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Specificity
Innate immune cells can only recognize pathogens bearing surface molecules that are common to many pathogens and conserved over evolution
T cell receptor (TCR) structure
Transmembrane heterodimers composed of either an α and a β chain or a γ and a δ chain (αβ T cells and γδ T cells)
Extracellular “variable” regions contain the antigen binding region

The two classes of TCR’s
TCR complex
A functional TCR is in a complex with 4 transmembrane polypeptides collectively called CD3 (γ, δ, ε, and ζ chains) – these help transduce signals to activate the T cell
CD3 is not a receptor, does not bind ligand but is essential for intracellular signaling
CD4 or CD8 will also associate with the TCR (except γδ T cells)
TCR complex- MHC interaction
CD4 binds to MHC Class II on antigen-presenting cell
CD8 binds to MHC Class I on antigen-presenting cell
T cell diversity
Occurs within the corticomedullary junction of thymus → cortex
The germline arrangement of the TCR gene contains multiple segments
These segments are semi-randomly rearranged (Combinational diversity)
Additional diversity occurs when random nucleotides are added or deleted at the joining of segments (junctional diversity
This arrangement is independent of antigen
Combinational diversity
β-chain genes are rearranged by random joining of segments (D, J)
The new DJ segment is linked with a V segment = new VDJ segment
α-chain genes are rearranged by random joining of segments (V, J)
= new VJ segment
Junctional diversity
During this process, random nucleotides are removed or added between the segments
T cell specificity (Positive selection)
Occurs in cortex of the thymus
DP (double positive) thymocytes interact with cortical thymic epithlelial cells that express both MHC I and MHC II
Cells that can interact with MHC-peptide complexes are given survival signals and live
Cells that do not interact die by apoptosis (up to 96%)
Those that bind well to MHC I lose CD4 expression and become CD8+ T cells
Those that bind well to MHC II lose CD8 expression and become CD4+ T cells
T cell tolerance (Negative selection)
Occurs in medulla of thymus
Medullary Thymic epithelial cells are able to express many proteins usually found in other tissues in the body
Antigen presenting cells in the medulla present peptides from these many proteins
If the thymocyte binds too well it will be negatively selected and die
Destruction of self-reactive thymocytes is called central tolerance
T regulatory cells (Treg)
Immunosuppressive T cells that can help prevent autoimmune responses in the periphery
This is a type of “peripheral tolerance”
A mechanism that takes place outside primary lymphoid organs that prevent immune responses against self or harmless materials like food or commensals
γ δ T cells
A small fraction of T cells in most mammals (In ruminants and chickens these cells are the majority)
Do not express CD4 or CD8
Do not require MHC: antigen interaction but can recognize unprocessed antigen (without MHC)
Often are mucosally associated
Less diverse repertoire because of few V gene segments
Cytotoxic function (similar to CD8+ T cells)
The 3 signals necessary for T cell activation
Antigen
Co-stimulation
Cytokines
T cell activation: signal 1
Naive T-helper (CD4) and T-cytotoxic (CD8) cells that have exited the thymus can migrate to lymph nodes
They can be activated only by antigen presenting cells (almost always a dendritic cell) presenting a specific antigen
T cell activation: signal 2
CD80/86 molecules on the antigen presenting cell must interact with CD28 molecules on the T cell
CD80/86 is only expressed on antigen presenting cells and in low levels unless the APCs are activated by cytokines, pathogens or T cells (“danger signals”)
Other co-stimulatory molecules can also play a role in activating T cells
T cell activation: signal 3
Cytokines in the environment or produced by the APC will provide this signal and help determine the fate of the T cell by providing context
Determines the phenotype of the T cell
T cells will begin to secrete IL-2
When bound to IL-2, the high affinity IL-2 receptor induces T cell proliferation
T helper (CD4) cell
Recognizes MHC class II
Seen on antigen-presenting cells
Directs and boosts other immune cells
Release cytokines to give signals that tell other cells what to do
T-cytotoxic (CD8) cell
Recognizes MHC class I
Found on almost all nucleated cells
Kill infected, cancerous or foreign cells
If a cell displays a foreign or abnormal peptide (from a virus or a mutated protein) they destroy it
Naive T cells
Inexperienced, circulates through lymph nodes, needs full activation, slow first response, not bound to antigen
Effector T cells
Active fighter, short-lived, makes cytokines or kills, found at infection sites, bound by antigen
Memory T cells
These T cells for a specific antigen may persist for years or a lifetime
Provide long-lasting protection against previously encountered microorganisms