The Effect of Interference on the CD8(+) T Cell Escape Rates in HIV.

Abstract:

:In early human immunodeficiency virus (HIV) infection, the virus population escapes from multiple CD8(+) cell responses. The later an escape mutation emerges, the slower it outgrows its competition, i.e., the escape rate is lower. This pattern could indicate that the strength of the CD8(+) cell responses is waning, or that later viral escape mutants carry a larger fitness cost. In this paper, we investigate whether the pattern of decreasing escape rates could also be caused by genetic interference among different escape strains. To this end, we developed a mathematical multi-epitope model of HIV dynamics, which incorporates stochastic effects, recombination, and mutation. We used cumulative linkage disequilibrium measures to quantify the amount of interference. We found that nearly synchronous, similarly strong immune responses in two-locus systems enhance the generation of genetic interference. This effect, combined with a scheme of densely spaced sampling times at the beginning of infection and sparse sampling times later, leads to decreasing successive escape rate estimates, even when there were no selection differences among alleles. These predictions are supported by empirical data from one HIV-infected patient. Thus, interference could explain why later escapes are slower. Considering escape mutations in isolation, neglecting their genetic linkage, conceals the underlying haplotype dynamics and can affect the estimation of the selective pressure exerted by CD8(+) cells. In systems in which multiple escape mutations appear, the occurrence of interference dynamics should be assessed by measuring the linkage between different escape mutations.

journal_name

Front Immunol

journal_title

Frontiers in immunology

authors

Garcia V,Regoes RR

doi

10.3389/fimmu.2014.00661

subject

Has Abstract

pub_date

2015-01-13 00:00:00

pages

661

issn

1664-3224

journal_volume

5

pub_type

杂志文章
  • Neuroimmunology of Behavioral Comorbidities Associated With Cancer and Cancer Treatments.

    abstract::Behavioral comorbidities (depression, anxiety, fatigue, cognitive disturbances, and neuropathic pain) are prevalent in cancer patients and survivors. These mental and neurological health issues reduce quality-of-life, which is a significant societal concern given the increasing rates of long-term survival after variou...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章,评审

    doi:10.3389/fimmu.2018.01195

    authors: Santos JC,Pyter LM

    更新日期:2018-06-07 00:00:00

  • Diet-Induced Obesity Elicits Macrophage Infiltration and Reduction in Spine Density in the Hypothalami of Male but Not Female Mice.

    abstract::Increasing prevalence in obesity has become a significant public concern. C57BL/6J mice are prone to diet-induced obesity (DIO) when fed high-fat diet (HFD), and develop chronic inflammation and metabolic syndrome, making them a good model to analyze mechanisms whereby obesity elicits pathologies. DIO mice demonstrate...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2018.01992

    authors: Lainez NM,Jonak CR,Nair MG,Ethell IM,Wilson EH,Carson MJ,Coss D

    更新日期:2018-09-11 00:00:00

  • HMGB1 Promotes Myeloid Egress and Limits Lymphatic Clearance of Malignant Pleural Effusions.

    abstract::Pleural effusions, when benign, are attributed to cardiac events and suffusion of fluid within the pleural space. When malignant, lymphatic obstruction by tumor and failure to absorb constitutively produced fluid is the predominant formulation. The prevailing view has been challenged recently, namely that the lymphati...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2020.02027

    authors: Soloff AC,Jones KE,Powers AA,Murthy P,Wang Y,Russell KL,Byrne-Steele M,Lund AW,Yuan JM,Monaco SE,Han J,Dhupar R,Lotze MT

    更新日期:2020-09-04 00:00:00

  • IL-2-Agonist-Induced IFN-γ Exacerbates Systemic Anaphylaxis in Food Allergen-Sensitized Mice.

    abstract::Food allergies are common, costly and potentially life-threatening disorders. They are driven by Th2, but inhibited by Th1 reactions. There is also evidence indicating that IL-2 agonist treatment inhibits allergic sensitization through expansion of regulatory T cells. Here, we tested the impact of an IL-2 agonist in a...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2020.596772

    authors: Link CWM,Rau CN,Udoye CC,Ragab M,Korkmaz RÜ,Comdühr S,Clauder AK,Lindemann T,Frehse B,Hofmann K,Almeida LN,Laumonnier Y,Beidaq AE,Finkelman FD,Manz RA

