Miss Laura Jayne Watson·

Immunology

Immune Response
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Table of Contents
Improve Article 

Immunology seems to be one of those things that people either love or hate; I think it’s
fascinating, but I know there will be a lot of people out there who approach the subject
with a mixture of terror, frustration and loathing. To make the normal immune response
less of a horrendous nightmare to learn, I made a summary diagram showing friendly,
loveable cartoon immune cells doing what they do best – pwning pathogens. I know it
looks pretty complicated, but don’t panic! I’m also going to explain everything step by
step, so by the end of this article it will all make sense and you’ll feel super clever.

You can click on the diagram to enlarge it, and please feel free to download and print it
too.

P.S. This article is a bit of a whopper, so while things are printing I would nip and get a
cup of tea/coffee/your unhealthy revision fuel of choice to ensure you’re sufficiently
energised before you start!

You might also be interested in our medical flashcard collection which contains over

1000 flashcards that cover key medical topics.
 Immune response overview diagram

Anatomy of the immune system

The immune system is a mobile, circulating system. However, there are some fixed
anatomical structures that are important to its function:

 immune cells are made within the bone marrow during haematopoiesis

 the thymus gland is situated just in front of the heart in the mediastinum. It is
active throughout life, but is at its largest in childhood and decreases in size after
puberty. It is where lymphocytes mature and receive their immunological “education”
before being released into the bloodstream.

 mature lymphocytes migrate to lymph nodes, which are small bean-like

structures situated along the lymphatic vasculature throughout the body. These filter
lymph and provide a site for antigen presentation to the adaptive immune system. Lymph
is then returned to the systemic circulation via the thoracic duct, which joins with the left
subclavian vein.

 the spleen is basically a massive lymph node and is, therefore, another site of
antigen presentation to mature lymphocytes. It is part of the reticulo-endothelial
system which filters blood and removes old cells, tissue debris, pathogens and immune
complexes. It also stores red blood cells and immature monocytes.

 finally, the liver is also a site of antigen presentation and contains its own cohort
of phagocytes and lymphocytes. This is a vital role, as the liver filters large volumes of
potentially contaminated venous blood from the gastrointestinal (GI) tract. It also
synthesises acute phase proteins such as CRP in response to infection.

Anatomy of the immune system 1

Barrier mechanisms of the

immune system
There are numerous potential ways for pathogens to enter the body. Humans
have therefore evolved several physical and chemical barrier mechanisms to prevent
the invasion of infective organisms:
 intrinsic epithelial barriers exist between the body and the outside world.
Epithelial cell walls have very tight junctions between them and are therefore hard to
penetrate. Examples include the linings of the mouth, nasal passages, upper airways,
lungs and GI tract.
 the continuous longitudinal flow of air or fluid through most body systems helps
to create a flushing action which prevents situations in which bacteria could adhere to
structures, proliferate and invade

 the movement of mucus by cilia in the lungs also helps prevent the stagnation
of secretions and the adherence of inhaled droplets and particles. Mucus is moved
upwards towards the pharynx, where it is then swallowed or coughed up.

 desquamation of skin and epithelial cells also prevents adherence of

microorganisms

 natural acids persist in many parts of the body, for example, fatty acids on the
skin, lysozymes in saliva and hydrochloric acid in the stomach

 there are also many natural antibacterial peptides on the skin and the surface
linings of the lungs and gut. These include cathelicidins, defensins, proteinase inhibitors
and chemokines.

 normal bacterial flora colonising various parts of the body compete with infective
microorganisms, and some also produce antimicrobial substances. For example, vaginal
lactobacilli produce lactate, which creates an acidic environment and destroys many
potentially infectious organisms.

Cells of the immune system

There are many different groups of cells involved in the immune response. Depending on
which medical school you’re at, you may be expected to be able to recognise them on
microscopy, so I’ve included some pictures of actual real cells alongside my silly cartoon
ones.

