Science Group Leader for Functional and Systems Biology
Science Group Leader for Functional and Systems Biology

Biography

Kristin Burnum-Johnson is a Science Group Leader for Functional and Systems Biology at Pacific Northwest National Laboratory. Kristin earned her PhD in Biochemistry from Vanderbilt University with Professor Richard M. Caprioli and then completed a postdoctoral fellowship at PNNL with Dr. Richard D. Smith.

Critical challenges in systems biology, ranging from environmental ecosystems to human health, can be addressed more effectively by leveraging the comprehensive and informative view of underlying biological pathways provided by the integration of spatiotemporal multi-omic measurements (i.e., proteomics, metabolomics, and lipidomics). Kristin’s research is dedicated to achieving transformative molecular-level insights into environmental and biomedical systems by implementing advanced mass spectrometry (MS) instrumentation. She has more than 20 years of experience and more than 95 publications dedicated to the development and evaluation of in situ imaging MS, structural characterization of molecules using ion mobility-MS, and precise analyses of molecules in complex matrices using high-resolution MS. Her research program is funded by the U.S. Department of Energy (DOE) Biological and Environmental Research (BER) program, the DOE Bioenergy Technologies Office (BETO), and the National Institutes of Health (NIH).

In 2019, Kristin received an Early Career Research Program Award from the DOE’s Office of Science. As part of her DOE BER early career research program, she is applying a multi-omics approach to uncover the mechanisms that drive cooperative fungal-bacterial interactions that result in the degradation of lignocellulosic plant material in natural ecosystems. Insights obtained from these studies inform new strategies for producing advanced bioproducts and biofuels. 

As part of this research program, Kristin and her team developed a Metabolome-Informed Proteome Imaging (MIPI) workflow. This innovative MIPI workflow offers a comprehensive view of biological pathways at the micrometer scale, enhancing our understanding of the metabolic processes that fungi use to degrade plant matter. (Nature Chemical Biology 20, 1033–1043 (2024)).

Research Interest

  • Mass spectrometry
  • Proteomics
  • Metabolomics
  • Lipidomics
  • Metaproteomics

Education

  • PhD in Biochemistry, Vanderbilt University, 2008
  • BS in Biochemistry, University of Washington, 2002

Affiliations and Professional Service

  • American Society for Mass Spectrometry
  • American Chemical Society

Awards and Recognitions

  • Early Career Research Program Award, DOE BER, 2019

Patents

  • Piehowski, P., Zhu, Y., Kelly, R., Burnum-Johnson, K., Moore, R., “Methods and Systems of Proteome Analysis and Imaging” US 11719702, United States Patent and Trademark Office
  • Jacobs, J. M., Baker, E. S., Burnum-Johnson, K. E., Orton, D. J., Gritsenko, M. A., Smith, R. D. “Biomarkers for Liver Fibrosis” US 9651563, United States Patent and Trademark Office

Publications

2025

  • Veličković, M., Kadam, L., Kim, J., Zemaitis, K. J., Veličković, D., Gao, Y., Wu, R., Fillmore, T. L., Orton, D., Williams, S. M., Monroe, M. E., Moore, R. J., Piehowski, P. D., Bramer, L. M.‡, Myatt, L.‡, Burnum-Johnson, K. E. (co-corresponding author)‡. Advanced multi-modal mass spectrometry imaging reveals functional differences of placental villous compartments at microscale resolution. Nature Communications. 16, 2061
  • Sims, A. C., Schäfer, A., Okuda, K., Leist, S. R., Kocher, J. F., Cockrell, A. S., Hawkins, P. E., Furusho, M., Jensen, K. L., Kyle, J. E., Burnum-Johnson, K. E., Stratton, K. G., Lamar, N. C., Nicora, C. D., Weitz, K. K, Smith, R. D., Metz, T. O., Waters, K. M., Boucher, R. C., Montgomery, S. A., Baric, R. S., Sheahan, T. P. Dysregulation of lung epithelial cell homeostasis and immunity contributes to Middle East respiratory syndrome coronavirus disease severity. mSphere. 10, e00951-24.
  • Degnan, D. J., Claborne, D. M., Richardson, R. E., Strauch, C. W., Glasscock, E. C., Veličković, D., Burnum-Johnson, K. E., Webb-Robertson, B.-J. M., Stratton, K. G., Bramer, L. M. MODE: A Web Application for Interactive Visualization and Exploration of Omics Data. Journal of Proteome Research. 24, 911-8.
  • Kadam, L., Veličković, M., Stratton, K., Nicora, C. D., Kyle, J. E., Wang, E., Monroe, M. E., Bramer, L. M., Myatt, L., Burnum-Johnson, K. E. Sexual dimorphism in lipidomic changes in maternal blood and placenta associated with obesity and gestational diabetes: A discovery study. Placenta. 159, 76-83.

