Theme I: B Cell Related Prophylaxis and Therapeutics

Dhodapkar KM, Kaufman JL, Ehlers M, Banerjee D, Bonvini E, Koenig S, Steinman RM, Ravetch JV, and Dhodapkar MV.  Selective blockade of inhibitory Fc receptor enables human dendritic cell maturation with IL-12p70 production and immunity to antibody coated tumor cells. Proc Natl Acad Sci USA 2005; 102:2910-2915.

Galustian C, Park CG, Chai W, Kiso M, Bruening SA, Kang Y-S, Steinman RM, Feizi T. High and low affinity carbohydrate ligands revealed for murine SIGN-R1 by carbohydrate array and cell binding approaches, and differing specificities for SIGN-R3 and langerin.   Int Immunol 2004;16:853-866.

Takahara K, Yashima Y, Omatsu Y, Yoshida H, Kimura Y, Kang Y-S, Steinman RM, Park CG, Inaba K. Functional comparison of the mouse DC-SIGN, SIGNR1, SIGNR3 and Langerin, C-type lectins. Int.  Immunol 2004;16:819-829.

Kang Y-S, Kim JY, Bruening SA, Pack M, Charalambous A, Pritsker A, Moran TM, Loeffler JM, Steinman RM, Park CG. The C-type lectin SIGN-R1 mediates uptake of the capsular polysaccharide of Streptococcus pneumoniae in the marginal zone of mouse spleen.  Proc. Natl. Acad. Sci. U. S. A 2004;101:215-220.

Kang, Y. S., Do, Y., Lee, H. K., Park, S. H., Cheong, C., Lynch, R. M., Loeffler, J. M., Steinman, R. M., and Park, C. G. (2006). A dominant complement fixation pathway for pneumococcal polysaccharides initiated by SIGN-R1 interacting with C1q. Cell 125, 47-58.

McClelland, E. E., Bernhardt, P., and Casadevall, A. (2006). Estimating the relative contributions of virulence factors for pathogenic microbes. Infect Immun 74, 1500-1504.

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Theme II: Bacterial Pathogenesis and Therapeutics

Roy D, Liston DR, Idone VJ, Di A, Nelson DJ, Pujol C, Bliska JB, Chakrabarti S, and Andrews, NW.  A process for controlling intracellular bacterial infections induced by membrane injury.  Science 2004;304:1515-1518.

Grabenstein JP, Marceau M, Pujol C, Simonet M, Bliska JB. The response regulator PhoP of Yersinia pseudotuberculosis is important for replication in macrophages and virulence. Infect Immun 2004;72(9):4973-84.

Gomes-Solecki MJ, Savitt AG, Rowehl R, Glass JD, Bliska JB, and Dattwyler RJ. LcrV capture enzyme-linked immunosorbent assay for detection of Yersinia pestis from human samples. Clin Diagn Lab Immunol 2005;12:339-46.

Ivanov MI, Stuckey JA, Schubert HL, Saper MA, and Bliska JB. Two substrate-targeting sites in the Yersinia protein tyrosine phosphatase co-operate to promote bacterial virulence. Mol Microbiol 2005; 55:1346-56.

Pujol C, and Bliska JB. Turning Yersinia pathogenesis outside in: subversion of macrophage function by intracellular yersiniae. Clin Immunol 2005;114:216-26.

Ryndak MB, Chung H, London E, and Bliska JB. Role of predicted transmembrane domains for type III translocation, pore formation, and signaling by the Yersinia pseudotuberculosis YopB protein. Infect Immun 2005;73:2433-43.

Grabenstein, J. P., Fukuto, H. S., Palmer, L. E., and Bliska, J. B. (2006). Characterization of phagosome trafficking and identification of PhoP-regulated genes important for survival of Yersinia pestis in macrophages. Infect Immun 74, 3727-3741.

Persuh M, Bader E, Bazemore DG, Blaser MJ. Transcriptional regulation of Pag A in Bacillus anthracis. Presented at the ASM Conference:May 2004,

Jones MB, Ren D, Wood T, Blaser MJ. Inhibitors of quorum-sensing affect Bacillus anthracis growth and virulence gene expression. Presented at the ASM Conference on Quorum sensing; July 2004

Jones MB, Jani R, Ren D, Wood TK, Blaser MJ. Inhibition of Bacillus anthracis Growth and Virulence-Gene Expression by Inhibitors of Quorum-Sensing, J Infect Dis 2005l191:1881-8.

