Subject Index


Increasing Rates of Fluoroquinolone Resistance in Escherichia coli Blood and Urinary Isolates in Stem Cell Transplant and Hematologic Malignancy Populations [Article]
Christopher G. Hauck, Pearlie P. Chong, Melissa B. Miller, Katarzyna Jamieson, Jason P. Fine, Matthew C. Foster, Thomas C. Shea, David van Duin
Vol. 1, No. 2; doi: 10.20411/pai.v1i2.115 

Fluoroquinolone-Resistant Escherichia coli Infections after Transrectal Biopsy of the Prostate in the Veterans Affairs Healthcare System [Article]
Elie Antoun Saade, Nuntra Suwantara, Trina F. Zabarsky, Brigid Wilson, Curtis J. Donskey
Vol. 1, No. 2; doi: 10.20411/pai.v1i2.123

Elevated Circulating Concentrations of Interferon-Gamma in Latent Tuberculosis Infection [Article]
Moises Arturo Huaman, George S. Deepe, Jr., Carl J. Fichtenbaum
Vol. 1, No. 2; doi: 10.20411/pai.v1i2.149

Elevated Circulating Concentrations of Interferon-Gamma in Latent Tuberculosis Infection [Article]
Moises Arturo Huaman, George S. Deepe, Jr., Carl J. Fichtenbaum
Vol. 1, No. 2; doi: 10.20411/pai.v1i2.149

Clinical Usefulness of Klebsiella Pneumoniae Carbapenemase-Producing K. Pneumoniae Genotyping: The Experience of a Single-Center Epidemic [Article]
Marianna Rossi, Liliane Chatenoud, Egidio Franco Viganò, Anna Maria Peri, Laura Alagna, Simone Bramati, Monica Manenti, Monica Raggi, Annalisa Cavallero, Luca Bisi, Sebastiano Leone, Guglielmo Marco Migliorino, Alessandra Bandera, Andrea Gori
Vol. 1, No. 2; doi: 10.20411/pai.v1i2.109

“Infectious Supercarelessness” in Discussing Antibiotic-Resistant Bacteria [Commentary]
Neil S. Greenspan
Vol. 1, No. 2; doi: 10.20411/pai.v1i2.160 

Clinical Application of Interferon-γ Release Assays for the Prevention of Tuberculosis in Countries with Low Incidence [Review]
Christoph Lange, Anna M. Mandalakas, Barbara Kalsdorf, Claudia M. Denkinger, Martina Sester
Vol. 1, No. 2; doi: 10.20411/pai.v1i2.173

Impact of Tigecycline Versus Other Antibiotics on the Fecal Metabolome and on Colonization Resistance to Clostridium difficile in Mice [Article]
Robin L.P. Jump, David Kraft, Kelly Hurless, Alex Polinkovsky, Curtis J. Donskey
Vol. 2, No. 1; doi: 10.20411/pai.v2i1.159

Celebrating More Than a Century of Research on Antibodies: Affirmation Through Negation via Complex Formation [Commentary]
Neil S. Greenspan
Vol. 2, No. 1; doi: 10.20411/pai.v2i1.198

A Comparison of Molecular Typing Methods Applied to Enterobacter cloacae complex: hsp60 Sequencing, Rep-PCR, and MLST [Article]
Roberto Viau, Lee M. Kiedrowski, Barry N. Kreiswirth, Mark Adams, Federico Perez, Dror Marchaim, Dubert M. Guerrero, Keith S. Kaye, Latania K. Logan, Maria Virginia Villegas, Robert A. Bonomo
Vol. 2, No. 1; doi: 10.20411/pai.v2i1.99

The Immunostimulatory Capacity of Nontypeable Haemophilus influenzae Lipooligosaccharide [Article]
Gabrielle N. Gaultier, Kayla N. Colledanchise, Alaa Alhazmi, Marina Ulanova
Vol. 2, No. 1; doi: 10.20411/pai.v2i1.162

