AP Unit 4 Genetics Study Guide

 

                          Unit IV   Genetics Study Guide     

  • Be able to determine the probability of getting a number by rolling a pair of dice.
  • Be able to work monohybrid crosses for complete and incomplete dominance and show genotypes, phenotypes, and ratios.
  • Be able to work dihybrid crosses and determine genotypes, phenotypes, and ratios.
  • Be able to explain and give examples of codominance, epitasis, polygenic inheritance, sex-linked inheritance….
  • Be able to work a problem on colorblindness.
  • Be able to list and explain Mendel’s laws of heredity.
  • Be able to discuss Morgan, Sutton, and Sturtevant’s contributions to the understanding of chromosomal inheritance.
  • Be able to define linkage and explain how it interferes with independent assortment.
  • Be able to predict the probability of a genotype occurring for a cross involving 4 traits. (Rule of Multiplication)
  • Be able to name and describe a genetic defect caused by nondisjunction of sex chromosomes.
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AP Sample Lab 12 Dissolved Oxygen

 

Dissolved Oxygen and Primary Aquatic Productivity
Laboratory 12

 

Introduction

 

Dissolved oxygen levels are an extremely important factor in determining the quality of an aquatic environment. Dissolved oxygen is necessary for the metabolic processes of almost every organism.

Terrestrial environments hold over 95% more oxygen than aquatic environments. Oxygen levels in aquatic environments are very vulnerable to even the slightest change. Oxygen must be constantly be replenished from the atmosphere and from photosynthesis. There are several factors that effect the dissolved oxygen levels in aquatic environments.

Temperature is inversely proportional to the amount of dissolved oxygen in water. As temperature rises, dissolved oxygen levels decrease.

Wind allows oxygen to be mixed into the water at the surface. Windless nights can cause lethal oxygen depletions in aquatic environments.

Turbulence also increases the mixture of oxygen and water at the surface. This turbulence is caused by obstacles, such as rocks, fallen logs, and water falls, and can cause extreme variations in oxygen levels throughout the course of a stream.

The Trophic State is the amount of nutrients in the water. There are two classifications: oligotrophic and eutrophic. Oligotrophic lakes are oxygen rich, but generally nutrient poor. They are clearer and deeper than eutrophic lakes and are younger. Oxygen levels are constant. Eutrophic lakes are more shallow and nutrient rich. The oxygen levels constantly fluctuate from high to low.

Primary production is the energy accumulated by plants since it is the first and basic form of energy storage. The flow of energy through a community begins with photosynthesis. All of the sun’s energy that is used is termed gross primary production. The energy remaining after respiration and stored as organic matter is the net primary production, or growth. The equation for photosynthesis is as follows:

12H2O + 6CO2 → C6H12O6 + 6O2 + 6H2O

There are two ways to measure primary production, the oxygen method and the carbon dioxide method. The oxygen method uses a dark and light bottle to compare the amount of oxygen produced in photosynthesis and used in respiration. Respiration rate is determined by subtracting the dark bottle from the initial bottle. The carbon dioxide method places a transparent plastic bag over one sample and a dark plastic bag over the other. Each bottle is set up so that air is drawn through the enclosure and passes over carbon dioxide-absorbent material. The amount of carbon under the dark bag is respiration, while the amount of carbon under the transparent bag is the amount of photosynthesis minus the amount of respiration.

There are three main gases dissolved in aquatic environments: nitrogen, oxygen, and carbon dioxide. Most gases obey Henry’s law, which says that at a constant temperature, the amount of gas absorbed by a given volume of liquid is proportional to the pressure in the atmosphere that the gas exerts.

c = K ×p

                                                             c = Concentration of the gas that is absorbed

K = Solubility factor

                     p = Partial pressure of the gas

 

Altitude may affect the p value of the equation. Higher altitudes decrease the solubility of gases in water. Temperature also has an affect, as temperature rises, solubility decreases. Salinity, the occurrence of various minerals in solution, also lowers the solubility of gases in water.

