IMMUNOLOGY Flashcards
Key factors that determine the process of producing T cells
Stem cell factors
Cytokines - Il-7 and IL-3
Tissue specific signals - notch and thymic stromal cells - in commitment stage
Stages of T cell maturation
- Growth factor mediated commitment, proliferation - receptor gene rearrangment
- Selection of cells that express pre-antigen receptors
- Selection of repertoire and acquisition of functional competence - avoid self antigens too
Journey of T cells through development
- Precursors move from bone marrow to thymus
- Notch signals by thymic stroma commit to T cell lineage and differentiate into early precursors of T cell
- Notch signals induce GATA3 - commit to T cell lineage - intense proliferation
- Cells leave the thymus to APC in lymph node and spleen and become activated cells that can carry out function - activate macrophages or kill viral infected cells
MHC Class I
Peptides mounted on MHC I originate from inside the cell - CD8 binding site
Expressed in all cells except erythrocytes
MHC Class II
Peptides mount on MHC II originate from extracellular space - CD4 binding site
Expressed on APC
MHC peptide interactions
Each MHC has 1 cleft that binds 1 peptide at the time but can bind different peptides - peptides share structural features that increase binding.
TCR properties
1 form of TCR expressed on T cells - clone
Has only 1 antigen binding site
An infinite number of different TCR - unique antigen binding sites
TCR gene rearrangement
TCR gene segments arranged like Ig gene segments - Rag 1 and Rag 2 enzymes rearrange it.
Lead sequence
Junctional diversity
Successful beta rearrangement - signal to thymus and sent to the surface = pre-TCR
Lead sequence (T cell generate)
Modified chain tell the cell where to put polypeptide chain
Junctional diversity (generate T cell)
During joining of different gene segments - addition/removal of nucleotides = new seq. at junction
Mediated by TdT
Allelic exclusion - what is it and why does it occur
A completed beta chain - pre TCR will suppress the expression of RAG genes.
No more rearrangement = allelic exclusion
Occurs so that there is only 1 TCR beta chain gene expressed
Alpha chain rearrangements
Successful signalling of pre-TCR = halt further beta chain rearrangements and induce expression CD4 and CD8 - initiate alpha chain rearrangement
Difference in antigen recognition between γδ T cells and αβ T cells
- Specific receptors - skin, gut uterus
- Do not recognise MHC presented peptides - not MHC restricted.
- Antigen recognised directly - like antibody
- Ligands for the γδ TCR are self-proteins - highly regulated under stress conditions
- Circulating γδ recognise phospholipid antigen mycobacterium TB
- And play a role in cancer surveillance
BUT MAKE UP 10% OF T CELLS
Negative selection
DP thymocyte looks for MHC molecules in thymus - binds to target and decrease regulation of another CD molecule - BUT binding must be strong.
If it is weak = apoptosis/neglect
Self reactive T cells
Epithelial stromal cells in medulla - self protein infiltrated dendritic cells - express self antigens and present to T cell with TCR.
Strong binding = T cell become self reactive - autoimmunity - DANGEROUS = APOPTOSIS.
Weak binding = cell is not a danger = conventional T cell
Positive selection
DP T cell found functional TCR bind to MHC molecules in thymus.
CD4 to MHC II = down regulate CD8 and vice versa
What is AIRE
Autoimmune regulator - transcription activator gene.
Allows the expression of different genes that are not expressed by thymus = called promiscuous gene expression.
Thymus does not represent all self-antigens.
What do Regulatory T cells - CD25 and Foxp3
Do not proliferate in response to MHC self peptide complexes - accumulate in Hassal corpuscles to tissues.
Main role = dampen T cell response - regulate it.
What happens after T cell selection
- T cell pass both +/- selection - become conventional T cells.
- Migrate to secondary lymphoid organs looking for target antigen - immunological synapse between T cell and antigen
- If they encounter specific antigen = activate = proliferate = effector T cells/memory T cells
- If they do not find a target they eventually die by apoptosis after a period of circulation.
Naive T cell circulation
Released into the blood circulation and moves freely through the blood - enters lymph node through high endothelial venules.
