Raphael H. Valdivia
Professor of Molecular Genetics and Microbiology
My laboratory is interested in how microbes influence human health, both in the context of host-pathogen and host-commensal interactions. For many pathogens, and certainly for most commensal microbes, it is is poorly understood what is the molecular basis for how host and microbial factors contribute to a beneficial outcome for us. We currently focus on two experimental systems:
Chlamydia trachomatis infections are responsible for the bulk of sexually transmitted bacterial diseases and are the leading cause of infectious blindness (trachoma) in the world. Chlamydia resides within a membrane bound compartment (“inclusion”). From this location, the pathogen manipulates the cytoskeleton, inhibits lysosomal recognition of the inclusion, activates signaling pathways, re-routes lipid transport, and prevents the onset of programmed cell death. Our laboratory focuses on identifying and characterizing the bacterial factors that are secreted into the host cell cytoplasm to manipulate eukaryotic cellular functions. We use a combination of cell biological techniques, biochemistry, genetics, genomics, live cell microscopy, proteomics and molecular biology to determining the function of virulence factors that reveal novel facets of the cell biology of host-pathogen interactions. Our ultimate goal is to understand how these obligate intracellular bacterial pathogens manipulate host cellular functions to replicate, disseminate and cause disease.
A second area of focus in my research group is the development of new methods to perform genetic analysis in many of the microbes that reside in our gut. Understanding how the collection of genetic information of microbes associated with our bodies (microbiomes) impact our health is one of the new frontiers in microbiology. We are currently studying how one specific bacterium, Akkermansia muciniphila, proliferates in the mucus layers of our lower gastrointestinal tract and contribute to nutrient homeostasis and human immunological health.
Current Appointments & Affiliations
- Professor of Molecular Genetics and Microbiology, Molecular Genetics and Microbiology, Basic Science Departments 2017
- Vice Dean, Basic Science, School of Medicine, Duke University 2014
Contact Information
- 272 Jones Bldg, Research Dr, Durham, NC 27710
- Duke Box 2927, Durham, NC 27710
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raphael.valdivia@duke.edu
(919) 668-3831
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Valdivia lab website
- Background
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Education, Training, & Certifications
- Post Doctoral Fellow, University of California - Berkeley 1998 - 2002
- Post Doctoral Fellow, Stanford University 1997 - 1998
- Ph.D., Stanford University 1998
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Duke Appointment History
- Associate Professor of Molecular Genetics and Microbiology, Molecular Genetics and Microbiology, Basic Science Departments 2009 - 2017
- Investigator in the Institute for Genome Sciences & Policy, Institutes and Centers, School of Medicine 2002 - 2014
- Assistant Professor of Molecular Genetics and Microbiology, Molecular Genetics and Microbiology, Basic Science Departments 2002 - 2009
- Recognition
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In the News
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NOV 7, 2018 -
APR 21, 2017 -
JUN 26, 2015 -
SEP 23, 2014 -
SEP 19, 2014 The News & Observer -
APR 2, 2014
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Awards & Honors
- Fellow of the American Academy of Microbiology. Anerican Academy of Microbiology. June 2017
- AAAS Fellows. American Association for the Advancement of Science, The. 2012
- Burroughs Wellcome Investigator in the Pathogenesis of Infectious DIseases. Burroughs Wellcome Trust. 2008
- Investigators in Pathogenesis of Infectious Diseases. Burroughs Wellcome Fund. 2007
- Merck Irving S. Sigal Memorial Awards. American Society for Microbiology. 2007
- Pew Scholar in Biomedical Sciences. Pew Trust. 2004
- Pew Scholars in the Biomedical Sciences. Pew Charitable Trusts, The. 2004
- Research
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Selected Grants
- Duke Women's Reproductive Health Research Scholars awarded by National Institutes of Health 2020 - 2025
- Genetic and Genomics Training Grant awarded by National Institutes of Health 2020 - 2025
- Interferon-inducible cell-intrinsic host defense against Chlamydia trachomatis awarded by National Institutes of Health 2019 - 2024
- Genetic analysis of mucin utilization by Akkermansia muciniphila and its impact on host physiology awarded by National Institutes of Health 2018 - 2023
- Funcional characterization of early Chlamydia effectors awarded by National Institutes of Health 2018 - 2023
- Defining human interferon-stimulated genes with novel functions in host defense to Chlamydia infections awarded by National Institutes of Health 2020 - 2023
- Mechanisms of methylthioadenosine signaling during Salmonella infection awarded by National Institutes of Health 2019 - 2022
- Building Interdisciplinary Research Careers in Women's Health awarded by National Institutes of Health 2002 - 2022
