Digital Commons Network^™

Genome Stability Of Lyme Disease Spirochetes: Comparative Genomics Of Borrelia Burgdorferi Plasmids, Sherwood R. Casjens, Emmanuel F. Mongodin, Wei-Gang Qiu, Benjamin J. Luft, Steven E. Schutzer, Eddie B. Gilcrease, Wai Mun Huang, Marija Vujadinovic, John K. Aron, Levy C. Vargas, Sam Freeman, Diana Radune, Janice F. Weidman, George I. Dimitrov, Hoda M. Khouri, Julia E. Sosa, Rebecca A. Halpin, John J. Dunn, Claire M. Fraser

Publications and Research

Lyme disease is the most common tick-borne human illness in North America. In order to understand the molecular pathogenesis, natural diversity, population structure and epizootic spread of the North American Lyme agent, Borrelia burgdorferi sensu stricto, a much better understanding of the natural diversity of its genome will be required. Towards this end we present a comparative analysis of the nucleotide sequences of the numerous plasmids of B. burgdorferi isolates B31, N40, JD1 and 297. These strains were chosen because they include the three most commonly studied laboratory strains, and because they represent different major genetic lineages and so are …

A Cross-Sectional Description Of Social Capital In An International Sample Of Persons Living With Hiv/Aids (Plwh), Allison Webel, J Craig Phillips, Carol Dawson Rose, William L. Holzemer, Wei-Ti Chen, Lynda Tyer-Viola, Marta Rivero-Méndez, Patrice Nicholas, Kathleen Nokes, Jeanne Kemppainen, Elizabeth Sefcik, John Brion, Lucille Eller, Scholastika Iipinge, Kenn Kirksey, Dean Wantland, Puangtip Chaiphibalsarisdi, Mallory O. Johnson, Carmen Portillo, Inge B. Corless

Publications and Research

Background Social capital refers to the resources linked to having a strong social network. This concept plays into health outcomes among People Living with HIV/AIDS because, globally, this is a highly marginalized population. Case studies show that modifying social capital can lead to improvements in HIV transmission and management; however, there remains a lack of description or definition of social capital in international settings. The purpose of our paper was to describe the degree of social capital in an international sample of adults living with HIV/AIDS. Methods We recruited PLWH at 16 sites from five countries including Canada, China, Namibia, …

Genetic Reporter System For Positioning Of Proteins At The Bacterial Pole, Kathryn R. Fixen, Anuradha Janakiraman, Sean Garritty, Daniel J. Slade, Andrew N. Gray, Nilay Karahan, Ann Hochschild, Marcia C. Goldberg

Publications and Research

Spatial organization within bacteria is fundamental to many cellular processes, although the basic mechanisms underlying localization of proteins to specific sites within bacteria are poorly understood. The study of protein positioning has been limited by a paucity of methods that allow rapid large-scale screening for mutants in which protein positioning is altered. We developed a genetic reporter system for protein localization to the pole within the bacterial cytoplasm that allows saturation screening for mutants in Escherichia coli in which protein localization is altered. Utilizing this system, we identify proteins required for proper positioning of the Shigella autotransporter IcsA. Autotransporters, widely …

Maize Provitamin A Carotenoids, Current Resources, And Future Metabolic Engineering Challenges, Eleanore T. Wurtzel, Abby Cuttriss, Ratnakar Vallabhaneni

Publications and Research

Vitamin A deficiency is a serious global health problem that can be alleviated by improved nutrition. Development of cereal crops with increased provitamin A carotenoids can provide a sustainable solution to eliminating vitamin A deficiency worldwide. Maize is a model for cereals and a major staple carbohydrate source. Here, we discuss maize carotenogenesis with regard to pathway regulation, available resources, and current knowledge for improving carotenoid content and levels of provitamin A carotenoids in edible maize endosperm. This knowledge will be applied to improve the nutritional composition of related Poaceae crops. We discuss opportunities and challenges for optimizing provitamin A …

Parasites Of Civets (Mammalia, Viverridae) In Sabah, Borneo: A Coprological Survey, Christina P. Colon, Sharon Patton

