The Department of Microbiology and Physiological Systems (MaPS) was founded in 2010, and is the product of a merger between two departments, one focused on microbiology, genetics, and immunology, and the other focused on physiology. Capitalizing on the strength of the respective scientific research programs, the resulting department has strong and synergistic expertise in bacterial and viral pathogenesis, immunology, signal transduction, and fundamental cellular physiology. Current departmental research targets include viral and bacterial pathogens affecting the nervous, respiratory, and digestive systems. The mission of the new department is to address important biological questions broadly relevant to infectious disease and encompassing multiple levels of biological organization, including an understanding of pathogen effects on their target organ systems. This collection showcases the journal articles and other publications and presentations written by faculty and researchers of the Department of Microbiology and Physiological Systems. See earlier collections for selected Physiology and Molecular Genetics and Microbiology publications published before the departmental merger.

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Publications from 2013

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Phosphorylation of centromeric histone H3 variant regulates chromosome segregation in S. cerevisiae, Lars Boeckmann, Yoshimitsu Takahashi, Wei-Chun Au, Prashant K. Mishra, John S. Choy, Anthony R. Dawson, May Y. Szeto, Timothy J. Waybright, Christopher Heger, Christopher McAndrew, Paul K. Goldsmith, Timothy D. Veenstra, Richard E. Baker, and Munira A. Basrai

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A genome wide RNA interference screening method to identify host factors that modulate influenza A virus replication, Christopher R. Chin and Abraham L. Brass

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Crosstalk between casein kinase II and Ste20-related kinase Nak1, Lubos Cipak, Sneha Gupta, Iva Rajovic, Quan-Wen Jin, Dorothea Anrather, Gustav Ammerer, Dannel McCollum, and Juraj Gregan

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Chromatin immunoprecipitation assay of brain tissues using Percoll gradient-purified nuclei, Baojin Ding and Daniel L. Kilpatrick

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Lentiviral vector production, titration, and transduction of primary neurons, Baojin Ding and Daniel L. Kilpatrick

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Temporal regulation of nuclear factor one occupancy by calcineurin/NFAT governs a voltage-sensitive developmental switch in late maturing neurons, Baojin Ding, Wei Wang, Tharakeswari Selvakumar, Hualin Simon Xi, Hong Zhu, Chi-Wing Chow, Jay D. Horton, Richard M. Gronostajski, and Daniel L. Kilpatrick

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A germline point mutation in Runx1 uncouples its role in definitive hematopoiesis from differentiation, Christopher R. Dowdy, Dana Frederick, Sayyed K. Zaidi, Jennifer L. Colby, Jane B. Lian, Andre J. van Wijnen, Rachel M. Gerstein, Janet L. Stein, and Gary S. Stein

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Gene transfer in skeletal and cardiac muscle using recombinant adeno-associated virus, Alisha M. Gruntman, Lawrence T. Bish, Christian Mueller, H. Lee Sweeney, Terence R. Flotte, and Guangping Gao

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Identification of SIN pathway targets reveals mechanisms of crosstalk between NDR kinase pathways, Sneha Gupta, Sebastian Mana-Capelli, Janel R. McLean, Chun-Ti Chen, Samriddha Ray, Kathleen L. Gould, and Dannel McCollum

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ROCK inhibitor, Y-27632, reduces FBS-induced structural alteration in organ-cultured mesenteric artery, Yang Hoon Huh, Hee-Seok Kweon, and Toshio Kitazawa

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Identification of new drug targets and resistance mechanisms in Mycobacterium tuberculosis, Thomas R. Ioerger, Theresa O'Malley, Reiling Liao, Kristine M. Guinn, Mark J. Hickey, Nilofar Mohaideen, Kenan C. Murphy, Helena I. Boshoff M, Valerie Mizrahi, Eric J. Rubin, Christopher M. Sassetti, Clifton E. Barry III, David R. Sherman, Tanya Parish, and James C. Sacchettini

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CD28 and ITK signals regulate autoreactive T cell trafficking, Nitya Jain, Bing Miu, Jian-kang Jiang, Kai K. McKinstry, Amanda L. Prince, Susan L. Swain, Dale L. Greiner, Craig J. Thomas, Michael J. Sanderson, Leslie J. Berg, and Joonso Kang