- Preparing Genetic Counselors for Genomic Medicine Research awarded by National Institutes of Health 2017 - 2022
- Subversion of the host cell cytoskeleton and innate immunity during Chlamydia infection awarded by National Institutes of Health 2019 - 2022
- The impact of genetic diversity among Akkermansia strains on the effectivenes of immune checkpoint inhibitors in cancer immunotherapies awarded by National Institutes of Health 2020 - 2022
- Structure-Function Analysis of Chlamydia Secretion Chaperones awarded by National Institutes of Health 2016 - 2022
- A comprehensive research resource to define mechanisms underlying microbial regulation of host metabolism in pediatric obesity and obesity-targeted therapeutics awarded by National Institutes of Health 2016 - 2021
- Posttranslational modifications of host proteins by Chlamydia effectors awarded by National Institutes of Health 2018 - 2021
- Genetic analysis of a beneficial gut bacterium awarded by American Heart Association 2018 - 2020
- Genetics Training Grant awarded by National Institutes of Health 1979 - 2020
- Organization and Function of Cellular Structure awarded by National Institutes of Health 1975 - 2020
- Biochemistry and Structure of Lipid A Enzymes awarded by National Institutes of Health 2016 - 2020
- Enzymology of Chlamydial Pathogenesis awarded by National Institutes of Health 2013 - 2020
- Human Genetic Variance and Cellular Responses to Sexually Transmitted Infections awarded by University of Maryland 2009 - 2019
- The use of NExtGEn Genetics to determine gene function in genetically intractable but medically important microbes awarded by Cincinnati Children's Hospital Medical Center 2018 - 2019
- Interferon-driven ubiquitin response targets Chlamydia inclusions in human cells awarded by National Institutes of Health 2017 - 2019
- BWF Ad Hoc grant Request ID# 1018498 awarded by Burroughs Wellcome Fund 2017 - 2018
- Genetic Analysis in an intractable gut microbe awarded by National Institutes of Health 2016 - 2018
- Characterization of a novel Salmonella regulator of IL-10 production and its role in pathogenesis awarded by National Institutes of Health 2016 - 2018
- Forward and Reverse Genetics in Chlamydia awarded by National Institutes of Health 2012 - 2017
- Investigating the Type II Secretion System of Chlamydia trachomatis awarded by National Institutes of Health 2014 - 2017
- Institutional Training Grant in Pediatric Infectious Disease awarded by National Institutes of Health 2011 - 2016
- The role of cyclic-di-AMP in the regulation of Chlamydia cellular functions awarded by National Institutes of Health 2013 - 2016
- Small Molecule Inhibitors of Polysaccharide Capsule Biogenesis as Novel Therapeutics for Urinary Tract Infections awarded by Cincinnati Children's Hospital Medical Center 2012 - 2015
- Instrumentation for Quantitative Phosphoproteomics and Acetylomics awarded by National Institutes of Health 2014 - 2015
- Chlamydia Effector Proteins awarded by National Institutes of Health 2009 - 2014
- IsoCyte Laser Scanning Plate Cytometer for High-throughput, High-content Assays awarded by National Institutes of Health 2011 - 2012
- Genetic Analysis in Chlamydia awarded by National Institutes of Health 2010 - 2012
- Chlamydia co-option of Eukaryotic Lipid Droplets awarded by National Institutes of Health 2006 - 2011
- Live cell widefield fluorescence microscope with activation and bleaching lasers awarded by National Institutes of Health 2010 - 2011
- Identification of Coxiella burnetti Effector Proteins awarded by National Institutes of Health 2007 - 2009
- Integrated instrument systems for maintenance and delivery of RNAi libraries awarded by National Institutes of Health 2008 - 2009
- Alternative Endpoints for Plague Challenge Models awarded by National Institutes of Health 2004 - 2008
- Functional Genomic Analysis of the Chlamydia Inclusion awarded by National Institutes of Health 2004 - 2006
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External Relationships
- Bloom Science, Inc.
- Publications & Artistic Works
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Selected Publications
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Academic Articles
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Schott, Benjamin H., Alejandro L. Antonia, Liuyang Wang, Kelly J. Pittman, Barbara S. Sixt, Alyson B. Barnes, Raphael H. Valdivia, and Dennis C. Ko. “Modeling of variables in cellular infection reveals CXCL10 levels are regulated by human genetic variation and the Chlamydia-encoded CPAF protease.” Sci Rep 10, no. 1 (October 26, 2020): 18269. https://doi.org/10.1038/s41598-020-75129-y.Full Text Open Access Copy Link to Item
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Dudiak, Brianne M., Kenneth R. Maksimchuk, Maria M. Bednar, Christopher J. Podracky, Jonathan M. Burg, Tri M. Nguyen, Felix O. Nwogbo, Raphael H. Valdivia, and Dewey G. McCafferty. “Insights into the Autoproteolytic Processing and Catalytic Mechanism of the Chlamydia trachomatis Virulence-Associated Protease CPAF.” Biochemistry 58, no. 33 (August 20, 2019): 3527–36. https://doi.org/10.1021/acs.biochem.9b00522.Full Text Link to Item
