General Biology I Lab Manual
General Biology I Lab Manual
Table of Experiments
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Bio111L General Biology I
Week 1, Day 1
Name:
Observations and questions asked at the start of any scientific investigation are based on
curiosity of personal observations or derived from unexplained data from previous studies.
While common questions refer to explanations of specific observations such as “Why can birds
fly but we cannot?”, the scientific method can also include questions as open-ended as “Can
we find a cure for all types of cancer?” or even those that aim to reconstruct past events like
“What happened in this ancient site a million years ago?”.
Let’s follow an example study to help illustrate the scientific method. An investigator observed
that patients with a particular cancer tended to also have a high intake of artificial sweetener.
She then questioned “Is there a link between artificial sweeteners and cancer?”
Hypotheses are then formulated based on previous knowledge or experiences about the natural
phenomenon. The hypothesis aims to explain the observations and questions in a testable way.
To be scientifically useful, however, it has to be falsifiable. This means that one can envision
an experimental result that conflicts with predictions derived from the hypothesis; otherwise, it
cannot be meaningfully tested.
In our example study, the investigator hypothesized that artificial sweeteners increased the risk
for cancer.
Predictions are logical consequences of the hypothesis. They state what the outcome should
be if the hypothesis is true. One or more of them could be derived from the same hypothesis.
The more specific and measurable they are, the more easily they can be tested.
In our example study, the prediction is that more rats that were fed sweeteners would develop
cancer compared to the rats not fed sweeteners.
Usually the hypothesis is written as the “if” statement and is followed by the prediction which
is the “then” statement. For example, if artificial sweeteners increased the risk for cancer,
then more rats that were fed sweeteners would develop cancer compared to the rats not fed
sweeteners.
Experiments, or hypothesis-testing, are the next step that investigates whether the real world
behaves as predicted by the hypothesis. If observations of the real world agree with the
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agreement does not assure that the hypothesis is true because future experiments may reveal
different results. Knowledge in science is never absolute. They are as good as the most
recent evidence. The most reliable way to test hypotheses is by conducting experiments that
minimize potential errors, preferably through the use of appropriate control groups. A
control group is a group that is not exposed to the variable being tested. It serves as a
comparison to the experimental group which is exposed to the variable being tested. Any
difference in outcome between the two groups is due to the variable being tested. In this
experiment, the independent variable is the one being tested. The outcome, or what is
being measured, is the dependent variable.
In our example study, 100 rats were tested. All conditions were the same except that the
investigator fed 50 rats with the sweeteners (experimental group) and 50 rats without sweetener
(control group). The independent variable is the amount of sweetener. The dependent variable
is the number of rats that got cancer. In this case, 15 rats in the experimental group got cancer.
Two rats in the control group got cancer.
Do our results support our hypothesis and prediction? If artificial sweeteners increased the risk
for cancer, then more rats that were fed sweeteners would develop cancer compared to the rats
not fed sweeteners. Yes, our results match the prediction therefore we support the hypothesis.
Results include the data that are the facts or values collected from the experiment. In the rat
cancer study, the results are the numbers of rats with and without cancer for each group.
Discussion and Conclusions are interpretations made based on the results. When discussing
the data, scientists compare the actual results to the original prediction that is based on the
hypothesis. If the results and prediction match, then the hypothesis is supported. Otherwise, the
hypothesis is rejected, and needs to be revised. The conclusion can address the applications and
greater importance of the study.
In the above study, the discussion addresses that the hypothesis that artificial sweeteners
increased the risk of cancer was supported. In conclusion, these findings are important because
it suggests that one might choose to not intake as much artificial sweeteners.
Purpose
Review the steps of the scientific method
Analyze a case study that used the scientific method
Materials
Case study: The Strange Case of BeriBeri
Procedure
1. Read the case study.
2. Answer the questions.
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Discussion/Conclusion
1. What was the observation and question asked that led to this investigation?
3. Briefly describe the experiment that the scientists performed to test the hypothesis
and prediction.
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Week 1, Day 1
Name:
Experiment 2: Metrics
Background
In the United States our measurements are usually based on the imperial system from
Great Britain. This British system of measurements which includes units such as feet, pounds
and gallons has deep historical roots. For example, the foot is thought to be the length of the
th
foot of King Henry I of England in the 12 century whereas the pound is based on the Roman
word libra (lb) which is the equivalent to the weight of 7,000 grains. Scientists, however,
decided to adopt a different measurement system because of its tremendous advantages. The
metric system (see table 1), the most commonly used system worldwide, not only covers a
large scale, its measurements are also in consistent units of 10 (see table 2) which makes
calculations simpler.
Since many people in the United States are used to the imperial system, we must become
familiar with the metric system. Often we need to convert between the two systems. Below are
some helpful conversions.
The following activity will help you review the scientific method as well as work with the metric
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system.
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Bio111L General Biology I Lab
Title:
Background
Observation and question: People have observed that a person with a longer upper or lower
limb tends to be taller. We then asked the question: “Is there a constant ratio of upper limb length
to height?” The upper limb spans from the armpit to the end of the fingertip.