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Shiga toxin-producing Escherichia coli O104:H4: an emerging pathogen with enhanced virulence, Dakshina M. Jandhyala, Vijay K. Vanguri, Erik J. Boll, YuShuan (Cindy) Lai, Beth A. McCormick, and John M. Leong

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The CD225 Domain of IFITM3 is Required for both IFITM Protein Association and Inhibition of Influenza A Virus and Dengue Virus Replication, Sinu P. John, Christopher R. Chin, Jill Perreira, Eric M. Feeley, Aaron Aker, George Savidis, Sarah E. Smith, Andrew E. H. Elia, Aaron R. Everitt, Mehul Vora, Thomas Pertel, Stephen J. Elledge, Paul Kellam, and Abraham L. Brass

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Human Cytomegalovirus Reprograms the Expression of Host Micro-RNAs whose Target Networks are Required for Viral Replication: A Dissertation, Alexander N. Lagadinos

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Intimate host attachment: enteropathogenic and enterohaemorrhagic Escherichia coli, YuShuan (Cindy) Lai, Ilan Rosenshine, John M. Leong, and Gad Frankel

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Host genetic determinants of influenza pathogenicity, Tsai-Yu Lin and Abraham L. Brass

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Amphotericin B increases influenza A virus infection by preventing IFITM3-mediated restriction, Tsai-Yu Lin, Christopher R. Chin, Aaron R. Everitt, Simon Clare, Jill Perreira, George Savidis, Aaron M. Aker, Sinu P. John, David Sarlah, Erick M. Carreira, Stephen J. Elledge, Paul Kellam, and Abraham L. Brass

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Phylogeographic evidence of cognate recognition site patterns and transformation efficiency differences in H. pylori: theory of strain dominance, Ana Maldonado-Contreras, Shrinivasrao P. Mane, Xue-Song Zhang, Luis Pericchi, Teresa Alarcon, Monica Contreras, Bodo Linz, Martin J. Blaser, and Maria Gloria Dominguez-Bello

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High efficiency generalized transduction in Escherichia coli O157:H7, Martin G. Marinus and Anthony R. Poteete

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Yeast Upf1 CH domain interacts with Rps26 of the 40S ribosomal subunit, Ei Ei Min, Bijoyita Roy, Nadia Amrani, Feng He, and Allan Jacobson

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A mutation in the stalk of the newcastle disease virus hemagglutinin-neuraminidase (HN) protein prevents triggering of the F protein despite allowing efficient HN-F complex formation, Anne M. Mirza and Ronald M. Iorio

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Nitric oxide controls the immunopathology of tuberculosis by inhibiting NLRP3 inflammasome-dependent processing of IL-1beta, Bibhuti B. Mishra, Vijay A. K. Rathinam, Gregory W. Martens, Amanda J. Martinot, Hardy Kornfeld, Katherine A. Fitzgerald, and Christopher M. Sassetti

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Tolerance has its limits: how the thymus copes with infection, Claudio Nunes-Alves, Claudia Nobrega, Samuel M. Behar, and Margarida Correia-Neves

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Efficiency of bridging-sheet recruitment explains HIV-1 R5 envelope glycoprotein sensitivity to soluble CD4 and macrophage tropism, Olivia J. O'Connell, Alexander Repik, Jacqueline D. Reeves, Maria Paz Gonzalez-Perez, Briana Quitadamo, Elizabeth D. Anton, Maria J. Duenas-Decamp, Paul J. Peters, Rongheng Lin, Susan Zolla-Pazner, Davide Corti, Aaron Wallace, Shixia Wang, Xiang-Peng Kong, Shan Lu, and Paul R. Clapham

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Infection control in cystic fibrosis: share and share alike, Brian P. O'Sullivan and Christopher M. Sassetti

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Involvement of Escherichia coli DNA Replication Proteins in Phage Lambda Red-Mediated Homologous Recombination, Anthony R. Poteete

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Smurf2 suppresses B-cell proliferation and lymphomagenesis by mediating ubiquitination and degradation of YY1, Charusheila Ramkumar, Hang Cui, Yahui Kong, Stephen N. Jones, Rachel M. Gerstein, and Hong Zhang (Nature communications)

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Serial Transplantation of Bone Marrow to Test Self-renewal Capacity of Hematopoietic Stem Cells In Vivo, Charusheila Ramkumar, Rachel M. Gerstein, and Hong Zhang (Methods in molecular biology (Clifton, N.J.))