The method used to determine the amount of dissolved oxygen in the water is the Winkler titrametric method. It involves a series of chemical reactions which ends with a quantity of free iodine equal to the amount of oxygen in the sample. The iodine is then titrated with thiosulfate to find this quantity.

 

Hypothesis

The temperature and amount of light an aquatic environment receives greatly affects the dissolved oxygen levels, along with the amount of primary aquatic productivity.

 

Materials

 

Measurement of Dissolved Oxygen

This part of the lab required a sample bottle of water from a natural source, a BOD bottle, thermometer, mangonous sulfate, alkaline iodide, thiosulfate, a 2-mL pipette, sulfuric acid, a 20-mL sample cup, a white piece of paper, starch solution, and a nomograph.

Measurement of Primary Productivity

Part B required a sample bottle of water from a natural source, 7 BOD bottles, aluminum foil, 17 cloth screens, rubber bands, a light, thermometer, concavity slides, light microscope, mangonous sulfate, alkaline iodide, thiosulfate, a 2-mL pipette, sulfuric acid, a 20-mL sample cup, a white piece of paper, starch solution, and a nomograph.

Productivity Simulation

This section required pencil, paper, calculator, and graph paper.

 

Methods

 

Measurement of Dissolved Oxygen

The sample bottle was filled completely so that there were no air bubbles in the bottle. The sample bottle was left in the refrigerator until it reached 5° C. A BOD bottle was filled with the sample water until it contained no air bubbles.

Eight drops of mangonous sulfate were added to the bottle. Next, eight drops of alkaline iodide was added and the precipitate manganous hydroxide was formed. The bottle was inverted several times and then allowed to settle until the precipitate was below the shoulders of the bottle. While the solution was settling, a 2mL pipette was filled with thiosulfate. A scoop of sulfuric acid was added, and the bottle was inverted until all of the precipitate dissolved. The sample turned a clear yellow.

20mL of the sample were poured into the sample cup. The cup was placed on a white sheet of paper so that the color changes could be observed. 8 drops of starch solution were added to the sample, making it turn purple. The sample was then titrated with the thiosulfate. One drop of the titrant was added at a time until the color changed to a pale yellow color.

A nomograph was used to determine the percent saturation of dissolved oxygen in the sample.

Measurement of Primary Productivity

A second sample bottle was filled from a natural source making sure there were no air bubbles. Seven BOD bottles were filled completely with the sample with no air bubbles. The first bottle was labeled #1-Initial. The second bottle served as the dark bottle and was labeled #2-Dark. The other five bottles were labeled according to the light intensity: #3-100%, #4-65%, #5-25%, #6-10%, and #7-2%.

Bottle #2 was wrapped completely in aluminum foil so that it received no light. The other five bottles were wrapped in screens to produce the desired light intensity. Bottle #3 had no screens, bottle #4 had 1 screen, bottle #5 had 3 screens, bottle #6 had 5 screens, and bottle #7 had 8 screens. The screens were held in place with rubber bands. Bottles #2-7 were placed under a light source and left overnight.

Bottle #1 was fixed by following the Winkler method. Eight drops of mangonous sulfate were added to the bottle. Next, eight drops of alkaline iodide was added and the precipitate manganous hydroxide was formed. The bottle was inverted several times and then allowed to settle until the precipitate was below the shoulders of the bottle. A scoop of sulfuric acid was added, and the bottle was inverted until all of the precipitate dissolved. The sample turned a clear yellow. It was left at room temperature until the other samples were processed.

A wet mount was observed under a light source, so that the different organisms present could be identified.

The next day, bottles #2-7 were fixed by following the same method used on Bottle #1. The dissolved oxygen levels were determined in each of the seven bottles by titrating. 20mL of the sample were poured into the sample cup. The cup was placed on a white sheet of paper so that the color changes could be observed. 8 drops of starch solution were added to the sample, making it turn purple. The sample was then titrated with the thiosulfate. One drop of the titrant was added at a time until the color changed to a pale yellow color.

