Damage-associated molecular pattern
Damage-associated molecular patterns are molecules within cells that are a component of the innate immune response released from damaged or dying cells due to trauma or an infection by a pathogen. They are also known as danger signals, and alarmins because they serve as warning signs to alert the organism to any damage or infection to its cells. DAMPs are endogenous danger signals that are discharged to the extracellular space in response to damage to the cell from mechanical trauma or a pathogen. Once a DAMP is released from the cell, it promotes a noninfectious inflammatory response by binding to a pattern recognition receptor. Inflammation is a key aspect of the innate immune response; it is used to help mitigate future damage to the organism by removing harmful invaders from the affected area and start the healing process. As an example, the cytokine IL-1α is a DAMP that originates within the nucleus of the cell which, once released to the extracellular space, binds to the PRR IL-1R, which in turn initiates an inflammatory response to the trauma or pathogen that initiated the release of IL-1α. In contrast to the noninfectious inflammatory response produced by DAMPs, pathogen-associated molecular patterns initiate and perpetuate the infectious pathogen-induced inflammatory response. Many DAMPs are nuclear or cytosolic proteins with defined intracellular function that are released outside the cell following tissue injury. This displacement from the intracellular space to the extracellular space moves the DAMPs from a reducing to an oxidizing environment, causing their functional denaturation, resulting in their loss of function. Outside of the aforementioned nuclear and cytosolic DAMPs, there are other DAMPs originated from different sources, such as mitochondria, granules, the extracellular matrix, the endoplasmic reticulum, and the plasma membrane.
Overview
DAMPs and their receptors are characterized as:| Origin | Major DAMPs | Receptors | |
| Extracellular matrix | Biglycan | TLR2, TLR4, NLRP3 | |
| Decorin | TLR2, TLR4 | ||
| Versican | TLR2, TLR6, CD14 | ||
| LMW hyaluronan | TLR2, TLR4, NLRP3 | ||
| Heparan sulfate | TLR4 | ||
| Fibronectin | TLR4 | ||
| Fibrinogen | TLR4 | ||
| Tenascin C | TLR4 | ||
| Intracellular compartments | Cytosol | Uric Acid | NLRP3, P2X7 |
| S100 proteins | TLR2, TLR4, RAGE | ||
| Heat-shock proteins | TLR2, TLR4, CD91 | ||
| ATP | P2X7, P2Y2 | ||
| F-actin | |||
| Cyclophilin A | CD147 | ||
| Aβ | TLR2, NLRP1, NLRP3, CD36, RAGE | ||
| Nuclear | Histones | TLR2, TLR4 | |
| HMGB1 | TLR2, TLR4, RAGE | ||
| HMGN1 | TLR4 | ||
| IL-1α | IL-1R | ||
| IL-33 | ST2 | ||
| SAP130 | Mincle | ||
| DNA | TLR9, AIM2 | ||
| RNA | TLR3, TLR7, TLR8, RIG-I, MDA5 | ||
| Mitochondria | mtDNA | TLR9 | |
| TFAM | RAGE | ||
| Formyl peptide | FPR1 | ||
| mROS | NLRP3 | ||
| Endoplasmic reticulum | Calreticulin | CD91 | |
| Granule | Defensins | TLR4 | |
| Cathelicidin | P2X7, FPR2 | ||
| Eosinophil-derived neurotoxin | TLR2 | ||
| Granulysin | TLR4 | ||
| Plasma membrane | Syndecans | TLR4 | |
| Glypicans | TLR4 |
History
Two papers appearing in 1994 anticipated the deeper understanding of innate immune reactivity, pointing towards the subsequent understanding of the nature of the adaptive immune response. The first came from transplant surgeons who conducted a prospective randomized, double-blind, placebo-controlled trial. Administration of recombinant human superoxide dismutase in recipients of cadaveric renal allografts demonstrated prolonged patient and graft survival with improvement in both acute and chronic rejection events. They speculated that the effect was related to SOD's antioxidant action on the initial ischemia/reperfusion injury of the renal allograft, thereby reducing the immunogenicity of the allograft. Thus, free radical-mediated reperfusion injury was seen to contribute to the process of innate and subsequent adaptive immune responses.The second study suggested the possibility that the immune system detected "danger", through a series of what is now called damage-associated molecular pattern molecules, working in concert with both positive and negative signals derived from other tissues. Thus, these papers anticipated the modern sense of the role of DAMPs and redox, important, apparently, for both plant and animal resistance to pathogens and the response to cellular injury or damage. Although many immunologists had earlier noted that various "danger signals" could initiate innate immune responses, the "DAMP" was first described by Seong and Matzinger in 2004.
