Extra credit opportunity – see Bi1 website

1. Extra credit opportunity – see Bi1 website

2. The Immune System A complex system that is responsible for distinguishing us from everything foreign to us, and for protecting us against infections and foreign substances. The immune system works to seek and kill invaders. www.als.net/als101/glossary.asp

3. Clicker question • Which, in this list, is not a part of the immune system? • 1) Mucous • 2) Skin • 3) Thymus • 4) All of above are parts of the immune system. • 5) None of the above are parts of the immune system.

4. Clicker question Which of the following disorders result from immune system malfunctions? Allergies Diabetes Arthritis Multiple sclerosis All of the above None of the above

5. Overview of your immune system • First line of defense: Physical barriers that viruses, bacteria must cross • skin covers ~2 m2 • Mucous membranes that line digestive, respiratory, reproductive tracts cover ~400 m2 • Second line of defense: Innate immune system (germline-encoded receptors -- no adaptation to specific pathogens) • Macrophages (Greek for “big eater”), neutrophils, natural killer (NK) cells • Cytokines -- hormone-like proteins that mediate inflammation, Complement proteins • Third line of defense (vertebrates only): Adaptive immune system (adapts to defend against specific pathogens using variable receptors) • B cells make antibodies that vary -- can make an antibody specific for any new antigen • T cells mediate cellular responses using variable receptors (T cell receptors; TCRs)

6. Immune cells and other blood cells made in bone marrow -- all are descendents of self-renewing stem cells Make variable antibodies Membrane-bound variable T cell receptors Kill cells that are missing self proteins Phagocyte Phagocyte Note these are adult stem cells, NOT embryonic stem cells. p. 4 “How the Immune System Works” by Lauren Sompayrac

7. Innate Immune System • Second line of defense -- works against invaders that breach physical barriers of skin and mucosa • “Innate” because shared by all animals (vertebrates and invertebrates)

8. Figure 2-1 Three phases of an initial immune response First two phases rely on recognition by germline-encoded receptors of the innate immune system. Third phase uses variable antigen-specific receptors produced as a result of gene segment rearrangements (not germline encoded).

9. The innate immune system responds more quickly than adaptive immune system.Why is a quick response important? • Starting with one bacterium that doubles every thirty minutes --> 100 x 1012 bacteria in one day • 100 x 1012 bacteria equivalent to ~100 liters of a dense culture • Total volume of blood in human ~5 liters • VERY important to check a bacterial infection quickly!

10. Clicker question Fruit flies can be infected by _____. They use ______ immune responses to clear infections. 1) Bacteria and viruses; innate and adaptive 2) Bacteria; innate 3) Viruses; innate and adaptive 4) Viruses; adaptive 5) Bacteria and viruses; innate 6) Bacteria and viruses; adaptive

11. Three components of the innate immune system • Phagocytes (cells) (e.g., macrophages) • Complement proteins • Natural killer (NK) cells Innate immune receptors recognize features common to many pathogens. Receptors are employed by all cells of a given cell type. Response does not lead to immunological memory. Adaptive immune receptors are antigen specific. Antigen receptors of adaptive immune system are clonally distributed on individual lymphocytes. Response can lead to immunological memory.

12. Macrophages can engulf and digest bacteria Macrophage about to eat a bacterium http://www.biochemweb.org/neutrophil.shtml p. 4 “How the Immune System Works” by Lauren Sompayrac

13. Clicker question Which component of bacteria serves as a very potent stimulant of the innate immune system? Ribosomes Proteins Carbohydrates DNA RNA Plasmids

14. Clicker question Carbohydrates on viruses strongly activate the innate immune system. True False

15. Complement system • Ancient system (found in invertebrates such as sea urchins) • ~20 different proteins that work together to destroy invaders and recruit immune cells • Activated three different ways • “Classical” pathway: by antibodies bound to pathogen (vertebrates only) • “Alternative” pathway: by bacterial surfaces • Lectin activation pathway: by binding of mannose-binding lectin (MBL) to yeast, bacteria, parasites or viruses (e.g., HIV) • Activation of complement system is tightly regulated because end results can be dangerous

16. Figure 2-18 The three pathways of complement activation converge Combination of adaptive and innate immune responses Innate immunity Innate immunity

17. Figure 2-11 Binding of mannose-binding lectin, a plasma protein, initiates lectin pathway of complement activation. MBL discriminates self carbohydrates from non-self carbohydrates by recognition of a particular pattern of sugar residues

18. Figure 2-35 part 3 of 3 One of the end results of complement activation -- the membrane attack complex kills a cell Electron micrographs of ~100 Å diameter membrane attack complex channels

19. Laboratory uses of complement:isolate one population of cells by killing off another population Example: Have mixture CD4 T-cells and CD8 T-cells Want only CD8 T-cells Add anti-CD4 antibody to mixture of T cells. It binds. Now add complement, and CD4 T-cells will be killed, leaving you with CD8 T-cells only.