Publications and Research

Parasite data were collected from unlogged and selectively logged lowland rain forests in Borneo. Scat from a female Viverra tangalunga (Malay civet) in the unlogged forest contained eggs of Capillaria spp., Trichuris sp., Mamomoganomus sp., and nematode larvae. Scat attributed to V. tangalunga contained reproductive products (eggs/oocysts/cysts/larvae) of Capillaria sp., Toxocara sp., Ancylostoma sp. (probably A. ceylanicum), Isospora spp., strongylate-type eggs (probably Ancylostoma spp.), Paragoni­ mus sp. and other Trematoda eggs, Monocystis sp. cysts, Gnathostoma sp. (probably G. spinigerum), the lungworm Viverrostrongylus brauni, pinworm-type eggs, Eimeria spp., Sarcocystis-type sporocyst, dermanysid mites and mesostigmatid mites. Parasites from gut samples from two …

Synthesis And Computational Analysis Of The Novel 3-Methyl-2, 4-Diphenyl-3h-1-Benzazepine And Related Derivatives, Nathan Dvorkin

Student Theses and Dissertations

No abstract provided.

Study Guide For United In Anger: A History Of Act Up, Matt Brim

Open Educational Resources

The United in Anger Study Guide facilitates classroom and activist engagement with Jim Hubbard’s 2012 documentary, United in Anger: A History of ACT UP. The Study Guide contains discussion sections, projects and exercises, and resources for further research about the activism of the New York chapter of ACT UP (AIDS Coalition to Unleash Power). The Study Guide is a free, interactive, multimedia resource for understanding the legacy of ACT UP, the film’s role in preserving that legacy, and its meaning for viewers' lives.

Sexual And Injection-Related Risks In Puerto Rican-Born Injection Drug Users Living In New York City: A Mixed-Methods Analysis, Camila Gelpí-Acosta, Holly Hagan, Samuel M. Jenness, Travis Wendel, Alan Neaigus

Publications and Research

Background These data were collected as part of the National HIV Behavioral Surveillance (NHBS) study. NHBS is a cross-sectional study to investigate HIV behavioral risks among core risk groups in 21 U.S. cities with the highest HIV/AIDS prevalence. This analysis examines data from the NHBS data collection cycle with IDU conducted in New York City in 2009. We explored how the recency of migration from Puerto Rico (PR) to New York City (NYC) impacts both syringe sharing and unprotected sex among injection drug users (IDU) currently living in NYC. Methods We used a mixed-methods approach to examine differences in risk …

Phosphodiesterase-4 Inhibition Alters Gene Expression And Improves Isoniazid – Mediated Clearance Of Mycobacterium Tuberculosis In Rabbit Lungs, Selvakumar Subbian, Liana Tsenova, Paul O'Brien, Guibin Yang, Mi-Sun Koo, Blas Peixoto, Dorothy Fallows, Veronique Dartois, George Muller, Gilla Kaplan

Publications and Research

Tuberculosis (TB) treatment is hampered by the long duration of antibiotic therapy required to achieve cure. This indolent response has been partly attributed to the ability of subpopulations of less metabolically active Mycobacterium tuberculosis (Mtb) to withstand killing by current anti-TB drugs. We have used immune modulation with a phosphodiesterase-4 (PDE4) inhibitor, CC-3052, that reduces tumor necrosis factor alpha (TNF-α) production by increasing intracellular cAMP in macrophages, to examine the crosstalk between host and pathogen in rabbits with pulmonary TB during treatment with isoniazid (INH). Based on DNA microarray, changes in host gene expression during CC-3052 treatment of Mtb infected …

Differences Between Trypanosoma Brucei Gambiense Groups 1 And 2 In Their Resistance To Killing By Trypanolytic Factor 1, Paul Capewell, Nicola J. Veitch, C. Michael R. Turner, Jayne Raper, Matthew Berriman, Stephen L. Hajduk, Annette Macleod