Hypothesis and prediction: If the ratio of upper limb length to the height of the person is
constant, then all subjects will have the same ratio for upper limb length to height.
Purpose
Use the metric system
Review steps of the scientific method
Materials
1 meter stick 3-4 human subjects 1 calculator
Procedure
1. Pick one subject.
2. Subject puts right arm straight out (parallel to the ground).
3. Measure upper limb length (from arm pit to the end of the finger tip) in cm.
4. Record measurement in Table 1 below.
5. If subject does not know height, then measure height in inches and cm.
6. Practice converting height in inches to cm. Show work below.
7. Record height in cm in Table 1 below.
8. Calculate ratio of upper limb to height and record in Table 1 below.
Results
Average of all class subjects’ ratio of upper limb length to height was .
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1. Do your results support or reject the original hypothesis? Explain your answer.
2. Based on an analysis of your data and the class data, what conclusions can you make?
3. Describe one future experiment you would like to do to extend or make these findings more
reliable.
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Note: For metric system, know how to convert within the metric system (ie. meters to mm, mg
to grams). Also, know how to convert between the metric and imperial system.
3. Convert the value on the left into the unit indicated on the right of the equation
below. Show work.
a. 2,346 m = km
d. 208 mL = L
e. 2.67 kg = g
f. 80 nm = m
4. Joe weighs 152 pounds. What is his weight in kg? Show work. (1 kg = 2.2 pounds)
1
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Week 1, Day
2 Name:
Purpose:
To demonstrate solubility of different substances in water.
To determine the effect of adding detergent to a mixture of water and a
nonpolar substance.
Materials
Water
Vegetable oil
Potassium permanganate (KMnO4)
Detergent
Capped Test tube
Scoops for detergent & potassium permanganate (KMnO4)
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Procedure
Results
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Discussion/Conclusion
5. Using your knowledge of detergent’s molecular form, explain how detergent “cleans” our
greasy, dirty dishes?
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Week 1, Day
2 Name:
Experiment 4: Acids, Bases and pH
Background
You encounter acids and bases in everyday life. For example, orange juice is acidic
while bleach is basic. It is important to understand acids and bases in biology because both
greatly affect chemical reactions in living organisms.
+
Acids are chemical compounds that increase the amount of hydrogen ions (H ) in a
+ +
solution by releasing H . Bases, on the other hand, decrease the amount of H in solution by
+ + -
accepting H . Pure water (H2O), some of the molecules naturally separate into H and OH .
+ -
Thus, there is a small amount of free H in its solution that equals the amount of OH . This
+
condition is considered neither acidic or basic, but neutral. If there is a surplus of H compared
+
to pure water, the solution is acidic. If the amount of H is less than that of pure water, the
solution is basic.
The degree of acid or base in a solution is measured by the pH scale. The pH scale runs
+
from zero to fourteen. The value of pH depends on the amount of H in the solution. pH values
below 7 represent an acidic solution. The lower the pH value, the more acidic a solution is
+
and the greater the amount of H . A pH of 7 is neutral (e.g. pure water). pH values above 7
indicate basic solutions. The higher the pH value, the more basic solution a solution is and the
+
lower the amount of H . Because each pH value is actually an exponent of 10, for each whole
number increment in pH, you change by a factor of 10. For example, a solution that has a pH
+
of 5 is 10 times more acidic because it has 10x more H than a solution of pH of 6. A solution
+
with pH of 11 is 10 times more basic because it has 10x less H than a solution of pH of 10.
The pH value of a solution can be measured by pH meters or by certain dyes. Each of
these dyes undergoes a color change at a different point in the pH scale. A careful selection of
dyes permits determination of a broad range of pH. These are used to make pH paper. When
dipped in a solution, the pH paper will change color depending on the pH of the solution. By
comparing the color to a reference color chart, you can indicate the approximate pH of the
solution.
Purpose
Perform pH tests
Understand the pH scale
Discuss pH values encountered in biology
Materials
pH paper with reference color chart
Hydrochloric acid (HCl) (diluted and concentrated)
Sodium hydroxide (NaOH) (diluted and concentrated)
Distilled water
Samples: Lemon, Disinfectant, Vinegar, Apple Juice, Milk, Tap Water
Procedure
1. Take one strip of pH paper and dip it into the liquid sample.
2. Compare the color with the reference color chart.
3. Record the pH of the sample in the table below.
4. Indicate whether the pH is acid, basic or neutral.
5. Repeat for each sample.
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Discussion/Conclusion
1. Is the pH of a hydrochloric acid (HCl) solution greater than or less than the pH of water?
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Bio111L General Biology I Lab
Week 2, Day
1 Name:
Purpose
Identify parts of the microscope and their functions.
Use the microscope to view specimen.
Materials
Microscopes Lens paper and solution Slides: e, cross fibers
Procedure
1. Identify parts of the microscope. Please locate and review the following terms. Label
these terms on figure 1 on the next page.