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Sixt, Barbara S., Carlos Núñez-Otero, Oliver Kepp, Raphael H. Valdivia, and Guido Kroemer. “Chlamydia trachomatis fails to protect its growth niche against pro-apoptotic insults.” Cell Death Differ 26, no. 8 (August 2019): 1485–1500. https://doi.org/10.1038/s41418-018-0224-2.Full Text Link to Item
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Dolat, Lee, and Raphael H. Valdivia. “A renewed tool kit to explore Chlamydia pathogenesis: from molecular genetics to new infection models.” F1000res 8 (2019). https://doi.org/10.12688/f1000research.18832.1.Full Text Link to Item
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Filcek, Kimberly, Katarina Vielfort, Samada Muraleedharan, Johan Henriksson, Raphael H. Valdivia, Patrik M. Bavoil, and Barbara S. Sixt. “Insertional mutagenesis in the zoonotic pathogen Chlamydia caviae.” Plos One 14, no. 11 (2019): e0224324. https://doi.org/10.1371/journal.pone.0224324.Full Text Link to Item
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Panzetta, María E., Agustín L. Luján, Robert J. Bastidas, María T. Damiani, Raphael H. Valdivia, and Héctor A. Saka. “Ptr/CTL0175 Is Required for the Efficient Recovery of Chlamydia trachomatis From Stress Induced by Gamma-Interferon.” Front Microbiol 10 (2019): 756. https://doi.org/10.3389/fmicb.2019.00756.Full Text Link to Item
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Valdivia, Raphael H., and Robert J. Bastidas. “The Expanding Molecular Genetics Tool Kit in Chlamydia.” J Bacteriol 200, no. 24 (December 15, 2018). https://doi.org/10.1128/JB.00590-18.Full Text Link to Item
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Pruneda, Jonathan N., Robert J. Bastidas, Erithelgi Bertsoulaki, Kirby N. Swatek, Balaji Santhanam, Michael J. Clague, Raphael H. Valdivia, Sylvie Urbé, and David Komander. “A Chlamydia effector combining deubiquitination and acetylation activities induces Golgi fragmentation.” Nat Microbiol 3, no. 12 (December 2018): 1377–84. https://doi.org/10.1038/s41564-018-0271-y.Full Text Link to Item
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Wang, Liuyang, Kelly J. Pittman, Jeffrey R. Barker, Raul E. Salinas, Ian B. Stanaway, Graham D. Williams, Robert J. Carroll, et al. “An Atlas of Genetic Variation Linking Pathogen-Induced Cellular Traits to Human Disease.” Cell Host Microbe 24, no. 2 (August 8, 2018): 308-323.e6. https://doi.org/10.1016/j.chom.2018.07.007.Full Text Link to Item
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Tarbet, Heather J., Lee Dolat, Timothy J. Smith, Brett M. Condon, E Timothy O’Brien, Raphael H. Valdivia, and Michael Boyce. “Site-specific glycosylation regulates the form and function of the intermediate filament cytoskeleton.” Elife 7 (March 7, 2018). https://doi.org/10.7554/eLife.31807.Full Text Open Access Copy Link to Item
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Panzetta, Maria Emilia, Raphael H. Valdivia, and Hector Alex Saka. “Chlamydia Persistence: A Survival Strategy to Evade Antimicrobial Effects in-vitro and in-vivo.” Front Microbiol 9 (2018): 3101. https://doi.org/10.3389/fmicb.2018.03101.Full Text Link to Item
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Dolat, Lee, and Raphael H. Valdivia. “Bacterial Subversion of COG-Dependent Membrane Traffic.” Trends Cell Biol 27, no. 12 (December 2017): 877–78. https://doi.org/10.1016/j.tcb.2017.09.004.Full Text Link to Item
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Mojica, Sergio A., Olli Salin, Robert J. Bastidas, Naresh Sunduru, Mattias Hedenström, C David Andersson, Carlos Núñez-Otero, et al. “N-Acylated Derivatives of Sulfamethoxazole Block Chlamydia Fatty Acid Synthesis and Interact with FabF.” Antimicrob Agents Chemother 61, no. 10 (October 2017). https://doi.org/10.1128/AAC.00716-17.Full Text Link to Item
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McClure, Erin E., Adela S Oliva Chávez, Dana K. Shaw, Jason A. Carlyon, Roman R. Ganta, Susan M. Noh, David O. Wood, et al. “Engineering of obligate intracellular bacteria: progress, challenges and paradigms.” Nat Rev Microbiol 15, no. 9 (September 2017): 544–58. https://doi.org/10.1038/nrmicro.2017.59.Full Text Open Access Copy Link to Item
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Norton, John N., Randall P. Reynolds, Cliburn Chan, Raphael H. Valdivia, and Herman F. Staats. “Assessing the satisfaction and burden within an academic animal care and use program.” Faseb J 31, no. 9 (September 2017): 3913–21. https://doi.org/10.1096/fj.201700072RR.Full Text Link to Item
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Carpenter, Victoria, Yi-Shan Chen, Lee Dolat, and Raphael H. Valdivia. “The Effector TepP Mediates Recruitment and Activation of Phosphoinositide 3-Kinase on Early Chlamydia trachomatis Vacuoles.” Msphere 2, no. 4 (July 2017). https://doi.org/10.1128/mSphere.00207-17.Full Text Open Access Copy Link to Item
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Sixt, Barbara S., Raphael H. Valdivia, and Guido Kroemer. “Chlamydia trachomatis' struggle to keep its host alive.” Microb Cell 4, no. 3 (March 2, 2017): 101–4. https://doi.org/10.15698/mic2017.03.564.Full Text Link to Item
