.; Govindaiah, G.; Cox, C. L.; Sweedler, J. V., Patch Clamp Electrophysiology and Capillary Electrophoresis-Mass Spectrometry Metabolomics for Single Cell Characterization. Analytical Chemistry 2014, 86, (6), 3203-3208, DOI: 10.1021/ac500168d.
    • Akhtar, M. N.; Southey, B. R.; Andren, P. E.; Sweedler, J.V.; Rodriguez-Zas, S. L., Accurate Assignment of Significance to Neuropeptide Identifications Using Monte Carlo K-Permuted Decoy Databases. PLOS One 2014, 9, (10), e111112. DOI:10.1371/journal.pone.0111112
    • Akhtar, M. N.; Southey, B. R.; Andren, P. E.; Sweedler, J.V.; Rodriguez-Zas, S. L., Identification of Best Indicators of Peptide-Spectrum Match Using a Permutation Resampling Approach. Journal of Bioinformatics and Computational Biology 2014, 12, (5), 1440001. DOI:10.1142/S0219720014400010
    • Andrews, A. M.; Schepartz, A.; Sweedler, J.V.; Weiss, P. S., Chemistry and the Brain Initiative. Journal of the American Chemical Society 2014, 136, (1), 1-2. DOI:10.1021/ja4118347
    • Cho, K.; Evans, B. S.; Wood, B. M.; Kumar, R.; Erb, T. J.; Warlick, B. P.; Gerlt, J. A.; Sweedler, J.V., Integration of Untargeted Metabolomics with Transcriptomics Reveals Active Metabolic Pathways. Metabolomics 2014, 2014, (August). DOI:10.1007/s11306-014-0713-3
    • Kumar, R.; Zhao, S. W.; Vetting, M. W.; Wood, B. M.; Sakai, A.; Cho, K.; Solbiati, J.; Almo, S. C.; Sweedler, J. V.; Jacobson, M. P.; Gerlt, J. A.; Cronan, J. E., Prediction and Biochemical Demonstration of a Catabolic Pathway for the Osmoprotectant Proline Betaine. Mbio 2014, 5, (1), 13, DOI: 10.1128/mBio.00933-13.
    • Kumar, R.; Zhao, S.; Vetting, M. W.; Wood, B. M.; Sakai, A.; Cho, K.; Solbiati, J.; Almo, S. C.; Sweedler, J.V.; Jacobson, M. P.; Gerlt, J. A.; Cronan, J. E., Prediction and Biochemical Demonstration of a Catabolic Pathway for the Osmoprotectant Proline Betaine. MBio 2014, 5, (1), e00933-00913. DOI:10.1128/mBio.00933-13
    • Lanni, E. J.; Dunham, S. J.; Nemes, P.; Rubakhin, S. S.; Sweedler, J.V., Biomolecular Imaging with a C60-SIMS/MALDI Dual Ion Source Hybrid Mass Spectrometer: Instrumentation, Matrix Enhancement, and Single Cell Analysis. Journal of the American Society for Mass Spectrometry 2014, 25, (11), 1897-1907. DOI:10.1007/s13361-014-0978-9
    • Lanni, E. J.; Masyuko, R. N.; Driscoll, C. M.; Aerts, J. T.; Shrout, J. D.; Bohn, P. W.; Sweedler, J.V., MALDI-Guided SIMS: Multiscale Imaging of Metabolites in Bacterial Biofilms. Analytical Chemistry 2014, 86, (18), 9139-9145. DOI:10.1021/ac5020222
    • Lanni, E. J.; Masyuko, R. N.; Driscoll, C. M.; Dunham, S. J.; Shrout, J. D.; Bohn, P. W.; Sweedler, J.V., Correlated Imaging with C60-SIMS and Confocal Raman Microscopy: Visualization of Cell-Scale Molecular Distributions in Bacterial Biofilms. Analytical Chemistry 2014, 86, (21), 10885-10891. DOI:10.1021/ac5030914
    • Maki, A. E.; Morris, K. A.; Catherman, K.; Chen, X.; Hatcher, N. G.; Gold, P. E.; Sweedler, J. V., Fibrinogen-Α Chain-Derived Peptide Is Upregulated in Hippocampus of Rats Exposed to Acute Morphine Injection and Spontaneous Alternation Testing. Pharmacology Research & Perspectives 2014, 2, e00037.
    • Masyuko, R. N.; Lanni, E. J.; Driscoll, C. M.; Shrout, J. D.; Sweedler, J.V.; Bohn, P. W., Spatial Organization of Pseudomonas Aeruginosa Biofilms Probed by Combined Matrix-Assisted Laser Desorption Ionization Mass Spectrometry and Confocal Raman Microscopy. Analyst 2014, 139, (22), 5700-5708. DOI:10.1039/c4an00435c
    • Moroz, L. L.; Kocot, K. M.; Citarella, M. R.; Dosung, S.; Norekian, T. P.; Povolotskaya, I. S.; Grigorenko, A. P.; Dailey, C.; Berezikov, E.; Buckley, K. M.; Ptitsyn, A.; Reshetov, D.; Mukherjee, K.; Moroz, T. P.; Bobkova, Y.; Yu, F. H.; Kapitonov, V. V.; Jurka, J.; Bobkov, Y. V.; Swore, J. J.; Girardo, D. O.; Fodor, A.; Gusev, F.; Sanford, R.; Bruders, R.; Kittler, E.; Mills, C. E.; Rast, J. P.; Derelle, R.; Solovyev, V. V.; Kondrashov, F. A.; Swalla, B. J.; Sweedler, J. V.; Rogaev, E. I.; Halanych, K. M.; Kohn, A. B., The Ctenophore Genome and the Evolutionary Origins of Neural Systems. Nature 2014, 510, (7503), 109-+, DOI: 10.1038/nature13400.
    • Ota, N.; Rubakhin, S. S.; Sweedler, J. V., D-Alanine in the Islets of Langerhans of Rat Pancreas. Biochemical and Biophysical Research Communications 2014, 447, (2), 328-333, DOI: 10.1016/j.bbrc.2014.03.153.
    • Romanova, E. V.; Aerts, J. T.; Croushore, C. A.; Sweedler, J. V., Small-Volume Analysis of Cell-Cell Signaling Molecules in the Brain. Neuropsychopharmacology 2014, 39, (1), 50-64, DOI: 10.1038/npp.2013.145.
    • Southey, B. R.; Lee, J. E.; Zamdborg, L.; Atkins, N.; Mitchell, J. W.; Li, M. X.; Gillette, M. U.; Kelleher, N. L.; Sweedler, J. V., Comparing Label-Free Quantitative Peptidomics Approaches to Characterize Diurnal Variation of Peptides in the Rat Suprachiasmatic Nucleus. Analytical Chemistry 2014, 86, (1), 443-452, DOI: 10.1021/ac4023378.
    • Sweedler, J. V., A Special Issue on State-of-the-Art Analytical Science and Technology. Analytical Sciences 2014, 30, (1), 5-5.
    • Yang, Z.; Sweedler, J. V., Application of Capillary Electrophoresis for Early Diagnosis of Cancers. Analytical and Bioanalytical Chemistry 2014, 406, 4013-4031.

