AP Biology Unit 2

Cells
Today’s Plan: 9/10/19
 Bellwork: Look at test/discuss points (25 mins)
 Microscopy prelab (15 mins)
 Go over microscope use (15 mins)
 Microscopy lab (the rest of class)
Today’s plan: 9/11/19
 Bellwork: Finish Microscope lab (20 mins)
 Write Organelle Speed-Dating Profile for your assigned
organelle (40 mins)
 Notes on organelle systems (20 mins)
Today’s Plan: 9/12/19
 Bellwork: Get ready for speed dating (5 mins)
 Organelle Speed dating (40 mins)
 Rules: Two people will sit at each table
 You have 2 mins to share your information while the other person
records (person near the middle goes first)
 You have 2 mins to record information while the other person shares
 When 4 mins are up, The person near the middle moves clockwise to
the next table
 We repeat this until the middle person returns to his/her original
seat
 Discussion and compatibility rating, fill in remainder of the chart
(the rest of class)
Today’s Plan: 9/13/19
 Bellwork: Cell Surfaces notes (15 mins)
 Set up/Run party gel (the rest of class
 Organelle Claims Activity-while party gel runs (the rest of
class)
Today’s Plan: 9/16/19
 Bellwork: Wrap up discussion of SA:V and finish up claims
work (30 mins)
 Membrane Structure POGIL (40 mins)
 Wrap-up membrane structure (the rest of class)
 Cell Theory
•All living things are composed of cells.

•The cell is the basic unit of organisms.

•Cells come from preexisting cells.

Q. Where did the first cells come from?

A. Remember Miller – Urey?
Cells Intro
 Until the advent of the electron microscope, only the nucleus and membrane
were known
 Chemical analysis and cell fractionation gave us some clue as to the chemical
make up of cells
 The human eye is unable to detect things smaller than .1mm
 Eukaryotic cells range from 10-100 micrometers
 Prokaryotic cells run from 1-10 micrometers, but the smallest are almost
100 nm
 Most cellular organelles are about the size of bacteria, however, a few, like
the ribosome, are smaller still
http://learn.genetics.utah.edu/content/begin/cells/scale/
2 Main Cell Types
 Prokaryotes
 No nucleus or membrane-bound organelles
 Has a region called the nucleoid for its genetic
material
 Only Archaea and Bacteria are prokaryotic
 Eukaryotes
 Have a nucleus and an array of membrane-bound
organelles
 Because of the membrane system, cell parts are
compartmentalized and division of labor is more
efficient. All organelles work together to help the cell
function.
Figure 6.5

Fimbriae

Nucleoid

Ribosomes

Plasma
membrane
Bacterial
chromosome Cell wall

Capsule

0.5 m
(a) A typical Flagella (b) A thin section
rod-shaped through the
bacterium bacterium Bacillus
coagulans (TEM)
Figure 6.8a

ENDOPLASMIC RETICULUM (ER)

Nuclear
Rough Smooth envelope
Flagellum ER ER NUCLEUS
Nucleolus
Chromatin
Centrosome
Plasma
membrane
CYTOSKELETON:
Microfilaments
Intermediate filaments
Microtubules
Ribosomes

Microvilli
Golgi apparatus
Peroxisome

Mitochondrion Lysosome
Nucleus
 Contains the genes responsible for cell function
(chromatin-uncoiled, tangled, DNA mass)
 Contains Nucleolus which makes the rRNA & ribosomes
 Nuclear pores in the nuclear envelope allow RNA and
ribosomes to pass to the cytoplasm for making proteins
 Free ribosomes usually make proteins to be used
within the cytoplasm
 Bound ribosomes usually make proteins that need
packaging
 Nuclear envelope is lined with the nuclear lamina-a
network of proteins that help the nucleus maintain its
shape
Figure 6.9
1 m
Nucleus
Nucleolus

Chromatin

Nuclear envelope:
Inner membrane
Outer membrane
Nuclear pore

Rough ER
Pore
complex
Surface of nuclear
envelope Ribosome

Close-up
0.25 m

of nuclear Chromatin
envelope
1 m

Pore complexes (TEM)

Nuclear lamina (TEM)

The Endomembrane System
 Endoplasmic Reticulum (ER)
 Vast network of membrane and sacs called cisternae