NeÓi D, Hsu Y, and Stebbins CE.  Assembly and function of a bacterial genotoxin.  Nature 2004;429:429-433.

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Theme III: Vaccine Platforms

Schlehuber LD, Rose JK. Prediction and identification of a permissive epitope insertion in the vesicular stomatitis virus glycoprotein. J Virol 2004;78(10):5079-5087.

Ramsburg E, Rose JK, Marx PA, Mefford M, Nixon DF, et al. Highly effective control of an AIDS virus challenge in Macaques by using vesicular stomatitis virus and modified vaccinia virus ankara vaccine vectors in a single-boost protocol. J Virol 2004;78(8):3930-3940

Roberts A, Reuter JD, Wilson JH, Baldwin S, Rose JK. Complete protection from papillomavirus challenge after a single vaccination with a vesicular stomatitis virus vector expressing high levels of L1 protein. J Virol 2004;78(6):3196-3199.

Palin, A., Chattopadhyay, A., Park, S., Delmas, G., Suresh, R., Senina, S., Perlin, D. S., and Rose, J. K. (2006). An optimized vaccine vector based on recombinant vesicular stomatitis virus gives high-level, long-term protection against Yersinia pestis challenge. Vaccine In Press.

Swayne DE, Suarez DL, Schultz-Cherry S, Tumpey TM, King DJ, Nakaya T, Palese P, Garcia-Sastre A. Recombinant paramyxovirus type 1-avian influenza-H7 virus as a vaccine for protection of chickens against influenza and Newcastle disease. Avian Dis 2003;47(3 suppl):1047-50.

Gonzalez-Aseguinolaza G, Nakaya Y, Molano A, Dy E, Esteban M, Rodriguez D, Rodriguez JR, Palese P, Garcia-Sastre A, Nussenzweig RS. Induction of protective immunity against malaria by priming-boosting immunization with recombinant cold-adapted influenza and modified vaccinia Ankara viruses expressing a CD8+-T-cell epitope derived from the circumsporozoite protein of Plasmodium yoelii. J Virol 2003;77(21):11859-11866.

Basler CF, Garcia-Sastre A, Palese P. A novel paramyxovirus? Emerg Infect Dis. 2005 Jan;11(1):108-12

Palese P. Influenza: old and new threats. Nat Med. 2004 Dec;10(12 Suppl):S82-7.

Nakaya Y, Nakaya T, Park MS, Cros J, Imanishi J, Palese P, Garcia-Sastre A. Induction of cellular immune responses to simian immunodeficiency virus gag by two recombinant negative-strand RNA virus vectors. J Virol. 2004 Sep;78(17):9366-75.

Bonifaz LC, Bonnyay DP, Charalambous A, Darguste DI, Fujii SI, Soares H, Steinman RM. In vivo targeting of antigens to maturing dendritic cells via the DEC-205 receptor improves T cell vaccination.  J Exp Med 2004;199(6):815-824

Boscardin, S. B., Hafalla, J. C., Masilamani, R. F., Kamphorst, A. O., Zebroski, H. A., Rai, U., Morrot, A., Zavala, F., Steinman, R. M., Nussenzweig, R. S., and Nussenzweig, M. C. (2006). Antigen targeting to dendritic cells elicits long-lived T cell help for antibody responses. J Exp Med 203, 599-606.

Briones, G., Hofreuter, D., and Galan, J. E. (2006). Cre reporter system to monitor the translocation of type III secreted proteins into host cells. Infect Immun 74, 1084-1090

Chen, L. M., Briones, G., Donis, R. O., and Galan, J. E. (2006). Optimization of the Delivery of Heterologous Proteins by the Salmonella enterica Serovar Typhimurium Type III Secretion System for Vaccine Development. Infect Immun 74, 5826-5833.

Chiuchiolo, M. J., Boyer, J. L., Krause, A., Senina, S., Hackett, N. R., and Crystal, R. G. (2006). Protective Immunity against Respiratory Tract Challenge with Yersinia pestis in Mice Immunized with an Adenovirus-Based Vaccine Vector Expressing V Antigen. J Infect Dis 194, 1249-1257.

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Theme IV: Viral Pathogenesis and Therapeutics

Rollo E, Hempson SJ, Bansal A, Tsao E, Habib I, Rittling SR, Denhardt D, Mackow ER, Shaw RD.  The Cytokine Osteopontin Modulates the Severity of Rotavirus Diarrhea. J Infect Dis 2005;79: 3509-16.