Sensitizing Clostridium difficile Spores With Germinants on Skin and Environmental Surfaces Represents a New Strategy for Reducing Spores via Ambient Mechanisms [Article]
Michelle Marie Nerandzic, Curtis J. Donskey
Vol. 2, No. 3; doi: 10.20411/pai.v2i3.162

Variation in Macrophage Phagocytosis of Streptococcus agalactiae Does Not Reflect Bacterial Capsular Serotype, Multilocus Sequence Type or Association with Invasive Infection [Article]
Lisa M. Rogers, Jennifer A. Gaddy, Shannon D. Manning, David M. Aronoff
Vol. 3, No. 1; doi:  10.20411/pai.v3i1.233

In Vitro Activity of 3 Commercial Bacteriophage Cocktails Against Salmonella and Shigella spp. Isolates of Human Origin [Article]
Odette J. Bernasconi, Valentina Donà, Regula Tinguely, Andrea Endimiani
Vol. 3, No. 1; doi:  10.20411/pai.v3i1.234

Fecal Host Transcriptomics for Non-invasive Human Mucosal Immune Profiling: Proof of Concept in Clostridium difficile Infection [Article] 
Robert Schlaberg, Amanda Barrett, Kornelia Edes, Michael Graves, Litty Paul, Jenna Rychert, Bert K. Lopansri, Daniel T. Leung
Vol. 3, No. 2; doi:  10.20411/pai.v3i2.250


Fungal Diseases in the 21st Century: The Near and Far Horizons [Commentary]
Arturo Casadevall
Vol. 3, No. 2; doi: 10.20411/pai.v3i2.249 


Addressing Future Epidemics: Historical Human Rights Lessons from the AIDS Pandemic [Article]
Ambar Mehta, Thomas C. Quinn
Vol. 1, No. 1; doi: 10.20411/pai.v1i1.60

Nonhuman Primates and Humanized Mice for Studies of HIV-1 Integrase Inhibitors: A Review [Review]
Said A. Hassounah, Thibault Mesplède, Mark A. Wainberg
Vol. 1, No. 1; doi: 10.20411/pai.v1i1.104 

Defining HIV and SIV Reservoirs in Lymphoid Tissues [Article]
Claire Deleage, Stephen W. Wietgrefe, Gregory Del Prete, David R. Morcock, Xing-Pei Hao, Michael Piatak, Jr., Julian Bess, Jodi L. Anderson, Cavan Reilly, Joseph M. McCune, Ashley T. Haase, Jeffrey D. Lifson, Timothy W. Schacker, Jacob D. Estes
Vol. 1, No. 1; doi: 10.20411/pai.v1i1.100

Interferons and HIV Infection: The Good, the Bad, and the Ugly [Commentary]
Netanya Sandler Utay, Daniel C. Douek
Vol. 1, No. 1; doi: 10.20411/pai.v1i1.125

Rosuvastatin Decreases Intestinal Fatty Acid Binding Protein (I-FABP), but does not Alter Zonulin or Lipopolysaccharide Binding Protein (LBP) Levels, in HIV-Infected Subjects on Antiretroviral Therapy [Article]
Nicholas Funderburg, Morgan Boucher, Abdus Sattar, Manjusha Kulkarni, Danielle Labbato, Bruce I. Kinley, Grace A. McComsey
Vol. 1, No. 1; doi: 10.20411/pai.v1i1.124

Use of Dried Blood Spots to Elucidate Full-Length Transmitted/Founder HIV-1 Genomes [Article]
Jesus F. Salazar-Gonzalez, Maria G. Salazar, Damien C. Tully, Colin B. Ogilvie, Gerald H. Learn, Todd M. Allen, Sonya L. Heath, Paul Goepfert, Katharine J. Bar
Vol. 1, No. 1; doi: 10.20411/pai.v1i1.116