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Sixt, Barbara S., Robert J. Bastidas, Ryan Finethy, Ryan M. Baxter, Victoria K. Carpenter, Guido Kroemer, Jörn Coers, and Raphael H. Valdivia. “The Chlamydia trachomatis Inclusion Membrane Protein CpoS Counteracts STING-Mediated Cellular Surveillance and Suicide Programs.” Cell Host Microbe 21, no. 1 (January 11, 2017): 113–21. https://doi.org/10.1016/j.chom.2016.12.002.Full Text Link to Item
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Bae, Sena, Olaf Mueller, Sandi Wong, John F. Rawls, and Raphael H. Valdivia. “Genomic sequencing-based mutational enrichment analysis identifies motility genes in a genetically intractable gut microbe.” Proc Natl Acad Sci U S A 113, no. 49 (December 6, 2016): 14127–32. https://doi.org/10.1073/pnas.1612753113.Full Text Link to Item
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Sixt, Barbara S., and Raphael H. Valdivia. “Molecular Genetic Analysis of Chlamydia Species.” Annu Rev Microbiol 70 (September 8, 2016): 179–98. https://doi.org/10.1146/annurev-micro-102215-095539.Full Text Link to Item
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Yang, Zhangsheng, Lingli Tang, Lili Shao, Yuyang Zhang, Tianyuan Zhang, Robert Schenken, Raphael Valdivia, and Guangming Zhong. “The Chlamydia-Secreted Protease CPAF Promotes Chlamydial Survival in the Mouse Lower Genital Tract.” Infect Immun 84, no. 9 (September 2016): 2697–2702. https://doi.org/10.1128/IAI.00280-16.Full Text Link to Item
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Bastidas, Robert J., and Raphael H. Valdivia. “Emancipating Chlamydia: Advances in the Genetic Manipulation of a Recalcitrant Intracellular Pathogen.” Microbiol Mol Biol Rev 80, no. 2 (June 2016): 411–27. https://doi.org/10.1128/MMBR.00071-15.Full Text Link to Item
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Young, Hayley E., Jinshi Zhao, Jeffrey R. Barker, Ziqiang Guan, Raphael H. Valdivia, and Pei Zhou. “Discovery of the Elusive UDP-Diacylglucosamine Hydrolase in the Lipid A Biosynthetic Pathway in Chlamydia trachomatis.” Mbio 7, no. 2 (March 22, 2016): e00090. https://doi.org/10.1128/mBio.00090-16.Full Text Open Access Copy Link to Item
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Maksimchuk, Kenneth R., Katherine A. Alser, Rui Mou, Raphael H. Valdivia, and Dewey G. McCafferty. “The Chlamydia trachomatis Protease CPAF Contains a Cryptic PDZ-Like Domain with Similarity to Human Cell Polarity and Tight Junction PDZ-Containing Proteins.” Plos One 11, no. 2 (2016): e0147233. https://doi.org/10.1371/journal.pone.0147233.Full Text Link to Item
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Marsh, James W., Bryan A. Wee, Joel D. A. Tyndall, William B. Lott, Robert J. Bastidas, Harlan D. Caldwell, Raphael H. Valdivia, L. Kari, and Wilhelmina M. Huston. “A Chlamydia trachomatis strain with a chemically generated amino acid substitution (P370L) in the cthtrA gene shows reduced elementary body production.” Bmc Microbiol 15 (September 30, 2015): 194. https://doi.org/10.1186/s12866-015-0533-2.Full Text Link to Item
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Mirrashidi, Kathleen M., Cherilyn A. Elwell, Erik Verschueren, Jeffrey R. Johnson, Andrew Frando, John Von Dollen, Oren Rosenberg, et al. “Global Mapping of the Inc-Human Interactome Reveals that Retromer Restricts Chlamydia Infection.” Cell Host Microbe 18, no. 1 (July 8, 2015): 109–21. https://doi.org/10.1016/j.chom.2015.06.004.Full Text Link to Item
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Kokes, Marcela, Joe Dan Dunn, Joshua A. Granek, Bidong D. Nguyen, Jeffrey R. Barker, Raphael H. Valdivia, and Robert J. Bastidas. “Integrating chemical mutagenesis and whole-genome sequencing as a platform for forward and reverse genetic analysis of Chlamydia.” Cell Host Microbe 17, no. 5 (May 13, 2015): 716–25. https://doi.org/10.1016/j.chom.2015.03.014.Full Text Link to Item
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Larson, Charles L., Paul A. Beare, Daniel E. Voth, Dale Howe, Diane C. Cockrell, Robert J. Bastidas, Raphael H. Valdivia, and Robert A. Heinzen. “Coxiella burnetii effector proteins that localize to the parasitophorous vacuole membrane promote intracellular replication.” Infection and Immunity 83, no. 2 (February 2015): 661–70. https://doi.org/10.1128/iai.02763-14.Full Text
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Kokes, Marcela, and Raphael H. Valdivia. “Differential Translocation of Host Cellular Materials into the Chlamydia trachomatis Inclusion Lumen during Chemical Fixation.” Plos One 10, no. 10 (2015): e0139153. https://doi.org/10.1371/journal.pone.0139153.Full Text Open Access Copy Link to Item
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Saka, Hector Alex, J Will Thompson, Yi-Shan Chen, Laura G. Dubois, Joel T. Haas, Arthur Moseley, and Raphael H. Valdivia. “Chlamydia trachomatis Infection Leads to Defined Alterations to the Lipid Droplet Proteome in Epithelial Cells.” Plos One 10, no. 4 (January 2015): e0124630. https://doi.org/10.1371/journal.pone.0124630.Full Text Open Access Copy
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Engström, Patrik, K Syam Krishnan, Bidong D. Ngyuen, Erik Chorell, Johan Normark, Jim Silver, Robert J. Bastidas, et al. “A 2-pyridone-amide inhibitor targets the glucose metabolism pathway of Chlamydia trachomatis.” Mbio 6, no. 1 (December 30, 2014): e02304–14. https://doi.org/10.1128/mbio.02304-14.Full Text