Raymond T, Gorbunova E, Gavrilovskaya IN, Mackow ER.  Pathogenic Hantaviruses bind plexin-semaphorin-integrin domains present at the apex of inactive, bent avb3 integrin conformers. Proc Nat Acad Sci USA 2005;102:1163-8.

Alff, P. J., Gavrilovskaya, I. N., Gorbunova, E., Endriss, K., Chong, Y., Geimonen, E., Sen, N., Reich, N. C., and Mackow, E. R. (2006). The pathogenic NY-1 hantavirus G1 cytoplasmic tail inhibits RIG-I- and TBK-1-directed interferon responses. J Virol 80, 9676-9686.

Tumpey TM, Garcia-Sastre A, Taubenberger JK, Palese P, Swayne DE, Basler CF. 2004. Pathogenicity and immunogenicity of influenza viruses with genes from the 1918 pandemic virus. ÊProc Natl Acad Sci U S A. 2004;101(9):3166-71.

Stevens J, Corper AL, Basler CF, Taubenberger JK, Palese P, Wilson IA. Structure of the Uncleaved Human H1 Hemagglutinin from the Extinct 1918 Influenza Virus. ÊScience 2004; 19;303(5665):1866-70

.Shaw ML, Garcia-Sastre A, Palese P, Basler CF. Nipah virus V and W proteins have a common STAT1-binding domain yet inhibit STAT1-activation from the cytoplasmic and nuclear compartments respectively. Ê2004 J Virol;78:5633-5641

Garcia-Sastre, A., and Biron, C. A. (2006). Type 1 interferons and the virus-host relationship: a lesson in detente. Science 312, 879-882.

Kash, J. C., Tumpey, T. M., Proll, S. C., Carter, V., Perwitasari, O., Thomas, M. J., Basler, C. F., Palese, P., Taubenberger, J. K., Garcia-Sastre, A., et al. (2006). Genomic analysis of increased host immune and cell death responses induced by 1918 influenza virus. Nature 443, 578-581.

 Lowen, A. C., Mubareka, S., Tumpey, T. M., Garcia-Sastre, A., and Palese, P. (2006). The guinea pig as a transmission model for human influenza viruses. Proc Natl Acad Sci U S A 103, 9988-9992.

Ciancanelli, M. J., and Basler, C. F. Mutation of YMYL in the Nipah virus Matrix protein abrogates budding and alters subcellular localization. J Virol; In Press.

Chang HM, Paulson M, Holko M, Rice CM, Williams BRG, Marie IJ, Levy DE. Induction of interferon-stimulated gene expression and antiviral responses require protein deacetylase activity. Proc Natl Acad Sci USA 2004;101(26):9578-83.

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Informatics

Arikaki AK, Zhang Y, Skolnick J. Large-scale assessment of the utility of low-resolution protein structures for biochemical function assignment. Bioinformatics 2004;20(7):1087-1096.

Kihara D and Skolnick J. Microbial genomes have over 72% structure assignment by the threading algorithm PROSPECTOR_Q. Proteins 2004;55:464-473.

Zhang Y, Skolnick J. Automated structure prediction of weakly homologous proteins on a genomic scale. PNAS 2004;101(20):7594-7599.

Lussier YA, Li J. Terminological mapping for high throughput comparative biology of phenotypes. Pacific Symposium on Biocomputing 2004;202-213.

Friedman C, Shagina L, Lussier YA, Hripcsak G. Automated encoding of clinical documents based on natural language processing. J Am Med Inform Assoc 2004;11(5);392-402.

Cantor M, Lussier YA. Putting data integration into practice: using biomedical terminologies to add structure to existing data sources. Proc AMIA Symp 2003;814.

Casadevall A and Pirofski LA. The weapon potential of a microbe. Trends Microbio 2004;2(6):259-263.

Yu H, Greenbaum D, Xin Lu H, Zhu X, Gerstein M. Genomic analysis of essentiality within protein networks. Trends Genet 2004;20:227-31.

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Diagnostics

Zhai J, Briese T, Dai E, Wang X, Pang X, Du Z, Lipkin WI, et al. Real-time polymerase chain reaction for detecting SARS coronavirus, Beijing, 2003.  Emerg Infect Dis 2004;10(2):300-303.