    2013

    • Abbott, S. M.; Arnold, J. M.; Chang, Q.; Miao, H.; Ota, N.; Cecala, C.; Gold, P. E.; Sweedler, J. V.; Gillette, M. U., Signals from the Brainstem Sleep/Wake Centers Regulate Behavioral Timing via the Circadian Clock. Plos One 2013, 8, (8), 11, DOI: 10.1371/journal.pone.0070481.
    • Bai, L.; Livnat, I.; Romanova, E. V.; Alexeeva, V.; Yau, P. M.; Vilim, F. S.; Weiss, K. R.; Jing, J.; Sweedler, J. V., Characterization of Gdffd, a D-Amino Acid-Containing Neuropeptide That Functions as an Extrinsic Modulator of the Aplysia Feeding Circuit. Journal of Biological Chemistry 2013, 288, (46), 32837-32851, DOI: 10.1074/jbc.M113.486670.
    • Croushore, C. A.; Sweedler, J. V., Microfluidic Systems for Studying Neurotransmitters and Neurotransmission. Lab on a Chip 2013, 13, (9), 1666-1676, DOI: 10.1039/c3lc41334a.
    • Dailey, C. A.; Garnier, N.; Rubakhin, S. S.; Sweedler, J. V., Automated Method for Analysis of Tryptophan and Tyrosine Metabolites Using Capillary Electrophoresis with Native Fluorescence Detection. Analytical and Bioanalytical Chemistry 2013, 405, (8), 2451-2459.
    • Fan, Y.; Lee, C. Y.; Rubakhin, S. S.; Sweedler, J. V., Stimulation and Release from Neurons via a Dual Capillary Collection Device Interfaced to Mass Spectrometry. Analyst 2013, 138, (21), 6337-6346, DOI: 10.1039/c3an01010d.
    • Fazal, Z.; Southey, B. R.; Sweedler, J. V.; Rodriquez-Zas, S. L., Multifactorial Understanding of Ion Abundance in Tandem Mass Spectrometry Experiments. Journal of Proteomics & Bioinformatics 2013, 6, 023-029.
    • Knolhoff, A. M.; Nautiyal, K. M.; Nemes, P.; Kalachikov, S.; Morozova, I.; Silver, R.; Sweedler, J. V., Combining Small-Volume Metabolomic and Transcriptomic Approaches for Assessing Brain Chemistry. Analytical Chemistry 2013, 85, (6), 3136-3143.
    • Lanni, E. J.; Rubakhin, S. S.; Sweedler, J. V., Visualizing the Proteome: Mapping Protein Changes in Disease States with Mass Spectrometry Imaging. Journal of Neurochemistry 2013, 124, (5), 581-583.
    • Larive, C. K.; Sweedler, J. V., Celebrating the 75th Anniversary of the ACS Division of Analytical Chemistry: A Special Collection of the Most Highly Cited Analytical Chemistry Papers Published between 1938 and 2012. Analytical Chemistry 2013, 85, (9), 4201-4202, DOI: 10.1021/ac401048d.
    • Le, A. P.; Kang, S.; Thompson, L. B.; Rubakhin, S. S.; Sweedler, J. V.; Rogers, J. A.; Nuzzo, R. G., Quantitative Reflection Imaging of Fixed Aplysia Californica Pedal Ganglion Neurons on Nanostructured Plasmonic Crystals. Journal of Physical Chemistry B 2013, 117, (42), 13069-13081, DOI: 10.1021/jp402731f.
    • Lee, C. Y.; Romanova, E. V.; Sweedler, J. V., Laminar Stream of Detergents for Subcellular Neurite Damage in a Microfluidic Device: A Simple Tool for the Study of Neuroregeneration. Journal of Neural Engineering 2013, 10, (3), 11, DOI: 10.1088/1741-2560/10/3/036020.
    • Lee, J. E.; Zamdborg, L.; Southey, B. R.; Atkins, N.; Mitchell, J. W.; Li, M. X.; Gillette, M. U.; Kelleher, N. L.; Sweedler, J. V., Quantitative Peptidomics for Discovery of Circadian-Related Peptides from the Rat Suprachiasmatic Nucleus. Journal of Proteome Research 2013, 12, (2), 585-593.
    • Martineau, M.; Shi, T.; Puyal, J.; Knolhoff, A. M.; Dulong, J.; Gasnier, B.; Klingauf, J.; Sweedler, J. V.; Jahn, R.; Mothet, J. P., Storage and Uptake of D-Serine into Astrocytic Synaptic-Like Vesicles Specify Gliotransmission. Journal of Neuroscience 2013, 33, (8), 3413-U3605.
    • Masyuko, R.; Lanni, E. J.; Sweedler, J. V.; Bohn, P. W., Correlated Imaging - a Grand Challenge in Chemical Analysis. Analyst 2013, 138, (7), 1924-1939, DOI: 10.1039/c3an36416j.
    • Nemes, P.; Rubakhin, S. S.; Aerts, J. T.; Sweedler, J. V., Qualitative and Quantitative Metabolomic Investigation of Single Neurons by Capillary Electrophoresis Electrospray Ionization Mass Spectrometry. Nature Protocols 2013, 8, (4), 783-799.
    • Romanova, E. V.; Dowd, S. E.; Sweedler, J. V., Quantitation of Endogenous Peptides Using Mass Spectrometry Based Methods. Current Opinion in Chemical Biology 2013, 17, (5), 801-808, DOI: 10.1016/j.cbpa.2013.05.030.
    • Rubakhin, S. S.; Lanni, E. J.; Sweedler, J. V., Progress toward Single Cell Metabolomics. Current Opinion in Biotechnology 2013, 24, (1), 95-104.
    • Zhao, S. W.; Kumar, R.; Sakai, A.; Vetting, M. W.; Wood, B. M.; Brown, S.; Bonanno, J. B.; Hillerich, B. S.; Seidel, R. D.; Babbitt, P. C.; Almo, S. C.; Sweedler, J. V.; Gerlt, J. A.; Cronan, J. E.; Jacobson, M. P., Discovery of New Enzymes and Metabolic Pathways by Using Structure and Genome Context. Nature 2013, 502, (7473), 698-702, DOI: 10.1038/nature12576.