GRANULOCYTES
A family of white blood cells containing granules in their cytoplasm

NEUTROPHILS
 normally make up 40-75% of all white blood cells (2-7.5 x 109/L on a full blood
count)
 the first line of defence against all infections
 act by phagocytosing invading organisms and presenting antigens to the
immune system

 they have segmented nuclei and their cytoplasm is full of pinky-purple

intracellular granules

Neutrophil

EOSINOPHILS
 normally make up 1-6% of white blood cells (0.04-0.44 x 109/L on a full blood
count)
 they specifically act against multicellular parasites (e.g. worms) by dissolving
their cell surfaces

 they are also involved in IgE-mediated allergic disorders such as asthma

 they have bilobed nuclei and intracellular granules which stain brick red with

eosin

Eosinophil

BASOPHILS
 normally make up 0-1% of white blood cells (≤0.01 x 109/L on a full blood count)
 they are the circulating counterparts of tissue mast cells and are rather
mysterious

 they probably have roles in inflammation, parasitic infections and allergic

reactions

 mast cells/basophils have an important role in type 1 hypersensitivity reactions

through their binding with IgE antibodies

 they have bilobed nuclei and large darkly staining intracellular granules

 Basophil

MONOCYTES & MACROPHAGES

Large cells involved in phagocytosis and antigen presentation

BLOOD MONOCYTES
 normally make up 2-10% of white blood cells  (0.2-0.8 x 109/L on a full blood
count)
 they are produced in the bone marrow and travel in the bloodstream to their target
tissues, where they become macrophages

 they have roles in phagocytosis, antigen presentation and cytokine production

 they are large cells with fine “ground-glass” granules and horseshoe-shaped

nuclei

Monocyte

TISSUE MACROPHAGES
 these are tissue cells and therefore aren’t found on a full blood count
 they are derived from blood monocytes, which differentiate once they reach
their target tissues and express CD14 receptors

 they “tidy up” any pathogens, foreign debris and old or dead cells from their
tissues using phagocytosis

 they also perform antigen presentation and can activate memory cells

 like monocytes, they are large cells with horseshoe-shaped nuclei

 the name macrophage means “big eater”. As you can see, they can be quite
difficult to identify depending on how much they’ve eaten!

 they have processes on their cell membranes called pseudopodia which extend

around the unlucky item they’re about to eat

 once internalised, the engulfed material is contained within a large vesicle called

a phagosome

 the phagosome is fused with another vesicle called a lysosome containing

either reactive oxygen species or enzymes, which break down its contents

 there are many types of macrophage which are specifically adapted to

different tissues – these include Küpffer cells in the liver, alveolar macrophages in
the lungs, osteoclasts in bone and microglial cells in neurones

Macrophages

DENDRITIC CELLS
 this complex family of cell types are the main “professional” antigen-presenting
cells of the immune system
 they play a vital role in activating T helper cells and memory cells
 they are formed in the bone marrow and circulate in the bloodstream until they
reach their target tissues, where they are activated by pathogens and differentiate
into their mature forms

 they phagocytose pathogens before migrating to lymph nodes, where they

present antigens on their cell surfaces with the costimulatory molecules required to
activate the adaptive immune response

 they have numerous characteristic “dendritic” processes branching from their

cell membranes

 there are several specialised dendritic cell types, including Langerhans cells in

the skin

Dendritic cells

LYMPHOCYTES
Small, specialised white blood cells with large nuclei and no granules

 normally make up 20-45% of all white blood cells (1.3-3.5 x 109/L on a full blood
count)
 there are three main subtypes of lymphocytes: B cells, T cells and natural killer
(NK) cells

 B cells and T cells make up the majority of the lymphocyte population. They are

small cells with large round nuclei, scanty blue-ish cytoplasm and no granules, and are
morphologically indistinguishable from one another. The only way to tell them apart is
with specialist serology or staining for specific cell surface markers known as clusters
of differentiation (CDs).
 NK cells are a larger, more primitive lymphocyte subtype which do contain some
granules.