A Cure for HIV Infection: “Not in My Lifetime” or “Just Around the Corner”? [Commentary]
Michael M. Lederman, Paula M. Cannon, Judith S. Currier, Carl H. June, Hans-Peter Kiem, Daniel R. Kuritzkes, Sharon R. Lewin, David M. Margolis, Joseph M. McCune, John W. Mellors, Timothy W. Schacker, Rafick P. Sekaly, Pablo Tebas, Bruce D. Walker, Daniel C. Douek
Vol. 1, No. 1; doi: 10.20411/pai.v1i1.133

Intimate Partner Violence is Associated with Increased CD4+ T-Cell Activation Among HIV-Negative High-Risk Women [Article]
Ameeta Shivdas Kalokhe, Chris C. Ibegbu, Surinder P. Kaur, Rama R. Amara, Mary E. Kelley, Carlos del Rio, Rob Stephenson
Vol. 1, No. 1; doi: 10.20411/pai.v1i1.120

Reconstitution of Peripheral T Cells by Tissue-Derived CCR4+ Central Memory Cells Following HIV-1 Antiretroviral Therapy [Article]
Yolanda D. Mahnke, Kipper Fletez-Brant, Irini Sereti, Mario Roedere
Vol. 1, No. 2; doi: 10.20411/pai.v1i2.129 

European Mitochondrial DNA Haplogroups are Associated with Cerebrospinal Fluid Biomarkers of Inflammation in HIV Infection [Article]
David C. Samuels, Asha R. Kallianpur, Ronald J. Ellis, William S. Bush, Scott Letendre, Donald Franklin, Igor Grant, Todd Hulgan
Vol. 1, No. 2; doi: 10.20411/pai.v1i2.156

Diminished CD103 (aEb7) Expression on Resident T cells from the Female Genital Tract of HIV-positive women [Article]
David C. Moylan, Paul A. Goepfert, Mirjam-Colette Kempf, Michael S. Saag, Holly E. Richter, Jiri Mestecky, Steffanie Sabbaj
Vol. 1, No. 2; doi: 10.20411/pai.v1i2.166

HIV/HCV Co-infection, Liver Disease Progression, and Age-Related IGF-1 Decline
Jeffrey Quinn, Jacquie Astemborski, Shruti H. Mehta, Gregory D. Kirk, David L. Thomas, Ashwin Balagopal
Vol. 2, No. 1; doi: 10.20411/pai.v2i1.183

Lower Baseline Germinal Center Activity and Preserved Th1 Immunity are Associated with Hepatitis B Vaccine Response in Treated HIV Infection [Article]
Robert M. Paris, Lucimar G. Milagres, Eirini Moysi, Jason F. Okulicz, Brian K. Agan, Anu Ganesan, Constantinos Petrovas, Richard A. Koup
Vol. 2, No. 1; doi: 10.20411/pai.v2i1.175

Socioeconomic Determinants of Ciprofloxacin-Resistant Shigella Infections in Bangladeshi Children [Article]
Randon J. Gruninger, Russell A. Johnson, Sumon K. Das, Eric J. Nelson, Emily S. Spivak, John R. Contreras, A.S.G. Faruque, Daniel T. Leung
Vol. 2, No. 1; doi: 10.20411/pai.v2i1.174

Association of Anisocytosis with Markers of Immune Activation and Exhaustion in Treated HIV [Article] 
Sadeer G. Al-Kindi, David A. Zidar, Grace A. McComsey, Chris T. Longenecker 
Vol. 2, No. 1; doi: 10.20411/pai.v2i1.199

Confusion in the Study of Immune Reconstitution Inflammatory Syndrome [Review]
Claudia Alvarado-De La Barrera, Gustavo Reyes-Terán
Vol. 2, No. 1; doi: 10.20411/pai.v2i1.195

Immunologic Effects of Maraviroc in HIV-Infected Patients with Severe CD4 Lymphopenia Starting Antiretroviral Therapy: A Sub-Study of the CADIRIS Trial [Article]
Pablo F. Belaunzarán-Zamudio, Livio Azzoni, David H. Canaday, Yanink N. Caro-Vega, Brian Clagget, Mohammed S Rassool, Benigno Rodriguez, Ian Sanne, Irini Sereti, Juan G. Sierra-Madero, Michael M. Lederman
Vol. 2, No. 2; doi: 10.20411/pai.v2i2.181