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Rapid intrahost evolution of human cytomegalovirus is shaped by demography and positive selection, Nicholas Renzette, Laura L. Gibson, Bornali Bhattacharjee, Donna Fisher, Mark R. Schleiss, Jeffrey D. Jensen, and Timothy F. Kowalik

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The normalcy of dormancy: common themes in microbial quiescence, Emily S. C. Rittershaus, Seung-Hun Baek, and Christopher M. Sassetti

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Translational Regulation of Cytoplasmic mRNAs, Bijoyita Roy and Albrecht G. von Arnim

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DNA polymerases beta and lambda do not directly affect Ig variable region somatic hypermutation although their absence reduces the frequency of mutations, Carol E. Schrader, Erin K. Linehan, Anna J. Ucher, Barbara Bertocci, and Janet Stavnezer

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Culturing mouse cerebellar granule neurons, Tharakeswari Selvakumar and Daniel L. Kilpatrick

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Gene transfer to the CNS using recombinant adeno-associated virus, Lorelei Stoica, Seemin Seher Ahmed, Guangping Gao, and Miguel Sena-Esteves

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Control of neutrophil inflammation at mucosal surfaces by secreted epithelial products, Rose L. Szabady and Beth A. McCormick

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Mammalian Prion protein expression in yeast; a model for transmembrane insertion, Donald J. Tipper, Immaculada Martinez-Vilchez, Lucas Markgren, and Din Z. Kagalwala

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The global translation profile in a ribosomal protein mutant resembles that of an eIF3 mutant, Bayu Sisay Tiruneh, Byung-Hoon Kim, Daniel R. Gallie, Bijoyita Roy, and Albrecht G. von Arnim

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Finding the striatum in sheep: use of a multi-modal guided approach for convection enhanced delivery, I. M. J. van der Bom, Richard P. Moser, Guangping Gao, Erica Mondo, Denice O'Connell, Matthew J. Gounis, Sarah McGowan, J. Chaurette, N. Bishop, Miguel Sena-Esteves, Christian Mueller, and Neil Aronin

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Frameless multimodal image guidance of localized convection-enhanced delivery of therapeutics in the brain, Imramsjah M. J. van der Bom, Richard P. Moser, Guangping Gao, Miguel Sena-Esteves, Neil Aronin, and Matthew J. Gounis

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SU9518 inhibits proliferative vitreoretinopathy in fibroblast and genetically modified Muller cell-induced rabbit models, Gisela Velez, Alexa R. Weingarden, Hetian Lei, Andrius Kazlauskas, and Guangping Gao

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Retinal gene delivery by rAAV and DNA electroporation, Aditya Venkatesh, Shan Ma, Fernanda Langellotto, Guangping Gao, and Claudio Punzo

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A DNA break- and phosphorylation-dependent positive feedback loop promotes immunoglobulin class-switch recombination, Bao Q. Vuong, Kayleigh Herrick-Reynolds, Bharat Vaidyanathan, Joseph N. Pucella, Anna J. Ucher, Nina M. Donghia, Xiwen Gu, Laura Nicolas, Urszula Nowak, Numa Rahman, Matthew P. Strout, Kevin D. Mills, Janet Stavnezer, and Jayanta Chaudhuri

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Differential requirement for SUB1 in chromosomal and plasmid double-strand DNA break repair, Lijian Yu and Michael R. Volkert

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UV damage regulates alternative polyadenylation of the RPB2 gene in yeast, Lijian Yu and Michael R. Volkert