Lymphocyte

B CELLS
 B cells represent about 25% of the total lymphocyte population – this varies
depending on the activity of the immune response and can be up to 50%
 important B cell surface markers include CD19, CD20 and CD21, as well
as MHC II

 they are essential for humoral immunity, also known as the antibody-

mediated immune response

 plasma cells are mature B cells that secrete antibodies, which recognise

specific foreign antigens and bind to them or destroy them

 memory B cells “remember” the offending foreign antigens to allow the immune

system to mount a quicker antibody response to any subsequent infections

B cells

T CELLS
 T cells represent about 70% of the total lymphocyte population – this varies
depending on the activity of the immune response and can be up to 90%
 all T cells express CD3 on their surfaces, along with T cell receptors (TCRs)
which recognise specific antigens presented in an MHC I or MHC II molecule

 there are numerous different T cell subtypes with different roles, which each
have their own identifiable surface markers – there are absolutely loads of these, so I’ve
only discussed the most important ones below
 helper T cells (CD4) facilitate the activation of the immune response and
stimulate division and differentiation of various effector cells

 cytotoxic T cells (CD8) – also known as killer or effector T cells – provide cell-

mediated immunity by targeting and killing infected cells

 regulatory T cells (CD25 + FOXP3) – also known as suppressor T cells – play a

vital role in limiting the immune response to prevent excessive damage to tissues and
organs

 memory T cells (CD62 + CCR7) “remember” what has happened to allow the

immune system to mount a faster, more effective response should the offending
organism be foolish enough to return

T cells

NATURAL KILLER CELLS

 NK cells represent about 5% of the total lymphocyte population – again, this
varies depending on what’s going on
 they are a larger, primitive lymphocyte subtype with granules in their cytoplasm –
they are also known by haematologists as large granular lymphocytes (LGLs)

 they express CD16 and CD56, and a large proportion of them also express CD8

 NK cells actually form part of both the innate and adaptive immune

systems and are able to destroy pathogens and infected cells without the need for prior
activation by specific antigens.
 They are also particularly important in viral immunity and tumour rejection.

Natural killer cells

The immune response in a

nutshell
The normal immune response can be broken down into four main components:

1. pathogen recognition by cells of the innate immune system, with cytokine

release, complement activation and phagocytosis of antigens
2. the innate immune system triggers an acute inflammatory response to contain
the infection

3. meanwhile, antigen presentation takes place with the activation of specific T

helper cells

4. CD4 helper T cells then co-ordinate a targeted antigen-specific immune

response involving two adaptive cell systems: humoral immunity from B
cells and antibodies, and cell-mediated immunity from cytotoxic CD8 T cells

Let’s start at the very beginning. An evil pathogen has penetrated the body’s barrier
mechanisms and is plotting to start a nasty infection…
 Part 1 – Innate immune system
This is the first line of defence against any infection. It is very fast – it is established
within about 4 hours – but is non-specific and has no memory, so it is not strong
enough to effectively tackle an infection on its own. It consists of a cellular response by
the innate immune system, a chemical response by cytokines and complement, and the
subsequent initiation of an acute inflammatory response.

INNATE CELLULAR IMMUNE RESPONSE

Phagocytes
Phagocytes are a very important part of the innate immune system, as they act to fight
the new infection and present antigens. Examples of “professional” phagocytes
include dendritic cells, blood monocytes, tissue macrophages and, most
importantly, neutrophils. Neutrophils are an absolutely key component of this initial
process which only appear in response to infection or injury, and are therefore not found
in healthy tissue.

 phagocytes identify pathogens by recognising pathogen-associated molecular

patterns (PAMPs) using pathogen recognition receptors (PRRs). Toll-like receptors
(TLRs) are an example of a PRR.
 once they have identified dangerous organisms, they internalise them, kill them
and digest them down into their component proteins

 phagocytes then present the digested protein antigens to the cells of the adaptive
immune system via major histocompatibility complexes (MHCs) on their surfaces.
The MHC complex acts as a safety mechanism. It prevents the immune system from
being activated too easily, as it ensures that T cells can only react to an antigen if it is
presented within an MHC complex. This phenomenon is known as MHC restriction.

