MICROBIOLOGY; Lecture 1, 2, 3, 4, 5 - Interferon, Skin infections, Viral evasion of host immunity, Community acquired bacterial infections, Hospital acquired bacterial infections Flashcards
Microbio
What is Herpes Simplex encephalitis?
Most common cause of sporadic encephalitis in western world, commonly in childhood, affecting previously healthy individuals on primary infection with HSV-1
Microbio
Who can catch HSV-1 and why?
Due to the mutation in genes it can impair the interferon response, so can cause problems such as the encephalitis
Microbio
What are interferons?
Protein which is made by every cell in body -> transferable factor produced when cells are exposed to virus It binds to specific receptors and signals the activation of de novo transcription of hundreds of interferon stimulated genes (ISG) - these put the cells into an anti-viral state
Microbio
What are type 1 interferons and their 3 major functions?
Polypeptides secreted from infected cells -> Induce antimicrobial state in infected and neighbouring cells. Modulate innate response to promote antigen presentation and NK cells but inhibit proinflammation. Activate the adaptive immune response
Microbio
Summarise what is occurring in this picture.
- Cells will sense a viral infection and make an interferon response that will result in the synthesis of new copies of IFN-beta (the first interferon to be made)
- The IFN beta is secreted from these cells, from where it can diffuse and interact with receptors on neighbouring cells
- This will lead to the switching on of genes in neighbouring cells to switch them into an anti-viral state
- Plasmacytoid dendritic cells (PDCs) are specialised cells that are very good at making interferon (in particular IFN-alpha)
- The secretion of type I interferon will recruit APCs and adaptive immune cells such that you amount an adaptive immune response.
Microbio
What are the 3 types of INF?
Polymorphisms in IFNL associated with improved outcome from HCV and HBV both spontaneous clearance and response to antiviral therapy
Microbio
How do we differentiate self from non self?
x
Microbio
How do the different pathogen sensors work?
TLRs are membrane proteins - they are found on the plasma membrane and on endosomal membranes
RLRs sense viruses in the cytoplasm and they signal through a mitochondrial located pathway
Out of the DNA sensors, the most famous is cGAS - this signals to a molecule called STING found on the endoplasmic reticulum
Microbio
How are INF induced?
- The PRRs (e.g. RIG-I like receptors) will detect PAMPs such as single stranded RNA in the cytoplasm of the cell
- RIG-I will then signal through Mavs (located on the mitochondrion), which will then trigger signalling through various different pathways that result in the translocation of molecules from the cytoplasm to the nucleus
- These transcription factors will become phosphorylated, they will bind to the promoter regions of target genes (in this case IFN beta) and it will generate IFN beta transcripts
- The IFN beta will then be released from these cells and it will travel to neighbouring cells to induce an anti-viral state
- This is a way of the host controlling the amount of virus in the body
Microbio
What is the function of the toll-like receptors?
- The virus enters the cells and at some point in their life cycle they will find themselves inside an endosome and their nucleic acids will be exposed inside the endosome
- In a normal healthy cell, there shouldn’t be any nucleic acids inside the endosomes
- The TLRs can sense the nucleic acids in the endosome and it will signal to a molecule outside the endosome (MyD88) that will then send various transcription factors to the nucleus of the cell
- It will result in the switching on of expression of IFNa
Microbio
What is the cGAS system?
- Carries out DNA sensing -> dsDNA in cytoplasm activates cGAS enzyme
- which synthesises a second messenger cGAMP (small dinucleotide),
- which through STING (found on ER) triggers phosphorylation of same sets of signalling molecules and TF that RNA viruses were triggering
Microbio
How does IFN type I signalling work?
- The IFN receptors are heterodimers of IFNAR1 and IFNAR2
- On binding to the cell surface receptor, the interferon signals to the nucleus to switch on the transcription of a whole set of interferon stimulated signals..
- There is a heterodimeric receptor - composed of IFNAR1 and IFNAR2
- This IFN receptor is present on the surface of ALL cells in the body
- It is capable of sensing IFNa and IFNb
- If the IFN binds to the IFN receptor, it will activate Jak and Tyk which then goes on to phosphorylate the STAT molecules (STAT1 and STAT2)
- The STAT molecules dimerise and combine with IRF9 - it then goes to the nucleus and binds to a promoter region that is responsive to that transcription factor.