 Consists of approximately ½ of the total membrane of

the cell

 Smooth=no bound ribosomes, synthesizes lipids,

metabolizes glucose and detoxifies drugs/poisons

 Rough=bound ribosomes, thread emerging proteins

they make through the cisternal space into the internal
part of the ER, release secretory proteins in transport
vesicles to the Golgi apparatus, makes membranes
Figure 6.11
Smooth ER
Nuclear
envelope
Rough ER

ER lumen
Cisternae Transitional ER
Ribosomes
Transport vesicle
200 nm
Smooth ER Rough ER
 Golgi Apparatus
 Part of the endomembrane system that consists of
flattened membranous sacs (cisternae)
 “Warehouse”: sorts, modifies, packages, and ships
the products of the ER
 Synthesizes some polysaccharides & lysosomes
 “Polarity” exists because of the 1-way movement
through the cisternae as ER products pass in
through the cis face & out through the trans face of
the sac
Figure 6.12

cis face
(“receiving” side of 0.1 m
Golgi apparatus)
Cisternae

trans face
(“shipping” side of TEM of Golgi apparatus
Golgi apparatus)
Lysosomes and Vacuoles
 Lysosomes are sacs for storage of hydrolytic enzymes
 These enzymes work best in an acidic environment, so
H+ are pumped into the lysosome
 Can digest external elements that are brought into the
cell (intracellular digestion) or can digest old, worn-out
cell components (autophagy)
 Helps cells to continually renew themselves
 Tay-Sachs disease-occurs when lysosomes lack a lipid-
digesting enzyme and causes brain impairment
 Vacuoles are membrane sacs for general storage
 Food vacuoles (part of intracellular digestion)
 Contractile vacuoles (pump water out of the cell)
 Central vacuole (in plants)
 Plays a part in cell’s growth
 Stores water & pigments
 Allows for larger surface area to volume ratio
Figure 6.13

1 m Vesicle containing
Nucleus two damaged 1 m
organelles

Mitochondrion
fragment

Lysosome Peroxisome
fragment

Digestive
enzymes
Lysosome

Lysosome
Plasma membrane Peroxisome

Digestion

Food vacuole Mitochondrion Digestion

Vesicle

(a) Phagocytosis (b) Autophagy

Figure 6.14

Central vacuole

Cytosol

Central
Nucleus vacuole
Cell wall
Chloroplast
5 m
 Other Organelles

These are NOT part of the endomembrane system,

but some are membrane-bound.
Ribosomes
 Made of rRNA & protein
 Carry out protein synthesis
 Can be free floating or attached to ER
Figure 6.10

0.25 m

Free ribosomes in cytosol

Endoplasmic reticulum (ER)
Ribosomes bound to ER
Large
subunit

Small
subunit
TEM showing ER and
ribosomes Diagram of a ribosome
 Energy Organelles-We’ll circle back to
these…..
 Mitochondria
 Generates ATP during the last 2 stages of aerobic cellular respiration
 Consists of 2 membranes. Outer membrane smooth. Inner
membrane folded into cristae, one compartment called the
intermembrane space, inside part called the matrix,
 Contain enzymes needed for ATP production
 Folds increase surface area & increase productivity of the cell
 Number depends on cell’s level of metabolic activity
 Chloroplasts
 Capture light energy & convert it to chemical energy (photosynthesis)
 Contain chlorophyll (green plant pigment, type a is most common)
 Double outer membrane
 Contains membranous discs called thylakoids that are stacked into
grana-chlorophyll is embedded on the thylakoid membranes
 Contains fluid called stroma that surrounds the thylakoids
Figure 6.17

10 m
Intermembrane space
Outer Mitochondria
membrane

DNA

Inner
Free Mitochondrial
membrane
ribosomes DNA
in the Cristae
mitochondrial Nuclear DNA
Matrix
matrix
0.1 m
(a) Diagram and TEM of mitochondrion (b) Network of mitochondria in a protist
cell (LM)
Figure 6.18