    2012

    • Ahmed, W. W.; Li, T. C.; Rubakhin, S. S.; Chiba, A.; Sweedler, J. V.; Saif, T. A., Mechanical Tension Modulates Local and Global Vesicle Dynamics in Neurons. Cellular and Molecular Bioengineering 2012, 5, (2), 155-164.
    • Akhtar, M. N.; Southey, B. R.; Andren, P. E.; Sweedler, J. V.; Rodriguez-Zas, S. L., Evaluation of Database Search Programs for Accurate Detection of Neuropeptides in Tandem Mass Spectrometry Experiments. Journal of Proteome Research 2012, 11, (12), 6044-6055.
    • Cecala, C.; Rubakhin, S. S.; Mitchell, J. W.; Gillette, M. U.; Sweedler, J. V., A Hyphenated Optical Trap Capillary Electrophoresis Laser Induced Native Fluorescence System for Single-Cell Chemical Analysis. Analyst 2012, 137, 2965-2972.
    • Cecala, C.; Sweedler, J. V., Sampling Techniques for Single Cell Electrophoresis. Analyst 2012, 137, 2922-2929.
    • Croushore, C. A.; Supharoek, S. A.; Lee, C. Y.; Jakmunee, J.; Sweedler, J. V., Microfluidic Device for the Selective Chemical Stimulation of Neurons and Characterization of Peptide Release with Mass Spectrometry. Analytical Chemistry 2012, 84, (21), 9446-9452.
    • Erb, T. J.; Evans, B. S.; Cho, K.; Warlick, B. P.; Sriram, J.; Wood, B. M.; Imker, H. J.; Sweedler, J. V.; Tabita, F. R.; Gerlt, J. A., A Rubisco-Like Protein Links Sam Metabolism with Isoprenoid Biosynthesis. Nature Chemical Biology 2012, 8, (11), 926-932.
    • Fossat, P.; Turpin, F. R.; Sacchi, S.; Dulong, J.; Shi, T.; Rivet, J. M.; Sweedler, J. V.; Pollegioni, L.; Millan, M. J.; Oliet, S. H. R.; Mothet, J. P., Glial D-Serine Gates Nmda Receptors at Excitatory Synapses in Prefrontal Cortex. Cerebral Cortex 2012, 22, (3), 595-606.
    • Hou, X. W.; Xie, F.; Sweedler, J. V., Relative Quantitation of Neuropeptides over a Thousand-Fold Concentration Range. Journal of the American Society for Mass Spectrometry 2012, 23, (12), 2083-2093.
    • Lanni, E. J.; Rubakhin, S. S.; Sweedler, J. V., Mass Spectrometry Imaging and Profiling of Single Cells. Journal of Proteomics 2012, 75, (16), 5036-5051.
    • Liu, F.; Wu, C.; Sweedler, J. V.; Goshe, M. B., An Enhanced Protein Crosslink Identification Strategy Using Cid-Cleavable Chemical Crosslinkers and Lc/Msn Analysis. Proteomics 2012, 12, (3), 401-405.
    • Murphy, D.; Konopacka, A.; Hindmarch, C.; Paton, J. F. R.; Sweedler, J. V.; Gillette, M. U.; Ueta, Y.; Grinevich, V.; Lozic, M.; Japundzic-Zigon, N., The Hypothalamic-Neurohypophyseal System: From Genome to Physiology. Journal of Neuroendocrinology 2012, 24, (4), 539-553.
    • Nautiyal, K. M.; Dailey, C. A.; Jahn, J. L.; Rodriquez, E.; Son, N. H.; Sweedler, J. V.; Silver, R., Serotonin of Mast Cell Origin Contributes to Hippocampal Function. European Journal of Neuroscience 2012, 36, (3), 2347-2359.
    • Nemes, P.; Knolhoff, A. M.; Rubakhin, S. S.; Sweedler, J. V., Single-Cell Metabolomics: Changes in the Metabolome of Freshly Isolated and Cultured Neurons. ACS Chemical Neuroscience 2012, 3, (10), 782-792.
    • Neupert, S.; Rubakhin, S. S.; Sweedler, J. V., Targeted Single-Cell Microchemical Analysis: MS-Based Peptidomics of Individual Paraformaldehyde-Fixed and Immunolabeled Neurons. Chemistry & Biology 2012, 19, (8), 1010-1019.
    • Ota, N.; Shi, T.; Sweedler, J. V., D-Aspartate Acts as a Signaling Molecule in Nervous and Neuroendocrine Systems. Amino Acids 2012, 43, (5), 1873-1886.
    • Park, D.; Hou, X.; Sweedler, J. V.; Taghert, P. H., Therapeutic Peptide Production in Drosophila. Peptides 2012, 36, (2), 251-256.
    • Porter, K. I.; Southey, B. R.; Sweedler, J. V.; Rodriquez-Zas, S. L., First Survey and Functional Annotation of Prohormone and Convertase Genes in the Pig. BMC Genomics 2012, 15, 582.
    • Romanova, E. V.; Lee, J. E.; Kelleher, N. L.; Sweedler, J. V.; Gulley, J. M., Comparative Peptidomics Analysis of Neural Adaptations in Rats Repeatedly Exposed to Amphetamine. Journal of Neurochemistry 2012, 123, (2), 276-287.
    • Romanova, E. V.; Sasaki, K.; Alexeeva, V.; Vilim, F. S.; Jing, J.; Richmond, T. A.; Weiss, K. R.; Sweedler, J. V., Urotensin II in Invertebrates: From Structure to Function in Aplysia Californica. Plos One 2012, 7, (11).
    • Sweedler, J. V., Don't Grow Your Article Too Long: We Do Have Length Guidelines. Analytical Chemistry 2012, 84, 5449-5449.
    • Sweedler, J. V., Let’s Get Social. Analytical Chemistry 2012, 84, 3039.
    • Sweedler, J. V., Reviews, Perspectives, Features: What's the Difference? Analytical Chemistry 2012, 84, (3), 1195-1195.
    • Sweedler, J. V., Two Unrelated Items to Avoid, One for Me and One for You. Analytical Chemistry 2012, 84, 4635-4636.
    • Tucker, K. R.; Li, Z.; Rubakhin, S. S.; Sweedler, J. V., Secondary Ion Mass Spectrometry Imaging of Molecular Distributions in Cultured Neurons and Their Processes: Comparative Analysis of Sample Preparation. Journal of the American Society for Mass Spectrometry 2012, 23, (11), 1931-1938.
    • Wang, T. A.; Yu, Y. V.; Govindaiah, G.; Ye, X. Y.; Artinian, L.; Coleman, T. P.; Sweedler, J. V.; Cox, C. L.; Gillette, M. U., Circadian Rhythm of Redox State Regulates Excitability in Suprachiasmatic Nucleus Neurons. Science 2012, 337, (6096), 839-842.
    • Warlick, B. P.; Evans, B. S.; Erb, T. J.; Ramagopal, U. A.; Sriram, J.; Imker, H. J.; Sauder, J. M.; Bonanno, J. B.; Burley, S. K.; Tabita, F. R.; Almo, S. C.; Sweedler, J. S.; Gerlt, J. A., 1-Methylthio-D-Xylulose 5-Phosphate Methylsulfurylase: A Novel Route to 1-Deoxy-D-Xylulose 5-Phosphate in Rhodospirillum Rubrum. Biochemistry 2012, 51, (42), 8324-8326.
    • Wu, C.; Tran, J. C.; Zamdborg, L.; Durbin, K. R.; Li, M. X.; Ahlf, D. R.; Early, B. P.; Thomas, P. M.; Sweedler, J. V.; Kelleher, N. L., A Protease for 'Middle-Down' Proteomics. Nature Methods 2012, 9, (8), 822.
    • Yin, P.; Knolhoff, A. M.; Rosenberg, H. J.; Millet, L. J.; Gillette, M. U.; Sweedler, J. V., Peptidomic Analyses of Mouse Astrocytic Cell Lines and Rat Primary Cultured Astrocytes. Journal of Proteome Research 2012, 11, (8), 3965-3973.
    • Zhong, M.; Lee, C. Y.; Croushore, C. A.; Sweedler, J. V., Label-Free Quantitation of Peptide Release from Neurons in a Microfluidic Device with Mass Spectrometry Imaging. Lab on a Chip 2012, 12, (11), 2037-2045.