Publications and Research

Background: The three sub-species of Trypanosoma brucei are important pathogens of sub-Saharan Africa. T. b. brucei is unable to infect humans due to sensitivity to trypanosome lytic factors (TLF) 1 and 2 found in human serum. T. b. rhodesiense and T. b. gambiense are able to resist lysis by TLF. There are two distinct sub-groups of T. b. gambiense that differ genetically and by human serum resistance phenotypes. Group 1 T. b. gambiense have an invariant phenotype whereas group 2 show variable resistance. Previous data indicated that group 1 T. b. gambiense are resistant to TLF-1 due in-part to reduced …

The -Omics Era- Toward A Systems-Level Understanding Of Streptomyces, Zhan Zhou, Jianying Gu, Yi-Ling Du, Yong-Quan Li, Yufeng Wang

Publications and Research

Streptomyces is a group of soil bacteria of medicinal, economic, ecological, and industrial importance. It is renowned for its complex biology in gene regulation, antibiotic production, morphological differentiation, and stress response. In this review, we provide an overview of the recent advances in Streptomyces biology inspired by -omics based high throughput technologies. In this post-genomic era, vast amounts of data have been integrated to provide significant new insights into the fundamental mechanisms of system control and regulation dynamics of Streptomyces.

Proteases In Malaria Parasites - A Phylogenomic Perspective, Hong Cai, Rui Kuang, Jianying Gu, Yufeng Wang

Publications and Research

Malaria continues to be one of the most devastating global health problems due to the high morbidity and mortality it causes in endemic regions. The search for new antimalarial targets is of high priority because of the increasing prevalence of drug resistance in malaria parasites. Malarial proteases constitute a class of promising therapeutic targets as they play important roles in the parasite life cycle and it is possible to design and screen for specific protease inhibitors. In this mini-review, we provide a phylogenomic overview of malarial proteases. An evolutionary perspective on the origin and divergence of these proteases will provide …

Experimental Tuberculosis In The Wistar Rat: A Model For Protective Immunity And Control Of Infection, Amit Singhal, El Moukhtar Aliouat, Maxime Herve, Vanessa Mathys, Mehdi Kiass, Colette Creusy, Baptiste Delaire, Liana Tsenova, Laurence Fleurisse, Julie Bertout, Luis Camacho, Damian Foo, Hui Chien Tay, Jie Yee Siew, Warda Boukhouchi, Marta Romano, Barun Mathema, Veronique Dartois, Gilla Kaplan, Pablo Bifani

Publications and Research

Background: Despite the availability of many animal models for tuberculosis (TB) research, there still exists a need for better understanding of the quiescent stage of disease observed in many humans. Here, we explored the use of the Wistar rat model for the study of protective immunity and control of Mycobacterium tuberculosis (Mtb) infection.

Methodology/Principal Findings: The kinetics of bacillary growth, evaluated by the colony stimulating assay (CFU) and the extent of lung pathology in Mtb infected Wistar rats were dependent on the virulence of the strains and the size of the infecting inoculums. Bacillary growth control was associated with induction …

College Senate Minutes March 3, 2011, Bronx Community College Senate

BCC Governance Archives

Minutes for the meeting of the College Senate on March 3, 2011.

The Impact Of Bisphenol A And Triclosan On Immune Parameters In The U.S. Population, Nhanes 2003–2006, Erin M. Rees Clayton, Megan Todd, Jennifer B. Dowd, Allison E. Aiello

Publications and Research

Background: Exposure to environmental toxicants is associated with numerous disease outcomes, many of which involve underlying immune and inflammatory dysfunction.

Objectives: To address the gap between environmental exposures and immune dysfunction, we investigated the association of two endocrine-disrupting compounds (EDCs) with markers of immune function.

Methods: Using data from the 2003–2006 National Health and Nutrition Examination Survey, we compared urinary bisphenol A (BPA) and triclosan levels with serum cytomegalovirus (CMV) antibody levels and diagnosis of allergies or hay fever in U.S. adults and children ≥ 6 years of age. We used multivariate ordinary least squares linear regression models to examine …

Correcting Mortality For Loss To Follow-Up: A Nomogram Applied To Antiretroviral Treatment Programmes In Sub-Saharan Africa, Matthias Egger, Ben D. Spycher, John Sidle, Ralf Weigel, Elvin H. Geng, Matthew P. Fox, Patrick Macphail, Gilles Van Custem, Eugene Messou, Robin Wood, Denis Nash, Margaret Pascoe, Diana Dickinson

Publications and Research

Background

The World Health Organization estimates that in sub-Saharan Africa about 4 million HIV-infected patients had started antiretroviral therapy (ART) by the end of 2008. Loss of patients to follow-up and care is an important problem for treatment programmes in this region. As mortality is high in these patients compared to patients remaining in care, ART programmes with high rates of loss to follow-up may substantially underestimate mortality of all patients starting ART.

