Accomplishments and discoveries from VGN students and faculty

Publications

Facility Supported Publications:

  1. St Clair, R. M., Dumas, C. M., Williams, K. S., Goldstein, M. T., Stant, E. A., Ebert, A. M., and Ballif, B. A. (2019) PKC induces release of a functional ectodomain of the guidance cue semaphorin6A. FEBS letters 
  2. Scuderi, R. A., Ebenstein, D. B., Lam, Y. W., Kraft, J., and Greenwood, S. L. (2019) Inclusion of grape marc in dairy cattle rations alters the bovine milk proteome. J Dairy Res 86, 154-161
  3. Schwartzman, J. A., Lynch, J. B., Flores Ramos, S., Zhou, L., Apicella, M. A., Yew, J. Y., and Ruby, E. G. (2019) Acidic pH promotes lipopolysaccharide modification and alters colonization in a bacteria-animal mutualism. Mol Microbiol 
  4. Mikheyeva, I. V., Thomas, J. M., Kolar, S. L., Corvaglia, A. R., Gaiotaa, N., Leo, S., Francois, P., Liu, G. Y., Rawat, M., and Cheung, A. L. (2019) YpdA, a putative bacillithiol disulfide reductase, contributes to cellular redox homeostasis and virulence in Staphylococcus aureus. Mol Microbiol 111, 1039-1056
  5. Lynch, J. B., Schwartzman, J. A., Bennett, B. D., McAnulty, S. J., Knop, M., Nyholm, S. V., and Ruby, E. G. (2019) Ambient pH alters protein content of outer membrane vesicles, driving host development in a beneficial symbiosis. Journal of bacteriology 
  6. Keller, J. I., Lima-Cordon, R., Monroy, M. C., Schmoker, A. M., Zhang, F., Howard, A., Ballif, B. A., and Stevens, L. (2019) Protein mass spectrometry detects multiple bloodmeals for enhanced Chagas disease vector ecology. Infect Genet Evol 74, 103998
  7. Corigliano, M. G., Albarracin, R. M., Vilas, J. M., Sanchez Lopez, E. F., Bengoa Luoni, S. A., Deng, B., Farran, I., Veramendi, J., Maiale, S. J., Sander, V. A., and Clemente, M. (2019) Heat treatment alleviates the growth and photosynthetic impairment of transplastomic plants expressing Leishmania infantum Hsp83-Toxoplasma gondii SAG1 fusion protein. Plant Sci 284, 117-126
  8. Wrenn, S. M., Griswold, E. D., Uhl, F. E., Uriarte, J. J., Park, H. E., Coffey, A. L., Dearborn, J. S., Ahlers, B. A., Deng, B., Lam, Y. W., Huston, D. R., Lee, P. C., Wagner, D. E., and Weiss, D. J. (2018) Avian lungs: A novel scaffold for lung bioengineering. PloS one 13, e0198956
  9. Wood, M., Rymarchyk, S., Zheng, S., and Cen, Y. (2018) Trichostatin A inhibits deacetylation of histone H3 and p53 by SIRT6. Archives of biochemistry and biophysics 638, 8-17
  10. van der Velden, J. L., Wagner, D. E., Lahue, K. G., Abdalla, S. T., Lam, Y. W., Weiss, D. J., and Janssen-Heininger, Y. M. W. (2018) TGF-beta1-induced deposition of provisional extracellular matrix by tracheal basal cells promotes epithelial-to-mesenchymal transition in a JNK1-dependent manner. American journal of physiology. Lung cellular and molecular physiology 
  11. Sladewski, T. E., Billington, N., Ali, M. Y., Bookwalter, C. S., Lu, H., Krementsova, E. B., Schroer, T. A., and Trybus, K. M. (2018) Recruitment of two dyneins to an mRNA-dependent Bicaudal D transport complex. eLife 7
  12. Sheehe, J. L., Bonev, A. D., Schmoker, A. M., Ballif, B. A., Nelson, M. T., Moon, T. M., and Dostmann, W. R. (2018) Oxidation of cysteine 117 stimulates constitutive activation of the type Ialpha cGMP-dependent protein kinase. The Journal of biological chemistry 293, 16791-16802
  13. Schmoker, A. M., Barritt, S. A., Weir, M. E., Mann, J. E., Hogan, T. C., Ballif, B. A., and Deming, P. B. (2018) Fyn Regulates Binding Partners of Cyclic-AMP Dependent Protein Kinase A. Proteomes 6
  14. Peng, M., Cong, K., Panzarino, N. J., Nayak, S., Calvo, J., Deng, B., Zhu, L. J., Morocz, M., Hegedus, L., Haracska, L., and Cantor, S. B. (2018) Opposing Roles of FANCJ and HLTF Protect Forks and Restrain Replication during Stress. Cell reports 24, 3251-3261
  15. Munson, P., Lam, Y. W., MacPherson, M., Beuschel, S., and Shukla, A. (2018) Mouse serum exosomal proteomic signature in response to asbestos exposure. Journal of cellular biochemistry 119, 6266-6273
  16. Munson, P., Lam, Y. W., Dragon, J., MacPherson, M., and Shukla, A. (2018) Exosomes from asbestos-exposed cells modulate gene expression in mesothelial cells. FASEB journal : official publication of the Federation of American Societies for Experimental Biology, fj201701291RR
  17. Keller, J. I., Schmidt, J. O., Schmoker, A. M., Ballif, B. A., and Stevens, L. (2018) Protein mass spectrometry extends temporal blood meal detection over polymerase chain reaction in mouse-fed Chagas disease vectors. Memorias do Instituto Oswaldo Cruz 113, e180160
  18. Heppner, D. E., Dustin, C. M., Liao, C., Hristova, M., Veith, C., Little, A. C., Ahlers, B. A., White, S. L., Deng, B., Lam, Y. W., Li, J., and van der Vliet, A. (2018) Direct cysteine sulfenylation drives activation of the Src kinase. Nature communications 9, 4522
  19. Graham, E., Rymarchyk, S., Wood, M., and Cen, Y. (2018) Development of Activity-Based Chemical Probes for Human Sirtuins. ACS chemical biology 13, 782-792