Ribosomes 50 m
Stroma

Inner and outer

membranes
Granum

Chloroplasts
(red)
DNA
Thylakoid Intermembrane space 1 m
(a) Diagram and TEM of chloroplast (b) Chloroplasts in an algal cell
Vessicle-Like organelles
 Peroxisomes-Small, round and enclosed by a single
membrane. Peroxisomes contain catalase, an enzyme that
breaks down hydrogen peroxide, a toxin produced during
some chemical reactions. Peroxisomes can also break down
fatty acids and amino acids.
 Recall that a vesicle is a small sac made from a pinched
membrane. Vesicles are distinguished from vacuoles by virtue
of the fact that they often fuse with other membrane-bound
organelles and dump their contents into them. Vesicles and
organelles that resemble them are round and virtually
indistinguishable from one another under a microscope.
Cellular scaffolding
 Cytoplasm (cytosol) –Jelly-like fluid that suspends all
organelles. It’s the site of some chemical reactions in the cell
 Cytoskeleton-Network of proteins inside of the cell. Acts like
a monorail along which vesicles can move, and also holds the
cell into its shape.
 ECM (Extracellular Matrix)-A network of molecules outside
of the cell which connects to proteins within the membrane,
which, in turn, connect to the cytoskeleton
Figure 7.5

Fibers of extra-
cellular matrix (ECM)

Glyco- Carbohydrate
protein
Glycolipid
EXTRACELLULAR
SIDE OF
MEMBRANE

Cholesterol

Microfilaments Peripheral
of cytoskeleton proteins
Integral
protein
CYTOPLASMIC SIDE
OF MEMBRANE
Cell movement
 Cillia/Flagella-hairlike projections for movement

 Pseudopods-projections of the membrane with cytoplasmic

streaming for movement
 Cell Surfaces
 Cell Wall
 Structural
 In plant cells, made of cellulose
 Some Bacteria, some Protists & Fungi also have cell walls
 In plants, the cell walls have plasmodesmata (channels)
to allow for cytoplasmic exchange between cells.
 Cell membrane
 All cells have a cell membrane or plasma membrane (same
thing)
 Gap junctions in animal cells function like plasmodesmata in
plant cells
Cell surfaces Images
 Gap junction:

 Plasmodesmata:

 Tight Junction:

 Desmosomes:
Today’s Plan: 9/16/19
 Bellwork: Wrap-up Sa:V discussion and finish claims activity
(20 mins)
 Membrane structure POGIL (30 mins)
 PM Notes (the rest of class)
 Cell transport lab Part 1: “party gel”
 Purpose/Question: How does the size/shape of a gel block impact the rate at which a
solution moves into it?
 Reword the purpose:
 Procedure:
1. Place shapes/cut-outs of agar into the empty watch glass.
2. Slowly pour HCl over the cut-outs.
3. Start timer. Create a data table.
Shape- 3 minutes 6 minutes 9 minutes 12 15 18 21
give observation minutes minutes minutes minutes
dimens
ions

4. Take pictures for your lab report posting. Work on the Organelle Claims activity
while while you’re gathering data.
5. Discuss your variables and constants with your group while waiting.
6. Did surface area and volume play a role in your results?
7. Share and record data with one other group.
 Surface Area & Volume
 All materials needed by cells have to enter through plasma(cell)
membrane
 When volume increases, surface area cannot keep up even though
demand for resources increases
 Restricts cell size
 Smaller cells have more favorable surface area to volume ratio
 Examples:
 Plant root hairs-increase surface area of root epidermis for increased
absorption of minerals & water
 Microvilli-increase surface area of intestines for increased absorption
of nutrients
Plasma(Cell) Membrane Structure
 Selectively permeable because of structure

 Phospholipids are the basic membrane molecules

 They contain a phosphate (hydrophilic) head and 2 fatty acid tails
(hydrophobic)-amphipathic (has both hydrophilic and phobic parts)

 Form bilayers so that the lipid tails are always isolated from
water.

 Chemical analysis reveals that proteins are present as well. It

was originally believed that the proteins coated the inner and
outer surfaces of the P.M.
 However current understanding is that proteins of the plasma
membrane also have hydrophobic and hydrophilic regions, and therefore
transect the P.M
Figure 7.2

WATER
Hydrophilic
head

Hydrophobic
tail

WATER
 The Fluid Mosaic Model of the P.M.
 Phospholipids within the P.M. aren’t static, they shift laterally
past one another because the interactions of these molecules
are weaker than covalent bonds-Fluid
 Proteins appear to be directed by the cytoskeleton below the PM

 Besides phospholipids and proteins, cholesterol is embedded in

the membrane-Mosaic
 This lends stability to the membrane by reducing the fluid nature of the
membrane at high temps and keeps the phospholipids from compacting
at low temperatures and solidifying-this would reduce its permeability

 Glycoproteins & Glycolipids also part of structure

 Carbohydrates covalently bonded with proteins or lipids
Figure 7.5

Fibers of extra-
cellular matrix (ECM)