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The cellular and molecular basis of bitter tastant-induced bronchodilation, Cheng-Hai Zhang, Lawrence M. Lifshitz, Karl Uy, Mitsuo Ikebe, Kevin E. Fogarty, and Ronghua ZhuGe

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Vector sequences are not detected in tumor tissue from research subjects with ornithine transcarbamylase deficiency who previously received adenovirus gene transfer, Li Zhong, Shaoyong Li, Mengxin Li, Jun Xie, Yu Zhang, Brendan Lee, Mark L. Batshaw, James M. Wilson, and Guangping Gao

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Recombinant adeno-associated virus integration sites in murine liver after ornithine transcarbamylase gene correction, Li Zhong, Nirav Malani, Mengxin Li, Troy Brady, Jun Xie, Peter Bell, Shaoyong Li, Haven Jones, James M. Wilson, Terence R. Flotte, Frederic D. Bushman, and Guangping Gao

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Individual N-glycans added at intervals along the stalk of the Nipah virus G protein prevent fusion but do not block the interaction with the homologous F protein, Qiyun Zhu, Scott B. Biering, Anne M. Mirza, Brittany Grasseschi, Paul J. Mahon, Benhur Lee, Hector C. Aguilar, and Ronald M. Iorio

Publications from 2012

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Type 1 ryanodine receptor knock-in mutation causing central core disease of skeletal muscle also displays a neuronal phenotype, Valerie De Crescenzo, Kevin E. Fogarty, Jason J. Lefkowitz, Karl D. Bellve, Elena Zvaritch, David H. MacLennan, and John V. Walsh Jr.

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The Acid-Sensitive, Anesthetic-Activated Potassium Leak Channel, KCNK3, Is Regulated By 14-3-3beta-Dependent, PKC-Mediated Endocytic Trafficking, Luke Gabriel, Anatoli Lvov, Demetra Orthodoxou, Ann R. Rittenhouse, William R. Kobertz, and Haley E. Melikian

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Independent evolution of macrophage-tropism and increased charge between HIV-1 R5 envelopes present in brain and immune tissue, Maria Paz Gonzalez-Perez, Olivia O'Connell, Rongheng Lin, W. Matthew Sullivan, Jeanne E. Bell, Peter Simmonds, and Paul R. Clapham

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Gene transfer in the lung using recombinant adeno-associated virus, Alisha Gruntman, Christian Mueller, Terence R. Flotte, and Guangping Gao

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Characterization of Drug Resistance in Mycobacterium Tuberculosis via Saturating Mutagenesis of Drug Targets: A Master’s Thesis, Michelle J. Harris

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Activation-induced cytidine deaminase-initiated off-target DNA breaks are detected and resolved during S phase, Muneer G. Hasham, Kathy J. Snow, Nina M. Donghia, Jane A. Branca, Mark D. Lessard, Janet Stavnezer, Lindsay S. Shopland, and Kevin D. Mills

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Disruption of IFT Complex A Causes Cystic Kidneys without Mitotic Spindle Misorientation, Julie A. Jonassen, Jovenal T. San Agustin, Stephen P. Baker, and Gregory J. Pazour

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Allele- and tir-independent functions of intimin in diverse animal infection models, Emily M. Mallick, Michael J. Brady, Steven A. Luperchio, Vijay K. Vanguri, Loranne Magoun, Hui Liu, Barbara J. Sheppard, Jean Mukherjee, Arthur Donohue-Rolfe, Saul Tzipori, John M. Leong, and David B. Schauer

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A novel murine infection model for Shiga toxin-producing Escherichia coli, Emily M. Mallick, Megan E. McBee, Vijay K. Vanguri, Angela R. Melton-Celsa, Katherine Schlieper, Brad J. Karalius, Alison D. O’Brien, Joan R. Butterton, John M. Leong, and David B. Schauer

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Production and discovery of novel recombinant adeno-associated viral vectors, Christian Mueller, Li Zhong, Dmitry Ratner, Miguel Sena-Esteves, and Guangping Gao

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Structural/functional analysis of the human OXR1 protein: identification of exon 8 as the anti-oxidant encoding function, Kenan C. Murphy and Michael R. Volkert