Naive T cell circulation with no antigen
Cell migrates between lymph node via lymphatics till antigen is found.
Naive T cell circulation with antigen
Binds to antigen - T cell activated.
Receives signals by dendritic cells = activated T cell = circulation via thoracic duct in vena cava to site of infection.
Antigen picked up by DC - enter lymph node via afferent lymphatic vessels
Signal 1 for T cell activation - explain
Antigen recognition
Signal initiate immune response - TCR recognises the antigen with MHC.
But not enough to activate T cell
Signal 2 for T cell activation - explain and give an example.
Co-stimulation
Co-stimulatory signal required to activate naive T cell.
B7:CD28
B7 expressed on APC, CD28 on T cell - confirm activation
What happens in T cell APC signalling.
T cells recognise antigen with/without B7 = express CD40 on T cells
CD40L bind to CD40 on DC - express B7 - secrete cytokines = stimulate T cell proliferation
Negative co stimulation - what does it do
Inhibit downstream effector processes initiated by TCR MHC/peptide interaction - decrease inflammation after infection gone.
Example of negative co-stimulation
CTLA-4
Stop T cell from getting activated
Bind to CD80/CD86 - competes with CD28
Has a higher affinity/avidity for CD80 - opposes the effects to CD28
How is IL-2 regulated
Important to sustain T cell activation and proliferation.
T cell activated = produce IL-2 = autocrine signal to proliferate
T reg cells - High level of receptors for Il-2 - block IL-2 and proliferation
Function of CD69
Retention in lymph node
Function CD25
proliferation
Function CD40L
Activation of DC, macrophages, B cells
Function of CTLA-4
Control of response
TH1 cells function
Activate macrophages - enahnce ability to destroy intracellular pathogens. Stimulate B cell - complement binding Opsonising IgG antibodies - class switching
TH2 cells function
Produce IL-4, IL-5, IL-13 and recruit cells important for anti-parasitic responses
Support production of antibodies - allergies and anti-helminth response.
TH17 cells function
Act on specific tissue cells and recruit neutrophils.
Inflammation
TFH cells function
Provide signal to B cell to differentiate and produce antibodies
Treg cell function
regulation, suppression of immune and inflammatory response
Cytokines and TH1 cells
IFNg - amplify TH1 differentiation
T-bet = master transcription factor - controls differentiation
Cytokines and TH2 cells
IL-4 activate STAT 6 - increase GATA3 transcriptional activator of IL-4 and IL-13 gene.
Support B cell - IgE - degranulation mast cell.
IL-4, IL-13 change peristalsis of gut to remove parasites.
IL-5 activate eosinophil - release granules to destroy helminths
Antibody functions
- Variable fragment can bind to pathogens preventing pathogen host binding - or bind to activate sites of toxins
- Opsonisation + ADCP - tagging of pathogen - visible ot ther immune cells - NK cells
- Recruit NK cell to perform opsonisation + ADCC - antibody dependent cellular cytotoxicity
- Antibodies can form immune complexes - clump antibody and pathogens - agglutinate and be removed by other cells - complement
Complement molecules and antibody binding to pathogen
Antibody set to fixed complement = inflammation, phagocytosis and formation of MAC - punch hole in cell membrane = lysis
Signals involved in class switch recombination
- Cytokine signal
- Switch regions
- AID and DSB repair proteins - recombo occur between switch regions
Steps of Antigen independent life cycle of B cells
- Pro B cell – heavy chain variable region – D toJ and V to DJ recombination + µ constant region
- Pre-B cell – variable region expressed on heavy chain – V to J recombination code in LIGHT chain variable – IgM expressed on immature B cell
- Immature B cell – additional diversity via junctional flexibility – P and N nucleotide addition
- When they express IgM and IgD on surface via differential splicing = mature B cell circulate
Process of VJ recombination of kappa light chain genes
Chromosome 2
40 variable segments
5 joining segments
1 constant region
Leader segments before V segments - V and J segments randomly chosen and transcribed to mRNA
Then translated - Leader segments cleaved off when protein reaches destination
Process of VDJ recombination of gamma heavy chain genes
chromosome 14 51 variable 27 Diversity segments 6 joining segments 1 constant region 1st recombo = D to J. Then V to DJ transcribed into mRNA and splicing. Cµ = IgM Cδ = IgD
VDJ recombination mechanism
Recombination signal sequences - conserved sequences upstream and downstream of gene segment.