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Please label the parts on the figure below that were listed previously.
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Total Magnification is the final magnification after the image passes through all of the
lenses. It is calculated by multiplying the magnification of the objective times the
magnification of the eyepiece. Please fill in table below:
Field of view is what you see when you look into the eyepiece. When drawing what you
see in the field of view, be sure to draw the size of the image relative to the field of view
and the details of the specimen. As the magnification increases, the area seen in the field of
view decreases. Less of the specimen is seen because it is more zoomed in on.
Resolution is the shortest distance at which two points can be distinguished. The higher the
resolution, the better the discrimination between two points which produces a finer image.
As the magnification increase , thes resolution also increases.
Depth of field is the range of depth that can be in focus on the specimen. When the depth
of field is smaller, less depth is in focus on the specimen. As the magnification increases,
the specimen is more zoomed in so the depth of field decreases.
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C. Use only lens paper to clean optical parts of the microscope, i.e. lenses.
Discussion/Conclusion
1. You put the letter “e” on the stage oriented as if you were reading it regularly. You look
through the eyepiece.
a. Draw how the “e” appears in your field of view at scanning, low and high power
objectives. Be sure to draw the size of the image relative to the field of view and
the details of the specimen.
d. If you move the object to the right on the stage, which way does it move in the field
of view?
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2. You put the cross fibers on the stage. You look through the eyepiece.
a. Draw how the fibers appear in your field of view at scanning, low and high
power objectives. Be sure to label the different colors.
3. Based on the two exercises above, why should you never start viewing your specimen on
the high power objective lens?
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Bio111L General Biology I Lab
Week 2, Day 1
Name:
Purpose
Prepare wet mounts of plant and animal cells for microscope observation.
Use the light microscope to compare and contrast the structure of plant vs. animal cells.
Materials
Microscope Cover Microscope
slides Elodea slips Medicine
plant Toothpick dropper
Methylene blue (or iodine) stain
Procedure:
1. Work in groups of 4. Two students prepare one slide for the plant cell.
The other two students prepare one slide for the animal cells.
2. After preparing and focusing your slide, each student should view both
the plant and animal slides.
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7. Sketch the cell at low and high power. Label observed organelles.
Choose one student to look at their cheek cells as an example of animal cells! Follow the
procedure below to create your own cheek cell slide.
1. Put a drop of methylene blue on a slide. Caution: methylene blue will stain clothes and skin.
2. Gently scrape the inside of your cheek with the flat side of a toothpick.
3. Stir the end of the toothpick in the stain and then throw the toothpick away.
4. Place a coverslip onto the slide by lowering it at a 45degree angle to prevent formation of
air bubbles.
5. Use the SCANNING objective to focus. You probably will not see the cells at this power
If you suspect cells, move them to the center of your field of view.
6. Switch to low power. Cells should be visible, but they will be small and look like
clear purplish blobs. Refocus and adjust lighting if necessary.
7. Once you think you have located a cell, move it to the center of your field of view. Then,
switch to high power and refocus. (Remember, do NOT use the coarse adjustment knob
at this point.)
8. Sketch the cell at low and high power. Label the observed organelles.
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Discussion/Conclusion
1. Why is methylene blue (or iodine) necessary when preparing the cheek cell slide? Why
was it not used for the Elodea slide?
2. Describe the shape of the plant cell. The light microscope used in the lab is not
powerful enough to view all organelles within the cell. List the organelles that were
visible.
3. Describe the shape of the cheek cell. What organelles of the cell were visible?
4. List visible similarities and differences between plant and animal cells.
5. What observations support the claim that plant and animal cells are eukaryotic?
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Bio111L General Biology I Lab
Week 2, Day 1
Name:
Hypothesis and prediction: If a food sample contains organic substances, then a test for the
presence of those substances using specific reagents will be positive.
Purpose: test for the presence of two types of carbohydrates (glucose, starch) and protein in
food samples.
Materials
Benedict’s solution Sugar solution Beakers
Iodine solution (diluted) Starch solution Stirring rods
Ninhydrin reagent (1%) Protein solution Wax Pencil
Food samples (diced) Disposable droppers Test tube
racks
Procedure
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Iodine Benedict’s Ninhydrin
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The instructor will then add the reagents, one at a time, to sugar, starch and protein solutions
to show whether a chemical reaction occurs.
The student will record the final color of the mixture in Table 5.1.
Table 1. Final Color of Reagents with Organic Substances
Starch
Protein
Interpret the previous table, determine the appropriate reagent for each organic substance and fill
in the table below.
Sugar
Starch
Protein
1. Prepare a water bath (beaker half-full with tap water) on a hot plate.
2. Take three samples of one type of food about the size of a small pea.
3. Grind the food into fine pieces then place the ground food into two separate test tubes and
one sample into a petri dish. Mark one of the tubes “B” for Benedict’s and the other tube
“N” for ninhydrin. Label the petri dish “I” for iodine.
4. Add one dropper full Benedict’s reagent to the food sample in tube “B” and one dropper
full ninhydrin to the food sample in tube “N”.