  20. Burgess, E. J., Hoyt, L. R., Randall, M. J., Mank, M. M., Bivona, J. J., 3rd, Eisenhauer, P. L., Botten, J. W., Ballif, B. A., Lam, Y. W., Wargo, M. J., Boyson, J. E., Ather, J. L., and Poynter, M. E. (2018) Bacterial Lipoproteins Constitute the TLR2-Stimulating Activity of Serum Amyloid A. Journal of immunology 
  21. Bontemps-Gallo, S., Gaviard, C., Richards, C. L., Kentache, T., Raffel, S. J., Lawrence, K. A., Schindler, J. C., Lovelace, J., Dulebohn, D. P., Cluss, R. G., Hardouin, J., and Gherardini, F. C. (2018) Global Profiling of Lysine Acetylation in Borrelia burgdorferi B31 Reveals Its Role in Central Metabolism. Frontiers in microbiology 9, 2036
  22. Ziegler, C. M., Eisenhauer, P., Kelly, J. A., Dang, L. N., Beganovic, V., Bruce, E. A., King, B. R., Shirley, D. J., Weir, M. E., Ballif, B. A., and Botten, J. (2017) A proteomic survey of Junin virus interactions with human proteins reveals host factors required for arenavirus replication. Journal of virology 
  23. Uhl, F. E., Wagner, D. E., and Weiss, D. J. (2017) Preparation of Decellularized Lung Matrices for Cell Culture and Protein Analysis. Methods in molecular biology 1627, 253-283
  24. Toomey, C. G., Weiss, D., Chant, A., Ackerman, M., Ahlers, B. A., Lam, Y.-W., Ricciardi, C., Bourne, D., and Kraemer-Chant, C. M. (2017) Development and Applications of a Calmodulin-Based Fusion Protein System for the Expression and Purification of WW and Zinc Finger Modules. Advances in Biological Chemistry 07, 89-106
  25. Thammahong, A., Caffrey-Card, A. K., Dhingra, S., Obar, J. J., and Cramer, R. A. (2017) Aspergillus fumigatus Trehalose-Regulatory Subunit Homolog Moonlights To Mediate Cell Wall Homeostasis through Modulation of Chitin Synthase Activity. mBio 8
  26. Tacoma, R., Gelsinger, S. L., Lam, Y. W., Scuderi, R. A., Ebenstein, D. B., Heinrichs, A. J., and Greenwood, S. L. (2017) Exploration of the bovine colostrum proteome and effects of heat treatment time on colostrum protein profile. Journal of dairy science 100, 9392-9401
  27. Tacoma, R., Fields, J., Ebenstein, D. B., Lam, Y. W., and Greenwood, S. L. (2017) Ratio of dietary rumen degradable protein to rumen undegradable protein affects nitrogen partitioning but does not affect the bovine milk proteome produced by mid-lactation Holstein dairy cows. Journal of dairy science 100, 7246-7261
  28. St Clair, R. M., Emerson, S. E., D'Elia, K. P., Weir, M. E., Schmoker, A. M., Ebert, A. M., and Ballif, B. A. (2017) Fyn-dependent phosphorylation of PlexinA1 and PlexinA2 at conserved tyrosines is essential for zebrafish eye development. The FEBS journal 
  29. Schmoker, A. M., Weinert, J. L., Kellett, K. J., Johnson, H. E., Joy, R. M., Weir, M. E., Ebert, A. M., and Ballif, B. A. (2017) Dynamic multi-site phosphorylation by Fyn and Abl drives the interaction between CRKL and the novel scaffolding receptors DCBLD1 and DCBLD2. The Biochemical journal 
  30. Prakash, A., Moharana, K., Wallace, S. S., and Doublie, S. (2017) Destabilization of the PCNA trimer mediated by its interaction with the NEIL1 DNA glycosylase. Nucleic acids research 45, 2897-2909
  31. Pollard, L. W., Bookwalter, C. S., Tang, Q., Krementsova, E. B., Trybus, K. M., and Lowey, S. (2017) Fission yeast myosin Myo2 is down-regulated in actin affinity by light chain phosphorylation. Proceedings of the National Academy of Sciences of the United States of America 114, E7236-E7244
  32. Northrop, A. C., Brooks, R., Ellison, A. M., Gotelli, N. J., and Ballif, B. A. (2017) Environmental proteomics reveals taxonomic and functional changes in an enriched aquatic ecosystem. Ecosphere 8
  33. Liu, Y., Wang, B. X., Li, J., Song, Z. Q., Lu, B. G., Chi, M., Yang, B., Liu, J. B., Lam, Y. W., Li, J. X., and Xu, D. Y. (2017) Salt-response analysis in two rice cultivars at seedling stage. Acta Physiol Plant 39
  34. Li, S., Diego-Limpin, P. A., Bajrami, B., Keshipeddy, S., Lam, Y. W., Deng, B., Farrokhi, V., McShane, A. J., Nemati, R., Howell, A. R., and Yao, X. (2017) Scaling Proteome-Wide Reactions of Activity-Based Probes. Analytical chemistry 89, 6295-6299
  35. Lee, C. W., Stankowski, J. N., Chew, J., Cook, C. N., Lam, Y. W., Almeida, S., Carlomagno, Y., Lau, K. F., Prudencio, M., Gao, F. B., Bogyo, M., Dickson, D. W., and Petrucelli, L. (2017) The lysosomal protein cathepsin L is a progranulin protease. Molecular neurodegeneration 12, 55
  36. King, B. R., Hershkowitz, D., Eisenhauer, P. L., Weir, M. E., Ziegler, C. M., Russo, J., Bruce, E. A., Ballif, B. A., and Botten, J. (2017) A Map of the Arenavirus Nucleoprotein-Host Protein Interactome Reveals that Junin Virus Selectively Impairs the Antiviral Activity of Double-Stranded RNA-Activated Protein Kinase (PKR). Journal of virology 91
  37. Keller, J. I., Ballif, B. A., St Clair, R. M., Vincent, J. J., Monroy, M. C., and Stevens, L. (2017) Chagas disease vector blood meal sources identified by protein mass spectrometry. PloS one 12, e0189647
  38. Corwin, T., Woodsmith, J., Apelt, F., Fontaine, J. F., Meierhofer, D., Helmuth, J., Grossmann, A., Andrade-Navarro, M. A., Ballif, B. A., and Stelzl, U. (2017) Defining Human Tyrosine Kinase Phosphorylation Networks Using Yeast as an In Vivo Model Substrate. Cell systems 5, 128-139 e124