Glyco- Carbohydrate
protein
Glycolipid
EXTRACELLULAR
SIDE OF
MEMBRANE

Cholesterol

Microfilaments Peripheral
of cytoskeleton proteins
Integral
protein
CYTOPLASMIC SIDE
OF MEMBRANE
Membrane Proteins
 Integral proteins (embedded)
 Transect the membrane (either entirely or partially)
 These can be hydrophilic or hydrophobic

 Peripheral proteins
 Bound loosely to the surface of the PM (or embedded proteins)
Figure 7.3

Phospholipid
bilayer

Hydrophobic regions Hydrophilic

of protein regions of protein
Membrane Functions
 Transport-to maintain homeostasis
 Enzymatic activity-enzymes embedded in membranes that do
metabolic processes (ATP synthase)
 Signal transduction-a binding site on a receptor protein may
chemically change when bound, transmitting the signal to the
inside of the cell
 Intercellular joining-proteins link together cells (desmosomes)
 Recognition-glycoproteins on cell surfaces may bind to sites on
adjacent membrane proteins so that the cells may recognize one
another
Figure 7.10
Signaling molecule

Receptor
Enzymes

ATP
Signal transduction
(a) Transport (b) Enzymatic activity (c) Signal transduction

Glyco-
protein

(d) Cell-cell recognition (e) Intercellular joining (f) Attachment to

the cytoskeleton
and extracellular
matrix (ECM)
Today’s Plan: 9/17/19
 Bellwork: Membrane Function POGIL (30 mins)
 Go over Transport (30 mins)
 Unit 2 FRQ Progress check questions (the rest of class)
 Transport across membranes
 Hydrophobic core-
 Barrier for most polar substances (except very small, really important
ones. Do you know a molecule like that?)
 Small non-polar molecules like oxygen gas, carbon dioxide, and
hydrocarbons, and nitrogen gas can pass though

 Large polar molecules & ions must use embedded channel or

transport proteins to get in

 Water passes freely though lipids or moves through proteins

called aquaporins
Concentration and transport Rules
 Concentration gradient= difference in concentrations

 Diffusion rule= particles move from _High_ to _Low__

concentration until they reach _dynamic equilibrium__
(movement with a concentration gradient)

 Osmosis=Is the diffusion of WATER with a concentration

gradient

 Diffusion of solid particles and diffusion of water (Osmosis)

are both forms of PASSIVE TRANSPORT. Require no
energy.
Figure 7.13
Molecules of dye
Membrane (cross section)

WATER

Net diffusion Net diffusion Equilibrium

(a) Diffusion of one solute

Net diffusion Net diffusion Equilibrium

Net diffusion Net diffusion Equilibrium

(b) Diffusion of two solutes
Figure 7.14
Lower Higher Same concentration
concentration concentration of solute
of solute (sugar) of solute

Sugar
molecule

H2O

Selectively
permeable
membrane

Osmosis
Concentration descriptors
 Hypertonic solutions= concentration of solute is higher outside
the cell than inside (water potential is lower)
 Ex: Salt water

 Hypotonic solutions= concentrations of solute is lower outside

the cell than inside (water potential is higher)

 Isotonic solutions= concentrations of solutes are equal inside &

outside the cells (water potential is equal to cell)

 Remember, Hypotonic and hypertonic work in pairs! If the cell’s

environment is hypotonic to the cell, the cell is hypertonic to the
environment (and vice-versa)
 Examples
 Cell’s cytoplasm is 12% salt.

 Place the cell in a solution of 20% salt. What type of

environment have you created?

 Place the cell in a solution of 5 % salt. What type of environment

have you created?

 Place the cell in a solution of 12% salt. What type of

environment have you created?
 Osmoregulation
 Cells have to constantly regulate water uptake and loss or there
are consequences (bad for animal cells)
 Lysis occurs if too much water flows in (some cells have
contractile vacuoles to cope with this)

 Shriveling and dehydration occur if too much water is lost from

the cell (plasmolysis in plant cells occurs when this happens and
the PM pulls away from the cell wall)