5. Heat tube “B” for 5 min. and tube “N” for 7 min. in the water bath. Record the color in
the table below.
6. Add iodine drops to cover the food sample in the petri dish. Wait 5 min. and record color
in the table below.
7. Choose another food sample and repeat steps 1-6.
8. Pool class results. The instructor will record the results from each group on the board so
each student can record data for all food samples tested in class.
9. Dispose food samples in a designated tub then wash the test tubes and petri dish.
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Discussion/Conclusion
1. Name example(s) for each item below and which organic substances are found in them
Table 5. Different Types of Foods and Organic Substances
Type of food sample Food sample Organic substance(s) present
unprocessed animal samples
unprocessed plant samples
processed food samples from animals
processed food samples from plants
3. Compare and contrast organic substances found in unprocessed versus processed foods.
5. Which types of food should be eaten by a person who wants to build up his/her
muscles? Briefly justify your answer.
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Week 2, Day 2
Name:
Catalas
e
(enzyme
)
H2 O2 H2O + O2
(substrate) (products)
Hypothesis and prediction: If catalase is present in the cells and functioning, then catalase
will break down H2O2 and oxygen gas (O2) will be released.
Purpose
To determine the presence of the enzyme, catalase, in plant and animal tissues inside
the cell.
To determine the effect of temperature on enzyme activity.
Materials
Ground potato (raw and boiled) Test tube racks
Ground liver (raw and boiled) Test Tubes
Hydrogen peroxide (3%) Forceps
Glass stir rods Disposable
pipettes Ruler with mm markings
Procedure
Set-up test tubes: Obtain 5 test tubes and label them H2O2 only, RL (for raw liver), CL
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(for cooked liver), RP (for raw potato) and CP (for cooked potato).
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Results
Raw liver
+ H2O2
Boiled
liver
+ H2O2
Raw potato
+ H2O2
Boiled
potato
+ H2O2
In the figure below, draw a bar graph of your results of the maximum height of bubbles after
10 seconds for each condition.
Maximum Height of Bubbles (mm)
H 2O 2 Raw
Boiled Raw Boiled potato
liver
liver potato + H2O2
+ H2O2
+ H2O2 + H2O2
Condition
Figure 9.1. Maximum Bubble Height for Reactions with Liver, Potato and H2O2
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Discussion/Conclusion
2. Recall that the 4 main organic substances are carbohydrates, lipids, proteins and nucleic
acids. Which organic substance are enzymes such as catalase made of?
b. Was catalase present in animal cells? Explain which result(s) supports your
answer.
c. Was catalase present in plant cells? Explain which result(s) supports your
answer.
f. Explain why the results were the same or different in raw and boiled tissues.
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Bio111L General Biology I Lab
Week 3, Day 1
Name:
Purpose
Demonstrate diffusion of substances across a model cellulose membrane.
Determine the effect of molecular size on the permeability of a model
cellulose membrane.
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Demonstrate osmosis in both a model cell and living cell.
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Materials
Osmosis
potato cork borer 10% salt solution tap water Two 250 ml beakers
Procedure
Set up for diffusion of starch and iodine across membrane
1. Obtain 1 piece of cellulose tubing approximately 10 cm in length. Open the tubing
by wetting it and rubbing. Tie a knot at one end of the tubing.
2. Pour the STARCH solution into the tubing almost to the top. Tie a knot, rubber band or
clip the open end. Rinse the outside of the tube to remove any residual starch. Make sure
the tubing does not leak. Record the initial color in the tubing in Table 8.1 below.
3. Fill the beaker halfway with tap water. Put tubing into beaker. Then add enough iodine
to turn the water a distinct yellow/amber color. Record initial color of water in beaker A
in Table 8.1 below. Place beaker aside for the rest of the lab period.
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Results
Osmosis in Potato
Table 8.2. Turgidity of potato in salt solution and water
Outside environment of potato Turgidity (turgid or flaccid?)
Control (out of water)
10% salt solution
Water
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Discussion/Conclusion
1. a. Did the iodine molecules diffuse across the membrane? Yes or No?
c. Explain why iodine diffused or did not diffuse based on difference in concentration of
iodine, size of iodine molecules and permeability of tubing membrane.
2. a. Did the starch molecules diffuse across the membrane? Yes or No?
c. Explain why starch diffused or did not diffuse based on difference in concentration
of starch, size of starch molecules and permeability of tubing membrane.
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Osmosis
3. a. Was the potato in the “water” beaker placed in a hypertonic, isotonic or
hypotonic environment?
4. a. Was the potato in the “salt water” beaker was placed in a hypertonic or
hypotonic environment?
5. Even though the potato cells have lost or gained water in each of the experiments, the
overall size of the potato columns did not change. Why not?
6. If you don’t want a soggy salad, why should you wait to put the dressing on just
before eating it? Explain using the concept of osmosis.