    2011

    • Abul-Husn, N. S.; Annangudi, S. P.; Ma'ayan, A.; Ramos-Ortolaza, D. L.; Stockton, S. D.; Gomes, I.; Sweedler, J. V.; Devi, L. A., Chronic Morphine Alters the Presynaptic Protein Profile: Identification of Novel Molecular Targets Using Proteomics and Network Analysis. PLoS One 2011, 6, DOI: 10.1371/journal.pone.0025535.
    • Amaya, K. R.; Sweedler, J. V.; Clayton, D. F., Small molecule analysis and imaging of fatty acids in the zebra finch song system using time-of-flight-secondary ion mass spectrometry. Journal of Neurochemistry 2011, 10.1111/j.1471-4159.2011.07274.x. 
    • Amaya, K. R.; Sweedler, J. V.; Clayton, D. F., Small Molecule Analysis and Imaging of Fatty Acids in the Zebra Finch Song System Using Time-of-Flight-Secondary Ion Mass Spectrometry. Journal of Neurochemistry 2011, 118, (4), 499-511.
    • Aujla, P. K.; Bora, A.; Monahan, P.; Sweedler, J. V.; Raetzman, L. T., The Notch effector gene Hes1 regulates migration of hypothalamic neurons, neuropeptide content and axon targeting to the pituitary. Developmental Biology 2011, 353, (1), 61-71. 
    • Bai, L.; Romanova, E. V.; Sweedler, J. V., Distinguishing Endogenous D-Amino Acid-Containing Neuropeptides in Individual Neurons Using Tandem Mass Spectrometry. Analytical Chemistry 2011, 83, (7), 2794-2800. 
    • Elliger, C. A.; Richmond, T. A.; Lebaric, Z. N.; Pierce, N. T.; Sweedler, J. V.; Gilly, W. F., Diversity of conotoxin types from Conus californicus reflects a diversity of prey types and a novel evolutionary history. Toxicon 2011, 57, (2), 311-322. 
    • Fan, Y.; Rubakhin, S. S.; Sweedler, J. V., Collection of Peptides Released from Single Neurons with Particle-Embedded Monolithic Capillaries Followed by Detection with Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry. Analytical Chemistry 2011, 83, (24), 9557-9563.
    • Gerlt, J. A.; Allen, K. N.; Almo, S. C.; Armstrong, R. N.; Babbitt, P. C.; Cronan, J. E.; Dunaway-Mariano, D.; Imker, H. J.; Jacobson, M. P.; Minor, W.; Poulter, C. D.; Raushel, F. M.; Sali, A.; Shoichet, B. K.; Sweedler, J. V., The Enzyme Function Initiative. Biochemistry 2011, 50, (46), 9950-9962.
    • Gilly, W. F.; Richmond, T. A.; Duda, T. F.; Elliger, C.; Lebaric, Z.; Schulz, J.; Bingham, J. P.; Sweedler, J. V., A diverse family of novel peptide toxins from an unusual cone snail, Conus californicus. Journal of Experimental Biology 2011, 214, (1), 147-161. 
    • Miller, L. K.; Hou, X. W.; Rodriguiz, R. M.; Gagnidze, K.; Sweedler, J. V.; Wetsel, W. C.; Devi, L. A., Mice Deficient in Endothelin-Converting Enzyme-2 Exhibit Abnormal Responses to Morphine and Altered Peptide Levels in the Spinal Cord. Journal of Neurochemistry 2011, 119, (5), 1074-1085.
    • Mitchell, J. W.; Atkins, N.; Sweedler, J. V.; Gillette, M. U., Direct Cellular Peptidomics of Hypothalamic Neurons. Frontiers in Neuroendocrinology 2011, 32, (4), 377-386.
    • Nemes, P.; Knolhoff, A. M.; Rubakhin, S. S.; Sweedler, J. V., Metabolic Differentiation of Neuronal Phenotypes by Single-Cell Capillary Electrophoresis-Electrospray Ionization-Mass Spectrometry. Analytical Chemistry 2011, 83, (17), 6810-6817.
    • Park, D.; Hadzic, T.; Yin, P.; Rusch, J.; Abruzzi, K.; Rosbash, M.; Skeath, J. B.; Panda, S.; Sweedler, J. V.; Taghert, P. H., Molecular Organization of Drosophila Neuroendocrine Cells by Dimmed. Current Biology 2011, 21, (18), 1515-1524.
    • Rubakhin, S. S.; Romanova, E. V.; Nemes, P.; Sweedler, J. V., Profiling Metabolites and Peptides in Single Cells. Nature Methods 2011, 8, S20-S29. 
    • Sweedler, J. V.; Xie, F.; Bora, A., Neuropeptidomics, In Mass Spectrometry of Proteins and Peptides in Drug Discovery; Chen, G., Pramanik, B., Gross, M., Eds.; John Wiley & Sons, Hoboken, NJ, 2011, 393.
    • Tucker, K. R.; Lanni, E. J.; Serebryannyy, L. A.; Rubakhin, S. S.; Sweedler, J. V., Stretched Tissue Mounting for Maldi Mass Spectrometry Imaging. Analytical Chemistry 2011, 83, (23), 9181-9185.
    • Tucker, K. R.; Serebryannyy, L. A.; Zimmerman, T. A.; Rubakhin, S. S.; Sweedler, J. V., The modified-bead stretched sample method: Development and application to MALDI-MS imaging of protein localization in the spinal cord. Chemical Science 2011, 2, (4), 785-795.
    • Tucker, K. R.; Serebryannyy, L. A.; Zimmerman, T. A.; Rubakhin, S. S.; Sweedler, J. V., The Modified-Bead Stretched Sample Method: Development and Application to Maldi-Ms Imaging of Protein Localization in the Spinal Cord. Chemical Science 2011, 2, (4), 785-795.
    • Wang, L. P.; Ota, N.; Romanova, E. V.; Sweedler, J. V., A Novel Pyridoxal 5 '-Phosphate-dependent Amino Acid Racemase in the Aplysia californica Central Nervous System. Journal of Biological Chemistry 2011, 286, (15), 13765-13774.
    • Xie, F.; Romanova, E. V.; Sweedler, J. V., Neuropeptidomics of the Mammalian Brain, In Neuroproteomics; Li, K. W., Ed. 2011; Vol. 57, 229-242.
    • Yin, P.; Bousquet-Moore, D.; Annangudi, S. P.; Southey, B. R.; Mains, R. E.; Eipper, B. A.; Sweedler, J. V., Probing the Production of Amidated Peptides Following Genetic and Dietary Copper Manipulations. PLoS One 2011, 6, DOI: 10.1371/journal.pone.0028679.
    • Zimmerman, T. A.; Rubakhin, S. S.; Sweedler, J. V., MALDI Mass Spectrometry Imaging of Neuronal Cell Cultures. Journal of the American Society for Mass Spectrometry 2011, 22, (5), 828-836.

