1. Chapter 4
A Tour of the Cell
Fine Points of the Chapter

2. Cytology: science/study of cells Link between Cytology and Biochemistry (form/function)
Light microscopy
Resolving power - measure of clarity
Resolution – minimum distance two points can be separated and still distinguished as two separate points
Magnification – ratio of an objects image to its real size
Various Staining or Resolving Methods (ex. brightfield, phase-contrast, differential-interface contrast, flourescence, confocal)
Electron microscopy
•TEM - electron beam to study cell ultrastructure
•SEM - electron beam to study cell surfaces

3. Cell fractionation cell separation based on mass of organelle; organelle study - Homogenate cells - Ultracentrifuge - cell fractionation; 130,000 rpm - Form “Pellets” - Decant “Supernatant” - Continue

4. Cell size
As cell size increases, the surface area to volume ratio decreases
Rates of chemical exchange may then be inadequate for cell size
Cell size, therefore, remains small

5. Cell Types: Prokaryotic
Nucleoid: DNA concentration
No organelles with membranes
Ribosomes: protein synthesis
Plasma membrane (all cells); semi-permeable
Cytoplasm/cytosol (all cells)

6. The Endosymbiotic Theory
Mitochondria and chloroplasts were formerly from small prokaryotes living within larger cells (Lynn Margulis)

7. Peroxisomes Single membrane Produce hydrogen peroxide in cells
Metabolism of fatty acids; detoxification of alcohol (liver)
Hydrogen peroxide then converted to water

8. Extracellular matrix (ECM)
Glycoproteins:
• proteins covalently bonded to carbohydrate
Collagen (50% of protein in human body) •embedded in proteoglycan (another glycoprotein-95% carbohydrate)
Fibronectins
•bind to receptor proteins in plasma membrane called integrins (cell communication?)

9. Intercellular junctions
PLANTS:
Plasmodesmata:
cell wall perforations; water and solute passage in plants
(cytoplasmic streaming)
ANIMALS:
Tight junctions - fusion of neighboring cells; prevents leakage between cells
Desmosomes - riveted, anchoring junction; strong sheets of cells
Gap junctions - cytoplasmic channels; allows passage of materials or current between cells

10. Cilia/flagella Locomotive appendages Ultrastructure: “9+2”
•9 doublets of microtubules in a ring
•2 single microtubules in center
•connected by radial spokes
•anchored by basal body
•dynein protein

11. EUKARYOTIC FLAGELLA
Cell Locomotion via Cilia and Flagella Cilia and flagella, which extend from the plasma membrane, are composed of microtubules, coated with plasma membrane material. Eukaryotic cilia and flagella have an arrangement of microtubules, known as the arrangement (9 pairs of microtubules (doublets) around the circumference plus 2 central microtubules). "Spokes" radiate from the microtubules towards the central microtubules to help maintain the structure of the cilium or flagellum.
Each of the microtubule doublets has motor molecule "arms", the dynein arms, which can grip and pull an adjacent microtubule to generate the sliding motion. (The protein of this motor molecule is dynein.)

12. A bacterial flagellum has 3 basic parts: a filament, a hook, and a basal body.
1) The filament is the rigid, helical structure that extends from the cell surface. It is composed of the protein flagellin arranged in helical chains so as to form a hollow core. During synthesis of the flagellar filament, flagellin molecules coming off of the ribosomes are thought to be transported through the hollow core of the filament where they attach to the growing tip of the filament causing it to lengthen.

13. 2) The hook is a flexible coupling between the filament and the basal body
3) The basal body consists of a rod and a series of rings that anchor the flagellum to the cell wall and the cytoplasmic membrane. Unlike eukaryotic flagella, the bacterial flagellum has no internal fibrils and does not flex. Instead, the basal body acts as a molecular motor, enabling the flagellum to rotate and propell the bacterium through the surrounding fluid. In fact, the flagellar motor rotates very rapidly. (The motor of E. coli rotates 270 revolutions per second!)

14. Flagella beating pattern
(a) Motion of flagella. A flagellum
usually undulates, its snakelike
motion driving a cell in the same
direction as the axis of the
flagellum. Propulsion of a human
sperm cell is an example of
flagellatelocomotion (LM).
1 µm
Direction of swimming
Figure 6.23 A

15. Ciliary motion Figure 6.23 B (b) Motion of cilia. Cilia have a back-
and-forth motion that moves the
cell in a direction perpendicular
to the axis of the cilium. A dense
nap of cilia, beating at a rate of
about 40 to 60 strokes a second,
covers this Colpidium, a
freshwater protozoan (SEM).
Figure 6.23 B
15 µm

16. Cross section of basal body
Cilia and flagella share a common ultrastructure
(a)
(c)
(b)
Outer microtubule
doublet
Dynein arms
Central
microtubule
Outer doublets
cross-linking
proteins inside
Radial
spoke
Plasma
membrane
Microtubules
Basal body
0.5 µm
0.1 µm
Cross section of basal body
Triplet
Figure 6.24 A-C

17. The protein dynein
Is responsible for the bending movement of cilia and flagella
Microtubule
doublets
ATP
Dynein arm
Powered by ATP, the dynein arms of one microtubule doublet
grip the adjacent doublet, push it up, release, and then grip again.
If the two microtubule doublets were not attached, they would slide
relative to each other.
(a)
Figure 6.25 A

18. they are physically restrained by proteins, so they bend. (Only two of
Outer doublets
cross-linking
proteins
Anchorage
in cell
ATP
In a cilium or flagellum, two adjacent doublets cannot slide far because
they are physically restrained by proteins, so they bend. (Only two of
the nine outer doublets in Figure 6.24b are shown here.)
(b)
Figure 6.25 B

19. Localized, synchronized activation of many dynein arms probably causes a bend to begin at the base of the Cilium or flagellum and move outward toward the tip. Many successive bends, such as the ones shown here to the left and right, result in a wavelike motion. In this diagram, the two central microtubules and the cross-linking proteins are not shown.
(c) 1 3 2
Figure 6.25 C