  39. Clemments, A. M., Botella, P., and Landry, C. C. (2017) Spatial Mapping of Protein Adsorption on Mesoporous Silica Nanoparticles by Stochastic Optical Reconstruction Microscopy. Journal of the American Chemical Society 139, 3978-3981
  40. Ziegler, C. M., Eisenhauer, P., Bruce, E. A., Weir, M. E., King, B. R., Klaus, J. P., Krementsov, D. N., Shirley, D. J., Ballif, B. A., and Botten, J. (2016) The Lymphocytic Choriomeningitis Virus Matrix Protein PPXY Late Domain Drives the Production of Defective Interfering Particles. PLoS pathogens 12, e1005501
  41. Ziegler, C. M., Eisenhauer, P., Bruce, E. A., Beganovic, V., King, B. R., Weir, M. E., Ballif, B. A., and Botten, J. (2016) A novel phosphoserine motif in the LCMV matrix protein Z regulates the release of infectious virus and defective interfering particles. The Journal of general virology 97, 2084-2089
  42. Weir, M. E., Mann, J. E., Corwin, T., Fulton, Z. W., Hao, J. M., Maniscalco, J. F., Kenney, M. C., Roman Roque, K. M., Chapdelaine, E. F., Stelzl, U., Deming, P. B., Ballif, B. A., and Hinkle, K. L. (2016) Novel autophosphorylation sites of Src family kinases regulate kinase activity and SH2 domain-binding capacity. FEBS letters 590, 1042-1052
  43. Tang, Q., Billington, N., Krementsova, E. B., Bookwalter, C. S., Lord, M., and Trybus, K. M. (2016) A single-headed fission yeast myosin V transports actin in a tropomyosin-dependent manner. The Journal of cell biology 214, 167-179
  44. Tacoma, R., Fields, J., Ebenstein, D. B., Lam, Y. W., and Greenwood, S. L. (2016) Comparative proteomics dataset of skimmed milk samples from Holstein and Jersey dairy cattle. Data in brief 6, 843-846
  45. Prakash, A., Cao, V. B., and Doublie, S. (2016) Phosphorylation Sites Identified in the NEIL1 DNA Glycosylase Are Potential Targets for the JNK1 Kinase. PloS one 11, e0157860
  46. Platz, J., Bonenfant, N. R., Uhl, F. E., Coffey, A. L., McKnight, T., Parsons, C., Sokocevic, D., Borg, Z. D., Lam, Y. W., Deng, B., Fields, J. G., DeSarno, M., Loi, R., Hoffman, A. M., Bianchi, J., Dacken, B., Petersen, T., Wagner, D. E., and Weiss, D. J. (2016) Comparative Decellularization and Recellularization of Wild-Type and Alpha 1,3 Galactosyltransferase Knockout Pig Lungs: A Model for Ex Vivo Xenogeneic Lung Bioengineering and Transplantation. Tissue engineering. Part C, Methods 22, 725-739
  47. Lemas, D., Lekkas, P., Ballif, B. A., and Vigoreaux, J. O. (2016) Intrinsic disorder and multiple phosphorylations constrain the evolution of the flightin N-terminal region. Journal of proteomics 135, 191-200
  48. Krishnamurthy, S., Deng, B., Del Rio, R., Buchholz, K. R., Treeck, M., Urban, S., Boothroyd, J., Lam, Y. W., and Ward, G. E. (2016) Not a Simple Tether: Binding of Toxoplasma gondii AMA1 to RON2 during Invasion Protects AMA1 from Rhomboid-Mediated Cleavage and Leads to Dephosphorylation of Its Cytosolic Tail. mBio 7
  49. Cheerathodi, M., Avci, N. G., Guerrero, P. A., Tang, L. K., Popp, J., Morales, J. E., Chen, Z., Carnero, A., Lang, F. F., Ballif, B. A., Rivera, G. M., and McCarty, J. H. (2016) The Cytoskeletal Adapter Protein Spinophilin Regulates Invadopodia Dynamics and Tumor Cell Invasion in Glioblastoma. Molecular cancer research : MCR 14, 1277-1287
  50. Caballero, M. C., Alonso, A. M., Deng, B., Attias, M., de Souza, W., and Corvi, M. M. (2016) Identification of new palmitoylated proteins in Toxoplasma gondii. Biochimica et biophysica acta 1864, 400-408
  51. Yano, J., Valentine, M. S., and Van Houten, J. L. (2015) Novel Insights into the Development and Function of Cilia Using the Advantages of the Paramecium Cell and Its Many Cilia. Cells 4, 297-314
  52. Xie, Y., Jin, Y., Merenick, B. L., Ding, M., Fetalvero, K. M., Wagner, R. J., Mai, A., Gleim, S., Tucker, D. F., Birnbaum, M. J., Ballif, B. A., Luciano, A. K., Sessa, W. C., Rzucidlo, E. M., Powell, R. J., Hou, L., Zhao, H., Hwa, J., Yu, J., and Martin, K. A. (2015) Phosphorylation of GATA-6 is required for vascular smooth muscle cell differentiation after mTORC1 inhibition. Science signaling 8, ra44
  53. Woodward, M., Previs, M. J., Mader, T. J., and Debold, E. P. (2015) Modifications of myofilament protein phosphorylation and function in response to cardiac arrest induced in a swine model. Frontiers in physiology 6, 199
  54. Tacoma, R., Fields, J., Ebenstein, D. B., Lam, Y. W., and Greenwood, S. L. (2015) Characterization of the bovine milk proteome in early-lactation Holstein and jersey breeds of dairy cows. Journal of proteomics 
  55. Smith, K. P., Fields, J. G., Voogt, R. D., Deng, B., Lam, Y. W., and Mintz, K. P. (2015) Alteration in abundance of specific membrane proteins of Aggregatibacter actinomycetemcomitans is attributed to deletion of the inner membrane protein MorC. Proteomics 
  56. Schmidts, M., Hou, Y., Cortes, C. R., Mans, D. A., Huber, C., Boldt, K., Patel, M., van Reeuwijk, J., Plaza, J. M., van Beersum, S. E., Yap, Z. M., Letteboer, S. J., Taylor, S. P., Herridge, W., Johnson, C. A., Scambler, P. J., Ueffing, M., Kayserili, H., Krakow, D., King, S. M., Uk10K, Beales, P. L., Al-Gazali, L., Wicking, C., Cormier-Daire, V., Roepman, R., Mitchison, H. M., and Witman, G. B. (2015) TCTEX1D2 mutations underlie Jeune asphyxiating thoracic dystrophy with impaired retrograde intraflagellar transport. Nature communications 6, 7074