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Week 3, Day 2
Name:
In this exercise, yeast will be allowed to consume sugar containing protein under
anaerobic conditions to demonstrate fermentation. We will monitor the release of the end-
products, ethanol alcohol and carbon dioxide (CO2).
Hypothesis and prediction: If yeast is given sugar in the absence of oxygen gas, then they will
go through the process of fermentation to produce ethanol, carbon dioxide and ATP.
Materials
2.1 g baker’s yeast.
2.4 g Sugar in the Raw™
100 mL water
150 mL Shaker Flask
100 mL graduated cylinder
Trough
Rubber Stopper
Tubing (silicone)
Timer
Filter paper
Beaker
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Procedure
Flask Preparation
1. Add 100 mL of water to shaker flask. Warm up to 37ºC. If water reaches over 40ºC,
then let it cool down to under 40ºC.
2. Add yeast and sugar, one at a time, to the shaker flask with 100 mL warm water.
Gently swirl flask in between.
Apparatus Set-up
3. Completely fill 100 ml graduated cylinder with water past the 100 mL mark all the
way to the top.
4. Attach tubing to the trough. Fill tubing with water. Hold tubing up so water does not
leak out. Then fill trough ¾ full with water.
5. Invert the graduated cylinder and submerge it into the water in the tough over the
outlet. Be careful to keep as much water in the cylinder as possible.
6. Push rubber stopper onto the shake flask. Connect silicon tubing to the shaker flask.
Monitor Fermentation
7. On the Results sheet attached, record the starting CO2 volume in the graduated
cylinder in the Table 1 and Figure 1. This is run time 0 and begins when you insert
the rubber stopper and tubing onto the shaker flask.
8. Continue to record the CO2 volume in the graduated cylinder every 2 minutes for
30 minutes.
Note changes occurring inside the flask (ie. color, movement, volume) during
fermentation.
9. After experiment is completed, filter out the yeast using the funnel and filter paper.
After a thin layer of filtrate is present at the bottom of the beaker, observe the filtrate
for evidence of ethanol production.
Note: Human consumption of this experiment’s product is NOT ALLOWED!
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Results
Table 1. Yeast Fermentation Over Time
Run CO2 Observations (color, movement, volume)
Time released
(min.) (mL)
0
2
4
6
8
10
12
14
16
18
20
22
24
26
28
30
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Record your data on the graph below. Put time on the X-axis and CO2 released on the Y-axis.
Be sure to label your axes.
y-axis
x-axis
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Discussion/Conclusion
1. Describe all observations that demonstrate that fermentation occurred in this experiment.
2. What were the roles of the yeast, sugar and graduated cylinder in the fermentation
process? Yeast:
Sugar:
Graduated cylinder:
4. How can yeast fermentation be used in biotechnology to make useful products for humans?
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Week 3, Day
2 Name:
Materials
0
Isopropyl alcohol bath; (60 C) Coleus leaf Forceps
0
Water bath; (78 C) Iodine Beakers
Procedure
1. Obtain a fresh Coleus leaf and draw it. Note where the colors and color patterns are located.
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2. Place the leaf into a hot water bath until only the green color is left.
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3. Place the leaf into alcohol bath until the green color is removed and the leaf is
completely clear.Rinse in water bath and spread the leaf in Petri dish.
4. Saturate the leaf with iodine solution, followed by a rinse in cold water. Diagram the
leaf and note location of color patterns.
Discussion/Conclusion
1. The green areas in the leaf contained what pigment?
5. Blue/purple areas in the leaf after iodine was added contained what molecule?
6. a. Are the blue/purple areas found where the green sites used to be?
b.What does this result imply regarding chlorophyll function in a plant leaf?
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Week 3, Day 2
Name:
Background
Every hour, millions of your skin cells shed and millions of your red blood cells die.
These cells need to be replaced with new ones to maintain your skin and blood. They are just a
few examples of the many cells that compose a large organism. In addition, growth of
organisms from a single cell to adulthood involves an increase in number of cells. The basic
mechanism by which a body maintains itself, grows or repairs wounds is through cell division.
The cell’s life cycle is an orderly series of events in which one parent cell gives rise to two new
daughter cells, each which contain identical chromosomes to the parent cell. The phases of the
cell’s life cycle are divided into interphase, which has two gap phases in which a cell enlarges
as well as prepares to divide and an S phase, in which DNA is replicated. Mitosis is the
division of the nucleus into two identical ones and is traditionally divided into 4 phases:
prophase, metaphase, anaphase and telophase. Cytokinesis is the division of the cytoplasm and
occurs during telophase. The diagram below helps illustrate the cell cycle”
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Bio111L General Biology I Lab
Purpose
Demonstrate the 4 phases of mitosis using models.
Observe and draw the 4 phases of mitosis in onion root tip and fish embryo.
Describe events that occur in each phase of mitosis.
Materials
Mitosis models (2 long chromosome bead strands, 2 short chromosome bead strands, string,
centrioles)
Microscope
Onion (genus Allium) root tip slides
White fish blastula (embryo) slides
Procedure
Using mitosis models
Your instructor will work with each group one at a time, providing each group a model that will
demonstrate mitosis. Your group will be asked to simulate the 4 phases of mitosis and answer
questions about each phase. Your group will be evaluated based on how accurately your group
modeled mitosis and answered the questions.