 when phagocyte PRRs are exposed to PAMPs, NFKB is activated. This is a

transcription factor which results in the release of proinflammatory cytokines and the
initiation of the inflammatory response.
 Natural killer cells (NK cells)
Natural killer cells, along with neutrophils and other phagocytes, also have an important
role in the initial front-line defence against the infection.

 unlike T cells, they do not require activation by specific antigens, which means
they are able to respond immediately when exposed to a pathogen
 “self” cells are protected from the destructive action of NK cells by the inhibitory
effects of MHC I, which is expressed on the surface of all nucleated body cells

 any cells without an identifiable MHC I are likely to be “non-self” and fair game

for immediate annihilation – NK cells do this by releasing toxic granules to induce
apoptosis

 normally, NK cells cannot attack healthy “self” cells. However, MHC I expression
is often suppressed if cells are infected with viruses, or have become cancerous. NK
cells can, therefore, perform additional vital roles in viral immunity and tumour
rejection.
 INNATE CHEMICAL IMMUNE RESPONSE

Complement system
Complement is a cascade of chemicals similar to the clotting cascade.

There are three separate pathways that activate the complement system:

 classical pathway: activated by antibody-antigen complexes (a.k.a immune

complexes) on pathogen surfaces
 mannose-binding lectin pathway: activated when mannose-binding lectin binds
to the carbohydrate molecule mannose on pathogen surfaces

 alternative pathway: C3 reacts directly with pathogen surfaces

 Complement pathway
All three of these pathways act to generate the enzyme C3 convertase. This cleaves C3
into two parts (C3a and C3b) and activates the rest of the cascade.

 C3a, along with C4a and C5a, is a mediator of inflammation which augments

the inflammatory response. These molecules are also anaphylotoxins which trigger
mast cell degranulation, histamine release and further inflammation.
 C3b binds to and coats pathogens, making them easier for phagocytes to identify
and ingest. This process is called opsonisation. It also binds to immune complexes to
facilitate their removal by the spleen and triggers the production of terminal components
including C5b.

 C5b initiates the membrane attack pathway or “terminal lytic sequence”. This

triggers the formation of a membrane attack complex (MAC) made from C5b, C6, C7,
C8 and C9. MACs are ring-shaped and essentially punch a hole in the pathogen cell
membrane, resulting in osmotic lysis.

 complement mainly provides bacterial immunity. In viral infections, interferons

play a similar role.
 Proinflammatory cytokines are the second key component of the innate chemical
immune response. They are small messenger proteins released by immune cells in
response to evidence of infection, which interact to mediate the acute inflammatory
response (see Part 2). There are a huge number of different cytokine molecules,
including whole families of interleukins, tumour necrosis factors and chemokines.

Some important examples include:

 IL-1 – causes fever and activates lymphocytes

 IL-6 – causes fever, stimulates the liver to produce acute-phase proteins such as
CRP, activates lymphocytes and promotes antibody production

 IL-8 (a.k.a CXCL8) – causes neutrophil chemotaxis

 IL-12 – activates NK cells and TH1 cells (important for intracellular infections)

 TNF-alpha – increases vascular permeability to allow immune cells to reach

tissues

 IL-4, IL-5 + IL-13 – promote IgE production and eosinophilic reactions in patients

with allergies

 Interferon gamma (IFNγ) – essential in activating cell-mediated immunity in viral

infections

 IL-10 – has an anti-inflammatory effect

Part 2 – Inflammatory response

 The acute inflammatory response is kick-started by innate immune cells,
proinflammatory cytokines and complement. It acts as a bridging mechanism
to localise and contain the infection in the period from about 4-96 hours after its
onset, when the innate immune system is running out of steam and the specific cellular
immune response is still trying to get going.