 SAT word: Crenation

Figure 7.15

Hypotonic Isotonic Hypertonic

solution solution solution
(a) Animal cell
H2O H2O H2O H2O

Lysed Normal Shriveled

H2O Cell wall H2O H2O H2O

(b) Plant cell

Turgor Pressure Plasmolysis

Osmosis
Today’s Plan: 9/18/19
 Bellwork: I’ve mixed up solutions of varying molarity
 Distilled water, 0.2M, 0.4M, 0.6M, 0.8M, 1.0M
 Figure out how to put these in order and identify the solutions
 Once lab is set up, we need to go on with Water Potential
Calculations and practice, then the rest of transport
Today’s Plan: 9/19/19
 Bellwork: Get final masses on your potatoes and clean up (15
mins)
 When you finish, log into AP classroom and do the FRQ
progress check, QUESTION #2 (10 mins)
 Discuss question and water potential with practice (20 mins)
 Work on lab poster (the rest of class)
Water movement depends on the ‘water potential’.
Water potential is the free energy per mole of water
and is calculated with two components:
 Solute potential (osmotic potential)
= - iCRT

i=ionization constant-opportunity to ionize

C=molar concentration
R=pressure constant (.0831)
T=temperature in K (C + 273)

NEGATIVE!!!
Why? Because the more solids that are in water the less likely the water is to move. Think about a cell in salty water….

 Pressure potential
 Solutions in an open beaker have a pressure potential of zero.
 Plant cells begin with a low pressure potential that increases as water moves into the cell due turgor pressure.

 Add these factors to determine the water potential of a solution.

 Pure water in an open beaker has a water potential = 0.
 Water moves from higher potential to lower potential.
 Practice:
 What is the solute potential of a 0.15 M solution of glucose at 25° C?
 What is the water potential of the 0.15 M glucose solution in an open
container with an atmospheric pressure of zero?

 Calculate the solute potential of a 0.1 M NaCl solution at 25° C.

 If the concentration of NaCl inside the plant cell is 0.15M, which way will
the water diffuse if the cell is placed into the 0.1 M NaCl solution?

 What must the turgor pressure build to if there is to be no net osmosis

between the solution and the cell?
Protein-Facilitated Diffusion
 Some proteins can change shape (enzyme-style) when molecules
that need transport bind to specific sites
 Moves charged & polar molecules (not water) through membrane
 Carrier Proteins

 Channel proteins are like tunnels connecting the outside of the

cell with the inside

 This is done with a concentration gradient and therefore requires

no energy (passive transport)
 Ex: Glucose movement
Figure 7.17

EXTRACELLULAR
FLUID

(a) A channel
protein

Channel protein
Solute
CYTOPLASM

Carrier protein Solute

(b) A carrier protein

 Active Transport
 Goes against a concentration gradient
 Moves things from areas of low concentration to high
 Requires energy

 May use proteins to move molecules

 Ex:
 Sodium/Potassium Pump (Na/K)
 Exchanges Na for K

 Endocytosis-cell takes in macromolecules & other particles by forming vesicles from

the PM
 Taking in cholesterol for membrane synthesis

 Exocytosis-cell releases particles using internal vesicles (made by the Golgi) that fuse
with PM to release contents out of cell
 Ex: pancreas cells releasing insulin
Figure 7.19
Passive transport Active transport

Diffusion Facilitated diffusion ATP

Figure 7.22

Phagocytosis Pinocytosis Receptor-Mediated Endocytosis

EXTRACELLULAR
FLUID
Solutes

Pseudopodium Receptor
Plasma Ligand
membrane
Coat proteins

Coated
“Food” or pit
other particle
Coated
vesicle

Vesicle
Food
vacuole

CYTOPLASM
Today’s Plan: 9/20/19
 Bellwork: FRQ #2 and discussion (20 mins)
 Endosymbiosis article and discussion/notes (20 mins)
 Finish poster and turn it in (the rest of class)
The origin of biochemicals. . .
 Miller & Urey experiment
 Concluded complex
molecules could arise
spontaneously from
conditions on early earth
 Amino acids, formaldehyde,
hydrocarbons
 Endosymbiont Theory
 Read the article and answer the following in Complete Sentences:
 Describe and draw the endosymbiont theory in your own
words.
 Which organelles are believed to have come from
endosymbiosis? What is the evidence of this?
 Define “engulf ”.
 How did the host cell benefit from endosymbiosis?
 The first organisms on Earth were prokaryotic/eukaryotic
and needed oxygen/did not need oxygen.
 How did this and the formation of the nucleus (see pics), lead to
compartmentalization within the cell? What’s the advantage of
compartmentalization?
The formation of the eukaryotic cell. . .