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Valdivia, Raphael, and Caitlin Sedwick. “Raphael Valdivia: how Chlamydia settles in.” J Cell Biol 207, no. 1 (October 13, 2014): 4–5. https://doi.org/10.1083/jcb.2071pi.Full Text Link to Item
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Snavely, Emily A., Marcela Kokes, Joe Dan Dunn, Hector A. Saka, Bidong D. Nguyen, Robert J. Bastidas, Dewey G. McCafferty, and Raphael H. Valdivia. “Reassessing the role of the secreted protease CPAF in Chlamydia trachomatis infection through genetic approaches.” Pathog Dis 71, no. 3 (August 2014): 336–51. https://doi.org/10.1111/2049-632X.12179.Full Text Link to Item
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Troemel, Emily, and Raphael H. Valdivia. “Cell biology at the host-microbe interface.” Mol Biol Cell 25, no. 6 (March 2014): 729. https://doi.org/10.1091/mbc.E13-11-0668.Full Text Link to Item
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Chen, Yi-Shan, Robert J. Bastidas, Hector A. Saka, Victoria K. Carpenter, Kristian L. Richards, Gregory V. Plano, and Raphael H. Valdivia. “The Chlamydia trachomatis type III secretion chaperone Slc1 engages multiple early effectors, including TepP, a tyrosine-phosphorylated protein required for the recruitment of CrkI-II to nascent inclusions and innate immune signaling.” Plos Pathog 10, no. 2 (February 2014): e1003954. https://doi.org/10.1371/journal.ppat.1003954.Full Text Link to Item
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Furuse, Yuki, Ryan Finethy, Hector A. Saka, Ana M. Xet-Mull, Dana M. Sisk, Kristen L Jurcic Smith, Sunhee Lee, et al. “Search for microRNAs expressed by intracellular bacterial pathogens in infected mammalian cells.” Plos One 9, no. 9 (January 2014): e106434. https://doi.org/10.1371/journal.pone.0106434.Full Text Open Access Copy
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Nguyen, Bidong, and Raphael Valdivia. “A chemical mutagenesis approach to identify virulence determinants in the obligate intracellular pathogen Chlamydia trachomatis.” Methods Mol Biol 1197 (2014): 347–58. https://doi.org/10.1007/978-1-4939-1261-2_20.Full Text Link to Item
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Saka, H. A., R. Baxter, R. J. Bastidas, M. E. Panzetta, and R. H. Valdivia. “IDENTIFICATION OF Chlamydia trachomatis MUTANTS DEFECTIVE FOR PERSISTENCE.” Biocell 38 (January 1, 2014): 132–132.Link to Item
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Nguyen, Bidong D., and Raphael H. Valdivia. “Forward genetic approaches in Chlamydia trachomatis.” Journal of Visualized Experiments : Jove, no. 80 (October 23, 2013): e50636. https://doi.org/10.3791/50636.Full Text
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Engström, Patrik, Bidong D. Nguyen, Johan Normark, Ingela Nilsson, Robert J. Bastidas, Asa Gylfe, Mikael Elofsson, et al. “Mutations in hemG mediate resistance to salicylidene acylhydrazides, demonstrating a novel link between protoporphyrinogen oxidase (HemG) and Chlamydia trachomatis infectivity.” J Bacteriol 195, no. 18 (September 2013): 4221–30. https://doi.org/10.1128/JB.00506-13.Full Text Link to Item
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Bastidas, Robert J., Cherilyn A. Elwell, Joanne N. Engel, and Raphael H. Valdivia. “Chlamydial intracellular survival strategies.” Cold Spring Harb Perspect Med 3, no. 5 (May 1, 2013): a010256. https://doi.org/10.1101/cshperspect.a010256.Full Text Link to Item
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Barker, Jeffrey R., Benjamin J. Koestler, Victoria K. Carpenter, Dara L. Burdette, Christopher M. Waters, Russell E. Vance, and Raphael H. Valdivia. “STING-dependent recognition of cyclic di-AMP mediates type I interferon responses during Chlamydia trachomatis infection.” Mbio 4, no. 3 (April 30, 2013): e00018–e00013. https://doi.org/10.1128/mBio.00018-13.Full Text Link to Item
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Chen, Y., V. Carpenter, and R. H. Valdivia. “A Tyrosine-phosphorylated Type III Secretion Effector Mediates Recruitment of a host Scaffolding Protein to the Pathogenic Vacuole of Chlamydia trachomatis.” Molecular Biology of the Cell 24 (January 1, 2013).Link to Item
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Haldar, Arun K., Hector A. Saka, Anthony S. Piro, Joe Dan Dunn, Stanley C. Henry, Gregory A. Taylor, Eva M. Frickel, Raphael H. Valdivia, and Jörn Coers. “IRG and GBP host resistance factors target aberrant, "non-self" vacuoles characterized by the missing of "self" IRGM proteins.” Plos Pathog 9, no. 6 (2013): e1003414. https://doi.org/10.1371/journal.ppat.1003414.Full Text Link to Item
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Kokes, M., and R. H. Valdivia. “Host and bacterial factors mediate cytoskeletal rearrangements at the surface of the Chlamydia trachomatis pathogenic vacuole.” Molecular Biology of the Cell 24 (January 1, 2013).Link to Item
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Rockey, D., and R. Valdivia. “A new dawn for chlamydia research: These important and challenging pathogens are finally yielding to modern analytic techniques.” Microbe 7, no. 9 (September 1, 2012).