The main features of this process are:

 vasodilation and increased blood flow – this leads to erythema (“rubor”)

and warmth (“calor”)
 increased vascular permeability – this allows an inflammatory cell infiltrate to
extravasate and reach the site of infection, and also causes tissue
oedema and swelling (“tumour”)

 release of inflammatory mediators such

as bradykinins and prostaglandins which increase pain sensitivity and
cause hyperalgesia in the infected area (“dolor”)

 neutrophil chemotaxis – neutrophils migrate to the site of infection and begin

their clean-up operation, phagocytosing pathogens and debris

 microvascular coagulation – this is induced by local tissue damage, and acts

to confine the infection and prevent its spread

 systemic features such as fever and raised inflammatory markers such

as CRP and ferritin – this produces unpleasant “flu-like” symptoms such as hot flushes,
sweats, chills, rigors, headache, nausea, myalgia, arthralgia and fatigue.

 upregulation of costimulatory molecules such as MHC-II and B7 to encourage

activation of the adaptive immune system
 Part 3 – Antigen presentation
The innate immune system and inflammatory response can only hold off an infection for
so long – ultimately, a specific immune response needs to be activated. This is done
via antigen presentation to the adaptive immune system.

 dendritic cells laden with digested antigens travel via the circulation to lymph
nodes 
 once they arrive there, they start to present their antigens to naive T helper
cells (TH0) within MHC II complexes on their cell surfaces

It is very important that the immune response is not activated inappropriately, as this

could cause a lot of unnecessary damage. There are two main protective
mechanisms which prevent this from happening by controlling the activation of the
adaptive immune system:
 MHC restriction ensures that only antigens presented within the context of MHC
complexes are able to trigger the immune response
 in order to become fully activated by their specific antigen, naive T helper cells
also require a second signal from antigen-presenting cells. Dendritic cells are able to
provide this in the form of B7 proteins (CD80 or CD86) which bind to CD28
receptors on T cell surfaces.

 expression of second signal molecules is increased by the presence of

an inflammatory response, increasing the likelihood of T helper cell activation

The combination of the right antigen, an MHC II and a B7 second signal gives the
green light for naive T helper cells to get going. The next step is for them to differentiate
into either TH1 cells, which promote cytotoxic T cells and cell-mediated immunity,
or TH2 cells, which promote B cells and humoral immunity.

Part 4a – Humoral immunity

Humoral immunity is the term for a specific adaptive immune response activated
by TH2 cells, which leads to the production of B cells and antibodies.

This immune response is designed to fight extracellular infections, including most

bacteria and fungi, protozoans such as Giardia, and parasitic worms such
as Schistosoma.

ANTIBODIES
 Antibody molecules are essentially secreted B cell receptors which provide an antigen-
specific action. They are Y-shaped molecules with a complex structure comprising:

 two large heavy chains – their structure dictates whether the antibody is IgM,

IgG, IgA, IgE or IgD
 two small light chains – these can be either “kappa” or “lambda” types

 the heavy and light chains are connected by disulphide bonds

 all four chains consist of constant and variable regions: the constant “C”

regions are always the same, but the variable “V” regions are unique to each B cell
and confer antigen specificity

 antigens bind to the ends of each “arm” of the Y structure

 the base of the antibody binds to complement and phagocytes

Antibody
There are five antibody classes or “isotypes”. These are dictated by the structure of
the heavy chain constant region.

 IgM – this has a pentameric structure. It is expressed on B cell surfaces

and produced early in the immune response whilst IgG is being generated.
 IgG – this has a monomeric structure and provides the majority of antibody-
based immunity. It is found mainly in circulating blood and tissues (it also crosses the
placenta to provide passive immunity to the fetus).

 IgA – this forms a dimeric structure once it reaches its target tissues. It is found

in mucosal areas such as the GI, respiratory and urinary tracts. It is also secreted in
saliva, tears and breast milk.

 IgE – this has a monomeric structure. It binds to allergens and mediates allergic

reactions, as well as providing immunity against multicellular organisms such
as parasitic worms.