2024

  • Estevao, I. L., Kazman, J. B., Bramer, L. M., Nicora, C., Ren, M. Q., Sambuughin, N., Munoz, N., Kim, Y.-M., Bloodsworth, K., Richert, M., Teeguarden, J., Burnum-Johnson, K. E., Deuster, P. A., Nakayasu, E. S., Many, G. The human plasma lipidome response to exertional heat tolerance testing. Lipids in Health and Disease. 23, 380.
  • Wu, R., Veličković, M., Burnum-Johnson, K. E. (corresponding author)‡. From single cell to spatial multi-omics: unveiling molecular mechanisms in dynamic and heterogeneous systems. Current Opinion in Biotechnology. 89, 103174.
  • Veličković, M., Wu, R., Gao, Y., Thairu, M. W., Veličković, D., Munoz, N., Clendinen, C. S., Bilbao, A., Chu, R. K., Lalli, P. M., Zemaitis, K., Nicora, C. D., Kyle, J. E., Orton, D., Williams, S., Zhu, Y., Zhao, R., Monroe, M. E., Moore, R. J., Webb-Robertson, B.-J. M., Bramer, L. M., Currie, C. R., Piehowski, P. D., Burnum-Johnson, K. E. (corresponding author)‡. Mapping microhabitats of lignocellulose decomposition by a microbial consortium. Nature Chemical Biology. 20,1033-43
  • Díaz Ludovico, I., Powell, S. M., Many, G., Bramer, L., Sarkar, S., Stratton, K., Liu, T., Shi, T., Qian, W.-J., Burnum-Johnson, K. E., Melchior, J. T., Nakayasu, E. S. A fast and sensitive size-exclusion chromatography method for plasma extracellular vesicle proteomic analysis. PROTEOMICS. 24, 2400025.
  • Veličković, M., Fillmore, T. L., Attah, I. K., Posso, C., Pino, J. C., Zhao, R., Williams, S. M., Veličković, D., Jacobs, J. M., Burnum-Johnson, K. E., Zhu, Y., Piehowski, P. D.. Coupling Microdroplet-Based Sample Preparation, Multiplexed Isobaric Labeling, and Nanoflow Peptide Fractionation for Deep Proteome Profiling of the Tissue Microenvironment. Analytical Chemistry. 96, 12973-82.
  • Harrison, A., Eder, J. G., Lalli, P. M., Munoz, N., Gao, Y., Clendinen, C. S., Orton, D. J., Zheng, X., Williams, S. M., Couvillion, S. P., Chu, R. K., Balasubramanian, V. K., Bhattacharjee, A., Anderton, C. R., Pomraning, K. R., Burnum-Johnson, K. E., Liu, T., Kyle, J. E., Bilbao, A. PeakQC: A Software Tool for Omics-Agnostic Automated Quality Control of Mass Spectrometry Data. Journal of the American Society for Mass Spectrometry. 35, 2680-9.
  • Ross, D. H., Bhotika, H., Zheng, X., Smith, R. D., Burnum-Johnson, K. E., Bilbao, A. Computational tools and algorithms for ion mobility spectrometry-mass spectrometry. PROTEOMICS. 24, 2200436.
  • Eisfeld, A. J., Anderson, L. N., Fan, S., Walters, K. B., Halfmann, P. J., Westhoff Smith, D., Thackray, L. B., Tan, Q., Sims, A. C., Menachery, V. D., Schäfer, A., Sheahan, T. P., Cockrell, A. S., Stratton, K. G., Webb-Robertson, B.-J. M., Kyle, J. E., Burnum-Johnson, K. E., Kim, Y.-M., Nicora, C. D., Peralta, Z., N’jai, A. U., Sahr, F., van Bakel, H., Diamond, M. S., Baric, R. S., Metz, T. O., Smith, R. D., Kawaoka, Y., Waters, K. M. A compendium of multi-omics data illuminating host responses to lethal human virus infections. Scientific Data. 11, 328.
  • Sarkar, S., Deiter, C., Kyle, J. E., Guney, M. A., Sarbaugh, D., Yin, R., Li, X., Cui, Y., Ramos-Rodriguez, M., Nicora, C. D., Syed, F., Juan-Mateu, J., Muralidharan, C., Pasquali, L., Evans-Molina, C., Eizirik, D. L., Webb-Robertson, B.-J. M., Burnum-Johnson, K. E., Orr, G., Laskin, J., Metz, T. O., Mirmira, R. G., Sussel, L., Ansong, C., Nakayasu, E. S. Regulation of β-cell death by ADP-ribosylhydrolase ARH3 via lipid signaling in insulitis. Cell Communication and Signaling. 22, 141.
  • Odenkirk, M. T., Zheng, X., Kyle, J. E., Stratton, K. G., Nicora, C. D., Bloodsworth, K. J., McLean, C. A., Masters, C. L., Monroe, M. E., Doecke, J. D., Smith, R. D., Burnum-Johnson, K. E. (co-corresponding author)‡, Roberts, B. R.‡, Baker, E. S.‡. Deciphering ApoE Genotype-Driven Proteomic and Lipidomic Alterations in Alzheimer’s Disease Across Distinct Brain Regions. Journal of Proteome Research. 23, 2970-85.