Productivity Simulation

The respiration data from Part B was converted to carbon productivity. The data was graphed with comparison to water depths.

 

Results

 

A. Measurement of Dissolved Oxygen

 

Table 1

Dissolved Oxygen Concentration

 

 

 

Temperature

 

Dissolved Oxygen (mg/l)

 

% Dissolved Oxygen

 

5° C

2.0 mg/l 16%
 

21.5° C

1.28 mg/l 19%

 

How does temperature affect the solubility of oxygen in water?

 

As temperature goes up the solubility of oxygen in water goes down. They are inversely proportional.

 

How does salinity affect the solubility of oxygen in water?

 

The occurrence of various minerals in solution lowers the solubility of oxygen in water.

 

Would you expect to find a higher dissolved oxygen content in a body of water in winter or summer?

 

Oxygen levels would be higher in the winter because the solubility of oxygen in water is higher at lower temperatures.

 

List and discuss three factors that could influence the dissolved oxygen concentration of a body of water.

 

Temperature-As temperature goes up solubility goes down.

Pressure- As pressure decreases solubility decreases. Pressure is directly affected by altitude

Salinity-The occurrence of various minerals in solution lowers the solubility of oxygen in water.

 

Do you think it would be wise to stock a pond with game fish if it had a dissolved oxygen content of 3ppm? Why or why not?

 

It would not be wise to stock a pond with an oxygen level of 3ppm with game fish because their optimal levels range from 8 to 15ppm. A concentration of dissolved oxygen less than 4ppm is stressful to most forms of aquatic life.

B. Measurement of Primary Productivity

 

Respiration Rate = 4.6 ml O2/l

 

Table 3

Gross and Net Productivity/ Respiration Rate

 

 

 

Percent Light

 

Dissolved Oxygen

 

Gross Productivity

 

Net Productivity

 

Gross Productivity (mg C/m3)

 

Initial

9.2 ml O2/l NA NA NA
 

Dark

4.6 ml O2/l NA NA NA
 

100%

6.4 ml O2/l 1.8 ml O2/l -2.8 ml O2/hr 0.965 mg C/m3
 

65%

3.8 ml O2/l -0.8 ml O2/l -5.4 ml O2/hr -0.429 mg C/m3
 

25%

4.5 ml O2/l -0.1 ml O2/l -4.7 ml O2/hr -0.054 mg C/m3
 

10%

3.7 ml O2/l -0.9 ml O2/l -5.5 ml O2/hr -0.482 mg C/m3
 

2%

4.0 ml O2/l -0.6 ml O2/l -5.2 ml O2/hr -0.322 mg C/m3

 

 

 

Were any of the samples light limited? Why?

 

Each sample was given a certain amount of light by the use of aluminum foil and screen. Bottle #2 received no light, because it was covered with aluminum foil. Bottles #3-7 had varying numbers of screen ranging from 100% to 2% light intensity.

Productivity Simulation

 

Based on your analysis, which lake is more productive?

 

Lake 2 would be more productive because there is more oxygen available in the lower layers than in Lake 1.

 

What is used as the basis for measuring primary productivity?

 

Primary productivity is measured by the amount of dissolved oxygen available in the water. This shows the amount of oxygen produced by photosynthesis and the amount used by respiration.

 

Error Analysis

 

The Part A experiment was affected mainly by human error and inexperience with the Winkler method. The sample may have been over exposed to the air or the temperature may have changed before the fixing procedure was finished.

The original Part B experiment performed was unsuccessful. There were substantially more decomposing bacteria than photosynthetic organisms in the water sample use. The initial dissolved oxygen level was only 0.84 causing the other samples to have little or no oxygen. The amount of oxygen was so low that it was unable to form the free iodine and could not be titrated. This left no quantifiable data to use in graphs and tables.