 IgD – this has a monomeric structure and is rather mysterious. It is found in very

low levels in the serum, and appears to interact with basophils and mast cells.
 Classes of antibody
There are a potentially infinite number of antigens the immune system might encounter,
so it is vital that the immune response is able to adapt to this and reflect a similar degree
of diversity. Humans need to be able to generate about 10 billion different antibodies,
but it would be impossible to code every possible antibody into the human genome and
still be able to fit our DNA into such tiny spaces within cells. As a result, a range of
mechanisms have evolved to allow B cells to manipulate their own DNA and produce
billions of different variable region structures:

 antibody variable region genes are coded in three parts: V (variable), D (diversity)

and J (joining) segments. RAG proteins allow B cells to shuffle these gene segments
around during their maturation and recombine them in millions of different ways. This is
known as VDJ recombination.
 junctional diversity is produced by the imprecise joining of VDJ
segments during maturation, as the variable overlap of genes results in the gain or loss
of a few nucleotides

 “looping out” and rejoining of gene segments produces variations in genomic

structure
 genetic diversity is also increased by the addition of random
nucleotides called N regions

 when mature B cells are activated by their specific antigen, they start to produce
IgM antibodies, and also undergo isotype class switching to produce different types of
antibody adapted for various locations within the body

 B cell activation also promotes somatic hypermutation of variable region genes

to produce ever-so-slightly different versions of the same specific antibody. These are
“tested” to find the best match using clonal selection, and the ones with the highest
possible affinity for the antigen are encouraged to proliferate in a process called affinity
maturation.

Antibodies fight extracellular infections in a number of ways:

 they neutralise toxins by directly binding to them

 they bind to antigens on pathogen surfaces. This agglutinates them to impair
their mobility and also opsonises them to enhance phagocytosis.

 the binding of antibodies to antigens to form complexes activates the classical

complement pathway

 they also directly activate effector cells such as dendritic cells, NK

cells and cytotoxic T cells
 THE HUMORAL IMMUNE RESPONSE
Humoral immunity and antibody production are dependent upon T helper cells
activating B cells:

 once naive TH0 cells have been activated by their specific antigen, they

differentiate into TH2 cells
 TH2 cells locate their corresponding B cell counterparts by
identifying the correct antigen within an MHC II on the B cell’s surface

 they then provide the B cell with a second signal, in this case, CD40

ligand which binds to CD40 on the B cell surface

 they also release cytokines such as IL-2, IL-4 and IL-5 which promote B cell

development

Activated B cells mature into plasma cells and start to make antibodies:

 initially, plasma cells produce IgM antibodies, then isotype class

switching produces different types to cover different areas of the body
 clonal expansion of antigen-specific plasma cells is followed by somatic
hypermutation, clonal selection and affinity maturation to ensure the production of
the best antibodies for the job, which are then released to tackle an infection

Once the infection has been cleared, some plasma cells will remain as dormant
“memory” B cells:

 only the most highly-antigen specific B cells produced by affinity maturation will

be selected to become memory cells
 the presence of memory cells means that immediate plasma cell
proliferation and antibody production can occur at the time of the next infection

 the number of surviving memory cells increases after each reinfection, so the

more times you are exposed to a particular pathogen, the better your immune response
to it becomes

Part 4b – Cell-mediated
immunity
 Cell-mediated immunity is the term for a specific adaptive immune response activated
by TH1 cells, which leads to activation of antigen-presenting cells and a cytotoxic T
cell response.

This immune response is designed to fight intracellular infections,

including viruses, some bacteria and fungi, and protozoans such
as Plasmodium and Toxoplasma.

T CELL RECEPTORS
T cell receptor diversity is just as important as antibody diversity, as both
systems need to be able to cover any possible infectious antigen. T cells generate this
genetic diversity in essentially the same way as B cells do during their development in
the bone marrow, using VDJ recombination by RAG proteins, junctional diversity and
the addition of N regions, but they do not undergo class switching or somatic
hypermutation during their maturation.