  57. Perlini, L. E., Szczurkowska, J., Ballif, B. A., Piccini, A., Sacchetti, S., Giovedi, S., Benfenati, F., and Cancedda, L. (2015) Synapsin III acts downstream of semaphorin 3A/CDK5 signaling to regulate radial migration and orientation of pyramidal neurons in vivo. Cell reports 11, 234-248
  58. Flemer, S., Jr. (2015) Fmoc-Sec(Xan)-OH: synthesis and utility of Fmoc selenocysteine SPPS derivatives with acid-labile sidechain protection. Journal of peptide science : an official publication of the European Peptide Society 21, 53-59
  59. Daniels, G., Ballif, B. A., Helias, V., Saison, C., Grimsley, S., Mannessier, L., Hustinx, H., Lee, E., Cartron, J. P., Peyrard, T., and Arnaud, L. (2015) Lack of the nucleoside transporter ENT1 results in the Augustine-null blood type and ectopic mineralization. Blood 125, 3651-3654
  60. Cunniff, B., Newick, K., Nelson, K. J., Wozniak, A. N., Beuschel, S., Leavitt, B., Bhave, A., Butnor, K., Koenig, A., Chouchani, E. T., James, A. M., Haynes, A. C., Lowther, W. T., Murphy, M. P., Shukla, A., and Heintz, N. H. (2015) Disabling Mitochondrial Peroxide Metabolism via Combinatorial Targeting of Peroxiredoxin 3 as an Effective Therapeutic Approach for Malignant Mesothelioma. PloS one 10, e0127310
  61. Clemments, A. M., Botella, P., and Landry, C. C. (2015) Protein Adsorption From Biofluids on Silica Nanoparticles: Corona Analysis as a Function of Particle Diameter and Porosity. ACS applied materials & interfaces 7, 21682-21689
  62. Cheerathodi, M., Vincent, J. J., and Ballif, B. A. (2015) Quantitative comparison of CrkL-SH3 binding proteins from embryonic murine brain and liver: Implications for developmental signaling and the quantification of protein species variants in bottom-up proteomics. Journal of proteomics 125, 104-111
  63. Awata, J., Song, K., Lin, J., King, S. M., Sanderson, M. J., Nicastro, D., and Witman, G. B. (2015) DRC3 connects the N-DRC to dynein g to regulate flagellar waveform. Molecular biology of the cell 26, 2788-2800
  64. Arnaud, L., Kelley, L. P., Helias, V., Cartron, J. P., and Ballif, B. A. (2015) SMIM1 is a type II transmembrane phosphoprotein and displays the Vel blood group antigen at its carboxyl-terminus. FEBS letters 589, 3624-3630
  65. Wagner, D. E., Bonenfant, N. R., Sokocevic, D., DeSarno, M. J., Borg, Z. D., Parsons, C. S., Brooks, E. M., Platz, J. J., Khalpey, Z. I., Hoganson, D. M., Deng, B., Lam, Y. W., Oldinski, R. A., Ashikaga, T., and Weiss, D. J. (2014) Three-dimensional scaffolds of acellular human and porcine lungs for high throughput studies of lung disease and regeneration. Biomaterials 35, 2664-2679
  66. Wagner, D. E., Bonenfant, N. R., Parsons, C. S., Sokocevic, D., Brooks, E. M., Borg, Z. D., Lathrop, M. J., Wallis, J. D., Daly, A. B., Lam, Y. W., Deng, B., Desarno, M. J., Ashikaga, T., Loi, R., and Weiss, D. J. (2014) Comparative decellularization and recellularization of normal versus emphysematous human lungs. Biomaterials 35, 3281-3297
  67. Tang, Q., Andenmatten, N., Triana, M. A., Deng, B., Meissner, M., Moreno, S. N., Ballif, B. A., and Ward, G. E. (2014) Calcium-dependent phosphorylation alters Class XIVa myosin function in the protozoan parasite Toxoplasma gondii. Molecular biology of the cell 
  68. Smith, K. P., Fields, J. G., Voogt, R. D., Deng, B., Lam, Y. W., and Mintz, K. P. (2014) The cell envelope proteome of Aggregatibacter actinomycetemcomitans. Molecular oral microbiology 
  69. Rizzo, A. A., Suhanovsky, M. M., Baker, M. L., Fraser, L. C., Jones, L. M., Rempel, D. L., Gross, M. L., Chiu, W., Alexandrescu, A. T., and Teschke, C. M. (2014) Multiple Functional Roles of the Accessory I-Domain of Bacteriophage P22 Coat Protein Revealed by NMR Structure and CryoEM Modeling. Structure 22, 830-841
  70. Picariello, T., Valentine, M. S., Yano, J., and Van Houten, J. (2014) Reduction of meckelin leads to general loss of cilia, ciliary microtubule misalignment and distorted cell surface organization. Cilia 3, 2
  71. Miller, R. W., Duncan, A. K., Schneebeli, S. T., Gray, D. L., and Whalley, A. C. (2014) Synthesis and structural data of tetrabenzo[8]circulene. Chemistry 20, 3705-3711
  72. Machamer, N. K., Liu, X., and Waters, S. P. (2014) A new entry to azomethine ylides from allylic amines and glyoxals: shifting the reliance on amino ester precursors. Organic letters 16, 4996-4999
  73. Lopez-Camacho, C., van Wijnen, A. J., Lian, J. B., Stein, J. L., and Stein, G. S. (2014) Core Binding Factor beta (CBFbeta) Is Retained in the Midbody During Cytokinesis. Journal of cellular physiology 229, 1466-1474
  74. Leung, J. M., Tran, F., Pathak, R. B., Poupart, S., Heaslip, A. T., Ballif, B. A., Westwood, N. J., and Ward, G. E. (2014) Identification of T. gondii Myosin Light Chain-1 as a Direct Target of TachypleginA-2, a Small-Molecule Inhibitor of Parasite Motility and Invasion. PloS one 9, e98056