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Rabenosyn-5 Defines the Fate of the Transferrin Receptor Following Clathrin-mediated Endocytosis, Deanna M. Navaroli, Karl D. Bellve, Clive Standley, Lawrence M. Lifshitz, James Cardia, David Lambright, Deborah Leonard, Kevin E. Fogarty, and Silvia Corvera

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Smurf2 regulates the senescence response and suppresses tumorigenesis in mice, Charusheila Ramkumar, Yahui Kong, Hang Cui, Suyang Hao, Stephen N. Jones, Rachel M. Gerstein, and Hong Zhang (Cancer research)

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The DNA glycosylases Ogg1 and Nth1 do not contribute to Ig class switching in activated mouse splenic B cells, Anna J. Ucher, Erin K. Linehan, George W. Teebor, Carol E. Schrader, and Janet Stavnezer

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Genomic promoter occupancy of runt-related transcription factor RUNX2 in Osteosarcoma cells identifies genes involved in cell adhesion and motility, Margaretha Van der Deen, Jacqueline Akech, David S. Lapointe, Sneha Gupta, Daniel W. Young, Martin A. Montecino, Mario Galindo, Jane B. Lian, Janet L. Stein, Gary S. Stein, and Andre J. Van Wijnen (The Journal of biological chemistry)

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Host-pathogen interactions of retroviruses, Abdul A. Waheed, Abraham L. Brass, Suryaram Gummuluru, and Gilda Tachedjian

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Long-term, efficient inhibition of microRNA function in mice using rAAV vectors, Jun Xie, Stefan L. Ameres, Randall H. Friedline, Jui-Hung Hung, Yu Zhang, Qing Xie, Li Zhong, Qin Su, Ran He, Mengxin Li, Huapeng Li, Xin Mu, Hongwei Zhang, Jennifer A. Broderick, Jason K. Kim, Zhiping Weng, Terence R. Flotte, Phillip D. Zamore, and Guangping Gao

Publications from 2011

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Metabolic regulation of mycobacterial growth and antibiotic sensitivity, Seung-Hun Baek, Alice H. Li, and Christopher M. Sassetti

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Cyclin-specific docking motifs promote phosphorylation of yeast signaling proteins by G1/S Cdk complexes., Samyabrata Bhaduri and Peter M. Pryciak

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An E2F1-mediated DNA damage response contributes to the replication of human cytomegalovirus, Xiaofei E., Mary Theresa Pickering, Michelle E. Debatis, Jonathan Patrick Castillo, Alexander Lagadinos, Shixia Wang, Shan Lu, and Timothy F. Kowalik

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A Global Analysis of the Adaptations Required for Sterol Catabolism in Mycobacterium Tuberculosis: A Dissertation, Jennifer E. Griffin

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High-resolution phenotypic profiling defines genes essential for mycobacterial growth and cholesterol catabolism, Jennifer E. Griffin, Jeffrey D. Gawronski, Michael A. Dejesus, Thomas R. Ioerger, Brian J. Akerley, and Christopher M. Sassetti

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Crosstalk between NDR kinase pathways coordinates cell cycle dependent actin rearrangements, Sneha Gupta and Dannel McCollum

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Calpain mediates epithelial cell microvillar effacement by enterohemorrhagic Escherichia coli, YuShuan (Cindy) Lai, Kathleen Riley, Andrew Cai, John M. Leong, and Ira M. Herman

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Mycobacterium tuberculosis induces an atypical cell death mode to escape from infected macrophages, Jinhee Lee, Teresa Repasy, Kadamba Papavinasasundaram, Christopher M. Sassetti, and Hardy Kornfeld

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Editorial overview, Frances Lund and Janet Stavnezer

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Recombination Phenotypes of Escherichia Coli greA Mutants, Anthony R. Poteete

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AID binds cooperatively with UNG and Msh2-Msh6 to Ig switch regions dependent upon the AID C terminus, Sanjay Ranjit, Lyne Khair, Erin K. Linehan, Anna J. Ucher, Mrinmay Chakrabarti, Carol E. Schrader, and Janet Stavnezer