All immature T cells undergo a rigorous “education” in the thymus gland before they

are released into the bloodstream, but this process is particularly important for cytotoxic
T cells due to their destructive nature. They are “tested” with a variety of self cell
antigens, and any cells which have generated a receptor that reacts to these
undergo negative selection and are destroyed. This essential mechanism prevents the
immune system from reacting to the body and is known as immunological
tolerance or self-tolerance. In order to graduate successfully from the thymus, T cells
must also express CD3 and CD4 or CD8 (but never both), and bind to self MHC
complexes (but not too strongly). Only about 1% of T cells generated in the bone
marrow actually make it through this process alive!

ACTIVATION OF ANTIGEN PRESENTING CELLS

The first step of the cell-mediated immune response is the activation of antigen-
presenting cells:

 a TH1 cell encounters an unhappy infected antigen-presenting cell and

recognises the MHC II-restricted antigen on its surface
 it then “activates” the APC by providing a CD40 ligand second signal and
secreting interferon-gamma (IFNγ), a cytokine which is essential in stimulating the
immune response to intracellular infections

 once activated, APCs are able to increase their production of nitric

oxide and superoxide radicals, which optimises their killing mechanisms and allows
them to destroy ingested pathogens much more effectively
 THE CYTOTOXIC T CELL RESPONSE
The next step is the activation of an  antigen-specific cytotoxic T cell response:

 activated APCs present their antigen to the specific cytotoxic T cell

receptor within an MHC I, along with a variety of second signals, including B7 +
CD28 and/or 4-IBB + 4-IBBL
 this process is helped along by the secretion of IL-2 – a potent T cell growth
factor – by TH1 cells and the cytotoxic T cells themselves

Once activated, the cytotoxic T cells are very keen to get out and start hunting and killing
things. They identify infected cells by recognising the antigen displayed within MHC
I on their surfaces. They then destroy these cells using one of several mechanisms:

 they classically form an immunological synapse with their target cell – this just
means the cell membranes touch – and release a substance called perforin to make a
hole in the cell wall. They then use this hole to release granzymes and granulysin into
the cell, which induce apoptosis and DNA fragmentation.
 Fas ligand interactions between the cell surfaces can also
produce apoptosis of the infected cells via the aptly named death-inducing signalling
complex (DISC)

 cytotoxic T cells can also release interferon-gamma (IFNγ), which has an

interesting role in viral infections, as it is able to block intracellular viral
replication without killing the cell itself. This effect is very useful, as killing and lysing
virally infected cells would simply let all the baby viruses out and cause the infection to
spread itself even further, which is clearly suboptimal.
 After the infection has been dealt with, the most antigen-specific cytotoxic T cells will
remain behind as dormant memory T cells. The principles of T cell memory are
essentially the same as B cell memory.

 during reinfection, only the first signal (MHC + antigen) is required to activate

the cytotoxic T cell response; no second signal is necessary
 this means that any antigen-presenting cell (not just dendritic cells)
can activate cytotoxic T cells directly, reducing the need for TH1 cell help and
resulting in a much swifter and more efficient cell-mediated immune response.
Summary of the immune
response
We’ve now covered everything in the diagram in detail – hopefully it seems a lot less
scary now!
Responses to different
infections
It is useful to be able to apply your knowledge of the immune response to different types
of infection, especially when it crops up in exam questions. The most important
 differentiation to make is whether the infection is intracellular or extracellular, as this
generally dictates which branch of the adaptive immune response will be activated:

 extracellular infections –> TH2 –> humoral immune response with B

cells and antibodies
 intracellular infections –> TH1 –> cell-mediated immune response
with activated APCs and cytotoxic T cells

Some types of pathogens can only exist as either extracellular or intracellular organisms,
whilst other types can vary depending on the individual species. There are also unique
variations in aspects of the immune response for some organisms.