  75. Jabre, N. D., Watanabe, T., and Brewer, M. (2014) Formal and total synthesis of (+/-)-cycloclavine. Tetrahedron letters 56, 197-199
  76. Hristova, M., Veith, C., Habibovic, A., Lam, Y. W., Deng, B., Geiszt, M., Janssen-Heininger, Y. M., and van der Vliet, A. (2014) Identification of DUOX1-dependent redox signaling through protein S-glutathionylation in airway epithelial cells. Redox biology 2, 436-446
  77. Galan, J. A., Geraghty, K. M., Lavoie, G., Kanshin, E., Tcherkezian, J., Calabrese, V., Jeschke, G. R., Turk, B. E., Ballif, B. A., Blenis, J., Thibault, P., and Roux, P. P. (2014) Phosphoproteomic analysis identifies the tumor suppressor PDCD4 as a RSK substrate negatively regulated by 14-3-3. Proceedings of the National Academy of Sciences of the United States of America 111, E2918-2927
  78. Doubleday, P. F., and Ballif, B. A. (2014) Developmentally-Dynamic Murine Brain Proteomes and Phosphoproteomes Revealed by Quantitative Proteomics. Proteomes 2, 197-207
  79. Deng, L., Kabeche, R., Wang, N., Wu, J. Q., and Moseley, J. B. (2014) Megadalton-node assembly by binding of Skb1 to the membrane anchor Slf1. Molecular biology of the cell 25, 2660-2668
  80. Cherian, S., Wai Lam, Y., McDaniels, I., Struziak, M., and Delay, R. J. (2014) Estradiol rapidly modulates odor responses in mouse vomeronasal sensory neurons. Neuroscience 269, 43-58
  81. Bayir, A., and Brewer, M. (2014) Fragmentation of bicyclic gamma-silyloxy-beta-hydroxy-alpha-diazolactones as an approach to ynolides. The Journal of organic chemistry 79, 6037-6046
  82. Ballok, A. E., Filkins, L. M., Bomberger, J. M., Stanton, B. A., and O'Toole, G. A. (2014) Epoxide-mediated differential packaging of Cif and other virulence factors into outer membrane vesicles. Journal of bacteriology 196, 3633-3642
  83. Awata, J., Takada, S., Standley, C., Lechtreck, K. F., Bellve, K. D., Pazour, G. J., Fogarty, K. E., and Witman, G. B. (2014) NPHP4 controls ciliary trafficking of membrane proteins and large soluble proteins at the transition zone. Journal of cell science 127, 4714-4727
  84. Angel, S. O., Figueras, M. J., Alomar, M. L., Echeverria, P. C., and Deng, B. (2014) Toxoplasma gondii Hsp90: potential roles in essential cellular processes of the parasite. Parasitology, 1-10
  85. Alayev, A., Doubleday, P. F., Berger, S. M., Ballif, B. A., and Holz, M. K. (2014) Phosphoproteomics reveals resveratrol-dependent inhibition of Akt/mTORC1/S6K1 signaling. Journal of proteome research 13, 5734-5742
  86. Zhang, Z., Giampa, G. M., Draghici, C., Huang, Q., and Brewer, M. (2013) Synthesis of demissidine by a ring fragmentation 1,3-dipolar cycloaddition approach. Organic letters 15, 2100-2103
  87. Yano, J., Rajendran, A., Valentine, M. S., Saha, M., Ballif, B. A., and Van Houten, J. L. (2013) Proteomic analysis of the cilia membrane of Paramecium tetraurelia. Journal of proteomics 78, 113-122
  88. Torde, R. G., Therrien, A. J., Shortreed, M. R., Smith, L. M., and Lamos, S. M. (2013) Multiplexed analysis of cage and cage free chicken egg fatty acids using stable isotope labeling and mass spectrometry. Molecules 18, 14977-14988
  89. Syed, K., Porollo, A., Lam, Y. W., Grimmett, P. E., and Yadav, J. S. (2013) A catalytically versatile fungal P450 monooxygenase (CYP63A2) capable of oxidizing higher polycyclic aromatic hydrocarbons, alkylphenols, and alkanes. Applied and environmental microbiology 
  90. Suhanovsky, M. M., and Teschke, C. M. (2013) An intramolecular chaperone inserted in bacteriophage P22 coat protein mediates its chaperonin-independent folding. The Journal of biological chemistry 288, 33772-33783
  91. Sokocevic, D., Bonenfant, N. R., Wagner, D. E., Borg, Z. D., Lathrop, M. J., Lam, Y. W., Deng, B., Desarno, M. J., Ashikaga, T., Loi, R., Hoffman, A. M., and Weiss, D. J. (2013) The effect of age and emphysematous and fibrotic injury on the re-cellularization of de-cellularized lungs. Biomaterials 34, 3256-3269
  92. Purmessur, D., Guterl, C. C., Cho, S. K., Cornejo, M. C., Lam, Y. W., Ballif, B. A., Laudier, J. C., and Iatridis, J. C. (2013) Dynamic pressurization induces transition of notochordal cells to a mature phenotype while retaining production of important patterning ligands from development. Arthritis research & therapy 15, R122
  93. Miller, M. S., Bedrin, N. G., Callahan, D. M., Previs, M. J., Jennings, M. E., 2nd, Ades, P. A., Maughan, D. W., Palmer, B. M., and Toth, M. J. (2013) Age-related slowing of myosin actin cross-bridge kinetics is sex specific and predicts decrements in whole skeletal muscle performance in humans. Journal of applied physiology 115, 1004-1014
  94. Krudysz-Amblo, J., Jennings, M. E., 2nd, Knight, T., Matthews, D. E., Mann, K. G., and Butenas, S. (2013) Disulfide reduction abolishes tissue factor cofactor function. Biochimica et biophysica acta 1830, 3489-3496
  95. Klaus, J. P., Eisenhauer, P., Russo, J., Mason, A. B., Do, D., King, B., Taatjes, D., Cornillez-Ty, C., Boyson, J. E., Thali, M., Zheng, C., Liao, L., Yates, J. R., 3rd, Zhang, B., Ballif, B. A., and Botten, J. W. (2013) The intracellular cargo receptor ERGIC-53 is required for the production of infectious arenavirus, coronavirus, and filovirus particles. Cell host & microbe 14, 522-534