2023

  • Deng, S., Kim, J., Pomraning, K. R., Gao, Y., Evans, J. E., Hofstad, B. A., Dai, Z., Webb-Robertson, B.-J., Powell, S. M., Novikova, I. V., Munoz, N., Kim, Y.-M., Swita, M., Robles, A. L., Lemmon, T., Duong, R. D., Nicora, C., Burnum-Johnson, K. E., Magnuson, J. Identification of a specific exporter that enables high production of aconitic acid in Aspergillus pseudoterreus. Metabolic Engineering. 80, 163-72.
  • Nakayasu, E. S. ‡, Gritsenko, M. A., Kim, Y.-M., Kyle, J. E., Stratton, K. G., Nicora, C. D., Munoz, N., Navarro, K. M., Claborne, D., Gao, Y., Weitz, K. K., Paurus, V. L., Bloodsworth, K. J., Allen, K. A., Bramer, L. M., Montes, F., Clark, K. A., Tietje, G., Teeguarden, J. ‡, Burnum-Johnson, K. E. (co-corresponding author)‡. Elucidating regulatory processes of intense physical activity by multi-omics analysis. Military Medical Research. 2023;10(1):48.
  • Jain. S., Pei, L., Spraggins, J. M., Angelo, M., Carson, J. P., Gehlenborg, N., Ginty, F., Gonçalves, J. P., Hagood, J. S., Hickey, J. W., Kelleher, N. L., Laurent, L. C., Lin, S., Lin, Y., Liu, H., Naba, A., Nakayasu, E. S., Qian, W.-J., Radtke, A., Robson, P., Stockwell, B. R., Van de Plas, R., Vlachos, I. S., Zhou, M., HuBMAP Consortium, … Snyder, M. P.  Advances and prospects for the Human BioMolecular Atlas Program (HuBMAP). Nature Cell Biology. 25, 1089-100
  • Coradetti, S. T., Adamczyk, P. A., Liu, D., Gao, Y., Otoupal, P. B., Geiselman, G. M., Webb-Robertson, B.-J. M., Burnet, M. C., Kim, Y.-M., Burnum-Johnson, K. E., Magnuson, J., Gladden, J. M. Engineering transcriptional regulation of pentose metabolism in Rhodosporidium toruloides for improved conversion of xylose to bioproducts. Microbial Cell Factories. 22, 144. 
  • Gosline,  S. J. C., Veličković, M., Pino, J. C., Day, L. Z., Attah, I. K., Swensen, A. C., Danna, V., Posso, C., Rodland, K. D., Chen, J., Matthews, C. E., Campbell-Thompson, M., Laskin, J., Burnum-Johnson, K. E., Zhu, Y., Piehowski, P. D. Proteome Mapping of the Human Pancreatic Islet Microenvironment Reveals Endocrine–Exocrine Signaling Sphere of Influence. Molecular & Cellular Proteomics. 22, 100592.
  • Liu, D., Hwang, H. J., Otoupal, P..B., Geiselman, G. M., Kim J., Pomraning K. R., Kim, Y.-M., Munoz, N., Nicora, C. D., Gao, Y., Burnum-Johnson, K .E., Jacobson, O., Coradetti, S., Kim, J., Deng, S., Dai, Z., Prahl, J.-P., Tanjore, D., Lee, T. S., Magnuson, J. K., Gladden, J. M. Engineering Rhodosporidium toruloides for production of 3-hydroxypropionic acid from lignocellulosic hydrolysate. Metabolic Engineering. 78, 72-83. 
  • Bilbao, A.‡, Munoz, N., Kim, J., Orton, D. J., Gao, Y., Poorey, K., Pomraning, K. R., Weitz, K., Burnet, M., Nicora, C. D., Wilton, R., Deng, S., Dai, Z., Oksen, E., Gee, A., Fasani, R. A., Tsalenko, A., Tanjore, D., Gardner, J., Smith, R. D., Michener, J. K., Gladden, J. M., Baker, E. S., Petzold, C. J., Kim, Y.-M., Apffel, A., Magnuson, J. K., Burnum-Johnson, K. E. (co-corresponding author)‡. PeakDecoder enables machine learning-based metabolite annotation and accurate profiling in multidimensional mass spectrometry measurements. Nature Communications. 14, 2461. 
  • Dai, Z., Pomraning, K. R., Deng, S., Kim, J., Campbell, K. B., Robles, A. L., Hofstad, B. A., Munoz, N., Gao, Y., Lemmon. T., Swita, M. S., Zucker, J. D., Kim, Y.-M., Burnum-Johnson, K. E. , Magnuson, J. K. Metabolic engineering to improve production of 3-hydroxypropionic acid from corn-stover hydrolysate in Aspergillus species. Biotechnology for Biofuels and Bioproducts. 16, 53.
  • McNaught, K. J., Kuatsjah, E., Zahn, M., Prates, É. T., Shao, H., Bentley, G. J., Pickford, A. R., Gruber, J. N., Hestmark, K. V., Jacobson, D. A., Poirier, B. C., Ling, C., San, Marchi, M., Michener, W. E., Nicora, C. D., Sanders, J. N., Szostkiewicz, C. J., Veličković, D., Zhou, M., Munoz, N., Kim, Y.-M., Magnuson, J. K., Burnum-Johnson, K. E., Houk, K. N., McGeehan, J. E., Johnson, C. W., Beckham, G. T. Initiation of fatty acid biosynthesis in Pseudomonas putida KT2440. Metabolic Engineering. 76, 193-203. 