    2010

    • Knolhoff, A. M.; Rubakhin, S. S.; Sweedler, J. V., Single Cell Mass Spectrometry. In Chemical Cytometry - Ultrasensitive Analysis of Single Cells, Lu, C., Ed. John Wiley & Sons, Inc: Summerset, NJ, 2010; pp 197-218.
    • Annangudi, S. P.; Luszpak, A. E.; Kim, S. H.; Ren, S. F.; Hatcher, N. G.; Weiler, I. J.; Thornley, K. T.; Kile, B. M.; Wightman, R. M.; Greenough, W. T.; Sweedler, J. V., Neuropeptide Release Is Impaired in a Mouse Model of Fragile X Mental Retardation Syndrome. ACS Chemical Neuroscience 2010, 1, (4), 306-314.
    • Chu, L. Q.; Masyuko, R.; Sweedler, J. V.; Bohn, P. W., Base-induced delignification of miscanthus x giganteus studied by three-dimensional confocal raman imaging. Bioresource Technology 2010, 101, (13), 4919-4925.
    • Delfino, K. R.; Southey, B. R.; Sweedler, J. V.; Rodriguez-Zas, S. L., Genome-wide census and expression profiling of chicken neuropeptide and prohormone convertase genes. Neuropeptides 2010, 44, (1), 31-44.
    • Hamanaka, Y.; Park, D.; Yin, P.; Annangudi, S. P.; Edwards, T. N.; Sweedler, J. V.; Meinertzhagen, I. A.; Taghert, P. H., Transcriptional Orchestration of the Regulated Secretory Pathway in Neurons by the bHLH Protein DIMM.Current Biology 2010, 20, 1-10.
    • Lee, J. E.; Atkins, N. A.; Hatcher, N. G.; Zamdborg, L.; Gillette, M. U.; Sweedler, J. V.; Kelleher, N. L., Endogenous Peptide Discovery of the Rat Circadian Clock: A Focused Study of the Suprachiasmatic Nucleus by Ultra-High Performance Tandem Mass Spectrometry. Molecular and Cellular Proteomics 2010, 9, 285-297.
    • Li, Z.; Bohn, P. W.; Sweedler, J. V., Comparison of sample pre-treatments for laser desorption ionization and secondary ion mass spectrometry imaging of Miscanthus x giganteus. Bioresource Technology 2010, 101, (14), 5578-5585.
    • Li, Z.; Chu, L. Q.; Sweedler, J. V.; Bohn, P. W., Spatial Correlation of Confocal Raman Scattering and Secondary Ion Mass Spectrometric Molecular Images of Lignocellulosic Materials. Analytical Chemistry 2010, 82, (7), 2608-2611.
    • Menschaert, G.; Vandekerckhove, T. T. M.; Baggerman, G.; Landuyt, B.; Sweedler, J. V.; Schoofs, L.; Luyten, W.; Van Criekinge, W., A Hybrid, de Novo Based, Genome-Wide Database Search Approach Applied to the Sea Urchin Neuropeptidome. Journal of Proteome Research 2010, 9, (2), 990-996.
    • Millet, L. J.; Bora, A.; Sweedler, J. V.; Gillette, M. U., Direct Cellular Peptidomics of Supraoptic Magnocellular and Hippocampal Neurons in Low-Density Cocultures. ACS Chemical Neuroscience 2010, 1, (1), 36-48.
    • Piruska, A.; Branagan, S. P.; Minnis, A. B.; Wang, Z.; Cropek, D. M.; Sweedler, J. V.; Bohn, P. W., Electrokinetic control of fluid transport in gold-coated nanocapillary array membranes in hybrid nanofluidic-microfluidic devices. Lab on a Chip 2010, 10, (10), 1237-1244.
    • Piruska, A.; Gong, M.; Sweedler, J. V.; Bohn, P. W., Nanofluidics in chemical analysis. Chemical Society Reviews 2010, 39, (3), 1060-1072.
    • Ramos-Ortolaza, D. L.; Bushlin, I.; Abul-Husn, N.; Annangudi, S. P.; Sweedler, J. V.; Devi, L. A., Quantitative Neuroproteomics of the Synapse. In Peptidomics: Methods and Protocols, Methods in Molecular Biology, Soloviev, M., Ed. Humana Press: New York, NY, 2010; pp 615:227-246.
    • Romanova, E. V.; Lee, J. E.; Kelleher, N. L.; Sweedler, J. V.; Gulley, J. M., Mass Spectrometry Screening Reveals Peptides Modulated Differentially in the Medial Prefrontal Cortex of Rats with Disparate Initial Sensitivity to Cocaine. The AAPS Journal 2010, 12, 443-454.
    • Warren, W. C.; Clayton, D. F.; Ellegren, H.; Arnold, A. P.; Hillier, L. W.; Künstner, A.; Searle, S.; White, S.; Vilella, A. J.; Fairley, S.; Heger, A.; Kong, L.; Ponting, C. P.; Jarvis, E. D.; Mello, C. V.; Minx, P.; Lovell, P.; Velho, T. A.; Ferris, M.; Balakrishnan, C. N.; Sinha, S.; Blatti, C.; London, S. E.; Li, Y.; Lin, Y. C.; George, J.; Sweedler, J.; Southey, B.; Gunaratne, P.; Watson, M.; Nam, K.; Backström, N.; Smeds, L.; Nabholz, B.; Itoh, Y.; Whitney, O.; Pfenning, A. R.; Howard, J.; Völker, M.; Skinner, B. M.; Griffin, D. K.; Ye, L.; McLaren, W. M.; Flicek, P.; Quesada, V.; Velasco, G.; Lopez-Otin, C.; Puente, X.; Olender, T.; Lancet, D.; Smit, A. F.; Hubley, R.; Konkel, M. K.; Walker, J. A.; Batzer, M. A.; Gu, W.; Pollock, D. D.; Chen, L.; Cheng, Z.; Eichler, E. E.; Stapley, J.; Slate, J.; Ekblom, R.; Birkhead, T.; Burke, T.; Burt, D.; Scharff, C.; Adam, I.; Richard, H.; Sultan, M.; Soldatov, A.; Lehrach, H.; Edwards, S. V.; Yang, S. P.; L, i. X.; Graves, T.; Fulton, L.; Nelson, J.; Chinwalla, A.; Hou, S.; Mardis, E. R.; Wilson, R. K., The Genome of a Songbird. Nature 2010, 464, 757-762.
    • Wu, J. S.; Vilim, F. S.; Hatcher, N. G.; Due, M. R.; Sweedler, J. V.; Weiss, K. R.; Jing, J., Composite Modulatory Feedforward Loop Contributes to the Establishment of a Network State. Journal of Neurophysiology 2010, 103, (4), 2174-2184.
    • Xie, F.; London, S. E.; Southey, B. R.; Annangudi, S. P.; Amare, A.; Rodriguez-Zas, S. L.; Clayton, D. F.; Sweedler, J. V., The zebra finch neuropeptidome: prediction, detection and expression. BMC Biology 2010, 8, (28), http://www.biomedcentral.com/1741-7007/8/28.
    • Ye, X. Y.; Xie, F.; Romanova, E. V.; Rubakhin, S. S.; Sweedler, J. V., Production of Nitric Oxide within the Aplysia californica Nervous System. ACS Chemical Neuroscience 2010, 1, (3), 182-193.
    • Atkins, N.; Mitchell, J. W.; Romanova, E. V.; Morgan, D. J.; Cominski, T. P.; Ecker, J. L.; Pintar, J. E.; Sweedler, J. V.; Gillette, M. U., Circadian Integration of Glutamatergic Signals by Little SAAS in Novel Suprachiasmatic Circuits. PLOS One 2010, 5, (9). 
    • Collins, J. J.; Hou, X. W.; Romanova, E. V.; Lambrus, B. G.; Miller, C. M.; Saberi, A.; Sweedler, J. V.; Newmark, P. A., Genome-Wide Analyses Reveal a Role for Peptide Hormones in Planarian Germline Development. PLOS Biology 2010, 8, (10). 
    • Fricker, L. D.; Sweedler, J. V., Fishing for the Hidden Peptidome in Health and Disease (Drug Abuse). AAPS Journal 2010, 12, (4), 679-682. 
    • Jing, J. A.; Sweedler, J. V.; Cropper, E. C.; Alexeeva, V.; Park, J. H.; Romanova, E. V.; Xie, F.; Dembrow, N. C.; Ludwar, B. C.; Weiss, K. R.; Vilim, F. S., Feedforward Compensation Mediated by the Central and Peripheral Actions of a Single Neuropeptide Discovered Using Representational Difference Analysis. Journal of Neuroscience 2010, 30, (49), 16545-16558. 
    • Rubakhin, S. S.; Sweedler, J. V., A Mass Spectrometry Primer for Mass Spectrometry Imaging. Methods in Molecular Biology 2010, 656, 21-49. 
    • Scanlan, C.; Shi, T.; Hatcher, N. G.; Rubakhin, S. S.; Sweedler, J. V., Synthesis, accumulation, and release of D-aspartate in the Aplysia californica CNS. Journal of Neurochemistry 2010, 115, (5), 1234-1244.
    • Squires, L. N.; Rubakhin, S. S.; Wadhams, A. A.; Talbot, K. N.; Nakano, H.; Moroz, L. L.; Sweedler, J. V., Serotonin and its metabolism in basal deuterostomes: insights from Strongylocentrotus purpuratus and Xenoturbella bocki. Journal of Experimental Biology 2010, 213, (15), 2647-2654.
    • Sweedler, J. V., Neuropeptide discovery: From characterization to function. Regulatory Peptides 2010, 164, (1), 19-19.
    • Vilim, F. S.; Sasaki, K.; Rybak, J.; Alexeeva, V.; Cropper, E. C.; Jing, J.; Orekhova, I. V.; Brezina, V.; Price, D.; Romanova, E. V.; Rubakhin, S. S.; Hatcher, N.; Sweedler, J. V.; Weiss, K. R., Distinct Mechanisms Produce Functionally Complementary Actions of Neuropeptides That Are Structurally Related But Derived from Different Precursors. Journal of Neuroscience 2010, 30, (1), 131-147.
    • Zimmerman, T. A.; Rubakhin, S. S.; Sweedler, J. V., Mass Spectrometry Imaging using the Stretched Sample Approach. Methods in Molecular Biology 2010, 656, 465-479. 