Examples
DAMPs vary greatly depending on the type of cell and injured tissue, but they all share the common feature of stimulating an innate immune response within an organism.- Protein DAMPs include intracellular proteins, such as heat-shock proteins or HMGB1, and materials derived from the extracellular matrix that are generated following tissue injury, such as hyaluronan fragments.
- Non-protein DAMPs include ATP, uric acid, heparin sulfate and DNA.
In humans
Protein DAMPs
- High-mobility group box 1: HMGB1, a member of the HMG protein family, is a prototypical chromatin-associated LSP, secreted by hematopoietic cells through a lysosome-mediated pathway. HMGB1 is a major mediator of endotoxin shock and is recognized as a DAMP by certain immune cells, triggering an inflammatory response. It is known to induce inflammation by activating NF-κB pathway by binding to TLR, TLR4, TLR9, and RAGE. HMGB1 can also induce dendritic cell maturation via upregulation of CD80, CD83, CD86 and CD11c, and the production of other pro-inflammatory cytokines in myeloid cells, and it can lead to increased expression of cell adhesion molecules on endothelial cells.
- DNA and RNA: The presence of DNA anywhere other than the nucleus or mitochondria is perceived as a DAMP and triggers responses mediated by TLR9 and DAI that drive cellular activation and immunoreactivity. Some tissues, such as the gut, are inhibited by DNA in their immune response because the gut is filled with trillions of microbiota, which help break down food and regulate the immune system. Without being inhibited by DNA, the gut would detect these microbiota as invading pathogens, and initiate an inflammatory response, which would be detrimental for the organism's health because while the microbiota may be foreign molecules inside the host, they are crucial in promoting host health. Similarly, damaged RNAs released from UVB-exposed keratinocytes activate TLR3 on intact keratinocytes. TLR3 activation stimulates TNF-alpha and IL-6 production, which initiate the cutaneous inflammation associated with sunburn.
- S100 proteins: S100 is a multigenic family of calcium modulated proteins involved in intracellular and extracellular regulatory activities with a connection to cancer as well as tissue, particularly neuronal, injury. Their main function is the management of calcium storage and shuffling. Although they have various functions, including cell proliferation, differentiation, migration, and energy metabolism, they also act as DAMPs by interacting with their receptors after they are released from phagocytes.
- Mono- and polysaccharides: The ability of the immune system to recognize hyaluronan fragments is one example of how DAMPs can be made of sugars.
Nonprotein DAMPs
- Purine metabolites: Nucleotides and nucleosides that have reached the extracellular space can also serve as danger signals by signaling through purinergic receptors. ATP and adenosine are released in high concentrations after catastrophic disruption of the cell, as occurs in necrotic cell death. Extracellular ATP triggers mast cell degranulation by signaling through P2X7 receptors. Similarly, adenosine triggers degranulation through P1 receptors. Uric acid is also an endogenous danger signal released by injured cells. Adenosine triphosphate and uric acid, which are purine metabolites, activate NLR family, pyrin domain containing 3 inflammasomes to induce IL-1β and IL-18.
