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Young-Mo

Young-Mo Kim

IO Engagement & Performance
Scientist
Pacific Northwest National Laboratory
PO Box 999
MSIN: K8-98
Richland, WA 99352
509/371-7921

Biography

Dr. Young-Mo Kim is an analytical chemist for metabolomics research in PNNL. He received his B.S. and Ph.D. degrees in Korea, and joined the mass spectrometry group in PNNL for post-doctoral training. Currently he is a metabolomics scientist and his research interests include metabolite identification and quantification from complex nature of biological and/or environmental systems, metabolic flux analysis, and capability development and application of various chromatography and mass spectrometry technologies. He is involved in many research projects funded by DOE, NIH, DHS, and a few others. He also served as a lieutenant officer in Korean Army (2000-2002) after his ROTC training at undergraduate.

Research Interests

  • Metabolomics / Lipidomics
  • Chromatography / Mass Spectrometry
  • Environmental Chemistry
  • Environmental Microbiology

Education and Credentials

  • Pacific Northwest National Laboratory, Post-Doctoral, Metabolomics, 2012
  • POSTECH, PhD, Environmental Analytical Chemistry, 2009
  • Sungkyunkwan University, BS, Genetic Engineering, 2000

Affiliations and Professional Service

  • Metabolomics Society
  • American Society for Mass Spectrometry
  • American Society for Microbiology

PNNL Publications

2017

  • Bernstein HC, RS McClure, V Thiel, NC Sadler, YM Kim, WB Chrisler, EA Hill, DA Bryant, MF Romine, JK Jansson, JK Fredrickson, and AS Beliaev. 2017. "Indirect interspecies regulation; transcriptional and physiological responses of a cyanobacterium to heterotrophic partnership." mSystems 2(2):Article No. e00181-16.  doi:10.1128/mSystems.00181-16
  • Burnum-Johnson KE, JE Kyle, AJ Eisfeld, CP Casey, KG Stratton, JF Gonzalez, F Habyarimana, NM Negretti, AC Sims, S Chauhan, LB Thackray, P Halfmann, KB Walters, YM Kim, EM Zink, CD Nicora, KK Weitz, BJM Webb-Robertson, ES Nakayasu, B Ahmer, M Konkel, VL Motin, R Baric, MS Diamond, Y Kawaoka, KM Waters, RD Smith, and TO Metz. 2017. "MPLEx: A method for simultaneous pathogen inactivation and extraction of samples for multi-omics profiling." Analyst 142(3):442-448.  doi:10.1039/c6an02486f
  • Dautel SE, JE Kyle, GCD Clair, RL Sontag, KK Weitz, AK Shukla, SN Nguyen, YM Kim, EM Zink, T Luders, C Frevert, SA Gharib, J Laskin, JP Carson, TO Metz, RA Corley, and CK Ansong. 2017. "Lipidomics reveals dramatic lipid compositional changes in the maturing postnatal lung." Scientific Reports 7:Article No. 40555.  doi:10.1038/srep40555
  • Kerkhoven EJ, YM Kim, S Wei, CD Nicora, TL Fillmore, SO Purvine, BJM Webb-Robertson, RD Smith, SE Baker, TO Metz, and JB Nielsen. 2017. "Leucine biosynthesis is involved in regulating high lipid accumulation in Yarrowia lipolytica." mBio 8(3):Article No. e00857-17.  doi:10.1128/mBio.00857-17
  • Kyle JE, CP Casey, KG Stratton, EM Zink, YM Kim, X Zheng, ME Monroe, KK Weitz, KJ Bloodsworth, DJ Orton, YM Ibrahim, RJ Moore, C Lee, C Pedersen, ES Orwoll, RD Smith, KE Burnum-Johnson, and EM Baker. 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(5):447-456.  doi:10.1002/rcm.7808
  • Romine MF, DA Rodionov, Y Maezato, LN Anderson, P Nandhikonda, IA Rodionova, A Carre, X Li, C Xu, TRW Clauss, YM Kim, TO Metz, and AT Wright. 2017. "Elucidation of new roles for vitamin B12 in regulation of folate, ubiquinone, and methionine metabolism." Proceedings of the National Academy of Sciences of the United States of America 114(7):E1205-E1214.  doi:10.1073/pnas.1612360114
  • Snijders AM, SA Langley, YM Kim, CJ Brislawn, C Noecker, EM Zink, SJ Fansler, CP Casey, D Miller, Y Huang, GH Karpen , SE Celniker, JB Brown, EA Borenstein, JK Jansson, TO Metz, and JH Mao. 2017. "Influence of early life exposure, host genetics and diet on the mouse gut microbiome and metabolome." Nature Microbiology 2(2):Article No. 16221.  doi:10.1038/nmicrobiol.2016.221
  • White RA, III, A Rivas-Ubach, MI Borkum, M Koberl, A Bilbao Pena, SM Colby, DW Hoyt, AK Bingol, YM Kim, JP Wendler, KK Hixson, and GC Jansson. 2017. "The state of rhizospheric science in the era of multi-omics: A practical guide to omics technologies." Rhizosphere 3(2):212-221.  doi:10.1016/j.rhisph.2017.05.003

