Transcriptional profiling of tumor-infiltrating immune cells after local intervention-based immunotherapy

Author(s):  
Kaili Liu ◽  
Ashley R. Hoover ◽  
Wei R. Chen
2021 ◽  
Author(s):  
Marni Mack ◽  
Argo Easston

In the United States, sepsis, the body's response to infection in a typically sterile circulation, is a leading causeof death (1). To assess the primary transcriptional alterations associated with each illness state, I utilized amicroarray data set from a cohort of thirtyone individuals with septic shock or systemic inflammatory responsesyndrome (2). At the transcriptional level, I discovered that the granulocytes of patients with SIRS weresimilar to those of patients with septic shock. SIRS showed a “intermediate” gene expression state betweenthat of control patients and that of septic shock patients for numerous genes expressed in the granulocyte. Thediscovery of the most differentially expressed genes in the granulocytic immune cells of patients with septicshock might aid the development of new therapies or diagnostics for an illness with a 14.7 percent to 29.9% inhospitaldeath rate despite decades of study (1).


2019 ◽  
Author(s):  
Shahan Mamoor

Sepsis, the body’s reaction to infection in what is normally a sterile bloodstream, is a major cause of mortality in the United States (1). I used a microarray data set from a cohort of thirty-one patients with septic shock or systemic inflammatory response syndrome (2) to determine the major transcriptional changes associated with each disease state. I found that globally, the granulocytes of patients with SIRS resembled that of patients with septic shock at the level of transcription. For many genes expressed in the granulocyte, SIRS represented an “intermediate” gene expression state between that of control patients and those of patients with septic shock. The identification of the most differentially expressed genes in the granulocytic immune cells of patients with septic shock can facilitate the development of novel therapeutics or diagnostics for a condition that, despite decades of research, possesses a 14.7% to 29.9% in-hospital mortality rate (1).


2021 ◽  
Author(s):  
Ellie N. Ivanova ◽  
Joseph C. Devlin ◽  
Terkild B. Buus ◽  
Akiko Koide ◽  
Amber Cornelius ◽  
...  

AbstractBoth SARS-CoV-2 infection and vaccination elicit potent immune responses. A number of studies have described immune responses to SARS-CoV-2 infection. However, beyond antibody production, immune responses to COVID-19 vaccines remain largely uncharacterized. Here, we performed multimodal single-cell sequencing on peripheral blood of patients with acute COVID-19 and healthy volunteers before and after receiving the SARS-CoV-2 BNT162b2 mRNA vaccine to compare the immune responses elicited by the virus and by this vaccine. Phenotypic and transcriptional profiling of immune cells, coupled with reconstruction of the B and T cell antigen receptor rearrangement of individual lymphocytes, enabled us to characterize and compare the host responses to the virus and to defined viral antigens. While both infection and vaccination induced robust innate and adaptive immune responses, our analysis revealed significant qualitative differences between the two types of immune challenges. In COVID-19 patients, immune responses were characterized by a highly augmented interferon response which was largely absent in vaccine recipients. Increased interferon signaling likely contributed to the observed dramatic upregulation of cytotoxic genes in the peripheral T cells and innate-like lymphocytes in patients but not in immunized subjects. Analysis of B and T cell receptor repertoires revealed that while the majority of clonal B and T cells in COVID-19 patients were effector cells, in vaccine recipients clonally expanded cells were primarily circulating memory cells. Importantly, the divergence in immune subsets engaged, the transcriptional differences in key immune populations, and the differences in maturation of adaptive immune cells revealed by our analysis have far-ranging implications for immunity to this novel pathogen.


mSphere ◽  
2020 ◽  
Vol 5 (5) ◽  
Author(s):  
Emily F. Merritt ◽  
Hannah J. Johnson ◽  
Zhee Sheen Wong ◽  
Adam S. Buntzman ◽  
Austin C. Conklin ◽  
...  