- IFN induces transcription of >300 via the tetradimer of STAT
Microbio
What are some of the genes that IFN stimulates to become activated?
x
Microbio
What is the function of IFITM3?
- IFITM3 = interferon induced transmembrane protein 3
- These proteins sit on the membrane of endosomes, in cells that have been previously stimulated with interferon
- If a flu virus or dengue virus tries to enter cells it will normally pass through the endosomal pathway and fuse its membrane with the endosomal membrane and release its contents into the cytoplasm
- If IFITM3 is being expressed then the virus cannot do that
- The virus gets trapped in the endosome because the IFITM3 modifies the membrane of the endosome and prevents the virus from being able to fuse with the endosomal membrane and release its genome into the cell Mice and people lacking IFITM3 get more severe influenza
Microbio
What are Mx1/2?
GTPase with a homology to dynamin Mx can form multimers that wrap around the nucleocapsids of incoming viruses Mx1 = inhibits influenza Mx2 = inhibits HIV
Microbio
How long does the antiviral state last?
IFN response may only be maintained for several hours Subsequently the ability to respond to IFN is lost due to negative regulation SOCS genes suppress the cytokine signalling and turn off the response - if SOCS genes are switched on, even if the IFN is bound to the receptor the signals wont get through and no new PKR will be made
Microbio
How do viruses evade IFN response?
x
Microbio
Give 2 examples of viruses which control IFN production
x
Microbio
How do pox viruses evade IFN?
Pox and herpes viruses are large DNA viruses; More than half of the pox virus genome is comprised of accessory genes that modify the immune response Pox viruses encode soluble cytokine receptors (vaccinia virus B18) which mops up IFN and prevents it from ever reaching its receptor This could be useful because in some autoimmune and inflammatory conditions, IFN and other cytokines are produced in abundance and contribute to the pathology of the condition So these naturally evolved virus modifiers are thought of as potential therapies for things like autoimmunity
Microbio
How does Ebola evade the immune system?
- Ebola is very good at counteracting our immune response
- It encodes TWO proteins that are particularly important:
- VP35 - inhibits the RIG-I pathway
- VP24 - stops the signal from getting through from the IFN beta receptor to the nucleus (it stops the STAT1 molecules from getting to the nucleus)
- The production of these virus proteins means that the virus can continue to replicate unchecked and accumulate to incredibly high titres because the patient is unable to amount a proper immune response
Microbio
How is the viral load and outcome of the infection decided?
A combination of damage of infected cells by the virus and damage of infected and bystander cells by the immune response The host senses the presence of the virus and switches on sets of genes to try and stop the virus At the same time the virus coevolves with the host to have a set of its own genes, which counteract what the host is trying to do
Microbio
What can IFN increase cause?
Many viruses modulate the immune response, presumably to increase their own replication and transmission This can result in inadvertent pathology The effect of interferon can vary from protective to immunopathologic (e.g. if you start making too much of it) This may depend on how much interferon is made - 100 times more IFN is required for IL-6 induction than for Mx
Microbio
What is the cytokine storm?
- The virus replicates and induces high levels of IFN accompanied by massive release of TNF alpha and other cytokines
- The differences in clinical outcome may reflect vigour of the innate immune system, which may vary with age
- This is typical of dengue haemorrhagic fever, severe influenza infections and ebola
- So in other words, there is a lot of virus and a lot of cytokines (which is very damaging)
- The cytokine storm will lead to pulmonary fibrosis, which is caused by the accumulation of immune cells in the lung spaces
- Eventually the patient will succumb to the immune pathology rather than from direct damage from the virus
Microbio
How are attenuated vaccines formed?
Viruses deficient in the control of IFN are attenuated in IFN competent cells This will mean that they induce high levels of interferon when they enter these cells and strongly switch on the antiviral response This is what you would like in a vaccine - a live virus that can be injected into the host and wont replicate enough to cause disease but will replicate sufficiently such that other parts of the immune system (e.g. aquired immune response) can recognise it as being foreign and mount an immune response that can generate immunological memory There is a downside to engineering the virus so that it can’t control the host’s interferon system - it is no longer a fit virus so it’ll be difficult to propagate the virus sufficiently to produce enough virus for loads of vaccines As the virus has been debilitated in its ability to control the IFN response, it will NOT grow very well in healthy cells Solution - culture cells are genetically engineered to be deficient in the IFN response This means that the deficient virus can replicate in the deficient cells
Microbio
Which antiviral treatments are used in the clinic?
