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Biological Sciences Staff information

Ernesto Nakayasu

BioStructure & Function
Pacific Northwest National Laboratory
PO Box 999
MSIN: K8-98
Richland, WA 99352

PNNL Publications


  • Wang L, X Cai, S Wu, R Bomjan, ES Nakayasu, K Händler, JC Hinton, and D Zhao. 2017. "InvS Coordinates Expression of PrgH and FimZ and Is Required for Invasion of Epithelial Cells by Salmonella enterica serovar Typhimurium." Journal of Bacteriology 199(13):00824-16.  doi:10.1128/JB.00824-16
  • 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
  • Liu Y, W Zhu, Y Tan, ES Nakayasu, CJ Staiger, and ZQ Luo. 2017. "A Legionella Effector Disrupts Host Cytoskeletal Structure by Cleaving Actin." PLoS Pathogens 13(1):e1006186.  doi:10.1371/journal.ppat.1006186
  • Muralimanoharan S, C Li, ES Nakayasu, CP Casey, TO Metz, PW Nathanielsz, and A Maloyan. 2017. "Sexual dimorphism in the fetal cardiac response to maternal nutrient restriction." Journal of Molecular and Cellular Cardiology 108:181-193.  doi:10.1016/j.yjmcc.2017.06.006
  • Qiu J, K Yu, X Fei, Y Liu, ES Nakayasu, PD Piehowski, JB Shaw, K Puvar, C Das, X Liu, and ZQ Luo. 2017. "A unique deubiquitinase that deconjugates phosphoribosyl-linked protein ubiquitination." Cell Research 27(7):865-881.  doi:10.1038/cr.2017.66
  • Shakya B, WD Penn, ES Nakayasu, and DJ Lacount. 2017. "The Plasmodium falciparum exported protein PF3D7_0402000 binds to erythrocyte ankyrin and band 4.1." Molecular and Biochemical Parasitology 216:5-13.  doi:10.1016/j.molbiopara.2017.06.002
  • Yang J, L Yin, FH Lessner, ES Nakayasu, SH Payne, K Fixen, LA Gallagher, and C Harwood. 2017. "Genes essential for phototrophic growth by a purple alphaproteobacterium." Environmental Microbiology 19(9):3567-3578.  doi:10.1111/1462-2920.13852


  • Baltazar LM, ES Nakayasu, T Sobreira, H Choi, A Casadevall, L Nimrichter, and JD Nosanchuk. 2016. "Antibody Binding Alters the Characteristics and Contents of Extracellular Vesicles Released by Histoplasma Capsulatum." mSphere 1(2):Article No. e00085-15.  doi:10.1128/mSphere.00085-15
  • 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
  • Qiu J, MJ Sheedlo, K Yu, Y Tan, ES Nakayasu, C Das, X Liu, and ZQ Luo. 2016. "Ubiquitination independent of E1 and E2 enzymes by bacterial effectors." Nature 533(7601):120-124.  doi:10.1038/nature17657
  • Sontag RL, ES Nakayasu, RN Brown, GS Niemann, MA Sydor, O Sanchez, C Ansong, SY Lu, H Choi, D Valleau, KK Weitz, A Savchenko, E Cambronne, and JN Adkins. 2016. "Identification of novel host interactors of effectors secreted by Salmonella and Citrobacter: SrfH regulates host kinase ERK2 phosphorylation." mSystems 1(4):e00032-15.  doi:10.1128/mSystems.00032-15


  • Elfenbein JR, LA Knodler, ES Nakayasu, C Ansong, HM Brewer, L Bogomolnaya, LG Adams, M McClelland, JN Adkins, and HL Andrews-Polymenis. 2015. "Multicopy single-stranded DNA directs intestinal colonization of enteric pathogens." PLoS Genetics 11(9):e1005472.  doi:10.1371/journal.pgen.1005472
  • Li J, CC Overall, ES Nakayasu, AS Kidwai, MB Jones, R Johnson, NT Nguyen, JE McDermott, C Ansong, F Heffron, E Cambronne, and JN Adkins. 2015. "Analysis of the Salmonella regulatory network suggests involvement of SsrB and H-NS in sE-regulated SPI-2 gene expression." Frontiers in Microbiology 6:Artcle No. 27.  doi:10.3389/fmicb.2015.00027
  • Li J, ES Nakayasu, CC Overall, R Johnson, AS Kidwai, JE McDermott, C Ansong, F Heffron, E Cambronne, and JN Adkins. 2015. "Global analysis of Salmonella alternative sigma factor E on protein translation." Journal of Proteome Research 14(4):1716-1726.  doi:10.1021/pr5010423
  • Nakayasu ES, MA Sydor, RN Brown, RL Sontag, T Sobreira, GW Slysz, DR Humphrys, T Skarina, O Onoprienko, R Di Leo, BLD Kaiser, J Li, C Ansong, E Cambronne, RD Smith, A Savchenko, and JN Adkins. 2015. "Identification of Salmonella Typhimurium deubiquitinase SseL substrates by immunoaffinity enrichment and quantitative proteomic analysis." Journal of Proteome Research 14(9):4029-4038.  doi:10.1021/acs.jproteome.5b00574