    更新日期:2020-12-11 00:00:00

  • A DNA Vaccine in Which the RSV-F Ectodomain Is Covalently Linked to the Burkholderia pseudomallei Antigens TssM and Hcp1 Augments the Humoral and Cytotoxic Response in Mice.

    abstract::DNA vaccines have great potential to control infectious disease, particularly those caused by intracellular organisms. They are inexpensive to produce and can be quickly modified to combat emerging infectious threats, but often fail to generate a strong immunologic response limiting enthusiasm for their use in humans ...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2019.02411

    authors: Solodushko V,Bitko V,Barrington R,Fouty B

    更新日期:2019-10-11 00:00:00

  • Pancreatic Cancer Cells Isolated from Muc1-Null Tumors Favor the Generation of a Mature Less Suppressive MDSC Population.

    abstract::Mucin 1 (MUC1) is a transmembrane mucin glycoprotein that is over-expressed and aberrantly glycosylated in >80% of human pancreatic ductal adenocarcinoma (PDA) and is associated with poor prognosis. To understand the role of MUC1 in PDA, we have recently developed two mouse models of spontaneous PDA, one that expresse...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2014.00067

    authors: Kidiyoor A,Schettini J,Besmer DM,Rego SL,Nath S,Curry JM,Roy LD,Dréau D,Mukherjee P

    更新日期:2014-02-24 00:00:00

  • TNF Receptor 2 and Disease: Autoimmunity and Regenerative Medicine.

    abstract::THE REGULATORY CYTOKINE TUMOR NECROSIS FACTOR (TNF) EXERTS ITS EFFECTS THROUGH TWO RECEPTORS: TNFR1 and TNFR2. Defects in TNFR2 signaling are evident in a variety of autoimmune diseases. One new treatment strategy for autoimmune disease is selective destruction of autoreactive T cells by administration of TNF, TNF ind...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2013.00478

    authors: Faustman DL,Davis M

    更新日期:2013-12-23 00:00:00

  • Advances in the Immunology and Genetics of Leprosy.

    abstract::Leprosy, a disease caused by the intracellular parasite Mycobacterium leprae or Mycobacterium lepromatosis, has affected humans for more than 4,000 years and is a stigmatized disease even now. Since clinical manifestations of leprosy patients present as an immune-related spectrum, leprosy is regarded as an ideal model...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章,评审

    doi:10.3389/fimmu.2020.00567

    authors: Mi Z,Liu H,Zhang F

    更新日期:2020-04-16 00:00:00

  • Complement in the Initiation and Evolution of Rheumatoid Arthritis.

    abstract::The complement system is a major component of the immune system and plays a central role in many protective immune processes, including circulating immune complex processing and clearance, recognition of foreign antigens, modulation of humoral and cellular immunity, removal of apoptotic and dead cells, and engagement ...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章,评审

    doi:10.3389/fimmu.2018.01057

    authors: Holers VM,Banda NK

    更新日期:2018-05-28 00:00:00

  • Interaction of the Factor H Family Proteins FHR-1 and FHR-5 With DNA and Dead Cells: Implications for the Regulation of Complement Activation and Opsonization.

    abstract::Complement plays an essential role in the opsonophagocytic clearance of apoptotic/necrotic cells. Dysregulation of this process may lead to inflammatory and autoimmune diseases. Factor H (FH), a major soluble complement inhibitor, binds to dead cells and inhibits excessive complement activation on their surface, preve...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2020.01297

    authors: Kárpáti É,Papp A,Schneider AE,Hajnal D,Cserhalmi M,Csincsi ÁI,Uzonyi B,Józsi M

    更新日期:2020-07-16 00:00:00

  • The Heterogeneity, Origins, and Impact of Migratory iILC2 Cells in Anti-helminth Immunity.