2022

  • Pomraning, K. R., Dai, Z., Munoz, N., Kim, Y.-M., Gao, Y., Deng, S., Lemmon, T., Swita, M. S., Zucker, J. D., Kim, J., Mondo, S. J., Panisko, E., Burnet, M. C., Webb-Robertson, B.-J. M., Hofstad, B., Baker, S. E., Burnum-Johnson, K. E., Magnuson, J. K. Itaconic acid production is regulated by LaeA in Aspergillus pseudoterreus. Metabolic Engineering Communications. 15, e00203.
  • Ling, C., Peabody, G. L., Salvachúa, D., Kim, Y.-M., Kneucker, C. M., Calvey, C. H., Monninger, M. A., Munoz, N. M., Poirier, B. C., Ramirez, K. J., St. John, P. C., Woodworth, S. P., Magnuson, J. K., Burnum-Johnson, K. E., Guss, A. M., Johnson, C. W., Beckham, G. T. Muconic acid production from glucose and xylose in Pseudomonas putida via evolution and metabolic engineering. Nature Communications. 13, 4925.
  • Lee, J.-Y., Mitchell, H. D., Burnet, M. C., Wu, R., Jenson, S. C., Merkley, E. D., Nakayasu, E. S., Nicora, C. D., Jansson, J. K.‡, Burnum-Johnson, K. E. (co-corresponding author)‡, Payne, S. H.‡. Uncovering Hidden Members and Functions of the Soil Microbiome Using De Novo Metaproteomics. Journal of Proteome Research. 21, 2023-35.
  • Burnum-Johnson, K. E. (co-corresponding author)‡, Conrads, T. P., Drake, R. R., Herr, A. E., Iyengar, R., Kelly, R. T., Lundberg, E., MacCoss, M. J., Naba, A., Nolan, G. P., Pevzner, P. A., Rodland, K. D., Sechi, S., Slavov, N., Spraggins, J. M., Van Eyk, J. E., Vidal, M., Vogel, C., Walt, D. R., Kelleher, N. L.‡. New Views of Old Proteins: Clarifying the Enigmatic Proteome. Molecular & Cellular Proteomics. 21,100254.

2021

  • Kirby, J., Geiselman, G. M., Yaegashi, J., Kim, J., Zhuang, X., Tran-Gyamfi, M. B., Prahl, J.-P., Sundstrom, E. R., Gao, Y., Munoz, N., Burnum-Johnson, K. E., Benites, V.T., Baidoo, E. E.K. , Fuhrmann, A., Seibel, K., Webb-Robertson, B.-J. M., Zucker, J., Nicora, C. D., Tanjore, D., Magnuson, J. K., Skerker, J. M., Gladden, J. M. Further engineering of R. toruloides for the production of terpenes from lignocellulosic biomass. Biotechnology for Biofuels. 14, 101.
  • Wu, R., Davison, M. R., Gao, Y., Nicora ,C. D., McDermott, J. E., Burnum-Johnson, K. E., Hofmockel, K. S., Jansson, J. K. Moisture modulates soil reservoirs of active DNA and RNA viruses. Communications Biology. 4, 992.
  • Sims, A. C., Mitchell, H. D., Gralinski, L. E., Kyle, J. E., Burnum-Johnson, K. E., Lam, M., Fulcher, M.L., West, A., Smith, R. D., Randell, S. H., Metz, T. O., Sheahan, T. P., Waters, K. M., Baric, R. S. Unfolded Protein Response Inhibition Reduces Middle East Respiratory Syndrome Coronavirus-Induced Acute Lung Injury. mBio.12, e01572-21.
  • Pomraning, K. R., Dai, Z., Munoz, N., Kim, Y.-M., Gao, Y., Deng, S., Kim, J., Hofstad, B. A., Swita, M. S., Lemmon, T., Collett, J. R., Panisko, E. A., Webb-Robertson, B.-J. M., Zucker, J. D., Nicora, C. D., De Paoli, H., Baker, S. E., Burnum-Johnson, K. E., Hillson, N. J., Magnuson, J. K. Integration of Proteomics and Metabolomics Into the Design, Build, Test, Learn Cycle to Improve 3-Hydroxypropionic Acid Production in Aspergillus pseudoterreus. Frontiers in Bioengineering and Biotechnology. 9.
  • Khadempour, L., Kyle, J. E., Webb-Robertson, B.-J. M., Nicora, C. D., Smith, F. B., Smith, R. D., Lipton, M. S., Currie, C. R.‡, Baker, E. S.‡, Burnum-Johnson, K. E. (co-corresponding author)‡. From Plants to Ants: Fungal Modification of Leaf Lipids for Nutrition and Communication in the Leaf-Cutter Ant Fungal Garden Ecosystem. mSystems. 6, e01307-20.
  • Tsai, C.-F., Zhang, P., Scholten, D., Martin, K., Wang, Y.-T., Zhao, R., Chrisler, W. B., Patel, D. B., Dou, M., Jia, Y., Reduzzi, C., Liu, X., Moore, R. J., Burnum-Johnson, K. E., Lin, M.-H., Hsu, C.-C., Jacobs, J. M., Kagan, J., Srivastava, S., Rodland, K. D., Wiley, S. H., Qian, W.-J., Smith, R. D., Zhu, Y., Cristofanilli, M., Liu, T., Liu, H., Shi, T. Surfactant-assisted one-pot sample preparation for label-free single-cell proteomics. Communications Biology. 4, 265.
  • Veličković, D., Chu, R. K., Henkel, C., Nyhuis, A., Tao, N., Kyle, J. E., Adkins, J. N., Anderton, C. R., Paurus, V., Bloodsworth, K., Bramer, L. M., Cornett, D. S., Curtis, W. R., Burnum-Johnson, K. E. (corresponding author). Preserved and variable spatial-chemical changes of lipids across tomato leaves in response to central vein wounding reveals potential origin of linolenic acid in signal transduction cascade. Plant-Environment Interactions. 2, 28-35.
  • Kim, J., Coradetti, S. T., Kim, Y.-M., Gao, Y., Yaegashi, J., Zucker, J. D., Munoz, N., Zink, E. M., Burnum-Johnson, K. E., Baker, S. E., Simmons, B. A., Skerker, J. M., Gladden, J. M., Magnuson, J. K. Multi-Omics Driven Metabolic Network Reconstruction and Analysis of Lignocellulosic Carbon Utilization in Rhodosporidium toruloides. Frontiers in Bioengineering and Biotechnology. 8.
  • Odenkirk, M.T., Stratton, K. G., Bramer, L. M., Webb-Robertson, B.-J. M., Bloodsworth, K. J., Monroe, M. E., Burnum-Johnson, K. E., Baker, E. S. From Prevention to Disease Perturbations: A Multi-Omic Assessment of Exercise and Myocardial Infarctions. Biomolecules. 11, 40.