 

Discussion and Conclusion

 

Temperature is inversely proportional to the solubility of gases in water. As temperature rose the dissolved oxygen levels should have decreased. This was qualified in the data obtained from this experiment, as the 5° C water sample measured 2.0 mg/l and the 21.5° C sample measured 1.28 mg/l. The percent saturation showed that even though the 5° C sample contained more oxygen it was still less saturated than the 21.5° C sample.

Part B of the lab was used to measure dissolved oxygen concentration, gross and net productivity, and respiration rate of the water samples. It also demonstrated the effect of light and nutrients on photosynthesis. In aquatic environments oxygen production and oxygen usage must be balanced to prevent anoxia. In the original experiment this balance was interrupted by the limiting of light by screens and aluminum foil. The amount of respiration in all of the bottles exceeded the amount of photosynthesis occurring. This was due to the types of organisms present in the sample, which was mainly decomposing bacteria and protozoan. The experiment was correct in its methods however the data received was not quantifiable. This absence of sufficient oxygen in the water samples is an indicator of poor water quality, which may require further investigation. Excess pollution or dumping of wastes into the water sample is a suspected cause of the poor water quality.

The data used in this report shows that as more light was limited, there was less dissolved oxygen present in the water. This is caused because photosynthesis cannot occur without sufficient light.

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AP Lecture Guide 23 – The Evolution of Populations

 

 

AP Biology: CHAPTER 23- THE EVOLUTION OF POPULATIONS

 

1. How does the “modern synthesis” theory of evolution differ from Darwin’s Theory of Natural

Selection?

__________________________________________________________________________

__________________________________________________________________________

2. Population genetics puts a mathematical approach to the study of microevolution. Define

each of the terms commonly used in population genetics.

a. population: _____________________________________________________________

b. gene pool: ______________________________________________________________

c. gene frequency: _________________________________________________________

3. What are the gene frequencies for the red and white flowers?

a. p = ____________________________________________________________________

b. q = ____________________________________________________________________

4. List the five condition that must be met by a populations to insure stability (no evolution).

a. ______________________________________________________________________

b. ______________________________________________________________________

c. ______________________________________________________________________

d. ______________________________________________________________________

e. ______________________________________________________________________

5. Assuming Hardy-Weinberg distribution of genes in a population, write the equation that

describes genotype frequencies.

__________________________________________________________________________

6. Define the following:

a. p2 = ___________________________________________________________________

b. 2pq = __________________________________________________________________

c. q2 = ___________________________________________________________________

7. Work out these practice problems. Find both the gene and genotype frequencies:

a. In Drosophilia, the allele for normal length wings is dominant over the allele for vestigial

wings. In a population of 1,000 individuals, 160 show the recessive phenotype.

b. The allele for the hair pattern called “widow’s peak” is dominant over the allele for no

“widow’s peak.” In a population of 1,000 individuals, 360 show the dominant phenotype.

8. What is the H-W assumption that is broken when genetic drift occurs? Explain

__________________________________________________________________________

__________________________________________________________________________

9. How does genetic drift apply to each of the following? Give an example of each.

a. Founders effect: _________________________________________________________

__________________________________________________________________________

__________________________________________________________________________

b. Bottleneck effect _________________________________________________________

__________________________________________________________________________

10. How do each of the following break H-W assumptions?

a. natural selection: ________________________________________________________

__________________________________________________________________________

b. gene flow: ______________________________________________________________

__________________________________________________________________________

c. mutation: _______________________________________________________________

__________________________________________________________________________

d. selective mating: _________________________________________________________

__________________________________________________________________________

11. Why is genetic variation important to evolution?

__________________________________________________________________________

__________________________________________________________________________

12. How can populations vary along a geographic axis compared to isolated populations?

__________________________________________________________________________

__________________________________________________________________________

13. What is the role of mutations to forming variation?

__________________________________________________________________________

__________________________________________________________________________

14. What factors of sexual reproduction lead to variations within a population?

__________________________________________________________________________

__________________________________________________________________________

15. How does diploidy preserve variation?

__________________________________________________________________________

__________________________________________________________________________

16. What is “balanced polymorphism?”

__________________________________________________________________________

__________________________________________________________________________

17. How can parasites contribute to balanced polymorphism?

__________________________________________________________________________

__________________________________________________________________________

18. In a biological sense, what is fitness?

__________________________________________________________________________

__________________________________________________________________________

19. Label the following graphs of variation in color with the type of selection.

 