    abstract::Soil-transmitted helminths represent a major global health burden with infections and infection-related comorbidities causing significant reductions in the quality of life for individuals living in endemic areas. Repeated infections and chronic colonization by these large extracellular worms in mammals led to the evol...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章,评审

    doi:10.3389/fimmu.2020.01594

    authors: Miller MM,Reinhardt RL

    更新日期:2020-07-23 00:00:00

  • Inoculation site from a cutaneous melanoma patient treated with an allogeneic therapeutic vaccine: a case report.

    abstract::We have developed a therapeutic vaccine consisting of a mixture of lethally-irradiated allogeneic cutaneous melanoma cell lines with BCG and GM-CSF as adjuvants. The CSF-470 vaccine is currently being assayed in a Phase II-III trial against medium-dose IFN-α2b. All vaccinated patients immunized intradermally developed...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2015.00144

    authors: Aris M,Bravo AI,Barrio MM,Mordoh J

    更新日期:2015-03-30 00:00:00

  • Systemic Inflammation and Cardiovascular Comorbidity in Psoriasis Patients: Causes and Consequences.

    abstract::Psoriasis is a common inflammatory skin disease characterized by the appearance of red scaly plaques that can affect any part of the body. High prevalence, chronicity, disfiguration, disability, and associated comorbidity make it a challenge for clinicians of multiple specialties. Likewise, its complex pathogenesis, c...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章,评审

    doi:10.3389/fimmu.2018.00579

    authors: Boehncke WH

    更新日期:2018-04-05 00:00:00

  • High Plasma Levels of sTNF-R1 and CCL11 Are Related to CD4+ T-Cells Fall in Human Immunodeficiency Virus Elite Controllers With a Sustained Virologic Control.

    abstract::Our aim was to analyze the relationship between plasma inflammatory biomarkers and CD4+ T-cells evolution in human immunodeficiency virus (HIV) elite controllers (HIV-ECs) with a suppressed viremia. We carried out a retrospective study in 30 HIV-ECs classified into two groups: those showing no significant loss of CD4+...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2018.01399

    authors: Gutiérrez-Rivas M,Jiménez-Sousa MÁ,Rallón N,Jiménez JL,Restrepo C,León A,Montero-Alonso M,González-García J,Muñoz-Fernández MÁ,Benito JM,Resino S,ECRIS Integrated in the Spanish AIDS Research Network.

    更新日期:2018-06-18 00:00:00

  • A Role for MAIT Cells in Colorectal Cancer.

    abstract::MAIT cells are MR1-restricted T cells that are well-known for their anti-microbial properties, but they have recently been associated with different forms of cancer. Several studies have reported activated MAIT cells within the microenvironment of colorectal tumors, but there is conjecture about the nature of their re...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章,评审

    doi:10.3389/fimmu.2020.00949

    authors: Berzins SP,Wallace ME,Kannourakis G,Kelly J

    更新日期:2020-05-20 00:00:00

  • Leukocyte-Derived Interleukin-10 Aggravates Postoperative Ileus.

    abstract::Objective: Postoperative ileus (POI) is an inflammation-mediated complication of abdominal surgery, characterized by intestinal dysmotility and leukocyte infiltration into the muscularis externa (ME). Previous studies indicated that interleukin (IL)-10 is crucial for the resolution of a variety of inflammation-driven ...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2018.02599

    authors: Stein K,Lysson M,Schumak B,Vilz T,Specht S,Heesemann J,Roers A,Kalff JC,Wehner S

    更新日期:2018-11-13 00:00:00

  • Macrophage Migration Inhibitory Factor (MIF) Drives Murine Psoriasiform Dermatitis.

    abstract::The immunomodulator Macrophage Migration Inhibitory Factor (MIF) exerts pleiotropic immunomodulatory activities and has been implicated in the pathogenesis of diverse inflammatory diseases. Expression levels of MIF are also significantly elevated in the skin and serum of psoriasis patients, but the pathogenic signific...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2018.02262

    authors: Bezdek S,Leng L,Busch H,Mousavi S,Rades D,Dahlke M,Zillikens D,Bucala R,Sadik CD