Methods and Findings

We developed a nomogram to correct mortality estimates for loss to follow-up, based on the fact that mortality of all patients starting ART in …

Cytomegalovirus Antibodies In Dried Blood Spots: A Minimally Invasive Method For Assessing Stress, Immune Function, And Aging, Jennifer B. Dowd, Allison E. Aiello, Laura Chyu, Yuan-Yen Huang, Thomas W. Mcdade

Publications and Research

Background Cytomegalovirus (CMV) is a prevalent herpesvirus with links to both stress and aging. This paper describes and validates a minimally invasive method for assessing antibodies against CMV in finger stick whole blood spot samples for use as an indirect marker of an aspect of cell-mediated immunity. Results Analysis of CMV in dried blood spot samples (DBS) was based on modifications of a commercially available protocol for quantifying CMV antibodies in serum or plasma. The method was evaluated through analysis of precision, reliability, linearity, and correlation between matched serum and DBS samples collected from 75 volunteers. Correlation between DBS and …

Antibodies Elicited In Response To Ebna-1 May Cross- React With Dsdna, Pragya Yadav, Hoa Tran, Roland Ebegbe, Paul Gottlieb, Hui Wei, Rita H. Lewis, Alice Mumbey-Wafula, Atira Kaplan, Elina Kholdarova, Linda Spatz

Publications and Research

Background:Several genetic and environmental factors have been linked to Systemic Lupus Erythematosus (SLE). One environmental trigger that has a strong association with SLE is the Epstein Barr Virus (EBV). Our laboratory previously demonstrated that BALB/c mice expressing the complete EBNA-1 protein can develop antibodies to double stranded DNA (dsDNA). The present study was undertaken to understand why anti-dsDNA antibodies arise during the immune response to EBNA-1.

Methodology/Principal Findings: In this study, we demonstrated that mouse antibodies elicited in response to EBNA-1 cross-react with dsDNA. First, we showed that adsorption of sera reactive with EBNA-1 and dsDNA, on dsDNA cellulose …

Trends In The Clinical Characteristics Of Hiv Infected Patients Initiating Antiretroviral Therapy In Kenya, Uganda And Tanzania Between 2002 And 2009, Elvin H. Geng, Peter W. Hunt, Lameck O. Diero, Sylvester Kimaiyo, Geofrey R. Somi, Pius Okong, David R. Bangsberg, Mwebesa B. Bwana, Craig R. Cohen, Juliana A. Otieno, Deo Wabwire, Batya Elul, Denis Nash, Philippa J. Easterbrook, Paula Braitstein, Beverly S. Musick, Jeffrey N. Martin, Constantin T. Yiannoutsos, Kara Wools-Kaloustian

Publications and Research

Background: East Africa has experienced a rapid expansion in access to antiretroviral therapy (ART) for HIVinfected patients. Regionally representative socio-demographic, laboratory and clinical characteristics of patients accessing ART over time and across sites have not been well described.

Methods: We conducted a cross-sectional analysis of characteristics of HIV-infected adults initiating ART between 2002 and 2009 in Kenya, Uganda and Tanzania and in the International Epidemiologic Databases to Evaluate AIDS Consortium. Characteristics associated with advanced disease (defined as either a CD4 cell count level of less than 50 cells/mm3 or a WHO Stage 4 condition) at the time of ART initiation …

The Implementation Of The Rights Of The Child; Transcending The Traditional Practice Of Child Marriage In Niger, Yemen, And Thailand, Evette Rivera