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Valdivia, Raphael H. “Thinking outside the box: new strategies for antichlamydial control.” Future Microbiol 7, no. 4 (April 2012): 427–29. https://doi.org/10.2217/fmb.12.25.Full Text Link to Item
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Nguyen, Bidong D., and Raphael H. Valdivia. “Virulence determinants in the obligate intracellular pathogen Chlamydia trachomatis revealed by forward genetic approaches.” Proc Natl Acad Sci U S A 109, no. 4 (January 24, 2012): 1263–68. https://doi.org/10.1073/pnas.1117884109.Full Text Link to Item
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Rockey, D., and R. Valdivia. “A new dawn for chlamydia research.” Microbe 7, no. 9 (January 1, 2012): 393–98. https://doi.org/10.1128/microbe.7.393.1.Full Text
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Saka, Hector Alex, and Raphael Valdivia. “Emerging roles for lipid droplets in immunity and host-pathogen interactions.” Annu Rev Cell Dev Biol 28 (2012): 411–37. https://doi.org/10.1146/annurev-cellbio-092910-153958.Full Text Link to Item
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Thornbrough, Joshua M., Tom Hundley, Raphael Valdivia, and Micah J. Worley. “Human genome-wide RNAi screen for host factors that modulate intracellular Salmonella growth.” Plos One 7, no. 6 (2012): e38097. https://doi.org/10.1371/journal.pone.0038097.Full Text Link to Item
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Saka, Hector A., J Will Thompson, Yi-Shan Chen, Yadunanda Kumar, Laura G. Dubois, M Arthur Moseley, and Raphael H. Valdivia. “Quantitative proteomics reveals metabolic and pathogenic properties of Chlamydia trachomatis developmental forms.” Mol Microbiol 82, no. 5 (December 2011): 1185–1203. https://doi.org/10.1111/j.1365-2958.2011.07877.x.Full Text Link to Item
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Bednar, Maria M., Ine Jorgensen, Raphael H. Valdivia, and Dewey G. McCafferty. “Chlamydia protease-like activity factor (CPAF): characterization of proteolysis activity in vitro and development of a nanomolar affinity CPAF zymogen-derived inhibitor.” Biochemistry 50, no. 35 (September 6, 2011): 7441–43. https://doi.org/10.1021/bi201098r.Full Text Link to Item
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Jorgensen, Ine, Maria M. Bednar, Vishar Amin, Beckley K. Davis, Jenny P. Y. Ting, Dewey G. McCafferty, and Raphael H. Valdivia. “The Chlamydia protease CPAF regulates host and bacterial proteins to maintain pathogen vacuole integrity and promote virulence.” Cell Host Microbe 10, no. 1 (July 21, 2011): 21–32. https://doi.org/10.1016/j.chom.2011.06.008.Full Text Link to Item
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Nguyen, Bidong D., Doreen Cunningham, Xiaofei Liang, Xin Chen, Eric J. Toone, Christian R. H. Raetz, Pei Zhou, and Raphael H. Valdivia. “Lipooligosaccharide is required for the generation of infectious elementary bodies in Chlamydia trachomatis.” Proc Natl Acad Sci U S A 108, no. 25 (June 21, 2011): 10284–89. https://doi.org/10.1073/pnas.1107478108.Full Text Link to Item
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Dunn, Joe Dan, and Raphael H. Valdivia. “Uncivil engineers: Chlamydia, Salmonella and Shigella alter cytoskeleton architecture to invade epithelial cells.” Future Microbiol 5, no. 8 (August 2010): 1219–32. https://doi.org/10.2217/fmb.10.77.Full Text Link to Item
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Vignola, Mark J., David F. Kashatus, Gregory A. Taylor, Christopher M. Counter, and Raphael H. Valdivia. “cPLA2 regulates the expression of type I interferons and intracellular immunity to Chlamydia trachomatis.” J Biol Chem 285, no. 28 (July 9, 2010): 21625–35. https://doi.org/10.1074/jbc.M110.103010.Full Text Link to Item
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Saka, Hector Alex, and Raphael H. Valdivia. “Acquisition of nutrients by Chlamydiae: unique challenges of living in an intracellular compartment.” Curr Opin Microbiol 13, no. 1 (February 2010): 4–10. https://doi.org/10.1016/j.mib.2009.11.002.Full Text Link to Item
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Cocchiaro, Jordan L., and Raphael H. Valdivia. “New insights into Chlamydia intracellular survival mechanisms.” Cell Microbiol 11, no. 11 (November 2009): 1571–78. https://doi.org/10.1111/j.1462-5822.2009.01364.x.Full Text Link to Item
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Spaeth, Kris E., Yi-Shan Chen, and Raphael H. Valdivia. “The Chlamydia type III secretion system C-ring engages a chaperone-effector protein complex.” Plos Pathog 5, no. 9 (September 2009): e1000579. https://doi.org/10.1371/journal.ppat.1000579.Full Text Link to Item
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Kumar, Yadunanda, and Raphael H. Valdivia. “Leading a sheltered life: intracellular pathogens and maintenance of vacuolar compartments.” Cell Host Microbe 5, no. 6 (June 18, 2009): 593–601. https://doi.org/10.1016/j.chom.2009.05.014.Full Text Link to Item
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Kenny, Brendan, and Raphael Valdivia. “Host-microbe interactions: bacteria.” Curr Opin Microbiol 12, no. 1 (February 2009): 1–3. https://doi.org/10.1016/j.mib.2009.01.002.Full Text Link to Item
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Jorgensen, Ine, and Raphael H. Valdivia. “Pmp-like proteins Pls1 and Pls2 are secreted into the lumen of the Chlamydia trachomatis inclusion.” Infect Immun 76, no. 9 (September 2008): 3940–50. https://doi.org/10.1128/IAI.00632-08.Full Text Link to Item
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Kumar, Yadunanda, and Raphael H. Valdivia. “Actin and intermediate filaments stabilize the Chlamydia trachomatis vacuole by forming dynamic structural scaffolds.” Cell Host Microbe 4, no. 2 (August 14, 2008): 159–69. https://doi.org/10.1016/j.chom.2008.05.018.Full Text Link to Item
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Cocchiaro, Jordan L., Yadunanda Kumar, Elizabeth R. Fischer, Ted Hackstadt, and Raphael H. Valdivia. “Cytoplasmic lipid droplets are translocated into the lumen of the Chlamydia trachomatis parasitophorous vacuole.” Proc Natl Acad Sci U S A 105, no. 27 (July 8, 2008): 9379–84. https://doi.org/10.1073/pnas.0712241105.Full Text Link to Item
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Valdivia, Raphael H. “Chlamydia effector proteins and new insights into chlamydial cellular microbiology.” Curr Opin Microbiol 11, no. 1 (February 2008): 53–59. https://doi.org/10.1016/j.mib.2008.01.003.Full Text Link to Item