  96. Fellows, A., Deng, B., Mierke, D. F., Robey, R. B., and Nichols, R. C. (2013) Peptides modeled on the RGG domain of AUF1/hnRNP-D regulate 3' UTR-dependent gene expression. International immunopharmacology 17, 132-141
  97. Choi, S., Aljakna, A., Srivastava, U., Peterson, B. R., Deng, B., Prat, A., and Korstanje, R. (2013) Decreased APOE-containing HDL subfractions and cholesterol efflux capacity of serum in mice lacking Pcsk9. Lipids in health and disease 12, 112
  98. Cheng, X., and Waters, S. P. (2013) Pyridone annulation via tandem Curtius rearrangement/6pi-electrocyclization: total synthesis of (-)-lyconadin C. Organic letters 15, 4226-4229
  99. Bonenfant, N. R., Sokocevic, D., Wagner, D. E., Borg, Z. D., Lathrop, M. J., Lam, Y. W., Deng, B., Desarno, M. J., Ashikaga, T., Loi, R., and Weiss, D. J. (2013) The effects of storage and sterilization on de-cellularized and re-cellularized whole lung. Biomaterials 34, 3231-3245
  100. Bior, B. K., and Ballif, B. A. (2013) Dab1 stabilizes its interaction with Cin85 by suppressing Cin85 phosphorylation at serine 587. FEBS letters 587, 60-66
  101. Bercovici, D. A., Ogilvie, J. M., Tsvetkov, N., and Brewer, M. (2013) Intramolecular polar [4( plus sign in circle)+2] cycloadditions of aryl-1-aza-2-azoniaallene salts: unprecedented reactivity leading to polycyclic protonated azomethine imines. Angewandte Chemie 52, 13338-13341
  102. Ballif, B. A., Helias, V., Peyrard, T., Menanteau, C., Saison, C., Lucien, N., Bourgouin, S., Le Gall, M., Cartron, J. P., and Arnaud, L. (2013) Disruption of SMIM1 causes the Vel- blood type. EMBO molecular medicine 5, 751-761
  103. Aten, T. M., Redmond, M. M., Weaver, S. O., Love, C. C., Joy, R. M., Lapp, A. S., Rivera, O. D., Hinkle, K. L., and Ballif, B. A. (2013) Tyrosine phosphorylation of the orphan receptor ESDN/DCBLD2 serves as a scaffold for the signaling adaptor CrkL. FEBS letters 587, 2313-2318
  104. Aranha Potter, R., Bowser, A. M., Yang, Y., Madalengoitia, J. S., and Ziller, J. W. (2013) Structure-reactivity relationships of zwitterionic 1,3-diaza-Claisen rearrangements. The Journal of organic chemistry 78, 11772-11782
  105. Zhang, A., Petrov, K. O., Hyun, E. R., Liu, Z., Gerber, S. A., and Myers, L. C. (2012) The Tlo proteins are stoichiometric components of Candida albicans mediator anchored via the Med3 subunit. Eukaryotic cell 11, 874-884
  106. Weith, A., Sadayappan, S., Gulick, J., Previs, M. J., Vanburen, P., Robbins, J., and Warshaw, D. M. (2012) Unique single molecule binding of cardiac myosin binding protein-C to actin and phosphorylation-dependent inhibition of actomyosin motility requires 17 amino acids of the motif domain. Journal of molecular and cellular cardiology 52, 219-227
  107. Wallis, J. M., Borg, Z. D., Daly, A. B., Deng, B., Ballif, B. A., Allen, G. B., Jaworski, D. M., and Weiss, D. J. (2012) Comparative assessment of detergent-based protocols for mouse lung de-cellularization and re-cellularization. Tissue engineering. Part C, Methods 18, 420-432
  108. Valentine, M. S., Rajendran, A., Yano, J., Weeraratne, S. D., Beisson, J., Cohen, J., Koll, F., and Van Houten, J. (2012) Paramecium BBS genes are key to presence of channels in Cilia. Cilia 1, 16
  109. Tang, G., Ruiz, T., and Mintz, K. P. (2012) O-polysaccharide glycosylation is required for stability and function of the collagen adhesin EmaA of Aggregatibacter actinomycetemcomitans. Infection and immunity 80, 2868-2877
  110. Tang, G., Kawai, T., Komatsuzawa, H., and Mintz, K. P. (2012) Lipopolysaccharides mediate leukotoxin secretion in Aggregatibacter actinomycetemcomitans. Molecular oral microbiology 27, 70-82
  111. Saison, C., Peyrard, T., Landre, C., Ballif, B. A., Schlosser, K. A., Dettori, I., Chicheportiche, C., Nemeth, P., Cartron, J. P., and Arnaud, L. (2012) A new AQP1 null allele identified in a Gypsy woman who developed an anti-CO3 during her first pregnancy. Vox sanguinis 103, 137-144
  112. Saison, C., Helias, V., Ballif, B. A., Peyrard, T., Puy, H., Miyazaki, T., Perrot, S., Vayssier-Taussat, M., Waldner, M., Le Pennec, P. Y., Cartron, J. P., and Arnaud, L. (2012) Null alleles of ABCG2 encoding the breast cancer resistance protein define the new blood group system Junior. Nature genetics 44, 174-177
  113. Saha, M., Carriere, A., Cheerathodi, M., Zhang, X., Lavoie, G., Rush, J., Roux, P. P., and Ballif, B. A. (2012) RSK phosphorylates SOS1 creating 14-3-3-docking sites and negatively regulating MAPK activation. The Biochemical journal 447, 159-166
  114. Previs, M. J., Beck Previs, S., Gulick, J., Robbins, J., and Warshaw, D. M. (2012) Molecular mechanics of cardiac myosin-binding protein C in native thick filaments. Science 337, 1215-1218
  115. Jabre, N. D., and Brewer, M. (2012) Stereoelectronic effects in the fragmentation of gamma-silyloxy-beta-hydroxy-alpha-diazocarbonyl compounds. The Journal of organic chemistry 77, 9910-9914