 

20. What is the effect of sexual selection?

__________________________________________________________________________

__________________________________________________________________________

21. For each of the following, give an example or describe what is meant by the statement.

a. Natural selection cannot fashion perfect organisms: _____________________________

__________________________________________________________________________

b. Evolution is limited by historical constraints: ___________________________________

__________________________________________________________________________

c. Adaptations are often compromises: _________________________________________

__________________________________________________________________________

d. Not all evolution is adaptive: _______________________________________________

__________________________________________________________________________

e. Selection can only edit existing variations: ____________________________________

__________________________________________________________________________

 

AP Lecture Guide 25 – Phylogeny and Systematics

 

 

AP Biology: CHAPTER 25: PHYLOGENY AND SYSTEMATICS

 

1. What is phylogeny?

__________________________________________________________________________

__________________________________________________________________________

2. How are fossils significant to our study of biology?

__________________________________________________________________________

__________________________________________________________________________

3. Review these key points in the study of fossils:

a. Sedimentary rocks are the richest source of fossils.

__________________________________________________________________________

__________________________________________________________________________

b. Paleontologists use a variety of methods to date fossils.

__________________________________________________________________________

__________________________________________________________________________

c. The fossil record is a substantial, but incomplete, chronicle of evolutionary history.

__________________________________________________________________________

__________________________________________________________________________

d. Phylogeny has a biogeographic basis in continental drift.

__________________________________________________________________________

__________________________________________________________________________

e. The history of life is punctuated by mass extinctions.

__________________________________________________________________________

__________________________________________________________________________

4. List examples of fossils. ______________________________________________________

__________________________________________________________________________

__________________________________________________________________________

5. What techniques do relative dating use to place fossils in their place in geologic time?

__________________________________________________________________________

__________________________________________________________________________

6. What marks the separation between the major eras in the geologic time scale?

__________________________________________________________________________

__________________________________________________________________________

7. How does absolute dating compare to relative dating?

__________________________________________________________________________

__________________________________________________________________________

8. Describe the two main characteristics of the Linnaean system of classification.

a. _______________________________________________________________________

b. _______________________________________________________________________

9. What modern techniques are used as the basis for grouping creatures with modern

phylogenetic systematics?

__________________________________________________________________________

__________________________________________________________________________

10. What does a phylogenic tree show?

__________________________________________________________________________

__________________________________________________________________________

11. When classifying organisms in a cladistic diagram, identify three pitfalls scientists might

encounter classifying creatures.

a. _______________________________________________________________________

b. _______________________________________________________________________

c. _______________________________________________________________________

12. What do scientists use when placing an organism on a cladistic diagram?

__________________________________________________________________________

__________________________________________________________________________

13. How have molecular clocks influenced our thoughts on evolutionary paths?

__________________________________________________________________________

__________________________________________________________________________

14. Why is the four chamber heart a poor choice of structure to place creatures on a phylogenic

tree?

__________________________________________________________________________

__________________________________________________________________________

15. Why are crocodiles now thought to be closer to birds than other reptiles?

__________________________________________________________________________

__________________________________________________________________________

 

AP Lecture Guide HGP

HUMAN GENOME PROJECT
INSIGHTS LEARNED FROM THE SEQUENCE

What has been learned from analysis of the working draft sequence of the human genome? What is still unknown?

By the Numbers

• The human genome contains 3164.7 million chemical nucleotide bases (A, C, T, and G).