HIV Infection of Macrophages: Implications for Pathogenesis and Cure [Commentary]
Kiera Leigh Clayton, Victor Garcia, Janice E. Clements, Bruce D. Walker
Vol. 2, No. 2; doi: 10.20411/pai.v2i2.204

Circulating LOXL2 Levels Reflect Severity of Intestinal Fibrosis and GALT CD4+ T Lymphocyte Depletion in Treated HIV Infection [Article]
Sophie Seang, Anoma Somasunderam, Maitreyee Nigalye, Ma Somsouk, Timoty W. Schacker, Joyce L. Sanchez, Peter W. Hunt, Netanya S. Utay, Jordan E. Lake
Vol. 2, No. 2; doi: 10.20411/pai.v2i2.180

A Randomized Controlled Trial of Lisinopril to Decrease Lymphoid Fibrosis in Antiretroviral-Treated, HIV-infected Individuals [Article]
Leslie Renee Cockerham, Steven A. Yukl, Kara Harvill, Ma Somsouk, Sunil K. Joshi, Elizabeth Sinclair, Teri Liegler, Rebecca Hoh, Sophie Lyons, Peter W. Hunt, Adam Rupert, Irini Sereti, David R. Morcock, Ajantha Rhodes, Claire Emson, Marc K. Hellerstein, Jacob D. Estes, Sharon Lewin, Steven G. Deeks, Hiroyu Hatano
Vol. 2, No. 3; doi: 10.20411/pai.v2i3.207

CD161 Expression on Mucosa-Associated Invariant T Cells is Reduced in HIV-Infected Subjects Undergoing Antiretroviral Therapy Who Do Not Recover CD4+ T Cells [Article]
Michael L. Freeman, Stephen R. Morris, Michael M. Lederman
Vol. 2, No. 3; doi: 10.20411/pai.v2i3.136

Ten Years HIV Free: An Interview with “The Berlin Patient,” Timothy Ray Brown [Commentary]
Michael M. Lederman, Earl Pike
Vol. 2, No. 3; doi: 10.20411/pai.v2i3.226

Impact of HLA Class I Alleles on Timing of HIV Rebound After Antiretroviral Treatment Interruption [Article]
You Park, Behzad Etemad, Hayat Ahmed, Vivek Naranbhai, Evgenia Aga, Ronald J. Bosch, John W. Mellors, Daniel R. Kuritzkes, Michael Para, Rajesh T. Gandhi, Mary Carrington, Jonathan Z. Li
Vol. 2, No. 3; doi: 10.20411/pai.v2i3.222

Biomarkers Associated with Death After Initiating Treatment for Tuberculosis and HIV in Patients with Very Low CD4 Cells [Article]
Fred Richard Sattler, Daniel Chelliah, Xingye Wu, Alejandro Sanchez, Michelle A. Kendall, Evelyn Hogg, David Lagat, Umesh Lalloo, Valdilea Veloso, Diane V. Havlir, Alan Landay
Vol. 3, No. 1; doi: 10.20411/pai.v3i1.235

Sex Differences in HIV Infection: Mystique Versus Machismo [Review]
Eileen P. Scully
Vol. 3, No. 1; doi: 10.20411/pai.v3i1.238


Epitope Capsid-Incorporation: New Effective Approach for Vaccine Development for Chagas Disease [Article]
Qiana L. Matthews, Anitra L. Farrow, Rachakonda Girish, Linlin Gu, Pius Nde, Alexandre Krendelchtchikov, Siddarth Pratap, Shruti S. Sakhare, Steffanie Sabbaj, Maria F. Lima, Fernando Villalta
Vol. 1, No. 2; doi: 10.20411/pai.v1i2.114