ABSTRACT Toxoplasma gondii’s tropism for and persistence in the central nervous system (CNS) underlies the symptomatic disease that T. gondii causes in humans. Our recent work has shown that neurons are the primary CNS cell with which Toxoplasma interacts and which it infects in vivo. This predilection for neurons suggests that T. gondii’s persistence in the CNS depends specifically upon parasite manipulation of the host neurons. Yet, most work on T. gondii-host cell interactions has been done in vitro and in nonneuronal cells. We address this gap by utilizing our T. gondii-Cre system that allows permanent marking and tracking of neurons injected with parasite effector proteins in vivo. Using laser capture microdissection (LCM) and RNA sequencing using RNA-seq, we isolated and transcriptionally profiled T. gondii-injected neurons (TINs), Bystander neurons (nearby non-T. gondii-injected neurons), and neurons from uninfected mice (controls). These profiles show that TIN transcriptomes significantly differ from the transcriptomes of Bystander and control neurons and that much of this difference is driven by increased levels of transcripts from immune cells, especially CD8+ T cells and monocytes. These data suggest that when we used LCM to isolate neurons from infected mice, we also picked up fragments of CD8+ T cells and monocytes clustering in extreme proximity around TINs and, to a lesser extent, Bystander neurons. In addition, we found that T. gondii transcripts were primarily found in the TIN transcriptome, not in the Bystander transcriptome. Collectively, these data suggest that, contrary to common perception, neurons that directly interact with or harbor parasites can be recognized by CD8+ T cells. IMPORTANCE Like other persistent intracellular pathogens, Toxoplasma gondii, a protozoan parasite, has evolved to evade the immune system and establish a chronic infection in specific cells and organs, including neurons in the CNS. Understanding T. gondii’s persistence in neurons holds the potential to identify novel, curative drug targets. The work presented here offers new insights into the neuron-T. gondii interaction in vivo. By transcriptionally profiling neurons manipulated by T. gondii, we unexpectedly revealed that immune cells, and specifically CD8+ T cells, appear to cluster around these neurons, suggesting that CD8+ T cells specifically recognize parasite-manipulated neurons. Such a possibility supports evidence from other labs that questions the long-standing dogma that neurons are often persistently infected because they are not directly recognized by immune cells such as CD8+ T cells. Collectively, these data suggest we reconsider the broader role of neurons in the context of infection and neuroinflammation.


Reproduction ◽  
2007 ◽  
Vol 133 (1) ◽  
pp. 285-295 ◽  
Author(s):  
Gwonhwa Song ◽  
Fuller W Bazer ◽  
Thomas E Spencer

Radical S-adenosyl methionine domain containing 2 (RSAD2) encodes a cytoplasmic antiviral protein induced by interferons (IFN). Interferon-induced with helicase C domain 1 (IFIH1) is a RNA helicase involved in innate immune defense against viruses, growth suppression, and apoptosis. Interferon tau (IFNT), a Type I IFN produced by the peri-implantation ruminant conceptus, acts on the uterine endometrium to signal pregnancy recognition and promote receptivity to implantation. Transcriptional profiling identifiedRSAD2andIFIH1as IFNT regulated genes in the ovine uterine endometrium. This study tested the hypothesis thatRSAD2andIFIH1were induced in the endometrium in a cell type-specific manner by IFNT from the conceptus during early pregnancy. EndometrialRSAD2andIFIH1mRNA increased between days 12 and 16 of pregnancy, but not of the estrous cycle. In pregnant ewes,RSAD2andIFIH1mRNAs increased in endometrial glands, and stroma and immune cells, but not in the luminal epithelium. Neither gene was expressed in the trophectoderm of day 18 or 20 conceptuses. Progesterone (P4) treatment of ovariectomized ewes did not induce expressionRSAD2orIFIH1mRNA in the endometrium; however, intrauterine injections of IFNT induced expression ofRSAD2andIFIH1mRNA in endometria of ewes treated with P4, as well as in ewes treated with P4 and the progesterone receptor antagonist, ZK 136,317. These results indicate that conceptus IFNT induces bothRSAD2andIFIH1in a P4-independent manner in the ovine uterine endometrium. These two IFNT-stimulated genes are proposed to have biological roles in the establishment of uterine receptivity to the conceptus during implantation through induction of an antiviral state and modulation of local immune cells in the endometrium.


2006 ◽  
Vol 175 (4S) ◽  
pp. 206-207
Author(s):  
Dmytro M. Havaleshko ◽  
Hyungjun Cho ◽  
Mark Conaway ◽  
Jae K. Lee ◽  
Dan Theodorescu

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