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Kumar, Yadunanda, and Raphael H. Valdivia. “Reorganization of the host cytoskeleton by the intracellular pathogen Chlamydia trachomatis.” Commun Integr Biol 1, no. 2 (2008): 175–77. https://doi.org/10.4161/cib.1.2.7146.Full Text Link to Item
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Valdivia, Raphael H., and Joseph Heitman. “Endosymbiosis: the evil within.” Curr Biol 17, no. 11 (June 5, 2007): R408–10. https://doi.org/10.1016/j.cub.2007.04.001.Full Text Link to Item
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Bumann, Dirk, and Raphael H. Valdivia. “Identification of host-induced pathogen genes by differential fluorescence induction reporter systems.” Nat Protoc 2, no. 4 (2007): 770–77. https://doi.org/10.1038/nprot.2007.78.Full Text Link to Item
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Kumar, Yadunanda, Jordan Cocchiaro, and Raphael H. Valdivia. “The obligate intracellular pathogen Chlamydia trachomatis targets host lipid droplets.” Curr Biol 16, no. 16 (August 22, 2006): 1646–51. https://doi.org/10.1016/j.cub.2006.06.060.Full Text Link to Item
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Sisko, Jennifer L., Kris Spaeth, Yadunanda Kumar, and Raphael H. Valdivia. “Multifunctional analysis of Chlamydia-specific genes in a yeast expression system.” Mol Microbiol 60, no. 1 (April 2006): 51–66. https://doi.org/10.1111/j.1365-2958.2006.05074.x.Full Text Link to Item
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Valdivia, Raphael H., Brendan P. Cormack, and Stanley Falkow. “The uses of green fluorescent protein in prokaryotes.” Methods Biochem Anal 47 (2006): 163–78.Link to Item
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Valdivia, Raphael H. “Modeling the function of bacterial virulence factors in Saccharomyces cerevisiae.” Eukaryot Cell 3, no. 4 (August 2004): 827–34. https://doi.org/10.1128/EC.3.4.827-834.2004.Full Text Link to Item
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Valdivia, Raphael H., and Randy Schekman. “The yeasts Rho1p and Pkc1p regulate the transport of chitin synthase III (Chs3p) from internal stores to the plasma membrane.” Proc Natl Acad Sci U S A 100, no. 18 (September 2, 2003): 10287–92. https://doi.org/10.1073/pnas.1834246100.Full Text Link to Item
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Shams, Homayoun, Benjamin Wizel, David L. Lakey, Buka Samten, Ramakrishna Vankayalapati, Raphael H. Valdivia, Richard L. Kitchens, David E. Griffith, and Peter F. Barnes. “The CD14 receptor does not mediate entry of Mycobacterium tuberculosis into human mononuclear phagocytes.” Fems Immunol Med Microbiol 36, no. 1–2 (May 15, 2003): 63–69. https://doi.org/10.1016/S0928-8244(03)00039-7.Full Text Link to Item
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Valdivia, Raphael H., Daniel Baggott, John S. Chuang, and Randy W. Schekman. “The yeast clathrin adaptor protein complex 1 is required for the efficient retention of a subset of late Golgi membrane proteins.” Dev Cell 2, no. 3 (March 2002): 283–94. https://doi.org/10.1016/s1534-5807(02)00127-2.Full Text Link to Item
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Valdivia, R. H., D. M. Cirillo, A. K. Lee, D. M. Bouley, and S. Falkow. “mig-14 is a horizontally acquired, host-induced gene required for salmonella enterica lethal infection in the murine model of typhoid fever.” Infect Immun 68, no. 12 (December 2000): 7126–31. https://doi.org/10.1128/iai.68.12.7126-7131.2000.Full Text Link to Item
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Valdivia, R. H., and L. Ramakrishnan. “Applications of gene fusions to green fluorescent protein and flow cytometry to the study of bacterial gene expression in host cells.” Methods Enzymol 326 (2000): 47–73. https://doi.org/10.1016/s0076-6879(00)26046-1.Full Text Link to Item
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Vazquez-Torres, A., J. Jones-Carson, A. J. Bäumler, S. Falkow, R. Valdivia, W. Brown, M. Le, R. Berggren, W. T. Parks, and F. C. Fang. “Extraintestinal dissemination of Salmonella by CD18-expressing phagocytes.” Nature 401, no. 6755 (October 21, 1999): 804–8. https://doi.org/10.1038/44593.Full Text Link to Item
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Valdivia, R. H. “Regulatory network analysis.” Trends Microbiol 7, no. 10 (October 1999): 398–99. https://doi.org/10.1016/s0966-842x(99)01584-x.Full Text Link to Item
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Valdivia, R. H., and S. Falkow. “1.1 Detection of Virulence Genes Expressed within Infected Cells.” Methods in Microbiology 27, no. C (December 1, 1998): 3–12. https://doi.org/10.1016/S0580-9517(08)70262-9.Full Text
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Cirillo, D. M., R. H. Valdivia, D. M. Monack, and S. Falkow. “Macrophage-dependent induction of the Salmonella pathogenicity island 2 type III secretion system and its role in intracellular survival.” Mol Microbiol 30, no. 1 (October 1998): 175–88. https://doi.org/10.1046/j.1365-2958.1998.01048.x.Full Text Link to Item
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Valdivia, R. H., and S. Falkow. “Flow cytometry and bacterial pathogenesis.” Curr Opin Microbiol 1, no. 3 (June 1998): 359–63. https://doi.org/10.1016/s1369-5274(98)80042-8.Full Text Link to Item
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Valdivia, R. H., and S. Falkow. “Fluorescence-based isolation of bacterial genes expressed within host cells.” Science 277, no. 5334 (September 26, 1997): 2007–11. https://doi.org/10.1126/science.277.5334.2007.Full Text Link to Item
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Valdivia, R. H., and S. Falkow. “Probing bacterial gene expression within host cells.” Trends Microbiol 5, no. 9 (September 1997): 360–63. https://doi.org/10.1016/S0966-842X(97)01111-6.Full Text Link to Item
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Ramakrishnan, L., R. H. Valdivia, J. H. McKerrow, and S. Falkow. “Mycobacterium marinum causes both long-term subclinical infection and acute disease in the leopard frog (Rana pipiens).” Infect Immun 65, no. 2 (February 1997): 767–73. https://doi.org/10.1128/IAI.65.2.767-773.1997.Full Text Link to Item
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Kain, S., P. Kitts, G. Zhang, V. Gurlu, T. Yang, B. Cormack, R. Valdivia, and S. Falkow. “Enhanced green fluorescent protein vectors that provide stronger fluorescence intensities and higher expression in mammalian cells.” Faseb Journal 10, no. 6 (December 1, 1996).