  • Malouli D, SG Hansen, ES Nakayasu, EE Marshall, CM Hughes, AB Ventura, RM Gilbride, MS Lewis, G Xu, CN Kreklywich, N Whizin, M Fischer, AW Legasse, K Viswanathan, D Siess, DG Camp, II, MK Axthelm, C Kahl, VR DeFilippis, RD Smith, DN Streblow, LJ Picker, and K Fruh. 2014. "Cytomegalovirus pp65 limits dissemination but is dispensable for persistence." Journal of Clinical Investigation 124(5):1928-1944.  doi:10.1172/JCI67420
  • Nakayasu ES, S Wu, MA Sydor, AK Shukla, KK Weitz, RJ Moore, KK Hixson, JS Kim, VA Petyuk, ME Monroe, L Pasa-Tolic, W Qian, RD Smith, JN Adkins, and C Ansong. 2014. "A Method to determine lysine acetylation stoichiometries." International Journal of Proteomics 2014:Article No. 730725.  doi:10.1155/2014/730725


  • Ansong C, S Wu, D Meng, X Liu, HM Brewer, BLD Kaiser, ES Nakayasu, JR Cort, PA Pevzner, RD Smith, F Heffron, JN Adkins, and L Pasa-Tolic. 2013. "Top-down proteomics reveals a unique protein S-thiolation switch in Salmonella Typimurium in response to infection-like conditions." Proceedings of the National Academy of Sciences of the United States of America 110(25):10153-10158.  doi:10.1073/pnas.1221210110
  • Conlon BP, ES Nakayasu, LE Fleck, MD LaFleur, VM Isabella, K Coleman, SN Leonard, RD Smith, JN Adkins, and K Lewis. 2013. "Activated ClpP kills persisters and eradicates a chronic biofilm infection." Nature 503(7476):365-370.  doi:10.1038/nature12790
  • Nakayasu ES, C Ansong, JN Brown, F Yang, D Lopez-Ferrer, W Qian, RD Smith, and JN Adkins. 2013. "Evaluation of selected binding domains for the analysis of ubiquitinated proteomes." Journal of the American Society for Mass Spectrometry 24(8):1214-1223.  doi:10.1007/s13361-013-0619-8
  • Nakayasu ES, R Tempel, XA Cambronne, VA Petyuk, MB Jones, MA Gritsenko, ME Monroe, F Yang, RD Smith, JN Adkins, and F Heffron. 2013. "Comparative phosphoproteomics reveals components of host cell invasion and post-transcriptional regulation during Francisella infection." Molecular and Cellular Proteomics 12(11):3297-3309.  doi:10.1074/mcp.M113.029850
  • Nakayasu ES, RN Brown, C Ansong, MA Sydor, S Imtiaz, C Mihai, RL Sontag, KK Hixson, ME Monroe, T Sobreira, G Orr, VA Petyuk, F Yang, RD Smith, and JN Adkins. 2013. "Multi-omic data integration links Deleted in Breast Cancer 1 (DBC1) Degradation to Chromatin Remodeling in Inflammatory Response." Molecular & Cellular Proteomics. MCP 12(8):2136-2147.  doi:10.1074/mcp.M112.026138
  • Su D, AK Shukla, B Chen, JS Kim, ES Nakayasu, Y Qu, UK Aryal, KK Weitz, TRW Clauss, ME Monroe, DG Camp, II, DJ Bigelow, RD Smith, RN Kulkarni, and W Qian. 2013. "Quantitative Site-specific Reactivity Profiling of S-Nitrosylation in Mouse Skeletal Muscle Using Cysteinyl Peptide Enrichment Coupled with Mass Spectrometry." Free Radical Biology & Medicine 57:68-78.  doi:10.1016/j.freeradbiomed.2012.12.010


  • 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
  • Malouli D, ES Nakayasu, K Viswanathan, DG Camp, II, WL Chang, PA Barry, RD Smith, and K Fruh. 2012. "Reevaluation of the Coding Potential and Proteomic Analysis of the BAC Derived Rhesus Cytomegalovirus Strain 68-1." Journal of Virology 86(17):8959-8973.  doi:10.1128/JVI.01132-12


  • McDermott JE, H Yoon, ES Nakayasu, TO Metz, DR Hyduke, AS Kidwai, BO Palsson, JN Adkins, and F Heffron. 2011. "Technologies and Approaches to Elucidate and Model the Virulence Program of Salmonella." Frontiers in Microbiology 2:121.  doi:10.3389/fmicb.2011.00121

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