BACTERIA
 bacterial infections trigger the classic immune response as described in the main
article above
 bacterial infections are usually extracellular

 however, some bacteria do choose to exist as intracellular organisms; examples

of these include Neisseria, Salmonella, Chlamydia and Mycobacteria

VIRUSES
 viral infections are intracellular and therefore handled by cell-mediated
immunity
 interferons are a family of cytokines which act as the equivalent of
complement in viral immunity, and also have additional unique functions. For example,
cytotoxic T cells release interferon-gamma, which inhibits viral replication within
infected cells without damaging the cells themselves.

 new baby viruses are released from cells as part of the spread of a

viral infection, and viral antigens are also expressed on the surfaces of infected cells.
This means that some aspects of humoral immunity are also useful in viral
infections. Antibodies are able to bind to viral antigens in order to neutralise and
opsonise the baby viruses after they are released, limiting the spread of infection.

 natural killer cells also play a vital role in viral immunity, as they recognise and
destroy infected cells which have either expressed antigen on their surfaces or lost their
inhibitory MHC I

FUNGI
 the normal immune response is able to deal with fungal infections very swiftly and
effectively
 fungal infections are usually extracellular and therefore dealt with by humoral
immunity

 less commonly, fungi opt to “break the mould” (sorry) and become intracellular –

examples of these include Histoplasma, Cryptococcus and Pneumocystis, all of which
are well known to cause opportunistic infections in immunosuppressed patients lacking
the cell-mediated immunity vital in tackling such organisms

 macrophages and other phagocytes are very important in fungal immunity

PROTOZOANS
 our immune response to protozoa isn’t that great. This is probably because many
species have evolved hundreds of clever protective mechanisms which turn the
immune system to their advantage. Examples of protective mechanisms include
resistance to phagocytosis and complement lysis, antigen variation, antigen shedding
and even direct modifications of host immune mechanisms.
 examples of extracellular protozoa include Giardia, which infects the intestines
and may have caused many of you the joys of traveller’s diarrhoea; Entamoeba, which
causes dysentery and nasty amoebic liver abscesses; and Trypanosoma, which causes
sleeping sickness and featured in an excellent episode of House.

 other protozoa are intracellular organisms. Examples include Plasmodium, which

occupies red blood cells and liver cells to cause malaria; Leishmania, which survives
inside phagocytes after being ingested and affected many soldiers during the conflicts in
Iraq and Afghanistan; and Toxoplasma, which lives in many body tissues and can cause
“crazy cat lady syndrome” amongst other things.

WORMS (a.k.a HELMINTHS)

 worms are very big compared to other infective organisms and are obviously
always extracellular – common examples include Schistosoma, which spreads worms
through the bloodstream to vital organs; Onchocercha which causes river
blindness; and Taenia tapeworms which can cause malnutrition and cysticercosis
 TH2 cells and humoral immunity form the basis of the body’s immune response
to parasitic worms

 eosinophils and IgE are also very important in killing helminths, as alongside

promoting a powerful inflammatory response, they appear to bind to the opsonising
antibodies on the worm’s skin in order to subsequently dissolve it and kill it

The end
 I hope you found this guide helpful and fun. I certainly enjoyed creating the little immune
cells and telling their story (perhaps a bit too much actually). It was a mammoth
undertaking to write this thing, and while I have tried to be as thorough and accurate as
possible if any of you clever folks out there have noticed any
mistakes/miscommunications/other cock-ups please do let me know so I can correct
them for the benefit of everyone else. In return, you shall receive the reward of your
name immortalised below and a Geeky Medics gold star…

 many thanks to Colin Hill for helpfully highlighting a mix-up in Part 3! 

References
1. Immune System Anatomy. By OpenStax College [CC BY 3.0], via Wikimedia
Commons. Available from: [LINK]
2. Andy Gennery’s totally excellent immunology lectures given at Newcastle Medical
School in 2009 and 2011 (I hope I did them justice)

3. Murphy K; “Janeway’s Immunobiology, 8th Edition”,  Garland Science.

4. ParaSite – Parasites and Pestilence by Stanford University. Available from: [LINK]

5. Patient UK. Full Blood Count. Available from: [LINK]