• The average gene consists of 3000 bases, but sizes vary greatly, with the largest known human gene being dystrophin at 2.4 million bases.

• The total number of genes is estimated at 30,000 to 35,000, much lower than previous estimates of 80,000 to 140,000 that had been based on extrapolations from gene-rich areas as opposed to a composite of gene-rich and gene-poor areas.

• The order of almost all (99.9%) nucleotide bases are exactly the same in all people.

• The functions are unknown for over 50% of discovered genes.

The Wheat from the Chaff

• Less than 2% of the genome encodes for the production of proteins.

• Repeated sequences that do not code for proteins (“junk DNA”) make up at least 50% of the human genome.

• Repetitive sequences are thought to have no direct functions, but they shed light on chromosome structure and dynamics. Over time, these repeats reshape the genome by rearranging it, thereby creating entirely new genes or modifying and reshuffling existing genes.

• During the past 50 million years, a dramatic decrease seems to have occurred in the rate of accumulation of repeats in the human genome.

How It’s Arranged

• The human genome’s gene-dense “urban centers” are predominantly composed of the DNA building blocks G and C.

• In contrast, the gene-poor “deserts” are rich in the DNA building blocks A and T. GC- and AT-rich regions usually can be seen through a microscope as light and dark bands on chromosomes.

• Genes appear to be concentrated in random areas along the genome, with vast expanses of noncoding DNA between.

• Stretches of up to 30,000 C and G bases repeating over and over often occur adjacent to gene-rich areas, forming a barrier between the genes and the “junk DNA.” These CpG islands are believed to help regulate gene activity.

• Chromosome 1 has the most genes (2968), and the Y chromosome has the fewest (231).

How the Human Genome Compares with That of Other Organisms

• Unlike the human’s seemingly random distribution of gene-rich areas, many other organisms’ genomes are more uniform, with genes evenly spaced throughout.

• Humans have on average three times as many kinds of proteins as the fly or worm because of mRNA transcript “alternative splicing” and chemical modifications to the proteins. This process can yield different protein products from the same gene.

• Humans share most of the same protein families with worms, flies, and plants, but the number of gene family members has expanded in humans, especially in proteins involved in development and immunity.

• The human genome has a much greater portion (50%) of repeat sequences than the mustard weed (11%), the worm (7%), and the fly (3%).

• Although humans appear to have stopped accumulating repeated DNA over 50 million years ago, there seems to be no such decline in rodents. This may account for some of the fundamental differences between hominids and rodents, although gene estimates are similar in these species. Scientists have proposed many theories to explain evolutionary contrasts between humans and other organisms, including those of life span, litter sizes, inbreeding, and genetic drift.

Variations and Mutations

• Scientists have identified about 1.4 million locations where single-base DNA differences (SNPs) occur in humans. This information promises to revolutionize the processes of finding chromosomal locations for disease-associated sequences and tracing human history.

• The ratio of germline (sperm or egg cell) mutations is 2:1 in males vs females. Researchers point to several reasons for the higher mutation rate in the male germline, including the greater number of cell divisions required for sperm formation than for eggs.

What We Still Don’t Know: A Checklist for Future Research

• Exact gene number, exact locations, and functions

• Gene regulation

• DNA sequence organization

• Chromosomal structure and organization

• Noncoding DNA types, amount, distribution, information content, and functions

• Coordination of gene expression, protein synthesis, and post-translational events

• Interaction of proteins in complex molecular machines

• Predicted vs experimentally determined gene function

• Evolutionary conservation among organisms

• Protein conservation (structure and function)

• Proteomes (total protein content and function) in organisms

• Correlation of SNPs (single-base DNA variations among individuals) with health and disease

• Disease-susceptibility prediction based on gene sequence variation

• Genes involved in complex traits and multigene diseases

• Complex systems biology, including microbial consortia useful for environmental restoration

• Developmental genetics, genomics

http://genome.gsc.riken.go.jp/hgmis/project/journals/insights.html