    2009

    • Bai, L.; Sheeley, S.; Sweedler, J. V., Analysis of Natural D-Amino Acid-Containing Peptides in Metazoa. Bioanalytical Reviews 2009, 1, 7-24.
    • Martineau, M.; Shi, T.; Puyal, J.; Gontier, E.; Sweedler, J. V.; Theodosis, D. T.; Oliet, S. H. R.; Jahn, R.; Mothet, J. P., Molecular determinants of vesicular storage and release of the gliotransmitter D-serine from cortical astrocytes. Amino Acids 2009, 37, (4), 763-763.
    • Romanova, E. V.; Rubakhin, S. S.; Monroe, E. B.; Sweedler, J. V., Single Cell Mass Spectrometry. In Single Cell Analysis, Anselmetti, D., Ed. Wiley - VCH: 2009; pp 109-126.
    • Zimmerman, T. A.; Rubakhin, S. S.; Romanova, E. V.; Tucker, K. R.; Sweedler, J. V., MALDI Mass Spectrometric Imaging Using the Stretched Sample Method to Reveal Neuropeptide Distributions in Aplysia Nervous Tissue.Analytical Chemistry 2009, 81, (22), 9402-9409.
    • Brockmann, A.; Annangudi, S. P.; Richmond, T. A.; Ament, S. A.; Xie, F.; Southey, B. R.; Rodriguez-Zas, S. R.; Robinson, G. E.; Sweedler, J. V., Quantitative peptidomics reveal brain peptide signatures of behavior. Proceedings of the National Academy of Sciences of the United States of America 2009, 106, (7), 2383-2388.
    • Dong, S., Replogle, K.A., Hasadsri, L., Imai, B., Yau, P., Rodriguez-Zas, S., Southey, B.R., Sweedler, J., Clayton, D.F. , Discrete molecular states in the brain accompany changing responses to a vocal signal. Proceedings of the National Academy of Sciences (USA) 2009, 106, 11364-11369.
    • Gong, M. J.; Bohn, P. W.; Sweedler, J. V., Centrifugal Sedimentation for Selectively Packing Channels with Silica Microbeads in Three-Dimensional Micro/Nanofluidic Devices. Analytical Chemistry 2009, 81, (5), 2022-2026.
    • Hanson, J. N.; Motala, M. J.; Heien, M. L.; Gillette, M.; Sweedler, J.; Nuzzo, R. G., Textural guidance cues for controlling process outgrowth of mammalian neurons. Lab on a Chip 2009, 9, (1), 122-131.
    • Iannacone, J. M.; Ren, S.; Hatcher, N. G.; Sweedler, J. V., Collecting Peptide Release from the Brain using Porous Polymer Monolith-Based Solid Phase Extraction Capillaries. Analytical Chemistry 2009, 81, 5433-5438.
    • Kim, B. Y.; Yang, J.; Gong, M. J.; Flachsbart, B. R.; Shannon, M. A.; Bohn, P. W.; Sweedler, J. V., Multidimensional Separation of Chiral Amino Acid Mixtures in a Multilayered Three-Dimensional Hybrid Microfluidic/Nanofluidic Device. Analytical Chemistry 2009, 81, (7), 2715-2722.
    • Lapainis, T.; Rubakhin, S. S.; Sweedler, J. V., Capillary Electrophoresis with Electrospray Ionization Mass Spectrometric Detection for Single-Cell Metabolomics. Analytical Chemistry 2009, 81, (14), 5858-5864.
    • Romanova, E. V.; Hatcher, N. G.; Rubakhin, S. S.; Sweedler, J. V., Characterizing intercellular signaling peptides in drug addiction. Neuropharmacology 2009, 56, 196-204.
    • Southey, B. R., Sweedler, J.V., Rodriguez-Zas, S., A Python Analytical Pipeline to Identify Prohormone Precursors and Predict Prohormone Cleavage Sites. Frontiers in Neuroinformatics 2009, 2, Article 7.
    • Southey, B. R.; Rodriguez-Zas, S. L.; Sweedler, J. V., Characterization of the Prohormone Complement in Cattle using Genomic Libraries and Cleavage Prediction Approaches. BMC Genomics 2009, 10, 228.
    • Sweedler, J. V., et al, Bovine Genome Sequencing and Analysis Consortium, The Genome Sequence of Taurine Cattle: A Window to Ruminant Biology and Evolution. Science 2009, 324, 522-528.