  116. Hristova, M., Spiess, P. C., Kasahara, D. I., Randall, M. J., Deng, B., and van der Vliet, A. (2012) The tobacco smoke component, acrolein, suppresses innate macrophage responses by direct alkylation of c-Jun N-terminal kinase. American journal of respiratory cell and molecular biology 46, 23-33
  117. Helias, V., Saison, C., Ballif, B. A., Peyrard, T., Takahashi, J., Takahashi, H., Tanaka, M., Deybach, J. C., Puy, H., Le Gall, M., Sureau, C., Pham, B. N., Le Pennec, P. Y., Tani, Y., Cartron, J. P., and Arnaud, L. (2012) ABCB6 is dispensable for erythropoiesis and specifies the new blood group system Langereis. Nature genetics 44, 170-173
  118. Gotelli, N. J., Ellison, A. M., and Ballif, B. A. (2012) Environmental proteomics, biodiversity statistics and food-web structure. Trends in ecology & evolution 27, 436-442
  119. Goswami, T., Li, X., Smith, A. M., Luderowski, E. M., Vincent, J. J., Rush, J., and Ballif, B. A. (2012) Comparative phosphoproteomic analysis of neonatal and adult murine brain. Proteomics 12, 2185-2189
  120. Daly, A. B., Wallis, J. M., Borg, Z. D., Bonvillain, R. W., Deng, B., Ballif, B. A., Jaworski, D. M., Allen, G. B., and Weiss, D. J. (2012) Initial binding and recellularization of decellularized mouse lung scaffolds with bone marrow-derived mesenchymal stromal cells. Tissue engineering. Part A 18, 1-16
  121. Caldwell, G. B., Howe, A. K., Nickl, C. K., Dostmann, W. R., Ballif, B. A., and Deming, P. B. (2012) Direct modulation of the protein kinase A catalytic subunit alpha by growth factor receptor tyrosine kinases. Journal of cellular biochemistry 113, 39-48
  122. Anjum, R., Pae, E., Blenis, J., and Ballif, B. A. (2012) TPCK inhibits AGC kinases by direct activation loop adduction at phenylalanine-directed cysteine residues. FEBS letters 586, 3471-3476
  123. Al-Bataineh, N. Q., and Brewer, M. (2012) Iodine(III)-mediated bicyclic diazenium salt formation. Tetrahedron Lett 53, 5411-5413
  124. Spiess, P. C., Deng, B., Hondal, R. J., Matthews, D. E., and van der Vliet, A. (2011) Proteomic profiling of acrolein adducts in human lung epithelial cells. Journal of proteomics 74, 2380-2394
  125. Purmessur, D., Schek, R. M., Abbott, R. D., Ballif, B. A., Godburn, K. E., and Iatridis, J. C. (2011) Notochordal conditioned media from tissue increases proteoglycan accumulation and promotes a healthy nucleus pulposus phenotype in human mesenchymal stem cells. Arthritis research & therapy 13, R81
  126. Palmer, B. M., Sadayappan, S., Wang, Y., Weith, A. E., Previs, M. J., Bekyarova, T., Irving, T. C., Robbins, J., and Maughan, D. W. (2011) Roles for cardiac MyBP-C in maintaining myofilament lattice rigidity and prolonging myosin cross-bridge lifetime. Biophysical journal 101, 1661-1669
  127. Minajigi, A., Deng, B., and Francklyn, C. S. (2011) Fidelity escape by the unnatural amino acid beta-hydroxynorvaline: an efficient substrate for Escherichia coli threonyl-tRNA synthetase with toxic effects on growth. Biochemistry 50, 1101-1109
  128. Mendoza, M. C., Er, E. E., Zhang, W., Ballif, B. A., Elliott, H. L., Danuser, G., and Blenis, J. (2011) ERK-MAPK drives lamellipodia protrusion by activating the WAVE2 regulatory complex. Molecular cell 41, 661-671
  129. Gotelli, N. J., Smith, A. M., Ellison, A. M., and Ballif, B. A. (2011) Proteomic characterization of the major arthropod associates of the carnivorous pitcher plant Sarracenia purpurea. Proteomics 11, 2354-2358
  130. Cheerathodi, M., and Ballif, B. A. (2011) Identification of CrkL-SH3 binding proteins from embryonic murine brain: implications for Reelin signaling during brain development. Journal of proteome research 10, 4453-4462
  131. Bokiej, M., Livermore, A. T., Harris, A. W., Onishi, A. C., and Sandwick, R. K. (2011) Ribose sugars generate internal glycation cross-links in horse heart myoglobin. Biochemical and biophysical research communications 407, 191-196
  132. Tang, G., and Mintz, K. P. (2010) Glycosylation of the collagen adhesin EmaA of Aggregatibacter actinomycetemcomitans is dependent upon the lipopolysaccharide biosynthetic pathway. Journal of bacteriology 192, 1395-1404
  133. Schalm, S. S., Ballif, B. A., Buchanan, S. M., Phillips, G. R., and Maniatis, T. (2010) Phosphorylation of protocadherin proteins by the receptor tyrosine kinase Ret. Proceedings of the National Academy of Sciences of the United States of America 107, 13894-13899
  134. Rumora, A. E., Steere, A. N., Ramsey, J. E., Knapp, A. M., Ballif, B. A., and Kelm, R. J., Jr. (2010) Isolation and characterization of the core single-stranded DNA-binding domain of purine-rich element binding protein B (Purbeta). Biochemical and biophysical research communications 400, 340-345
  135. Roskens, V. A., Carpenter, J. M., Pickett, K. M., and Ballif, B. A. (2010) Preservation of field samples for enzymatic and proteomic characterization: analysis of proteins from the trophallactic fluid of hornets and yellowjackets. Journal of proteome research 9, 5484-5491
  136. Roberts-Galbraith, R. H., Ohi, M. D., Ballif, B. A., Chen, J. S., McLeod, I., McDonald, W. H., Gygi, S. P., Yates, J. R., 3rd, and Gould, K. L. (2010) Dephosphorylation of F-BAR protein Cdc15 modulates its conformation and stimulates its scaffolding activity at the cell division site. Molecular cell 39, 86-99