Qiao M, Mundrigi A, Bernard KA, Palacios G, Zhou, HZ, Lipkin WI, Liang JT. Induction of sterilizing immunity against West Nile Virus by immunization with West Nile Virus-like particles produced in insect cells. J Infect Dis 2004;190:2104-2108.

Domingo, C., Palacios, G., Jabado, O., Reyes, N., Niedrig, M., Gascon, J., Cabrerizo, M., Lipkin, W. I., and Tenorio, A. (2006). Use of a short fragment of the C-terminal E gene for detection and characterization of two new lineages of dengue virus 1 in India. J Clin Microbiol 44, 1519-1529

Palacios, G., Briese, T., Kapoor, V., Jabado, O., Liu, Z., Venter, M., Zhai, J., Renwick, N., Grolla, A., Geisbert, T. W., et al. (2006). MassTag Polymerase Chain Reaction for Differential Diagnosis of Viral Hemorrhagic Fevers. Emerg Infect Dis 12, 692-695..

Avellon, A., Rubio, G., Palacios, G., Casas, I., Rabella, N., Reina, G., Perez, C., Lipkin, W. I., and Trallero, G. (2006). Emergence of the new proposed EV75 as a cause of aseptic meningitis in Spain, 2005. Emerg Infect Dis In Press.

Jabado, O., Palacios, G., Kapoor, V., Hui, J., Renwick, N., Zhai, J., Briese, T., and Lipkin, W. I. (2006). Greene SCPrimer: a rapid comprehensive tool for designing degenerate primers from multiple sequence alignments. Nucleic Acids Res In Press.

Lamson, D., Renwick, N., Kapoor, V., Liu, Z., Palacios, G., Ju, J., Dean, A., St. George, K., Briese, T., and Lipkin, W. I. (2006). Mass Tag PCR detection of respiratory pathogens, including a new rhinovirus genotype, causing influenza-like illness in New York State, 2004-2005. J Infect Dis In Press.

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Developmental Projects

Roberts AD and Woodland DL. Effector memory CD8+ T cells play a prominent role in recall responses to secondary viral infection in the lung.  Cutting Edge J Immunol 2004;172:6533-6537.

Woodland DL and Randall TD. Anatomical features of anti-viral immunity in the respiratory tract.  Semin. Immunol 2004;16:163-170.

Masopust D, Vezys V, Usherwood EJ, Cauley LS, Olson S, Marzo AL, Ward RL, Woodland DL and Lefrancois L. Activated primary and memory CD8 T cells migrate to nonlymphoid tissues regardless of site of activation or tissue of origin. J Immunol 2004;172:4875-4882.

Woodland DL. Jump starting the immune system: Prime boosting comes of age. Trends Immunol 2004;25:98-104.

Crowe SR, Miller SC, Shenyo SM, and Woodland DL.  Vaccination with an acidic polymerase epitope of influenza virus elicits a potent anti-viral T cell response, but delayed clearance of an influenza virus challenge.  J Immunol 2005;174:696-701.

Crowe SR, Miller SC, Brown DM, Adams PS, Dutton RW, Harmsen AG, Lund FE, Randall TD, Swain SL, and Woodland DL. Uneven distribution of MHC class II epitopes within influenza virus. Vaccine 2005.

Crowe SR, Miller SC and Woodland DL. Identification of protective and non-protective T cell epitopes in influenza. Vaccine 2005.

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Career Development

Parent MA, Berggren KN, Mullarky IK, Szaba FM, Kummer LW, Adamovicz JA, Smiley ST. Yersinia pestis V protein epitopes recognized by CD4 T cells. Infection and Immunity 2005;73:2197-204.

Alileche, A., Squires, R. C., Muehlbauer, S. M., Lisanti, M. P., and Brojatsch, J. (2006). Mitochondrial impairment is a critical event in anthrax lethal toxin-induced cytolysis of murine macrophages. Cell Cycle 5, 100-106.

Cardenas, W. B., Loo, Y. M., Gale, M., Jr., Hartman, A. L., Kimberlin, C. R., Martinez-Sobrido, L., Saphire, E. O., and Basler, C. F. (2006). Ebola virus VP35 protein binds double-stranded RNA and inhibits alpha/beta interferon production induced by RIG-I signaling. J Virol 80, 5168-5178.
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Iglesias-Ussel, M. D., Fan, M., Li, Z., Martin, A., and Scharff, M. D. (2006). Forced expression of AID facilitates the isolation of class switch variants from hybridoma cells. J Immunol Methods.