    更新日期:2018-10-02 00:00:00

  • Cyclic Peptide [R4W4] in Improving the Ability of First-Line Antibiotics to Inhibit Mycobacterium tuberculosis Inside in vitro Human Granulomas.

    abstract::Tuberculosis (TB) is currently one of the leading causes of global mortality. Medical non-compliance due to the length of the treatment and antibiotic side effects has led to the emergence of multidrug-resistant (MDR) strains of Mycobacterium tuberculosis (M. tb) that are difficult to treat. A current therapeutic stra...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2020.01677

    authors: Hernandez J,Ashley D,Cao R,Abrahem R,Nguyen T,To K,Yegiazaryan A,Akinwale David A,Kumar Tiwari R,Venketaraman V

    更新日期:2020-08-13 00:00:00

  • Computer Simulation of Multi-Color Brainbow Staining and Clonal Evolution of B Cells in Germinal Centers.

    abstract::Clonal evolution of B cells in germinal centers (GCs) is central to affinity maturation of antibodies in response to pathogens. Permanent or tamoxifen-induced multi-color recombination of B cells based on the brainbow allele allows monitoring the degree of color dominance in the course of the GC reaction. Here, we use...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2018.02020

    authors: Meyer-Hermann M,Binder SC,Mesin L,Victora GD

    更新日期:2018-09-25 00:00:00

  • Immune Curbing of Cancer Stem Cells by CTLs Directed to NANOG.

    abstract::Cancer stem cells (CSCs) have been identified as the source of tumor growth and disease recurrence. Eradication of CSCs is thus essential to achieve durable responses, but CSCs are resistant to current anti-tumor therapies. Novel therapeutic approaches that specifically target CSCs will, therefore, be crucial to impro...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2018.01412

    authors: Wefers C,Schreibelt G,Massuger LFAG,de Vries IJM,Torensma R

    更新日期:2018-06-19 00:00:00

  • The role of Peyer's patches in synchronizing gut IgA responses.

    abstract::Because Peyer's patches (PP) are the main inductive sites for gut IgA responses we have focused this review on what we know about the function of PP germinal centers (GC). The vast majority of IgA gene sequences in the gut lamina propria (LP) are heavily mutated arguing for an origin in GC. Because PP GC formation is ...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2012.00329

    authors: Lycke NY,Bemark M

    更新日期:2012-11-07 00:00:00

  • Cell Type-Specific Regulation of Immunological Synapse Dynamics by B7 Ligand Recognition.

    abstract::B7 proteins CD80 (B7-1) and CD86 (B7-2) are expressed on most antigen-presenting cells and provide critical co-stimulatory or inhibitory input to T cells via their T-cell-expressed receptors: CD28 and CTLA-4. CD28 is expressed on effector T cells and regulatory T cells (Tregs), and CD28-dependent signals are required ...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章,评审

    doi:10.3389/fimmu.2016.00024

    authors: Brzostek J,Gascoigne NR,Rybakin V

    更新日期:2016-02-04 00:00:00

  • Bovine Neonatal Pancytopenia-Associated Alloantibodies Recognize Individual Bovine Leukocyte Antigen 1 Alleles.

    abstract::Bovine neonatal pancytopenia (BNP) was a vaccine-induced alloimmune disease observed in young calves and characterized by hemorrhages, pancytopenia, and severe destruction of the hematopoietic tissues. BNP was induced by alloreactive maternal antibodies present in the colostrum of certain cows vaccinated with a highly...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2018.01902

    authors: Kasonta R,Mauritz J,Spohr C,Sauter-Louis C,Duchow K,Cussler K,Holsteg M,Bastian M

    更新日期:2018-08-14 00:00:00

  • Achievement of Tolerance Induction to Prevent Acute Graft-vs.-Host Disease.