2020

  • Geiselman G.M., X. Zhuang, J. Kirby, M. Tran-Gyamfi, J. Prahl, E.R. Sundstrom, and Y. Gao, et al. 2020. "Production of ent-kaurene from lignocellulosic hydrolysate in Rhodosporidium toruloides." Microbial Cell Factories 19, no. 1:Article No. 24. PNNL-SA-150034. doi:10.1186/s12934-020-1293-8
  • Piehowski P.D., Y. Zhu, L.M. Bramer, K.G. Stratton, R. Zhao, D.J. Orton, and R.J. Moore, et al. 2020. "Automated mass spectrometry imaging of over 2000 proteins from tissue sections at 100-µm spatial resolution." Nature Communications 11, no. 1:Article No. 8. PNNL-SA-138884. doi:10.1038/s41467-019-13858-z

2019

  • Burnum-Johnson K.E., X. Zheng, J.N. Dodds, J. Ash, D. Fourches, C.D. Nicora, and J.P. Wendler, et al. 2019. "Ion mobility spectrometry and the omics: Distinguishing isomers, molecular classes and contaminant ions in complex samples." Trends in Analytical Chemistry. TrAC 116. PNNL-SA-140985. doi:10.1016/j.trac.2019.04.022
  • Horta M.A., N. Thieme, Y. Gao, K.E. Burnum-Johnson, C.D. Nicora, M.A. Gritsenko, and M.S. Lipton, et al. 2019. "Broad substrate-specific phosphorylation events are associated with the initial stage of plant cell wall recognition in Neurospora crassa." Frontiers in Microbiology 10. PNNL-SA-143199. doi:10.3389/fmicb.2019.02317
  • Merkley E.D., K.E. Burnum-Johnson, L.N. Anderson, S.C. Jenson, and K.L. Wahl. 2019. "Uniformly 15N-Labeled Recombinant Ricin A-chain as an Internal Retention Time Standard for Increased Confidence in Forensic Identification of Ricin by Untargeted Nanoflow Liquid Chromatography-Tandem Mass Spectrometry." Analytical Chemistry 91, no. 21:13372-13376. PNNL-SA-145704. doi:10.1021/acs.analchem.9b03389
  • Singer R.A., L. Arnes, Y. Cui, J. Wang, Y. Gao, M. Guney, and K.E. Burnum-Johnson, et al. 2019. "The Long Noncoding RNA Paupar Modulates PAX6 Regulatory Activities to Promote Alpha Cell Development and Function." Cell Metabolism 30, no. 6:1091-1106.e8. PNNL-SA-146887. doi:10.1016/j.cmet.2019.09.013
  • Snyder M., S. Lin, A. Posgai, M.A. Atkinson, A. Regev, J. Rood, and O. Rozenblatt-Rosen, et al. 2019. "The human body at cellular resolution: the NIH Human Biomolecular Atlas Program." Nature 574, no. 7777:187-192. PNNL-SA-146510. doi:10.1038/s41586-019-1629-x
  • Stratton K.G., B.M. Webb-Robertson, L. McCue, B.A. Stanfill, D.M. Claborne, I.G. Godinez, and T. Johansen, et al. 2019. "pmartR: Quality Control and Statistics for Mass Spectrometry-based Biological Data." Journal of Proteome Research 18, no. 3:1418-1425. PNNL-SA-138429. doi:10.1021/acs.jproteome.8b00760
  • Yin R., K.E. Burnum-Johnson, X. Sun, S.K. Dey, and J. Laskin. 2019. "High Spatial Resolution Imaging of Biological Tissues Using Nanospray Desorption Electrospray Ionization Mass Spectrometry." Nature Protocols 14, no. 12:3445-3470. PNNL-SA-142602. doi:10.1038/s41596-019-0237-4

2018

  • Duncan K.D., R. Fang, J. Yuan, R.K. Chu, S.K. Dey, K.E. Burnum-Johnson, and I. Lanekoff. 2018. "Quantitative mass spectrometry imaging of prostaglandins as silver ion adducts with nanospray desorption electrospray ionization." Analytical Chemistry 90, no. 12:7246-7252. PNNL-SA-131518. doi:10.1021/acs.analchem.8b00350
  • Kedia K., J.P. Wendler, E.M. Baker, K.E. Burnum-Johnson, L.G. Jarsberg, K.G. Stratton, and A.T. Wright, et al. 2018. "Application of multiplexed ion mobility spectrometry towards the identification of host protein signatures of treatment effect in pulmonary tuberculosis." Tuberculosis 112. PNNL-SA-137966. doi:10.1016/j.tube.2018.07.005
  • Kyle J.E., N.A. Aly, X. Zheng, K.E. Burnum-Johnson, R.D. Smith, and E.M. Baker. 2018. "Evaluating lipid mediator structural complexity using ion mobility spectrometry combined with mass spectrometry." Bioanalysis 10, no. 5:279-289. PNNL-SA-130733. doi:10.4155/bio-2017-0245
  • Menachery V.D., A. Schafer, K.E. Burnum-Johnson, H.D. Mitchell, A.J. Eisfeld-Fenney, K.B. Walters, and C.D. Nicora, et al. 2018. "MERS-CoV and H5N1 influenza virus antagonize antigen presentation by altering the epigenetic landscape." Proceedings of the National Academy of Sciences of the United States of America 115, no. 5:E1012-E1021. PNNL-SA-126254. doi:10.1073/pnas.1706928115
  • Mercer N., T.K. Sigdel, S. Nandoe, C.D. Nicora, K.E. Burnum-Johnson, W. Qian, and M. Sarwal. 2018. "Urinary Virome perturbations in kidney transplantation." Frontiers in Medicine 5. PNNL-SA-130392. doi:10.3389/fmed.2018.00072
  • Nicora C.D., K.E. Burnum-Johnson, E.S. Nakayasu, C.P. Casey, R.A. White, T. Roy Chowdhury, and J.E. Kyle, et al. 2018. "The MPLEx Protocol for Multi-Omic Analyses of Soil Samples." Journal of Visualized Experiments e57343, no. 135. PNNL-SA-129344. doi:10.3791/57343