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Allium (onion) Root tip
1. During what phase of the cell cycle does DNA replication occur?
3. During what 2 phases of mitosis are chromosomes each composed of two chromatids?
4. During what 2 phases of mitosis are chromosomes each composed of one chromatid?
7. Are the two cells created from cell division & mitosis the genetically identical or different?
8. Write the stages of the cell’s life cycle in order, starting with the stage immediately after
cytokinesis.
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Week 4, Day 1
Name:
DNA is the foundation of life. All living organisms including humans, monkeys, dogs,
plants, molds and bacteria have DNA. If it’s alive, it has DNA in its cells. What is so important
about DNA?
First, DNA functions as the hereditary molecule that is passed on from one generation of
cells or organisms to the next. DNA can do this because it has the ability to self-replicate
through DNA replication.
Second, DNA functions as the source of information for synthesizing each and every type
of protein the cell may need. In this process called gene expression, information is said to
“flow” from a gene in the DNA to a similar molecule called mRNA which is then used as a
template to make very specific types of proteins. Proteins make up all the tissues which give an
organism its structure (e.g. shape, texture) and function. They also serve as enzymes to enable
most necessary chemical reactions. Proteins are thus extremely critical to life.
DNA has a unique structure that allows it to function as the hereditary molecule and the
foundation for protein synthesis. Briefly, it consists of a double helix structure. Each of the
two strands of the double helix consists of a long string of nucleotides. There are four varieties
of nucleotides. Each nucleotide consists of a deoxyribose sugar, phosphate group and base.
There are four different types of bases: adenine (A), thymine (T), guanine (G) and cytosine (C)
(see Fig. 1 below). In the double helix, the two strands have complementary base-pairs,
which means that each base on one strand pairs specifically to another base on the second
strand. A pairs with T and G pairs with C. These base pairs and therefore the two strands are
held together by hydrogen bonds. This base-pair pattern is common across all life. These
nucleotides can be strung together in different sequences to form the DNA strand. It is this
variation in DNA nucleotide sequence that leads to variation in proteins made by the cells
which leads to the variation seen in different organisms.
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Bio111L General Biology I Lab
Figure 1. Four nucleotides with deoxyribose sugar, phosphate group and base (adenine,
thymine, guanine and cytosine)
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Bio111L General Biology I Lab
Purpose
Model and describe the structure of DNA
Model and explain the function of DNA in DNA replication and gene expression
Describe how DNA contributes to the diversity of life
Materials
1 DNA template strand
DNA polymerase
12 DNA nucleotides with
- Bases: A (orange), T (yellow), G (green), C (blue)
- phosphate group (red bead)
- deoxyribose sugar (white
bead) 3 Hydrogen bonds: clear
connectors RNA polymerase
12 RNA nucleotides with
- bases A (orange), U (purple), G (green), C (blue)
- phosphate group (red bead)
- ribose sugar (pink bead)
Large and small subunits of ribosome
tRNAs with amino acids and release factor
Procedure
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Bio111L General Biology I Lab
Note: You are only replicating one strand of DNA. In reality, both old strands are replicated.
Transcription Translation
DNA mRNA Protein
a. Transcription: DNA is used to make mRNA (messenger RNA) in the nucleus. Since DNA
and RNA are similar (both consists of nucleotides), this step is said to “transcribe” DNA
into mRNA. For this to occur, first RNA polymerase, an enzyme, unwinds the DNA and
uses one DNA strand as a template and makes a complimentary mRNA strand using base
pairs. This base-pair is the same as for DNA replication, except that A pairs with U instead
of T. After, mRNA is released, edited and exits the nucleus. *Note: mRNA also differs
from DNA because it is single, not double, stranded and uses ribose, not deoxyribose,
sugar.
b. Translation: mRNA is used as a template to synthesize the protein in the cytoplasm. Since
mRNA and proteins consist of entirely different building blocks (nucleotides vs. amino
acids), this step is said to “translate” mRNA into the language of proteins. For this to occur,
first a molecule called the ribosome binds to the mRNA. An mRNA codon (set of 3
nucleotides) within the ribosome binds to an anticodon (complimentary nucleotides to the
codon) on the tRNA molecule. The tRNA brings a specific amino acid according to the
genetic code (see Figure 3 below). Then the next codon on the mRNA goes through the
same steps to bring in another amino acid which then attaches to the previous amino acid.
Translation starts with the mRNA codon AUG. It ends with a release factor bind to a stop
codon (UAA, UAG or UGA). After translation, the string of amino acids, the new protein,
folds into its correct 3D structure.
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Bio111L General Biology I Lab
Translation:
5. Start at the beginning of your mRNA strand with the start codon: AUG, in the center of
the ribosome.