Dissertations and Theses

"Child marriage is a harmful traditional practice that affects approximately 60 million children around the globe. This thesis examines the different laws that protect children from this practice and analyzes its implementation in countries where traditional practices violate children’s rights. International provisions, such as the Convention on the Rights of the Child, charges state parties with the responsibility to protect their children. Each state has the capacity to transcend traditional practices and implement local laws that protect their children. This thesis claims that mobilization of advocacy groups is vital in promoting the well-being of children even when the norms established …

Personal Narratives Of Women's Leadership And Community Activism In Cherkasy Oblast, Martha Kichorowska Kebalo

Dissertations, Theses, and Capstone Projects

Ukraine's women's movement is part of a complex social field characteristic of formerly Soviet countries, but it also emerges from its own specific political history. Post-Soviet period, (neo-) nationalism, feminism and (neo-) socialism are significant forces shaping women's collective behavior. Their activism resonates with the pre-Soviet liberation struggle while it is shaped also by practices from the recent Soviet past. It also is sensitive to external pressures, including the agendas of Western aid and the Ukrainian diaspora.

This study accepts the emergence of non-state women's organizations as indicative of an incipient movement and examines this field of social activism in …

Between "Voluntary Migrants" And War Refugees: The Health Of The Shan Burmese Migrant Workers In Northern Thailand, Nishant Verma, Celina Su, Coralie Chan, Peter Muennig

Publications and Research

The Shan are a large migrant group from Burma (Myanmar) found within Thailand. While some Shan migrate to escape the civil war within Burma, others migrate for economic opportunity. Despite the size of this population, little is known about their health. Our study highlights the need for expanded access to primary care among this Shan population. Despite the arduous and trying journeys of these Shan migrants, they do not display the level of health sometimes attributed to health selection among immigrant groups.

Energy Expenditure And Physical Activity In Recovering Malnourished Infants, Russell Rising, Gul Tiryaki Sonmez

Publications and Research

Background. Malnourished infants are small for age and weight. Objectives. Determine profiles in 24-hour energy metabolism in recovering malnourished infants and compare to similarly aged healthy controls. Methods. 10 malnourished infants (58.1 ± 5.9 cm, 7.7 ± 5.6 months) were healthy prior to spending 22 hours in the Enhanced Metabolic Testing Activity Chamber for measurement of EE (kcal/min), sleeping metabolic rate (SMR; kcal/min), respiratory quotient (RQ; VCO2/VO2), and physical activity (PA; oscillations in wt/min/kg body weight). Metabolic data were extrapolated to 24 hours (kcal/kg/d). Energy intake (kcal/kg/d) and the proportions (%) of carbohydrate, protein, and fat were calculated. Anthropometrics for …

A Multifactorial Mechanism In The Superior Antimalarial Activity Of Α-C-Galcer, John Schmieg, Guangli Yang, Richard W. Franck, Moriya Tsuji

Publications and Research

We have previously shown that the C-glycoside analog of α-galactosylceramide (α-GalCer), α-C-GalCer, displays a superior inhibitory activity against the liver stages of the rodent malaria parasite Plasmodium yoelii than its parental glycolipid, α-GalCer. In this study, we demonstrate that NK cells, as well as IL-12, are a key contributor for the superior activity displayed by α-C-GalCer. Surprisingly, the diminished production of Th2 cytokines, including IL-4, by α-C-GalCer has no affect on its superior therapeutic activity relative to α-GalCer. Finally, we show that the in vivo administration of α-C-GalCer induces prolonged maturation of dendritic cells (DCs), as well as an enhanced …

Role For Sumoylation In Systemic Inflammation And Immune Homeostasis In Drosophila Larvae, Indira Paddibhatla, Mark J. Lee, Marta E. Kalamarz, Roberto Ferrarese, Shubha Govind

Publications and Research

To counter systemic risk of infection by parasitic wasps, Drosophila larvae activate humoral immunity in the fat body and mount a robust cellular response resulting in encapsulation of the wasp egg. Innate immune reactions are tightly regulated and are resolved within hours. To understand the mechanisms underlying activation and resolution of the egg encapsulation response and examine if failure of the latter develops into systemic inflammatory disease, we correlated parasitic wasp-induced changes in the Drosophila larva with systemic chronic conditions in sumoylation-deficient mutants. We have previously reported that loss of either Cactus, the Drosophila (IkB) protein or Ubc9, the SUMO-conjugating …