2017

  • Burnum-Johnson K.E., E.M. Baker, and T.O. Metz. 2017. "Characterizing the Lipid and Metabolite Changes Associated with Placental Function and Pregnancy Complications Using Ion Mobility Spectrometry-Mass Spectrometry and Mass Spectrometry Imaging." Placenta 60, no. Supplement 1:S67-S72. PNNL-SA-123563. doi:10.1016/j.placenta.2017.03.016
  • Burnum-Johnson K.E., J.E. Kyle, A.J. Eisfeld, C.P. Casey, K.G. Stratton, J.F. Gonzalez, and F. Habyarimana, et al. 2017. "MPLEx: A method for simultaneous pathogen inactivation and extraction of samples for multi-omics profiling." Analyst 142, no. 3:442-448. PNNL-SA-116063. doi:10.1039/c6an02486f
  • Eisfeld A.J., P. Halfmann, J.P. Wendler, J.E. Kyle, K.E. Burnum-Johnson, Z. Peralta, and T. Maemura, et al. 2017. "Multi-platform 'Omics Analysis of Human Ebola Virus Disease Pathogenesis." Cell Host & Microbe 22, no. 6:817-829. PNNL-SA-120881. doi:10.1016/j.chom.2017.10.011
  • Kyle J.E., C.P. Casey, K.G. Stratton, E.M. Zink, Y. Kim, X. Zheng, and M.E. Monroe, et al. 2017. "Comparing Identified and Statistically Significant Lipids and Metabolites in 15-Year Old Serum and Dried Blood Spot Samples for Longitudinal Studies." Rapid Communications in Mass Spectrometry 31, no. 5:447-456. PNNL-SA-121197. doi:10.1002/rcm.7808
  • Zheng X., R. Wojcik, X. Zhang, Y.M. Ibrahim, K.E. Burnum-Johnson, D.J. Orton, and M.E. Monroe, et al. 2017. "Coupling Front-end Separations, Ion Mobility Spectrometry, and Mass Spectrometry for Enhanced Multidimensional Biological and Environmental Analyses." Annual Review of Analytical Chemistry 10. PNNL-SA-121198. doi:10.1146/annurev-anchem-061516-045212

2016

  • Burnum-Johnson K.E., S. Nie, C.P. Casey, M.E. Monroe, D.J. Orton, Y.M. Ibrahim, and M.A. Gritsenko, et al. 2016. "Simultaneous Proteomic Discovery and Targeted Monitoring using Liquid Chromatography, Ion Mobility Spectrometry and Mass Spectrometry." Molecular and Cellular Proteomics 15, no. 12:3694-3705. PNNL-SA-118308. doi:10.1074/mcp.M116.061143
  • Huang E.L., P.D. Piehowski, D.J. Orton, R.J. Moore, W. Qian, C.P. Casey, and X. Sun, et al. 2016. "SNaPP: Simplified Nano-Proteomics Platform for reproducible global proteomic analysis of nanogram protein quantities." Endocrinology 157, no. 3:1307-14. PNNL-SA-111854. doi:10.1210/en.2015-1821
  • Khadempour L., K.E. Burnum-Johnson, E.S. Baker, C.D. Nicora, B.M. Webb-Robertson, R.A. White, and M.E. Monroe, et al. 2016. "The fungal cultivar of leaf-cutter ants produces specific enzymes in response to different plant substrates." Molecular Ecology 25, no. 22:5795-5805. PNNL-SA-113016. doi:10.1111/mec.13872
  • Kyle J.E., X. Zhang, K.K. Weitz, M.E. Monroe, Y.M. Ibrahim, R.J. Moore, and J. Cha, et al. 2016. "Uncovering Biologically Significant Lipid Isomers with Liquid Chromatography, Ion Mobility Spectrometry and Mass Spectrometry." Analyst 141, no. 5:1649-1659. PNNL-SA-111991. doi:10.1039/C5AN02062J
  • Lanekoff I., J. Cha, J.E. Kyle, S.K. Dey, J. Laskin, and K.E. Burnum-Johnson. 2016. "Trp53 deficient mice predisposed to preterm birth display region-specific lipid alterations at the embryo implantation site." Scientific Reports 6. PNNL-SA-116850. doi:10.1038/srep33023
  • Nakayasu E.S., C.D. Nicora, A.C. Sims, K.E. Burnum-Johnson, Y. Kim, J.E. Kyle, and M.M. Matzke, et al. 2016. "MPLEx: a Robust and Universal Protocol for Single-Sample Integrative Proteomic, Metabolomic, and Lipidomic Analyses." mSystems 1, no. 3:e00043-16. PNNL-SA-114737. doi:10.1128/mSystems.00043-16
  • Zhang X., M.V. Romm, X. Zheng, E.M. Zink, Y. Kim, K.E. Burnum-Johnson, and D.J. Orton, et al. 2016. "SPE-IMS-MS: An automated platform for sub-sixty second surveillance of endogenous metabolites and xenobiotics in bio?uids." Clinical Mass Spectrometry 2. PNNL-SA-117436. doi:10.1016/j.clinms.2016.11.002