    2008

    • Bora, A.; Annangudi, S. P.; Millet, L. J.; Rubakhin, S. S.; Forbes, A. J.; Kelleher, N. L.; Gillette, M. U.; Sweedler, J. V., Neuropeptidomics of the Supraoptic Rat Nucleus. Journal of Proteome Research 2008, 7, (11), 4992-5003.
    • Dalavoy, T. S.; Wernette, D. P.; Gong, M. J.; Sweedler, J. V.; Lu, Y.; Flachsbart, B. R.; Shannon, M. A.; Bohn, P. W.; Cropek, D. M., Immobilization of DNAzyme catalytic beacons on PMMA for Pb2+ detection. Lab on a Chip 2008, 8, (5), 786-793.
    • Ewing, M. A.; Wang, J.; Sheeley, S. A.; Sweedler, J. V., Detecting D-Amino acid-containing neuropeptides using selective enzymatic digestion. Analytical Chemistry 2008, 80, (8), 2874-2880.
    • Gong, M.; Flachsbart, B. R.; Shannon, M. A.; Bohn, P. W.; Sweedler, J. V., Fluidic communication between multiple vertically segregated microfluidic channels connected by nanocapillary array membranes. Electrophoresis 2008, 29, (6), 1237-1244.
    • Gong, M. J.; Kim, B. Y.; Flachsbart, B. R.; Shannon, M. A.; Bohn, P. W.; Sweedler, J. V., An on-chip fluorogenic enzyme assay using a multilayer microchip interconnected with a nanocapillary array membrane. IEEE Sensors Journal 2008, 8, (5-6), 601-607.
    • Gutstein, H. B.; Morris, J. S.; Annangudi, S. P.; Sweedler, J. V., Microproteomics: Analysis of protein diversity in small samples. Mass Spectrometry Reviews 2008, 27, (4), 316-330.
    • Hatcher, N. G.; Sweedler, J. V., Aplysia bag cells function as a distributed neurosecretory network. Journal of Neurophysiology 2008, 99, (1), 333-343.
    • Hatcher, N. G.; Zhang, X.; Stuart, J. N.; Moroz, L. L.; Sweedler, J. V.; Gillette, R., 5-HT and 5-HT-SO4, but not tryptophan or 5-HIAA levels in single feeding neurons track animal hunger state. Journal of Neurochemistry 2008, 104, (5), 1358-1363.
    • Hatcher, N. G.; Atkins, N.; Annangudi, S. P.; Forbes, A. J.; Kelleher, N. L.; Gillette, M. U.; Sweedler, J. V., Mass spectrometry-based discovery of circadian peptides. Proceedings of the National Academy of Sciences of the United States of America 2008, 105, (34), 12527-12532.
    • Lapainis, T.; Sweedler, J. V., Contributions of capillary electrophoresis to neuroscience. Journal of Chromatography A 2008, 1184, (1-2), 144-158.
    • Li, L. J.; Sweedler, J. V., Peptides in the Brain: Mass Spectrometry-Based Measurement Approaches and Challenges. Annual Review of Analytical Chemistry 2008, 1, 451-483.
    • Monroe, E. B.; Annangudi, S. R.; Hatcher, N. G.; Gutstein, H. B.; Rubakhin, S. S.; Sweedler, J. V., SIMS and MALDI MS imaging of the spinal cord. Proteomics 2008, 8, (18), 3746-3754.
    • Piruska, A.; Branagan, S.; Cropek, D. M.; Sweedler, J. V.; Bohn, P. W., Electrokinetically driven fluidic transport in integrated three-dimensional microfluidic devices incorporating gold-coated nanocapillary array membranes. Lab on a Chip 2008, 8, (10), 1625-1631.
    • Romanova, E. V.; Rubakhin, S. S.; Sweedler, J. V., One-step sampling, extraction, and storage protocol for peptidomics using dihydroxybenzoic acid. Analytical Chemistry 2008, 80, (9), 3379-3386.
    • Rubakhin, S. S.; Sweedler, J. V., Quantitative measurements of cell-cell signaling peptides with single-cell MALDI MS. Analytical Chemistry 2008, 80, (18), 7128-7136.
    • Southey, B. R.; Sweedler, J. V.; Rodriguez-Zas, S. L., Prediction of neuropeptide cleavage sites in insects. Bioinformatics 2008, 24, (6), 815-825.
    • Tegge, A. N.; Southey, B. R.; Sweedler, J. V.; Rodriguez-Zas, S. L., Comparative analysis of neuropeptide cleavage sites in human, mouse, rat, and cattle. Mammalian Genome 2008, 19, (2), 106-120.
    • Ye, X. Y.; Rubakhin, S. S.; Sweedler, J. V., Detection of nitric oxide in single cells. Analyst 2008, 133, (4), 423-433.
    • Ye, X. Y.; Rubakhin, S. S.; Sweedler, J. V., Simultaneous nitric oxid15.e and dehydroascorbic acid imaging by combining diaminofluoresceins and diaminorhodamines. Journal of Neuroscience Methods 2008, 168, (2), 373-382.
    • Ye, X. Y.; Rubakhin, S.; Sweedler, J., Sensing NO in single cells. Chemistry World 2008, 5, (3), 41-41.
    • Ye, X. Y.; Rubakhin, S. S.; Sweedler, J. V., Detection of nitric oxide in single cells. Analyst 2008, 133, (4), 423-433.
    • Zimmerman, T. A.; Monroe, E. B.; Sweedler, J. V., Adapting the stretched sample method from tissue profiling to imaging. Proteomics 2008, 8, (18), 3809-3815.