    abstract::Acute graft-vs.-host disease (GVHD) limits the efficacy of allogeneic hematopoietic stem cell transplantation (allo-HSCT), a main therapy to treat various hematological disorders. Despite rapid progress in understanding GVHD pathogenesis, broad immunosuppressive agents are most often used to prevent and remain the fir...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章,评审

    doi:10.3389/fimmu.2019.00309

    authors: Thangavelu G,Blazar BR

    更新日期:2019-03-06 00:00:00

  • Adipocytes Directly Affect Coronary Artery Disease Pathogenesis via Induction of Adipokine and Cytokine Imbalances.

    abstract::This study aimed to investigate the adipokine and cytokine profiles of adipocytes from epicardial and subcutaneous adipose tissues in interconnection with the visceral adipose tissue area and the biochemical and clinical characteristics of patients with coronary artery disease. We assessed 84 patients with coronary ar...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2019.02163

    authors: Gruzdeva O,Uchasova E,Dyleva Y,Borodkina D,Akbasheva O,Antonova L,Matveeva V,Belik E,Ivanov S,Sotnikov A,Kozyrin K,Brel N,Sinitsky M,Karetnikova V,Kokov A,Bychkova E,Pecherina T,Barbarash O

    更新日期:2019-09-19 00:00:00

  • Pak1 Kinase Promotes Activated T Cell Trafficking by Regulating the Expression of L-Selectin and CCR7.

    abstract::Normal function of the adaptive immune system requires trafficking of T cells between the blood and lymphoid organs. Lymphocyte homing to lymph nodes requires that they cross endothelial barriers present in blood vessels and lymphatics. This multi-step process requires a remodeling of the lymphocyte plasma membrane, w...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2019.00370

    authors: Dios-Esponera A,Melis N,Subramanian BC,Weigert R,Samelson LE

    更新日期:2019-03-05 00:00:00

  • "Model t" cells: a time-tested vehicle for gene therapy.

    abstract::T lymphocytes first carried foreign genes safely into humans over two decades ago. Since these pioneering studies, scientific techniques to better understand the genomic landscape of cells has directly led to a more sophisticated appreciation of the diversity, functional complexity, and therapeutic potential of T cell...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章,评审

    doi:10.3389/fimmu.2013.00304

    authors: Kerkar SP

    更新日期:2013-09-27 00:00:00

  • Targeting Lipid Rafts-A Potential Therapy for COVID-19.

    abstract::COVID-19 is a global pandemic currently in an acute phase of rapid expansion. While public health measures remain the most effective protection strategy at this stage, when the peak passes, it will leave in its wake important health problems. Historically, very few viruses have ever been eradicated. Instead, the virus...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2020.574508

    authors: Sviridov D,Miller YI,Ballout RA,Remaley AT,Bukrinsky M

    更新日期:2020-09-29 00:00:00

  • NLR and Intestinal Dysbiosis-Associated Inflammatory Illness: Drivers or Dampers?

    abstract::The intestinal microbiome maintains a close relationship with the host immunity. This connection fosters a health state by direct and indirect mechanisms. Direct influences occur mainly through the production of short-chain fatty acids (SCFAs), gastrointestinal hormones and precursors of bioactive molecules. Indirect ...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章,评审

    doi:10.3389/fimmu.2020.01810

    authors: Elias-Oliveira J,Leite JA,Pereira ÍS,Guimarães JB,Manso GMDC,Silva JS,Tostes RC,Carlos D

    更新日期:2020-08-11 00:00:00

  • Mesenchymal stem cells are short-lived and do not migrate beyond the lungs after intravenous infusion.

    abstract::Mesenchymal stem cells (MSC) are under investigation as a therapy for a variety of disorders. Although animal models show long term regenerative and immunomodulatory effects of MSC, the fate of MSC after infusion remains to be elucidated. In the present study the localization and viability of MSC was examined by isola...

    journal_title:Frontiers in immunology

    pub_type: 杂志文章

    doi:10.3389/fimmu.2012.00297

    authors: Eggenhofer E,Benseler V,Kroemer A,Popp FC,Geissler EK,Schlitt HJ,Baan CC,Dahlke MH,Hoogduijn MJ

    更新日期:2012-09-26 00:00:00