2015

  • Aylward F.O., L. Khadempour, D. Tremmel, B.R. McDonald, C.D. Nicora, S. Wu, and R.J. Moore, et al. 2015. "Enrichment and Broad Representation of Plant Biomass-Degrading Enzymes in the Specialized Hyphal Swellings of Leucoagaricus gongylophorus, the Fungal Symbiont of Leaf-Cutter Ants." PLoS One 10, no. 8:e0134752. PNNL-SA-108498. doi:10.1371/journal.pone.0134752
  • Baker E.S., K.E. Burnum-Johnson, Y.M. Ibrahim, D.J. Orton, M.E. Monroe, R.T. Kelly, and R.J. Moore, et al. 2015. "Enhancing Bottom-up and Top-down Proteomic Measurements with Ion Mobility Separations." Proteomics 15, no. 16:2766-2776. PNNL-SA-107785. doi:10.1002/pmic.201500048
  • Cha J., K.E. Burnum-Johnson, A. Bartos, Y. Li, E.S. Baker, S.C. Tilton, and B.M. Webb-Robertson, et al. 2015. "Muscle segment homeobox genes direct embryonic diapause by limiting inflammation in the uterus." Journal of Biological Chemistry 290, no. 24:15337-15349. PNNL-SA-107786. doi:10.1074/jbc.M115.655001
  • Lanekoff I.T., K.E. Burnum-Johnson, M. Thomas, J. Cha, S.K. Dey, P. yang, and M. Prieto, et al. 2015. "Three-Dimensional Imaging of Lipids and Metabolites in Tissues by Nanospray Desorption Electrospray Ionization Mass Spectrometry." Analytical and Bioanalytical Chemistry 407, no. 8:2063-2071. PNNL-SA-100218. doi:10.1007/s00216-014-8174-0

2014

  • Baker E.S., K.E. Burnum-Johnson, J.M. Jacobs, D.L. Diamond, R.N. Brown, Y.M. Ibrahim, and D.J. Orton, et al. 2014. "Advancing the High Throughput Identification of Liver Fibrosis Protein Signatures Using Multiplexed Ion Mobility Spectrometry." Molecular and Cellular Proteomics 13, no. 4:1119-1127. PNNL-SA-90826. doi:10.1074/mcp.M113.034595
  • Huang E.L., F.O. Aylward, Y. Kim, B.M. Webb-Robertson, C.D. Nicora, Z. Hu, and T.O. Metz, et al. 2014. "The fungus gardens of leaf-cutter ants undergo a distinct physiological transition during biomass degradation." Environmental Microbiology Reports 6, no. 4:389-95. PNNL-SA-96938. doi:10.1111/1758-2229.12163
  • Martin J.L., P.A. Yates, R. Soysa, J.F. Alfaro, F. Yang, K.E. Burnum-Johnson, and V.A. Petyuk, et al. 2014. "Metabolic Reprogramming During Purine Stress in the Protozoan Pathogen Leishmania donovani." PLoS Pathogens 10, no. 2:e1003938. PNNL-SA-96975. doi:10.1371/journal.ppat.1003938

2013

  • Aylward F.O., K.E. Burnum-Johnson, S.G. Tringe, C. Teiling, D. Tremmel, J. Moeller, and J.J. Scott, et al. 2013. "Leucoagaricus gongylophorus Produces Diverse Enzymes for the Degradation of Recalcitrant Plant Polymers in Leaf-Cutter Ant Fungus Gardens." Applied and Environmental Microbiology 79, no. 12:3770-3778. PNNL-SA-92750. doi:10.1128/AEM.03833-12
  • Duijvesz D., K.E. Burnum-Johnson, M.A. Gritsenko, M. Hoogland, M.S. Vredenbregt-van den Berg, R. Willemsen, and T.n. Luider, et al. 2013. "Proteomic Profiling of Exosomes Leads to the Identification of Novel Biomarkers for Prostate Cancer." PLoS One 8, no. 12:Article No. e82589. PNNL-SA-88219. doi:10.1371/journal.pone.0082589
  • Isanapong J., S. Hambright, A.G. Willis, A. Boonmee, S.J. Callister, K.E. Burnum-Johnson, and L. Pasa-Tolic, et al. 2013. "Development of an ecophysiological model for Diplosphaera colotermitum TAV2, a termite hindgut Verrucomicrobium." The ISME Journal 7, no. 9:1803-1813. PNNL-SA-98615. doi:10.1038/ismej.2013.74
  • Lanekoff I.T., K.E. Burnum-Johnson, M. Thomas, J. Short, J.P. Carson, J. Cha, and S.K. Dey, et al. 2013. "High-Speed Tandem Mass Spectrometric in Situ Imaging by Nanospray Desorption Electrospray Ionization Mass Spectrometry." Analytical Chemistry 85, no. 20:9596-9603. PNNL-SA-96267. doi:10.1021/ac401760s
  • Piehowski P.D., V.A. Petyuk, J.D. Sandoval, K.E. Burnum, G.R. Kiebel, M.E. Monroe, and G.A. Anderson, et al. 2013. "STEPS: A Grid Search Methodology for Optimized Peptide Identification Filtering of MS/MS Database Search Results." Proteomics 13, no. 5:766-770. PNNL-SA-86051. doi:10.1002/pmic.201200096

