Publications by authors named "Carly E Starke"

Antibody-mediated depletion studies have demonstrated that CD8+ T cells are required for effective immune control of SIV. However, this approach is potentially confounded by several factors, including reactive CD4+ T cell proliferation, and provides no information on epitope specificity, a likely determinant of CD8+ T cell efficacy. We circumvented these limitations by selectively depleting CD8+ T cells specific for the Gag epitope CTPYDINQM (CM9) via the administration of immunotoxin-conjugated tetrameric complexes of CM9/Mamu-A*01.

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Chimeric antigen receptor (CAR) T cell therapies have demonstrated immense clinical success for B cell and plasma cell malignancies. We tested their impact on the viral reservoir in a macaque model of HIV persistence, comparing the functions of CD20 CAR T cells between animals infected with simian/human immunodeficiency virus (SHIV) and uninfected controls. We focused on the potential of this approach to disrupt B cell follicles (BCFs), exposing infected cells for immune clearance.

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Variations in the composition of the intestinal bacterial microbiome correlate with acquisition of some sexually transmitted pathogens. To experimentally assess the contribution of intestinal dysbiosis to rectal lentiviral acquisition, we induce dysbiosis in rhesus macaques (RMs) with the antibiotic vancomycin prior to repeated low-dose intrarectal challenge with simian immunodeficiency virus (SIV) SIVmac239X. Vancomycin administration reduces T helper 17 (T17) and T22 frequencies, increases expression of host bacterial sensors and antibacterial peptides, and increases numbers of transmitted-founder (T/F) variants detected upon SIV acquisition.

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Article Synopsis
  • Antigen-specific CD8+ T cells are crucial for fighting viral infections by recognizing viral particles through their T cell receptors (TCRs).
  • Research on chronic simian immunodeficiency virus (SIV) in Asian macaques shows that specific TCR clones occur in different tissues and how these clones respond to initial virus exposure and ongoing infection.
  • The study finds that initial antigen exposure leads to the creation of tissue-specific TCR clones, which can persist even when the virus load decreases, indicating a stable adaptive immune response.
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Syrian golden hamsters exhibit features of severe disease after SARS-CoV-2 WA1/2020 challenge and are therefore useful models of COVID-19 pathogenesis and prevention with vaccines. Recent studies have shown that SARS-CoV-2 infection stimulates type I interferon, myeloid, and inflammatory signatures similar to human disease and that weight loss can be prevented with vaccines. However, the impact of vaccination on transcriptional programs associated with COVID-19 pathogenesis and protective adaptive immune responses is unknown.

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Article Synopsis
  • Modern combination antiretroviral therapy (ART) effectively keeps HIV viral levels low, but it cannot completely eliminate the virus due to persistent reservoirs in the body.
  • These reservoirs, mainly found in lymphoid tissues, hinder the possibility of a cure or a long-lasting remission without ongoing treatment.
  • Researchers are developing a new multiplex method that combines advanced imaging techniques to better study the location and nature of these HIV-1 reservoirs, aiming to enhance our understanding for potential future therapies.
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Purpose Of Review: Advances in antiretroviral therapy have saved numerous lives, converting a diagnosis with human immunodeficiency virus 1 (HIV-1) from a death sentence into the possibility for a (nearly) normal life in many instances. However, the obligation for lifelong adherence, increased risk of accumulated co-morbidities, and continued lack of uniform availability around the globe underscores the need for an HIV cure. Safe and scalable HIV cure strategies remain elusive, in large part due to the presence of viral reservoirs in which caches of infected cells remain hidden from immune elimination, primarily within tissues.

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Although many HIV cure strategies seek to expand HIV-specific CD8+ T cells to control the virus, all are likely to fail if cellular exhaustion is not prevented. A loss in stem-like memory properties (i.e.

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SARS-CoV-2-induced hypercytokinemia and inflammation are critically associated with COVID-19 severity. Baricitinib, a clinically approved JAK1/JAK2 inhibitor, is currently being investigated in COVID-19 clinical trials. Here, we investigated the immunologic and virologic efficacy of baricitinib in a rhesus macaque model of SARS-CoV-2 infection.

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Article Synopsis
  • * In a study using rhesus macaques infected with SARS-CoV-2, baricitinib did not decrease viral shedding or specific immune responses but significantly reduced overall immune activation and lung inflammation.
  • * The findings suggest that baricitinib could be beneficial as a treatment for severe COVID-19 by suppressing harmful immune responses while not affecting the virus directly.
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Objectives: To determine the feasibility and safety of ultrasound-guided minimally invasive autopsy in COVID-19 patients.

Methods: 60 patients who expired between 04/22/2020-05/06/2020 due to COVID-19 were considered for inclusion in the study, based on availability of study staff. Minimally invasive ultrasound-guided autopsy was performed with 14G core biopsies through a 13G coaxial needle.