Intradermal Immunization Of Mice With Radiation-Attenuated Sporozoites Of Plasmodium Yoelii Induces Effective Protective Immunity, Tatiana Voza, Chahnaz Kebaier, Jerome P. Vanderberg

Publications and Research

Background Intravenous injection of mice with attenuated Plasmodium berghei sporozoites induces sterile immunity to challenge with viable sporozoites. Non-intravenous routes have been reported to yield poor immunity. Because intravenous immunization has been considered to be unacceptable for large scale vaccination of humans, assessment was made of the results of intradermal immunization of mice with Plasmodium yoelii, a rodent malaria parasite whose infectivity resembles that of human malaria. Methods Mice were immunized with two injections of isolated, radiation-attenuated P. yoelii sporozoites, either by intravenous (IV) or intradermal (ID) inoculation. In an attempt to enhance protective immunogenicity of ID-injections, one group of …

Core Genome Components And Lineage Specific Expansions In Malaria Parasites Plasmodium, Hong Cai, Jianying Gu, Yufeng Wang

Publications and Research

Background The increasing resistance of Plasmodium, the malaria parasites, to multiple commonly used drugs has underscored the urgent need to develop effective antimalarial drugs and vaccines. The new direction of genomics-driven target discovery has become possible with the completion of parasite genome sequencing, which can lead us to a better understanding of how the parasites develop the genetic variability that is associated with their response to environmental challenges and other adaptive phenotypes. Results We present the results of a comprehensive analysis of the genomes of six Plasmodium species, including two species that infect humans, one that infects monkeys, and three …

The Mycobacterium Tuberculosis Drugome And Its Polypharmacological Implications, Sarah L. Kinnings, Li Xie, Kingston H. Fung, Richard M. Jackson, Lei Xie, Phillip E. Bourne

Publications and Research

We report a computational approach that integrates structural bioinformatics, molecular modelling and systems biology to construct a drug-target network on a structural proteome-wide scale. The approach has been applied to the genome of Mycobacterium tuberculosis (M.tb), the causative agent of one of today’s most widely spread infectious diseases. The resulting drug-target interaction network for all structurally characterized approved drugs bound to putative M.tb receptors, we refer to as the ‘TB-drugome’. The TB-drugome reveals that approximately one-third of the drugs examined have the potential to be repositioned to treat tuberculosis and that many currently unexploited M.tb receptors may be chemically druggable …

Case Fatality Rates Based On Population Estimates Of Influenza-Like Illness Due To Novel H1n1 Influenza: New York City, May–June 2009, James L. Hadler, Kevin Konty, Katharine H. Mcveigh, Anne Fine, Donna Eisenhower, Bonnie Kerker, Lorna Thorpe

Publications and Research

Background The public health response to pandemic influenza is contingent on the pandemic strain's severity. In late April 2009, a potentially pandemic novel H1N1 influenza strain (nH1N1) was recognized. New York City (NYC) experienced an intensive initial outbreak that peaked in late May, providing the need and opportunity to rapidly quantify the severity of nH1N1. Methods and Findings Telephone surveys using rapid polling methods of approximately 1,000 households each were conducted May 20–27 and June 15–19, 2009. Respondents were asked about the occurrence of influenza-like illness (ILI, fever with either cough or sore throat) for each household member from May …

Comparative Genomics Of The Family Vibrionaceae Reveals The Wide Distribution Of Genes Encoding Virulence-Associated Proteins, Timothy G. Lilburn, Jianying Gu, Hong Cai, Yufeng Wang

Publications and Research

Background Species of the family Vibrionaceae are ubiquitous in marine environments. Several of these species are important pathogens of humans and marine species. Evidence indicates that genetic exchange plays an important role in the emergence of new pathogenic strains within this family. Data from the sequenced genomes of strains in this family could show how the genes encoded by all these strains, known as the pangenome, are distributed. Information about the core, accessory and panproteome of this family can show how, for example, genes encoding virulence-associated proteins are distributed and help us understand how virulence emerges. Results We deduced the …