2016

  • Nakayasu ES, CD Nicora, AC Sims, KE Burnum-Johnson, YM Kim, JE Kyle, MM Matzke, AK Shukla, RK Chu, AA Schepmoes, JM Jacobs, R Baric, BJM Webb-Robertson, RD Smith, and TO Metz. 2016. "MPLEx: a Robust and Universal Protocol for Single-Sample Integrative Proteomic, Metabolomic, and Lipidomic Analyses." mSystems 1(3):e00043-16.  doi:10.1128/mSystems.00043-16
  • Pomraning KR, YM Kim, CD Nicora, RK Chu, EL Bredeweg, SO Purvine, D Hu, TO Metz, and SE Baker. 2016. "Multi-omics analysis reveals regulators of the response to nitrogen limitation in Yarrowia lipolytica." BMC Genomics 17(138):1-18.  doi:10.1186/s12864-016-2471-2
  • Rivas Ubach A, JA Hodar, J Sardans, JE Kyle, YM Kim, M Oravec, O Urban, AB Guenther, and J Penuelas. 2016. "Are the metabolomic responses to folivory of closely related plant species linked to macroevolutionary and plant-folivore coevolutionary processes?" Ecology and Evolution 6(13):4372-4386.  doi:10.1002/ece3.2206
  • Tisoncik-Go J, DJ Gasper, JE Kyle, AJ Eisfeld, C Selinger, M Hatta, J Morrison, MJ Korth, EM Zink, YM Kim, AA Schepmoes, CD Nicora, SO Purvine, KK Weitz, X Peng, R Green, SC Tilton, BJM Webb-Robertson, KM Waters, TO Metz, RD Smith, Y Kawaoka, M Suresh, L Josset, and MG Katze. 2016. "Integrated Omics Analysis of Pathogenic Host Responses during Pandemic H1N1 Influenza Virus Infection: The Crucial Role of Lipid Metabolism." Cell Host & Microbe 19(2):254-66.  doi:10.1016/j.chom.2016.01.002

2015

  • Kim YM, S Nowack, M Olsen, E Becraft, JM Wood, V Thiel, I Klapper, M Kuhl, JK Fredrickson, DA Bryant, DM Ward, and TO Metz. 2015. "Diel metabolomics analysis of a hot spring chlorophototrophic microbial mat leads to new hypotheses of community member metabolisms." Frontiers in Microbiology 6:Article 209.  doi:10.3389/fmicb.2015.00209
  • Lovelace ES, J Wagoner, J MacDonald, T Bammler, J Bruckner, J Brownell, R Beyer, EM Zink, YM Kim, JE Kyle, BJM Webb-Robertson, KM Waters, TO Metz, F Farin, NH Oberlies, and S Polyak. 2015. "Silymarin Suppresses Cellular Inflammation By Inducing Reparative Stress Signaling." Journal of Natural Products 78(8):1990-2000.  doi:10.1021/acs.jnatprod.5b00288
  • Pomraning KR, S Wei, SA Karagiosis, YM Kim, A Dohnalkova, BW Arey, EL Bredeweg, G Orr, TO Metz, and SE Baker. 2015. "Comprehensive metabolomic, lipidomic and microscopic profiling of Yarrowia lipolytica during lipid accumulation identifies targets for increased lipogenesis." PLoS One 10(4):e0123188.  doi:10.1371/journal.pone.0123188