20. Clicker question If you sequenced the receptors and proteins of the innate immune system from identical twins, they would be identical, regardless of differences in immunological experience. If you sequenced the receptors and proteins of the adaptive immune system from identical twins, they would be identical, regardless of differences in immunological experience. 1) True, True False, False True, False False, True

21. Clicker question Which type of pathogen is easier for the innate immune system to deal with: bacteria or viruses? 1) Bacteria 2) Viruses

22. So far, we’ve talked only about active recognition of features of pathogens… But pathogens have also developed ways to remove some of the cell’s critical proteins, often so that they can escape detection by the immune system. For example, in the adaptive immune system, T lymphocytes (T cells) recognize viral fragments (peptides) bound to MHC proteins. It’s hard for a virus to hide out in a cell if the cell surface MHC proteins contain viral fragments that can be recognized by T cells. What’s a virus to do? Get rid of the host MHC proteins!

23. For every strategy a virus comes up with, the immune system (usually) has an answer… Natural killer cells recognize cells that do not express adequate levels of MHC proteins on their surface. They respond to “missing self”.

24. Clicker question How could you design a system that responds to the absence of a critical surface protein?A trick used by many viruses is to down-regulate MHC proteins -- MHC proteins normally alert the immune system to the presence of a virus. 1) Create a receptor that activates a killer cell if it can’t find its target protein. 2) Create a killer cell with two receptors: one inhibitory (binds to MHC protein) and one activating. Inhibitory signal overrides activating signal, so killer cell does nothing unless it finds a cell with no MHC proteins.

25. Natural killer (NK) cells • Can kill tumor cells, virus-infected cells, bacteria, parasites, fungi in tissues • Identify targets based on “missing self” • Two types of NK receptors: inhibitory and activating • If inhibitory receptor recognizes a self protein (a class I MHC molecule) on a target cell, the NK cell is turned OFF even if activating receptor binds a ligand on the same target cell • If activating receptor binds a ligand, but inhibitory receptor does not (target cell has down-regulated class I MHC proteins), NK cells kill • Many virally-infected cells and tumor cells down-regulate expression of class I MHC molecules (NK cells important for preventing cancers)

26. Extra slides Not discussed in lecture

27. Figure 2-19

28. Overview of complement activation • C3 proteins cleaved into C3a and C3b. • C3b reacts with amino (NH3) or hydroxyl (OH) groups often found on surfaces of invaders. • Activated C3b neutralized by H2O if doesn’t react with NH3 or OH group within ~60 µsec. (Important for regulation!) • Complement protein B binds to cell surface-bound C3b, then protein D cleaves B to yield C3bBb. • C3bBb (a “convertase”) cleaves other C3 proteins to C3b to increase number of C3b molecules bound to the invader. • C3bBb also cleaves C5. C5b combines with C6, C7, C8 and C9 to make a “membrane attack complex” (MAC). C9 forms a channel that opens a hole in invader membrane to lyse it. • Many of the “a” fragments (e.g., C5a) are peptide mediators of inflammation.

29. The immune cells we’re talking about are called white blood cells. This means they are in the ____.How do they get to a site of infection?

30. Figure 2-44 Neutrophils leave the blood and migrate to sites of infection Inactive neutrophils are swept along by blood at ~1000 µm/sec. Activated macrophages produce alarm cytokines (IL-1 and TNF; interleukin-1 and tumor necrosis factor) that turn on selectins (sugar-binding proteins) on endothelial cells. Now neutrophils roll along endothelium, making and breaking contacts with endothelial cells on walls of veins. Upon activation by inflammatory signals (e.g., complement protein C5a -- more later), binding proteins on the neutrophil (integrin) and on endothelial cells (ICAM) are induced, resulting in tighter binding, arrested rolling, and squeezing of neutrophil through endothelium to the site of infection.

31. Figure 2-44 Neutrophils leave the blood and migrate to sites of infection Watch “The Inner Life of the Cell” (link on Bi1 website) Main points: If nothing is wrong, neutrophils travel at high speed through the blood. If there is an infection somewhere, macrophages produce alarm molecules that cause proteins on the endothelial cells* to be expressed. These new proteins bind weakly to sugars on the neutrophils, causing the neutrophils to slow down, but not stop (they roll along the endothelial surface). By moving slowly, they have a chance to find the infection site. When the neutrophil comes to a site near the infection, it stops because inflammatory signals at the infection site induce proteins on it and the nearby endothelial cells that bind tightly to each other. The neutrophil now squeezes through the endothelium to get to the site of infection.*endothelial cells: cells lining blood vessels

32. Leukocyte rolling and migration through blood vessel walls