  137. Krudysz-Amblo, J., Jennings, M. E., 2nd, Mann, K. G., and Butenas, S. (2010) Carbohydrates and activity of natural and recombinant tissue factor. The Journal of biological chemistry 285, 3371-3382
  138. Knowlton, M. L., Selfors, L. M., Wrobel, C. N., Gu, T. L., Ballif, B. A., Gygi, S. P., Polakiewicz, R., and Brugge, J. S. (2010) Profiling Y561-dependent and -independent substrates of CSF-1R in epithelial cells. PloS one 5, e13587
  139. Heaslip, A. T., Leung, J. M., Carey, K. L., Catti, F., Warshaw, D. M., Westwood, N. J., Ballif, B. A., and Ward, G. E. (2010) A small-molecule inhibitor of T. gondii motility induces the posttranslational modification of myosin light chain-1 and inhibits myosin motor activity. PLoS pathogens 6, e1000720
  140. Foster, K. G., Acosta-Jaquez, H. A., Romeo, Y., Ekim, B., Soliman, G. A., Carriere, A., Roux, P. P., Ballif, B. A., and Fingar, D. C. (2010) Regulation of mTOR complex 1 (mTORC1) by raptor Ser863 and multisite phosphorylation. The Journal of biological chemistry 285, 80-94
  141. Echeverria, P. C., Figueras, M. J., Vogler, M., Kriehuber, T., de Miguel, N., Deng, B., Dalmasso, M. C., Matthews, D. E., Matrajt, M., Haslbeck, M., Buchner, J., and Angel, S. O. (2010) The Hsp90 co-chaperone p23 of Toxoplasma gondii: Identification, functional analysis and dynamic interactome determination. Molecular and biochemical parasitology 172, 129-140
  142. Buel, G. R., Rush, J., and Ballif, B. A. (2010) Fyn promotes phosphorylation of collapsin response mediator protein 1 at tyrosine 504, a novel, isoform-specific regulatory site. Journal of cellular biochemistry 111, 20-28
  143. Lechtreck, K. F., Johnson, E. C., Sakai, T., Cochran, D., Ballif, B. A., Rush, J., Pazour, G. J., Ikebe, M., and Witman, G. B. (2009) The Chlamydomonas reinhardtii BBSome is an IFT cargo required for export of specific signaling proteins from flagella. The Journal of cell biology 187, 1117-1132
  144. Krudysz-Amblo, J., Parhami-Seren, B., Butenas, S., Brummel-Ziedins, K. E., Gomperts, E. D., Rivard, G. E., and Mann, K. G. (2009) Quantitation of anti-factor VIII antibodies in human plasma. Blood 113, 2587-2594
  145. Acosta-Jaquez, H. A., Keller, J. A., Foster, K. G., Ekim, B., Soliman, G. A., Feener, E. P., Ballif, B. A., and Fingar, D. C. (2009) Site-specific mTOR phosphorylation promotes mTORC1-mediated signaling and cell growth. Molecular and cellular biology 29, 4308-4324
  146. Young, B. A., Girard, B. M., and Parsons, R. L. (2008) Neurturin suppresses injury-induced neuronal activating transcription factor 3 expression in cultured guinea pig cardiac ganglia. The Journal of comparative neurology 508, 795-805
  147. Thornton, T. M., Pedraza-Alva, G., Deng, B., Wood, C. D., Aronshtam, A., Clements, J. L., Sabio, G., Davis, R. J., Matthews, D. E., Doble, B., and Rincon, M. (2008) Phosphorylation by p38 MAPK as an alternative pathway for GSK3beta inactivation. Science 320, 667-670
  148. Previs, M. J., VanBuren, P., Begin, K. J., Vigoreaux, J. O., LeWinter, M. M., and Matthews, D. E. (2008) Quantification of protein phosphorylation by liquid chromatography-mass spectrometry. Analytical chemistry 80, 5864-5872
  149. Miller, M. S., Lekkas, P., Braddock, J. M., Farman, G. P., Ballif, B. A., Irving, T. C., Maughan, D. W., and Vigoreaux, J. O. (2008) Aging enhances indirect flight muscle fiber performance yet decreases flight ability in Drosophila. Biophysical journal 95, 2391-2401
  150. McCarthy, S. M., Bove, P. F., Matthews, D. E., Akaike, T., and van der Vliet, A. (2008) Nitric oxide regulation of MMP-9 activation and its relationship to modifications of the cysteine switch. Biochemistry 47, 5832-5840
  151. Gallant, C. V., Sedic, M., Chicoine, E. A., Ruiz, T., and Mintz, K. P. (2008) Membrane morphology and leukotoxin secretion are associated with a novel membrane protein of Aggregatibacter actinomycetemcomitans. Journal of bacteriology 190, 5972-5980
  152. Connors, E. C., Ballif, B. A., and Morielli, A. D. (2008) Homeostatic regulation of Kv1.2 potassium channel trafficking by cyclic AMP. The Journal of biological chemistry 283, 3445-3453
  153. Ballif, B. A., Carey, G. R., Sunyaev, S. R., and Gygi, S. P. (2008) Large-scale identification and evolution indexing of tyrosine phosphorylation sites from murine brain. Journal of proteome research 7, 311-318
  154. Zappaterra, M. D., Lisgo, S. N., Lindsay, S., Gygi, S. P., Walsh, C. A., and Ballif, B. A. (2007) A comparative proteomic analysis of human and rat embryonic cerebrospinal fluid. Journal of proteome research 6, 3537-3548
  155. Reynaert, N. L., van der Vliet, A., Guala, A. S., McGovern, T., Hristova, M., Pantano, C., Heintz, N. H., Heim, J., Ho, Y. S., Matthews, D. E., Wouters, E. F., and Janssen-Heininger, Y. M. (2006) Dynamic redox control of NF-kappaB through glutaredoxin-regulated S-glutathionylation of inhibitory kappaB kinase beta. Proceedings of the National Academy of Sciences of the United States of America 103, 13086-13091

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