2012

  • Aylward F.O., K.E. Burnum, J.J. Scott, G. Suen, S.G. Tringe, S.M. Adams, and K.W. Barry, et al. 2012. "Metagenomic and metaproteomic insights into bacterial communities in leaf-cutter ant fungus gardens." The ISME Journal 6, no. 9:1688-1701. PNNL-SA-82393. doi:10.1038/ismej.2012.10
  • Baker E.S., T. Liu, V.A. Petyuk, K.E. Burnum-Johnson, Y.M. Ibrahim, G.A. Anderson, and R.D. Smith. 2012. "Mass Spectrometry for Translational Proteomics: Progress and Clinical Implications." Genome Medicine 4. PNNL-SA-86783. doi:10.1186/gm364
  • Burnum K.E., Y. Hirota, E.S. Baker, M. Yoshie, Y.M. Ibrahim, M.E. Monroe, and G.A. Anderson, et al. 2012. "Uterine deletion of Trp53 compromises antioxidant responses in mouse decidua." Endocrinology 153, no. 9:4568-4579. PNNL-SA-87211. doi:10.1210/en.2012-1335
  • Diamond D.L., A. Krasnoselski, K.E. Burnum, M.E. Monroe, B.M. Webb-Robertson, J.E. McDermott, and M.M. Yeh, et al. 2012. "Proteome and Computational Analyses Reveal New Insights into the Mechanisms of Hepatitis C Virus Mediated Liver Disease Posttransplantation." Hepatology 56, no. 1:28-38. PNWD-SA-9552. doi:10.1002/hep.25649
  • Wiedner S.D., K.E. Burnum, L.M. Pederson, L.N. Anderson, S. Fortuin, L.M. Chauvigne-Hines, and A.K. Shukla, et al. 2012. "Multiplexed Activity-based Protein Profiling of the Human Pathogen Aspergillus fumigatus Reveals Large Functional Changes upon Exposure to Human Serum." Journal of Biological Chemistry 287, no. 40:33447-33459. PNNL-SA-87258. doi:10.1074/jbc.M112.394106

2011

  • Burnum K.E., S.J. Callister, C.D. Nicora, S.O. Purvine, P. Hugenholtz, F. Warnecke, and R.H. Scheffrahn, et al. 2011. "Proteome Insights into the Symbiotic Relationship Between a Captive Colony of Nasutitermes corniger and its Hindgut Microbiome." The ISME Journal 5, no. 1:161-164. PNNL-SA-68831. doi:10.1038/ismej.2010.97
  • Lennen R.M., M.A. Kruziki, K. Kumar, R.A. Zinkel, K.E. Burnum, M.S. Lipton, and S.W. Hoover, et al. 2011. "Membrane Stresses Induced by Overproduction of Free Fatty Acids in Escherichia coli." Applied and Environmental Microbiology 77, no. 22:8114-8128. PNNL-SA-83349. doi:10.1128/AEM.05421-11
  • Zhang H., K.E. Burnum, M.L. Luna, B.O. Petritis, J. Kim, W. Qian, and R.J. Moore, et al. 2011. "Quantitative proteomics analysis of adsorbed plasma proteins classifies nanoparticles with different surface properties and size." Proteomics 11, no. 23:4569-4577. PNNL-SA-74159. doi:10.1002/pmic.201100037

2010

  • Hirota, Y., Acar, N., Tranguch, S., Burnum, K. E., Xie, H., Kodama, A., Osuga, Y., Ustunel, I., Friedman, D. B., Caprioli, R. M., Daikoku, T., and Dey, S. K. “Uterine FK506-binding protein 52 (FKBP52)-peroxiredoxin-6 (PRDX6) signaling protects pregnancy from overt oxidative stress,” Proc. Natl. Acad. Sci. 107, 15577-15582.
  • Burnum, K. E., Callister, S. J., Nicora, C. D., Purvine, S. O., Hugenholtz, P., Warnecke, F., Scheffrahn, R. H., Smith, R. D., and Lipton, M. S. “Proteome insights into the symbiotic relationship between a captive colony of Nasutitermes corniger and its hindgut microbiome,” ISME J. 5, 161.

2009

  • Burnum, K. E., Cornett, D. S., Puolitaival, S. M., Milne, S. B., Myers, D. S., Tranguch, S., Brown, H. A., Dey, S. K., and Caprioli, R. M. “Spatial and temporal alterations of phospholipids determined by mass spectrometry during mouse embryo implantation,” J. Lipid Res. 50, 2290-2298. (Cover)

2008

  • Burnum, K. E., Frappier, S. L., and Caprioli, R. M. “Matrix-assisted laser desorption/ionization imaging mass spectrometry for the investigation of proteins and peptides,” Annu. Rev. Anal. Chem. 1, 689-705. (Invited Review Article)
  • Burnum, K. E., Tranguch, S., Mi, D., Daikoku, T., Dey, S. K., and Caprioli, R. M. “Imaging mass spectrometry reveals unique protein profiles during embryo implantation,” Endocrinology 149, 3274-3278.
  • Puolitaival, S. M.*, Burnum, K. E. (co-first author)*, Cornett, D. S., and Caprioli, R. M. “Solvent-free matrix dry-coating for MALDI imaging of phospholipids,” J. Am. Soc. Mass Spectrom. 19, 882-886.