Hepatitis Delta Virus Detected in Salivary Glands of Sjögren’s Syndrome Patients and Recapitulates a Sjögren’s Syndrome-Like Phenotype in Vivo [Article]
Melodie L. Weller, Matthew R. Gardener, Zoe C. Bogus, Michael A. Smith, Elisa Astorri, Drew G. Michael, Donald A. Michael, Changyu Zheng, Peter D. Burbelo, Zhennan Lai, Paul A. Wilson, William Swaim, Beverly Handelman, Sandra A. Afione, Michele Bombardieri, John A. Chiorini
Vol. 1, No. 1; doi: 10.20411/pai.v1i1.72

Natural Killer Cell Diversity in Viral Infection: Why and How Much? [Review]
Catherine A. Blish
Vol. 1, No. 1; doi: 10.20411/pai.v1i1.142

Hurdles to the Development of Effective HBV Immunotherapies and HCV Vaccines [Review]
Almudena Torres-Cornejo, Georg M. Lauer
Vol. 2, No. 1; doi: 10.20411/pai.v2i1.201

Jak Inhibitors Modulate Production of Replication Competent Zika Virus in Human Hofbauer, Trophoblasts, and Neuroblastoma cells [Article]
Christina Gavegnano, Leda C. Bassit, Bryan D. Cox, Hui-Mien Hsiao, Erica L. Johnson, Mehul Suthar, Rana Chakraborty, Raymond F. Schinazi
Vol. 2, No. 2; doi: 10.20411/pai.v2i2.190

Varicella Zoster Virus and Large Vessel Vasculitis, the Absence of an Association [Article]
Gary W. Procop, Charis Eng, Alison Clifford, Alexandra Villa-Forte, Leonard H. Calabrese, Eric Roselli, Lars Svensson, Douglas Johnston, Gosta Pettersson, Edward Soltesz, Lisa Lystad, Julian D. Perry, Alexander Blandford, Deborah A. Wilson, Gary S. Hoffman
Vol. 2, No. 2; doi: 10.20411/pai.v2i2.196

Cetylpyridinium Chloride (CPC) Exhibits Potent, Rapid Activity Against Influenza Viruses in vitro and in vivo [Article]
Daniel L. Popkin, Sarah Zilka, Matthew Dimaano, Hisashi Fujioka, Cristina Rackley, Robert Salata, Alexis Griffith, Pranab K. Mukherjee, Mahmoud A. Ghannoum, Frank Esper
Vol. 2, No. 2; doi: 10.20411/pai.v2i2.200

T-cell Responses in Individuals Infected with Zika Virus and in Those Vaccinated Against Dengue Virus [Article]
Dominic Paquin-Proulx, Fabio E. Leal, Cassia G. Terrassani Silveira, Alvino Maestri, Claudia Brockmeyer, Shannon M. Kitchen, Vinicius D. Cabido, Esper G. Kallas, Douglas F. Nixon
Vol. 2, No. 2; doi: 10.20411/pai.v2i2.188

ADCC-Mediated CD56dim NK Cell Responses Are Associated with Early HBsAg Clearance in Acute HBV Infection [Article]
Wen-Han Yu, Cormac Cosgrove, Christoph T. Berger, Patrick C. Cheney, Marina Krykbaeva, Arthur Y. Kim, Lia Lewis-Ximenez, Georg M. Lauer, Galit Alter
Vol. 3, No. 1; doi: 10.20411/pai.v3i1.228


The Critical Role of Nonhuman Primates in Medical Research - White Paper [Article]
Henry Friedman, Nancy Haigwood, Nancy Ator, William Newsome, James S. Allan, Thaddeus G. Golos, Jeffrey H. Kordower, Robert E. Shade, Michael E. Goldberg, Matthew R. Bailey, Paul Bianchi
Vol. 2, No. 3; doi: 10.20411/pai.v2i3.186

Antibiotics—From There to Where?: How the antibiotic miracle is threatened by resistance and a broken market and what we can do about it [Commentary]
David M. Shlaes, Patricia A. Bradford
Vol. 3, No. 1; doi: 10.20411/pai.v3i1.231