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Extensive genome-wide variability of human cytomegalovirus in congenitally infected infants, Nicholas Renzette, Bornali Bhattacharjee, Jeffrey D. Jensen, Laura L. Gibson, and Timothy F. Kowalik

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A novel zinc binding system, ZevAB, is critical for survival of nontypeable Haemophilus influenzae in a murine lung infection model, Charles V. Rosadini, Jeffrey D. Gawronski, Daniel Raimunda, José M Argüello, and Brian J. Akerley

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Activation-induced cytidine deaminase induces reproducible DNA breaks at many non-Ig Loci in activated B cells, Ori Staszewski, Richard E. Baker, Anna J. Ucher, Raygene Martier, Janet Stavnezer, and Jeroen E. J. Guikema

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Complex regulation and function of activation-induced cytidine deaminase, Janet Stavnezer

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Regulation of Humoral Immunity by Pim Kinases: A Dissertation, Kristen N. Willems

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ArcA-regulated glycosyltransferase lic2B promotes complement evasion and pathogenesis of nontypeable Haemophilus influenzae, Sandy M. S. Wong, Frank St. Michael, Andrew Cox, Sanjay Ram, and Brian J. Akerley

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The Role of PC4 in Oxidative Stress: A Dissertation, Lijian Yu

Publications from 2010

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Cross-Talk Between Factors Involved in mRNA Translation and Decay: A Dissertation, Shubhendu Ghosh

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p53 represses class switch recombination to IgG2a through its antioxidant function, Jeroen E. J. Guikema, Carol E. Schrader, Michael H. Brodsky, Erin K. Linehan, Adam Richards, Nahla El Falaky, Daniel H. LI, Hayla Karen Sluss, Eva Szomolanyi-Tsuda, and Janet Stavnezer

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The role of Apex2 in class-switch recombination of immunoglobulin genes, Jeroen E. J. Guikema, Janet Stavnezer, and Carol E. Schrader

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Mapping of switch recombination junctions, a tool for studying DNA repair pathways during immunoglobulin class switching, Janet Stavnezer, Andrea Bjorkman, Likun Du, Alberto Cagigi, and Qiang Pan-Hammarstrom

Publications from 2008

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Newcastle Disease Virus Virulence: Mechanism of the Interferon Antagonistic Activity of the V Protein and Characterization of a Putative Virulence-Specific Antibody to the Attachment Protein: a dissertation, Judith G. Alamares

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Magnetic Resonance Imaging of the Rat Retina: a Dissertation, Govind Bhagavatheeshwaran

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Role of Disulfide Bond Rearrangement in Newcastle Disease Virus Entry: A Dissertation, Surbhi Jain

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Role of Host Cellular Membrane Raft Domains in the Assembly and Release of Newcastle Disease Virus: A Dissertation, Jason P. Laliberte

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Molecular Mechanisms of Neuropeptide Secretion from Neurohypophysial Terminals: a Dissertation, James M. McNally

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Modulation of Voltage-Gated N-Type Calcium Channels by G Protein-Coupled Receptors Involves Lipids and Proteins: A Dissertation, Tora Mitra Ganguli

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Modulation of Neuropeptide Release via Voltage-Dependent and -Independent Signaling in Isolated Neurohypophysial Terminals: a Dissertation, Cristina M. Velazquez-Marrero

Publications from 2007

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Collagen and Fibrin Bioplymer Microthreads for Bioengineered Ligament Generation: a Dissertation, Kevin Cornwell

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Transcript-Specific Cytoplasmic Degradation of YRA1 Pre-mRNA Mediated by the Yeast EDC3 Protein: A Dissertation, Shuyun Dong

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Data from: PTC124 Targets Genetic Disorders Caused by Nonsense Mutations, Allan Jacobson, Phyllis Spatrick, and Feng He

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Surface of Yersinia pestis: LCRV, F1 Production, Invasion and Oxygen: A Dissertation, Kimberly Lea Pouliot

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Modulation of Cav1.3 L-Type Calcium Channels by Arachidonic Acid and Muscarinic M1 Receptors: A Dissertation, Mandy L. Roberts-Crowley