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Valdivia, R. H., and S. Falkow. “Bacterial genetics by flow cytometry: rapid isolation of Salmonella typhimurium acid-inducible promoters by differential fluorescence induction.” Mol Microbiol 22, no. 2 (October 1996): 367–78. https://doi.org/10.1046/j.1365-2958.1996.00120.x.Full Text Link to Item
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Cormack, B. P., R. H. Valdivia, and S. Falkow. “FACS-optimized mutants of the green fluorescent protein (GFP).” Gene 173, no. 1 Spec No (1996): 33–38. https://doi.org/10.1016/0378-1119(95)00685-0.Full Text Link to Item
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Valdivia, R. H., A. E. Hromockyj, D. Monack, L. Ramakrishnan, and S. Falkow. “Applications for green fluorescent protein (GFP) in the study of host-pathogen interactions.” Gene 173, no. 1 Spec No (1996): 47–52. https://doi.org/10.1016/0378-1119(95)00706-7.Full Text Link to Item
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Valdivia, R. H., L. Wang, and S. C. Winans. “Characterization of a putative periplasmic transport system for octopine accumulation encoded by Agrobacterium tumefaciens Ti plasmid pTiA6.” J Bacteriol 173, no. 20 (October 1991): 6398–6405. https://doi.org/10.1128/jb.173.20.6398-6405.1991.Full Text Link to Item
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Conference Papers
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Dolat, L., V. K. Carpenter, Y. S. Chen, and R. H. Valdivia. “A Chlamydia trachomatis protein mediates the remodeling of epithelial cytoskeleton and cell-cell junctions.” In Molecular Biology of the Cell, Vol. 28. AMER SOC CELL BIOLOGY, 2017.Link to Item
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Sherry, J., C. Elwell, R. Bastidas, M. Weber, T. Hackstadt, R. H. Valdivia, and J. N. Engel. “Chlamydia trachomatis inclusion membrane protein CT192 interacts with dynactin to modulate centrosome positioning and parasitophorous vacuole fusion events.” In Molecular Biology of the Cell, Vol. 27. AMER SOC CELL BIOLOGY, 2016.Link to Item
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Engel, J. N., C. Elwell, K. Averette, A. Frando, J. Johnson, O. Rosenberg, E. Verschueren, et al. “High Throughput Proteomics to Define Chlamydia-Host Protein-Protein Interactions.” In Molecular Biology of the Cell, Vol. 25. AMER SOC CELL BIOLOGY, 2014.Link to Item
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Kokes, M., and R. H. Valdivia. “F-actin and Golgi rearrangement around the Chlamydia trachomatis inclusion is mediated by the Arf-recruiting bacterial protein InaC.” In Molecular Biology of the Cell, Vol. 25. AMER SOC CELL BIOLOGY, 2014.Link to Item
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Kokes, M., and R. H. Valdivia. “F-actin and Golgi rearrangement around the Chlamydia trachomatis inclusion is mediated by the Arf-recruiting bacterial protein InaC.” In Molecular Biology of the Cell, Vol. 25, 2014.Link to Item
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Bednar, Maria M., Ine Jorgenson, Raphael H. Valdivia, and Dewey G. McCafferty. “Chlamydial protease-like activity factor (CPAF) enzymatic activity, specificity, and inhibitor design.” In Abstracts of Papers of the American Chemical Society, Vol. 242. AMER CHEMICAL SOC, 2011.Link to Item
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Bednar, Maria M., Ine Jorgensen, Raphael H. Valdivia, and Dewey G. McCafferty. “Investigation of chlamydial protease-like activity factor (CPAF) enzymatic activity.” In Abstracts of Papers of the American Chemical Society, Vol. 241. AMER CHEMICAL SOC, 2011.Link to Item
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Recent Courses
- MGM 293: Research Independent Study I 2021
- MGM 593: Research Independent Study 2021
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- MGM 293: Research Independent Study I 2020
- MGM 593: Research Independent Study 2020
- UPGEN 778F: University Program in Genetics and Genomics Biological Solutions Module VI 2020
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