6. Write down the correct anti-codon sequence on the tRNA molecule that pairs with the
codon using base-pairs. Bring in the complimentary tRNA molecule. Write the correct
amino acid that it carries according to the genetic code (see Figure 3).
7. Place the large unit of the ribosome on top of the small subunit of the ribosome, mRNA
and tRNA molecules.
8. Circle the next codon on the mRNA sequence above. Shift your next codon on the
mRNA model to the center of the ribosome. The first tRNA is now shifted to the left end
of the ribosome.
9. Attach the new amino acid to the first amino acid. Remove the old tRNA molecule from
the ribosome.
10. Repeat steps 7, 9 and 10 for the third codon.
11. Stop when you reach your stop codon, UAG. There is no tRNA for this stop codon.
Instead there is a protein called release factor.
12. Detach your amino acid chain of 3 amino acids. This is your new protein!
13. Remove your mRNA strand from the ribosome.
14. Separate the large and small units of the ribosome.
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Discussion/Conclusion
1. Replication
a. Where does DNA replication occur in the cell?
b. What molecule serves as template for DNA replication?
c. What enzyme catalyzes the chemical reaction that adds nucleotides to a growing
DNA strand?
2. Gene Expression
Transcription
a. Where does transcription occur?
b. What section of the DNA serves as template for transcription?
c. What molecule is synthesized during transcription?
d. What is the substrate for synthesizing mRNA?
e. What enzyme catalyzes the reaction that adds nucleotides to a growing RNA strand?
Translation
f. Where does translation occur?
g. What molecule serves as template for translation?
h. What molecule is synthesized during translation?
i. What is the substrate for synthesizing proteins?
j. What organelle adds amino acids to the growing polypeptide (protein) strand?
Summary
Fill in the table below with the
1. DNA sequence of your “gene.”
2. sequence of the mRNA strand transcribed from your gene.
3. amino acid sequence of your “protein” translated from your mRNA.
4. name of the two processes of gene expression and their location.
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2. 2. Protein
(amino acids)
Week 4, Day 1
Name:
Results
b. Detergent
c. Salt
d. Contact solution
e. Alcohol (ethanol)
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Bio111L General Biology I Lab
b. Did this difference show up in your observations of your extracted DNA? Please explain
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Bio111L General Biology I Lab
Week 4, Day 1
Name:
One of the major breakthroughs that resulted from DNA discovery is DNA fingerprinting.
DNA fingerprinting has reshaped forensic science, and brought reliable evidence, which rightfully
placed many criminals behind bars. British geneticist, Dr. Alec Jeffreys, first developed DNA gel
electrophoresis in 1984. By using this procedure, you can distinguish one individual from the other
by the differences in their DNA sequences. Gel electrophoresis is a standard method used to
separate DNA fragments of different sizes. In this method, DNA fragments are cut by restriction
enzymes and then loaded on a gel made of agarose polymer, a chain of sugar molecules. An
electric field is created with a negative and positive end. Since DNA has a negative charge due to
its phosphate group, it will move from the negative to the positive end of the gel. The rate at which
a DNA fragment moves depends on its size. The smaller the DNA fragment, the faster and further
it travels down the gel. The larger the DNA fragment, the slower and less it travels down the gel.
Thus, the DNA fragments are separated based on size alone. Each individual will have different
size DNA fragments due to their different DNA sequences. So the pattern of DNA fragments on
the gel will be unique for each individual.
Materials
Procedure
1. Make the 1% Agarose Gel by grabbing a 250 mL beaker, filling it with 100 mL 1xTBE buffer
and then adding 1 gram of Agarose powder. Microwave in increments of 30 seconds until the
mixture is clear. Let the mixture cool a little bit. Make sure you are using heat resistant gloves
and that you are wearing proper PPE!
2. Pour the mixture in the tray with comb and side blocks properly placed, and wait for it to set.
3. After the gel is set, carefully remove the comb with two hands, and remove the side blocks
as well.
4. Set-up includes gel electrophoresis apparatus with tray containing agarose gel. Tray ends
match with appropriate ends of the apparatus.
5. Pour in electrophoresis buffer on both side of the tray to cover the gel completely.
6. Load 10 µl of each DNA sample obtained from the different sources into the wells of the gel
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11. Draw and label your DNA wells in Figure 1 below from left to right at the top of the gel:
• Crime Scene DNA A
• Suspect #1 DNA B
• Suspect #2 DNA C
• Suspect #3 DNA D
12. Label the charges (-) and (+) at the appropriate ends of the gel.
A B C D
DNA
Wells
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Bio111L General Biology I Lab
Questions:
1. In the experimental data on the gel, what does each band represent?
3. Why does DNA travel down the gel towards the positive charge?
5. According to the data from the gel, who committed the crime? How does the data from the
gel support your answer?
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Bio111L General Biology I Lab
Week 4, Day 2
Name:
Background
Certain traits, or characteristics, are inherited from your parents. It is possible to predict
the chance that offspring will inherit certain traits because of our understanding of genetics.