In plants
Plant DAMPs and their receptors are characterized as:
| Category | DAMP | Molecular structure or epitope | Source or precursor | Receptor or signaling regulator | Species |
| Epidermis cuticle | Cutin monomers | C16 and C18 hydroxy and epoxy fatty acids | Epidermis cuticle | Unknown | Arabidopsis thaliana, Solanum lycopersicum |
| Cell wall polysaccharide fragments or degrading products | OGs | Polymers of 10–15 α-1-4-linked GalAs | Cell wall pectin | WAK1 | A. thaliana, G. max, N. tabacum |
| Cell wall polysaccharide fragments or degrading products | Cellooligomers | Polymers of 2–7 β-1,4-linked glucoses | Cell wall cellulose | Unknown | A. thaliana |
| Cell wall polysaccharide fragments or degrading products | Xyloglucan oligosaccharides | Polymers of β-1,4-linked glucose with xylose, galactose, and fructose side chains | Cell-wall hemicellulose | Unknown | A. thaliana, Vitis vinifera |
| Cell wall polysaccharide fragments or degrading products | Methanol | Methanol | Cell wall pectin | Unknown | A. thaliana, Nicotiana tabacum |
| Apoplastic peptides and proteins | CAPE1 | 11-aa peptide | Apoplastic PR1 | Unknown | A. thaliana, S. lycopersicum |
| Apoplastic peptides and proteins | GmSUBPEP | 12-aa peptide | Apoplastic subtilase | Unknown | Glycine max |
| Apoplastic peptides and proteins | GRIp | 11-aa peptide | Cytosolic GRI | PRK5 | A. thaliana |
| Apoplastic peptides and proteins | Systemin | 18-aa peptide | Cytosolic prosystemin | SYR1/2 | Some Solanaceae species |
| Apoplastic peptides and proteins | HypSys | 15-, 18-, or 20-aa peptides | Apoplastic or cytoplasmic preproHypSys | Unknown | Some Solanaceae species |
| Apoplastic peptides and proteins | Peps | 23~36-aa peptides | Cytosolic and vacuolar PROPEPs | PEPR1/2 | A. thaliana, Zea mays, S. lycopersicum, Oryza sativa |
| Apoplastic peptides and proteins | PIP1/2 | 11-aa peptides | Apoplastic preproPIP1/2 | RLK7 | A. thaliana |
| Apoplastic peptides and proteins | GmPep914/890 | 8-aa peptide | Apoplastic or cytoplasmic GmproPep914/890 | Unknown | G. max |
| Apoplastic peptides and proteins | Zip1 | 17-aa peptide | Apoplastic PROZIP1 | Unknown | Z. mays |
| Apoplastic peptides and proteins | IDL6p | 11-aa peptide | Apoplastic or cytoplasmic IDL6 precursors | HEA/HSL2 | A. thaliana |
| Apoplastic peptides and proteins | RALFs | ~50-aa cysteine-rich peptides | Apoplastic or cytoplasmic RALF precursors | FER | A. thaliana, N. tabacum, S. lycopersicum |
| Apoplastic peptides and proteins | PSKs | 5-aa peptides | Apoplastic or cytoplasmic PSK precursors | PSKR1/2 | A. thaliana, S. lycopersicum |
| Apoplastic peptides and proteins | HMGB3 | HMGB3 protein | Cytosolic and nuclear HMGB3 | Unknown | A. thaliana |
| Apoplastic peptides and proteins | Inceptin | 11-aa peptide | Chloroplastic ATP synthase γ-subunit | INR | Vigna unguiculata |
| Extracellular nucleotides | eATP | ATP | Cytosolic ATP | DORN1/P2K1 | A. thaliana, N. tabacum |
| Extracellular nucleotides | eNAD | NAD | Cytosolic NAD | LecRK-I.8 | A. thaliana |
| Extracellular nucleotides | eDNA | DNA fragments < 700 bp in length | Cytosolic and nuclear DNA | Unknown | Phaseolus vulgaris, P. lunatus, Pisum sativum, Z. mays |
| Extracellular sugars | Extracellular sugars | Sucrose, glucose, fructose, maltose | Cytosolic sugars | RGS1 | A. thaliana, N. tabacum, Solanum tuberosum |
| Extracellular amino acids and glutathione | Proteinogenic amino acids | Glutamate, cysteine, histidine, aspartic acid | Cytosolic amino acids | GLR3.3/3.6 or others | A. thaliana, S. lycopersicum, Oryza sativa |
| Extracellular amino acids and glutathione | Glutathione | Glutathione | Cytosolic glutathione | GLR3.3/3.6 | A. thaliana |
Many mammalian DAMPs have DAMP counterparts in plants. One example is with the high-mobility group protein. Mammals have the HMGB1 protein, while Arabidopsis thaliana has the HMGB3 protein.