    2007

    • Amare, A.; Sweedler, J. V., Neuropeptide precursors in tribolium castaneum. Peptides 2007, 28, (6), 1282-1291.
    • Amaya, K. R.; Monroe, E. B.; Sweedler, J. V.; Clayton, D. F., Lipid imaging in the zebra finch brain with secondary ion mass spectrometry. International Journal of Mass Spectrometry 2007, 260, (2-3), 121-127.
    • Cummins, S. F.; Xie, F.; de Vries, M. R.; Annangudi, S. P.; Misra, M.; Degnan, B. M.; Sweedler, J. V.; Nagle, G. T.; Schein, C. H., Aplysia temptin - the ' glue ' in the water-borne attractin pheromone complex. FEBS Journal 2007, 274, (20), 5425-5437.
    • Cummins, S. F.; Xie, F.; Misra, M.; Amare, A.; Jakubowski, J. A.; de Vries, M. R.; Sweedler, J. V.; Nagle, G. T.; Schein, C. H., Recombinant production and structural studies of the Aplysia water-borne protein pheromone enticin indicates it has a novel disulfide stabilized fold. Peptides 2007, 28, (1), 94-102.
    • Gatimu, E. N.; King, T. L.; Sweedler, J. V.; Bohn, P. W., Three-dimensional integrated microfluidic architectures enabled through electrically switchable nanocapillary array membranes. Biomicrofluidics 2007, 1, (2).
    • Heeren, R. M. A.; Sweedler, J. V., Imaging mass spectrometry imaging. International Journal of Mass Spectrometry 2007, 260, (2-3), 89-89.
    • Heien, M. L.; Sweedler, J. V., Neurochemical challenge. Analytical and Bioanalytical Chemistry 2007, 387, (1), 3-4.
    • Heien, M. L.; Sweedler, J. V., Solution to the neurochemical challenge. Analytical and Bioanalytical Chemistry 2007, 388, (1), 3-3.
    • Jing, J.; Vilim, F. S.; Horn, C. C.; Alexeeva, V.; Hatcher, N. G.; Sasaki, K.; Yashina, I.; Zhurov, Y.; Kupfermann, I.; Sweedler, J. V.; Weiss, K. R., From hunger to satiety: Reconfiguration of a feeding network by Aplysia neuropeptide Y. Journal of Neuroscience 2007, 27, (13), 3490-3502.
    • Jo, K.; Heien, M. L.; Thompson, L. B.; Zhong, M.; Nuzzo, R. G.; Sweedler, J. V., Mass spectrometric imaging of peptide release from neuronal cells within microfluidic devices. Lab on a Chip 2007, 7, (11), 1454-1460.
    • Kim, B. Y.; Swearingen, C. B.; Ho, J. A. A.; Romanova, E. V.; Bohn, P. W.; Sweedler, J. V., Direct immobilization of Fab ' in nanocapillaries for manipulating mass-limited samples. Journal of the American Chemical Society 2007, 129, (24), 7620-7626.
    • Lapainis, T.; Scanlan, C.; Rubakhin, S. S.; Sweedler, J. V., A multichannel native fluorescence detection system for capillary electrophoretic analysis of neurotransmitters in single neurons. Analytical and Bioanalytical Chemistry 2007, 387, (1), 97-105.
    • Millet, L. J.; Stewart, M. E.; Sweedler, J. V.; Nuzzo, R. G.; Gillette, M. U., Microfluidic devices for culturing primary mammalian neurons at low densities. Lab on a Chip 2007, 7, (8), 987-994.
    • Romanova, E. V.; McKay, N.; Weiss, K. R.; Sweedler, J. V.; Koester, J., Autonomic control network active in Aplysia during locomotion includes neurons that express splice variants of R15-Neuropeptides. Journal of Neurophysiology 2007, 97, (1), 481-491.
    • Rubakhin, S. S.; Hatcher, N. G.; Monroe, E. B.; Heien, M. L.; Sweedler, J. V., Mass spectrometric imaging of the nervous system. Current Pharmaceutical Design 2007, 13, (32), 3325-3334.
    • Rubakhin, S. S.; Sweedler, J. V., Characterizing peptides in individual mammalian cells using mass spectrometry. Nature Protocols 2007, 2, (8), 1987-1997.
    • Rubakhin, S. S.; Sweedler, J. V., Transparent triethylamine-containing MALDI matrices. Israel Journal of Chemistry 2007, 47, (2), 185-193.
    • Squires, L. N.; Talbot, K. N.; Rubakhin, S. S.; Sweedler, J. V., Serotonin catabolism in the central and enteric nervous systems of rats upon induction of serotonin syndrome. Journal of Neurochemistry 2007, 103, (1), 174-180.
    • Sweedler, J. V.; Arriaga, E. A., Single cell analysis. Analytical and Bioanalytical Chemistry 2007, 387, (1), 1-2.
    • Ye, X. Y.; Kim, W. S.; Rubakhin, S. S.; Sweedler, J. V., Ubiquitous presence of argininosuccinate at millimolar levels in the central nervous system of Aplysia californica. Journal of Neurochemistry 2007, 101, (3), 632-640.

    2006

    • Amare, A.; Hummon, A. B.; Southey, B. R.; Zimmerman, T. A.; Rodriguez-Zas, S. L.; Sweedler, J. V., Bridging neuropeptidomics and genomics with bioinformatics: Prediction of mammalian neuropeptide prohormone processing. Journal of Proteome Research 2006, 5, (5), 1162-1167.
    • Eckhoff, D. A.; Stuart, J. N.; Sutin, J. D. B.; Sweedler, J. V.; Gratton, E., Capillary electrophoresis of ultrasmall carboxylate functionalized silicon nanoparticles. Journal of Chemical Physics 2006, 125, (8).
    • Flachsbart, B. R.; Wong, K.; Iannacone, J. M.; Abante, E. N.; Vlach, R. L.; Rauchfuss, P. A.; Bohn, P. W.; Sweedler, J. V.; Shannon, M. A., Design and fabrication of a multilayered polymer microfluidic chip with nanofluidic interconnects via adhesive contact printing. Lab on a Chip 2006, 6, (5), 667-674.
    • Hummon, A. B.; Richmond, T. A.; Verleyen, P.; Baggerman, G.; Huybrechts, J.; Ewing, M. A.; Vierstraete, E.; Rodriguez-Zas, S. L.; Schoofs, L.; Robinson, G. E.; Sweedler, J. V., From the genome to the proteome: Uncovering peptides in the Apis brain. Science 2006, 314, (5799), 647-649.
    • Jakubowski, J. A.; Hatcher, N. G.; Xie, F.; Sweedler, J. V., The first gamma-carboxyglutamate-containing neuropeptide. Neurochemistry International 2006, 49, (3), 223-229.
    • Kelley, W. P.; Schulz, J. R.; Jakubowski, J. A.; Gilly, W. F.; Sweedler, J. V., Two toxins from Conus striatus that individually induce tetanic paralysis. Biochemistry 2006, 45, (47), 14212-14222.
    • Miao, H.; Rubakhin, S. S.; Sweedler, J. V., Confirmation of peak assignments in capillary electrophoresis using immunoprecipitation - Application to D-aspartate measurements in neurons. Journal of Chromatography A 2006, 1106, (1-2), 56-60.
    • Monroe, E. B.; Jurchen, J. C.; Koszczuk, B. A.; Losh, J. L.; Rubakhin, S. S.; Sweedler, J. V., Massively parallel sample preparation for the MALDI MS analyses of tissues. Analytical Chemistry 2006, 78, (19), 6826-6832.
    • Monroe, E. B.; Koszczuk, B. A.; Losh, J. L.; Jurchen, J. C.; Sweedler, J. V., Measuring salty samples without adducts with MALDI MS. International Journal of Mass Spectrometry 2007, 260, (2-3), 237-242.
    • Romanova, E. V.; Roth, M. J.; Rubakhin, S. S.; Jakubowski, J. A.; Kelley, W. P.; Kirk, M. D.; Kelleher, N. L.; Sweedler, J. V., Identification and characterization of homologues of vertebrate beta-thymosin in the marine mollusk Aplysia californica. Journal of Mass Spectrometry 2006, 41, (8), 1030-1040.
    • Rubakhin, S. S.; Churchill, J. D.; Greenough, W. T.; Sweedler, J. V., Profiling signaling peptides in single mammalian cells using mass spectrometry. Analytical Chemistry 2006, 78, (20), 7267-7272.
    • Tegge, A. N.; Southey, B. R.; Andinet, A.; Sweedler, J. V.; Rodriguez-Zas, S. L., Bioinformatics analysis of bovine neuropeptides. Journal of Animal Science 2006, 84, 168-169.

    200

    • Zimmerman, T. A.; Monroe, E. B.; Tucker, K. R.; Rubakhin, S. S.; Sweedler, J. V., Imaging of Cells and Tissues with Mass Spectrometry: Adding Chemical Information to Imaging. In Biophysical Tools for Biologists, Vol 2: in Vivo Techniques, Elsevier Academic Press Inc: San Diego, 2008; Vol. 89, pp 361-+.

    0

    • Garty, G.; Ehsan, M. U.; Buonanno, M.; Yang, Z.; Sweedler, J.V.; Brenner, D. J., Microbeam-Coupled Capillary Electrophoresis. Radiation Protection Dosimetry 2015, in press. DOI:10.1093/rpd/ncv148