It was originally thought that interferon could become the first broad spectrum antiviral but then it was found to have several unpleasant side effects It stimulated the production of several cytokines (e.g. TNF-alpha and IL-6) which make patients feel pretty awful Interferon was used to treat Hepatitic C Virus - a combination of pegylated IFN was often used with ribavirin
Microbio
Can IFN lambda be used as an influenza therapeutic option?
- Type 3 inteferons (IFN-lambda) is the type that is active on receptors present on EPITHELIAL SURFACES e.g. respiratory epithelium and liver cells
- Good thing about type 3 interferon - it CANNOT signal through receptors present on immune cells
- Type 1 interferon (IFN alpha or beta) can signal immune cells and induce some form of immunopathology - makes the patient feel sick
- If you give IFN-lambda, on the other hand, this only signals epithelial cells so you can induce an antiviral state in these target cells (epithelial cells) without the knock on side-effects of immunopathology and inflammation
Microbio
How do oncolytic viruses take advantage of the IFN deficient state of cancer cells?
Engineer a virus that can replicate uniquely within cancer cells and kill them -> generally cancer cells can’t mount a proper IFN response, so virus that is unable to overcome IFN response can replicate in cancer cells, but not in surrounding cells because healthy cells mount powerful innate response against virus
Microbio
What is the epidemiology of skin disease, skin infections?
In hot humid countries, you have more skin infections, but in UK and non hot and humid countries it is mainly skin diseases
Microbio
What are the types of skin diseases in GP vs in hospitals?
x
Microbio
What is Staph aureus and what diseases can it cause?
x
Microbio
What are the different manifestations of Staph aureus in skin infections?
x
Microbio
What is impetigo?
Crusted surface -> staph aureus forms a gold colour, which can be seen; usually occurs around the nose/mouth; but can occur around the ear and on the scalp (doesn’t infect children below 5 usually on scalp)
Microbio
What is bullous impetigo?
Cleavage of corneocyte layer, forming a layer of pus
Microbio
What are viruses and how do they live?
Viruses are intracellular pathogens and so their proteins are easy targets for processing and presentation by MHC.
Cellular immunity clears viral infection but is short lived. Internal viral proteins can be targets of cellular immunity.
They tend to vary less than surface antigens.
Viruses that persist must evade cellular immunity.
The family of herpes viruses are the classic examples.
Microbio
How does the cell regulate viral Ag presentation?
- Foreign peptides inside the cell (e.g. viral peptides) will be chopped up into smaller peptides inside the proteasome
- They then get fed in through the TAP protein into the endoplasmic reticulum where it gets loaded onto an MHC class I molecule
- This loaded MHC then moves to the cell membrane where the viral peptide can be recognised by T cell receptors on the surface of cytotoxic T cells
- The T cell can then kill the virus infected cell
- Viruses that persist must be able to suppress this system
Microbio
How does the evasion of antigen loading to TAP mechanism in viruses work?
Proteosome chops up the viral peptides and loads them into the ER through TAP.
Microbio
How does the modulation of tapasin function and prevention of MHC transport affect virus evasion?
Kaposi’s sarcoma
Microbio
How do viruses avoid NK killing using the missing self mechanism?
Explains why Herpes can stay for years and years in the body
Microbio
How can we use the knowledge about how viruses manipulate infected cells to improve medical outcomes?
x
Microbio
What is influenza antigenic drift?
- Continued rapid evolution driven by antigenic pressure from host;
- e.g. HIV quasispecies;
- rhinovirus causes common cold;
- has more than 120 antigenically distinct serotypes that cocirculate
Microbio
What is influenza antigenic shift?
Introduction of new subtypes from animal source
Microbio
How does antigenic variation affect the virus?
Means viruses exist as diffrent genetically stable serotypes that cocirculate in humans -> polio 3 serotypes (trivalent vaccine), dengue 4 serotypes, rhinovirus 100s of serotypes; all due to consequence of vaccination; driven by evolutionary pressure
Microbio
What is the influenza vaccine?
New one every year, with usually 65% efficacy, but if wrongly predicted then could seriously reduce efficacy, in 2015/16 it was 27%
Microbio
How does HIV resist neutralising Ab?
BNab controls viral load but escape mutants do appear