12/23 rule - recombo only occurs between a segment with a 12bp spacer and a 23bp spacer
Methods for antibody diversity
Multiple germline V,D,J gene segments
Combination VJ and VDJ joining.
Junctional flexibility
P-nucleotide addition
N-nucleotide addition
Combinatorial association of heavy and light chains
Somatic hypermutation during affinity maturation
Junctional diversity - humoral immunity
Created by junctional flexibility during VDJ recombination, P and nucleotide additions.
Bad = non-productive rearrangements - incorrect reading frame - wasteful process
Hair pin mechanism for junctional diversity - major and minor hair pin opening and joining
Hairpin form after processing Rag 1 and Rag2 - need to open by enzyme Artemis - have overhanging ends.
DNA processed by other enzymes like exonucleases, TdT - add or remove bases.
Ends join together by a series of enzymes.
P nucleotides
Artemis nick strands = break the strand
P nucleotides will fill in the overhanging areas.
N nucleotides
Add nucleotides to 2 ends before chains are ligated - TdT
Mostly in heavy chain
Junctional flexibility
Removal of nucleotides between gene segments during VDJ recombination
Invovles exonucleases - remove mismatched nucleotides
Steps of antigen dependent life cycle of B cells
- Activated B cell migrate to germinal center - undergoes affinity maturation = increase affinity to bind to pathogen
- B cells receive information of what pathogen - class switch to appropriate effector region
- Majority B cell differentiate into plasma cells = secrete antibody. Whilst this occurs B cell coding IgM differentiate into plasma cells - secrete IgM as 1st line defence
4 - after infection - some B cell = memory B cell
T cell independent B cell activation
Pathogen invades - B cell partially acitvated - binds to antigen = clonal expansion
clones become 1st line of defense - secrete IgM and other clones migrate to lymph nodes to wait for T cell activation
T cell dependent B cell activation
- Requires 3 signals
- Antigen binding to BCR - internalise antigen and present on surface via MHC II receptor.
- CD40 and CD40L confirm it is T helper cell.
- Co stimulation by activated TH cell specific to same antigen - TCR is activated - recognise antigen due to DC attaching to pathogen.
- TH cell derived cytokines - activated B cell undergo affinity maturation and class switching.
Affinity maturation
Improve affinity of antibody to antigen - binds to antigen at low affinity.
B cell activated - affinity maturation - generate mutations in variable region genes - select the antibody with the high affinity.
Where does affinity maturation occur and what helps affinity maturation to occur
- Occur in germinal centre of lymph node
- T follicular helper cells – can enter germinal centre
- Follicular dendritic cells – not norm. dendritic cell – present antigens in germinal centre
Process of affinity maturation
- activated B cell will go through clonal expansion
- AID - point mutations in variable regions of DNA - somatic hypermutation
- Mutation - hypermutated B cell go into light zone and undergo selection - follicular dendritic cell present antigen to surface. B cells compete for antigen on FDC = present to Tfh cell.
- Give B cell a survival signal - goes back to dark zone and repeat process - increase affinity - survival of the fittest.
NO survive signal = apoptosis
IgM function
Involved in primary response for immune complexes
IgD function
Only antibody not released because B cell is mature
IgG function
Fc binds to phagocytes - antibody of secondary response - IgG form after affinity
Neutralise toxins or opsonisation
IgA function
Form after affinity maturation - secreted into mucus membrane of respiratory tract
in saliva or tears
IgE function
Fc binds to mast cells, basophils - allergy and large parasite infections - good at recruit basophils for infections
α-defensins
secreted mainly by neutrophils and Paneth cells
β-defensins
secreted by broad range of epithelial cells – esp. respiratory tract, skin, and urogenital tract
Complement pathways
Classical - activated by antibodies
Lectin - activated by NBL and carbohydrates
Alternative - activated by specific pumps on surface of bacterial cells