DNA is the hereditary molecule that is passed on from one generation to the next. DNA in
humans is organized into two sets of 23 types of chromosomes. Each chromosome contains
genes which are the instructions for the production of proteins which contribute to a specific
trait. Genes come in different forms called alleles. For instance, there are genes for eye color.
Some of the alleles for this gene include blue, green and brown color.
Every cell in the body, including gametes (sperm and egg) has DNA. The male gamete,
sperm, has one set of DNA from the father. The female gamete, egg, has one set of DNA from
the mother. When the sperm fertilizes the egg, the DNA from the father joins the DNA from the
mother so the child has two sets of DNA from both the father and mother. Thus, the child
inherits characteristics from both the father and mother.
Genotype is the genetic make-up of the individual. An individual has two alleles for each
trait because one allele was inherited from the father and the other allele was inherited from the
mother. An individual is homozygous for a trait if he has two identical alleles for the trait. For
example, an individual is homozygous for eye color if he has two alleles for blue color. An
individual is heterozygous for a trait if he has two different alleles for the trait. For example, an
individual is heterozygous for eye color if he has one allele for blue color from one parent and
one allele for brown color from another parent. Phenotype is the outward expression of the
genotype. For example, phenotypes for eye color can be brown, blue or hazel eyes.
In this lab, you will use Punnett Squares, a method that predicts the outcomes of traits for
offspring given the genotype of the parents.
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Bio111L General Biology I Lab
Purpose
Use terminology and notation associated with genetics.
Explain different patterns of inheritance.
Predict offspring traits based on the parents using Punnett Squares.
Materials
Genetic problems
2 coins (penny, nickel) - labelled
Procedure
These problems are set up to predict the results of a genetic cross between a father and
mother. You are given this procedure to follow so that you can systematically solve them.
1. Write the phenotype of both parents.
2. Write the genotype of both parents. Each parent has two alleles which make up the
genotype.
3. Predict the genotypes of gametes from each parent. Each gamete genotype has only one
allele because it has only one set of DNA.
4. Set up the Punnett Square to predict the results of combining gametes from the parents.
Combining gametes is the equivalent of fertilization when the sperm penetrates the egg.
Place the sperm genotypes across the top two square and the egg genotypes on the side of
the two squares.
5. Predict the genotypes of the offspring by systematically combining a gamete from the
mother with a gamete from the father in the four center boxes. Now you have new
hypothetical organisms, each with two alleles. Each center box represents one
hypothetical offspring.
6. Predict the phenotypes of the offspring based on the genotypes above.
7. Perform a coin toss to model the chance of the parents producing particular offspring.
Sperm :
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Bio111L General Biology I Lab
d. Punnett Square:
(sperm)
(egg)
g. Calculate the probability of each genotype and phenotype as listed. Fill in table below on the
following page.
h. Table 1: Expected Probabilities for Huntington’sDisease
Hh
hh
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Bio111L General Biology I Lab
We are going to test the ratio of offspring given the parental genotypes above for Huntington’s
Disease by using a coin toss. The procedure is:
1. Obtain two coins. One represents the possible genotype(s) of the egg. The
other represents the possible genotype(s) of the sperm.
2. Get one coin that represents the gametes of the mother. Each side of the coin
represents one allele in a single gamete. Repeat for the father.
3. One student represents the mother and will flip the mother’s coin. A second
student represents the father and will flip the father’s coin at the SAME time.
4. Note the two gametes that are face up. This represents the genotype of the
offspring. Tally this genotype in the table below.
5. Repeat steps 1-4 24 times.
Hh
hh
Did your results from the coin tosses support your prediction from the Punnett Square?
Specify the data you used.
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Bio111L General Biology I Lab
2. Cystic fibrosis is lethal autosomal recessive disorder in humans. It is the most common fatal
disorder in the United States. Its hallmark is bacterial infections of the lungs and intestine. A
woman who is a carrier of cystic fibrosis (Cc) has children with a man who is also a carrier
(Cc). What are the chances that a particular child will have cystic fibrosis? What are the
chances that a particular child will be a carrier?
d. Punnett Square:
(sperm)
(egg)
g. Calculate the probability of each genotype and phenotype as listed. Fill in table on the
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Bio111L General Biology I Lab
following page.
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Bio111L General Biology I Lab
Cc
cc
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Bio111L General Biology I Lab
We are going to test the ratio of offspring given the parental genotypes above for Cystic
Fibrosis by using a coin toss. Obtain the appropriate coins for the mother and father. Follow
the previous coin toss procedure.
Cc
cc
Did your results from the coin tosses support your prediction from the Punnett Square?
Specify the data you used.X-Linked Recessive Disorder: Color Blindness
C c
3. Color blindness is an X-linked recessive disorder in humans. X is a normal allele. X is a
C c
color blind allele. A woman who is a carrier of color blindness (X X ) has children with a
C
man who is not color blind (X Y). What are the chances that a male child will be
colorblind? What are the chances that a child will be a carrier?
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Bio111L General Biology I Lab
d. Punnett Square:
(sperm)
(egg)
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