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Coronavirus disease 2019 (COVID-19) in humans is often a clinically mild illness, but some individuals develop severe pneumonia, respiratory failure and death. Studies of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection in hamsters and nonhuman primates have generally reported mild clinical disease, and preclinical SARS-CoV-2 vaccine studies have demonstrated reduction of viral replication in the upper and lower respiratory tracts in nonhuman primates. Here we show that high-dose intranasal SARS-CoV-2 infection in hamsters results in severe clinical disease, including high levels of virus replication in tissues, extensive pneumonia, weight loss and mortality in a subset of animals.

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African green monkeys (AGMs) are natural hosts of SIV that postthymically downregulate CD4 to maintain a large population of CD4-CD8aa+ virus-resistant cells with Th functionality, which can result in AGMs becoming apparently cured of SIVagm infection. To understand the mechanisms of this process, we performed genome-wide transcriptional analysis on T cells induced to downregulate CD4 in vitro from AGMs and closely related patas monkeys and T cells that maintain CD4 expression from rhesus macaques. In T cells that downregulated CD4, pathway analysis revealed an atypical regulation of the DNA methylation machinery, which was reversible when pharmacologically targeted with 5-aza-2 deoxycytidine.

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Article Synopsis
  • Microbial translocation happens when the gut barrier is compromised, allowing microbial components to enter the bloodstream and trigger immune responses, which can lead to chronic inflammation and worsen various diseases.
  • Identifying reliable biomarkers for microbial translocation is important but challenging due to the limitations in detection methods and the influence of other biological factors.
  • In studies involving HIV patients and SIV-infected macaques, certain proteins linked to cellular stress were not found to correlate with elevated microbial translocation biomarkers, indicating that inflammation from cell death doesn't affect these biomarker levels.
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Flaviviruses are controlled by adaptive immune responses but are exquisitely sensitive to interferon-stimulated genes (ISGs). How coinfections, particularly simian immunodeficiency viruses (SIVs), that induce robust ISG signatures influence flavivirus clearance and pathogenesis is unclear. Here, we studied how Zika virus (ZIKV) infection is modulated in SIV-infected nonhuman primates.

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Article Synopsis
  • CD8+ T cell responses are crucial for controlling the simian immunodeficiency virus (SIV), but factors influencing their antiviral effectiveness are not fully understood, particularly due to previous research mainly focusing on circulating CD8+ T cells.
  • A study analyzed SIV-specific CD8+ T cells from various anatomical locations in rhesus macaques with differing viral loads, revealing no major differences in response magnitude between the groups.
  • Rhesus macaques with lower viral loads exhibited a higher frequency of functional CD8+ T cells in lymphoid tissues and a greater diversity of Gag-specific T cell clonotypes in mesenteric lymph nodes, indicating that the functionality and localization of these cells are key to their effectiveness against SIV.
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Among the numerous immunological abnormalities observed in chronically human immunodeficiency virus (HIV)-infected individuals, perturbations in memory CD4 T cells are thought to contribute specifically to disease pathogenesis. Among these, functional imbalances in the frequencies of T regulatory cells (Tregs) and interleukin 17 (IL-17)/IL-22-producing Th cells (Th17/Th22) from mucosal sites and T follicular helper (Tfh) cells in lymph nodes are thought to facilitate specific aspects of disease pathogenesis. However, while preferential infection of Tfh cells is widely thought to create an important viral reservoir in an immunologically privileged site , whether immunological perturbations among memory CD4 T cell populations are attributable to their relative infectivity by the virus is unclear.

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Intestinal microbial dysbiosis has been described in individuals with an HIV-1 infection and may underlie persistent inflammation in chronic infection, thereby contributing to disease progression. Herein, we induced an HIV-1-like intestinal dysbiosis in rhesus macaques (Macaca mulatta) with vancomycin treatment and assessed the contribution of dysbiosis to SIV disease progression. Dysbiotic and control animals had similar disease progression, indicating that intestinal microbial dysbiosis similar to that observed in individuals with HIV is not sufficient to accelerate untreated lentiviral disease progression.

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The licensed oral, live-attenuated bacterial vaccine for typhoid fever, Salmonella enterica serovar Typhi strain Ty21a, has also been utilized as a vaccine delivery platform for expression of diverse foreign antigens that stimulate protection against shigellosis, anthrax, plague, or human papilloma virus. However, Ty21a is acid-labile and, for effective oral immunization, stomach acidity has to be either neutralized with buffer or by-passed with Ty21a in an enteric-coated capsule (ECC). Several studies have shown that efficacy is reduced when Ty21a is administered in an ECC versus as a buffered liquid formulation, the former limiting exposure to GI tract lymphoid tissues.

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