2014

  • Anderson JC, Y Wan, YM Kim, L Pasa-Tolic, TO Metz, and SC Peck. 2014. "Decreased abundance of type III secretion system-inducing signals in Arabidopsis mkp1 enhances resistance against Pseudomonas syringae." Proceedings of the National Academy of Sciences of the United States of America 111(18):6846-6851.  doi:10.1073/pnas.1403248111
  • Boaro AA, YM Kim, A Konopka, SJ Callister, and BK Ahring. 2014. "Integrated 'omics analysis for studying the microbial community response to a pH perturbation of a cellulose-degrading bioreactor culture." FEMS Microbiology Ecology 90(3):802-15.  doi:10.1111/1574-6941.12435
  • Boaro AA, YM Kim, AE Konopka, SJ Callister, and BK Ahring. 2014. "Integrated 'omics Analysis for Studying the Microbial Community Response to a pH Perturbation of a Cellulose-Degrading Bioreactor Culture." FEMS Microbiology Ecology 90(3):802-815.  doi:10.1111/1574-6941.12435
  • Cole JK, JR Hutchison, RS Renslow, YM Kim, WB Chrisler, HE Engelmann, A Dohnalkova, D Hu, TO Metz, JK Fredrickson, and SR Lindemann. 2014. "Phototrophic Biofilm Assembly in Microbial-Mat-Derived Unicyanobacterial Consortia: Model Systems for the Study of Autotroph-Heterotroph Interactions." Frontiers in Microbiology 5:Article No. 109.  doi:10.3389/fmicb.2014.00109
  • Huang EL, FO Aylward, YM Kim, BJM Webb-Robertson, CD Nicora, Z Hu, TO Metz, MS Lipton, RD Smith, CR Currie, and KE Burnum-Johnson. 2014. "The fungus gardens of leaf-cutter ants undergo a distinct physiological transition during biomass degradation." Environmental Microbiology Reports 6(4):389-95.  doi:10.1111/1758-2229.12163
  • Webb-Robertson BJM, YM Kim, EM Zink, KA Hallaian, Q Zhang, R Madupu, KM Waters, and TO Metz. 2014. "A Statistical Analysis of the Effects of Urease Pre-Treatment on the Measurement of the Urinary Metabolome by Gas Chromatography-Mass Spectrometry." Metabolomics 10(5):897-908.  doi:10.1007/s11306-014-0642-1

2013

  • Kim YM, B Schmidt, AS Kidwai, MB Jones, BL Deatherage, HM Brewer, HD Mitchell, BO Palsson, JE McDermott, F Heffron, RD Smith, SN Peterson, C Ansong, DR Hyduke, TO Metz, and JN Adkins. 2013. "Salmonella Modulates Metabolism During Growth under Conditions that Induce Expression of Virulence Genes." Molecular Biosystems 9(6):1522-1534.  doi:10.1039/C3MB25598K
  • Ansong C, AC Rutledge, HD Mitchell, S Chauhan, MB Jones, YM Kim, K Mcateer, BL Deatherage, JL DuBois, HM Brewer, BC Frank, JE McDermott, TO Metz, SN Peterson, RD Smith, VL Motin, and JN Adkins. 2013. "A multi-omic systems approach to elucidating Yersinia virulence mechanisms." Molecular Biosystems 9(1):44-54.  doi:10.1039/C2MB25287B
  • Kaiser BLD, J Li, JA Sanford, YM Kim, SR Kronewitter, MB Jones, C Peterson, SN Peterson, BC Frank, SO Purvine, JN Brown, TO Metz, RD Smith, F Heffron, and JN Adkins. 2013. "A Multi-Omic View of Host-Pathogen-Commensal Interplay in Salmonella-Mediated Intestinal Infection." PLoS One 8(6):Article No. e67155.  doi:10.1371/journal.pone.0067155

2012

  • Bordbar A, ML Mo, ES Nakayasu, AC Rutledge, YM Kim, TO Metz, MB Jones, BC Frank, RD Smith, SN Peterson, DR Hyduke, JN Adkins, and BO Palsson. 2012. "Model-driven multi-omic data analysis elucidates metabolic immunomodulators of macrophage activation." Molecular Systems Biology 8:Article No. 558.  doi:10.1038/msb.2012.21
  • Hu Z, YM Kim, MB Sowa, RJ Robinson, X Gao, TO Metz, WF Morgan, and Q Zhang. 2012. "Metabolomic Response of Human Skin Tissue to Low Dose Ionizing Radiation." Molecular Biosystems 8(7):1979-1986.  doi:10.1039/C2MB25061F

2011

  • Kim YM, TO Metz, Z Hu, SD Wiedner, JS Kim, RD Smith, WF Morgan, and Q Zhang. 2011. "Formation of dehydroalanine from mimosine and cysteine: artifacts in gas chromatography/mass spectrometry based metabolomics ." Rapid Communications in Mass Spectrometry 25:2561-2564.  doi:10.1002/rcm.5134

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