More than meets the eye worksheet answers

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Page 1“More than Meets the Eye” by Annie Prud’homme-Généreux

by Annie Prud’homme-Généreux Life Sciences Quest University, Canada

More than Meets the Eye: The Genetics of Eye Color

Part I – High School Blues Evan and Alexia had been happily married for seven years and had a delightful fi ve-year-old son named Ryan. One day, while going through his old high school biology textbook, Evan stumbled on some troubling information. In the section on the genetics of eye color, he read that two blue-eyed parents cannot produce a brown-eyed child. Th is was disturbing to him because both he and Alexia had blue eyes, but Ryan had brown eyes.

He and Alexia were very much in love and Evan didn’t believe his wife had been unfaithful. Puzzled, he questioned his wife, who confi rmed she had been faithful to him. Evan had known Alexia long enough to recognize when she was lying and detected nothing but honesty in her response.

What is going on?

Questions 1. What protein does the “eye color gene” encode? Propose what the function of this protein might be, and how

this protein might diff er in people with brown and blue eyes. 2. Which is dominant and which is recessive: the blue eye allele or the brown eye allele? 3. If Evan has blue eyes, what genotype (which two alleles) is he likely to have? 4. If Alexia has blue eyes, what genotype (which two alleles) is she likely to have? 5. Draw a Punnett square showing the genotype of all the possible children this couple could have. Based solely on

this information, what is the likelihood that Ryan is their child? 6. Assuming that Alexia has been unfaithful, what is (are) the possible genotype(s) of the man who is Ryan’s

biological father? 7. Assuming that Alexia has been faithful, suggest as many hypotheses as you can to explain Ryan’s phenotype.

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Page 2“More than Meets the Eye” by Annie Prud’homme-Généreux

Part II – Eye Coloration Puzzled, Alexia and Evan used the internet to research what gives the eye its color.

“Eye color” refers to the color of the iris of the eye. Melanin is a dark pigment produced by cells in the iris that gives the eye its color. What determines the color of the eye is a combination of the amount, location, and qualities (e.g., diff erent types) of the melanin present in the iris (Sturm & Larsson, 2009).

Th e iris has a front layer and a back layer. Th e space in between them, called the stroma, is fi lled with various proteins, including white collagen fi bers. For almost all eye colors, there is a lot of melanin on the back layer of the iris (Sturm & Larsson, 2009). Where people diff er is in the melanin in the front layer of the iris.

A lot of melanin in the front of the iris makes the eye look brown because, as light hits the front of the iris, the pigments absorb the light.

Blue irises have less melanin in the front layer, so light can go through it. As light travels through the stroma, it encounters the collagen fi brils. Th is scatters the short blue wavelengths to the surface. In other words, when light hits the collagen fi brils, the light is refracted, or bent, and this makes the light appear blue or green. Th is eff ect is also experienced when looking at the sky. Th e sky is actually black. However, as light travels through the Earth’s atmosphere, it encounters particles that bend the light and cause the sky to appear blue. Th is eff ect is called Rayleigh Scattering (Southworth, 2007; Sturm & Larsson, 2009).

A lot of pigment in the front of the iris gives brown, less melanin gives green or hazel, and little pigment gives blue (Figure 1).

While blue irises have little melanin of any kind in the front of the iris, other eye colors vary in the relative amount of the diff erent types of melanin (called eumelanin and pheomelanin), giving a spectrum of eye shades (Sturm & Larson, 2009).

Questions 8. Based on what you now know, how many genes may be involved in determining eye color? Suggest what each

gene does to aff ect this trait. 9. What do you suspect that the blue/brown eye color gene studied in high school does in the cell? What type of

protein might this gene encode? Off er several possibilities.

Figure 1: Top fi gure illustrates a brown eye, and bottom fi gure shows a blue eye. Th e small brown squares in the front and back of the iris represent melanin molecules. Th e relative number of brown squares represents the relative density of melanin in various regions of the iris in eyes of diff erent color.

Pupil

Iris Front Layer

of Iris Back Layer

of Iris

Collagen protein in Stroma of Iris

Melanin in Back of Iris

Light hits Melanin in Front layer of Iris

Pupil

Iris Front Layer

of Iris Back Layer

of Iris

Collagen protein in Stroma of Iris

Melanin in Back of Iris

Light Reflects Off Back layer of Iris and Bends When it Encounters Collagen in Stroma

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Page 3“More than Meets the Eye” by Annie Prud’homme-Généreux

10. Based on your previous answer, how might the blue and brown alleles diff er (how might they diff er in function, in sequence, in the resulting protein, in structure, etc.)?

11. Eyes can be brown, blue, or green/hazel. How could these three diff erences be encoded genetically? Suggest several ways to achieve these three phenotypes.

12. Does this information suggest ways in which two blue-eyed individuals could have a brown-eyed child?

References Southworth, L. (2007). Ask a Geneticist: Are gray eyes the same as blue in terms of genetics? Understanding Genetics.

Th e Tech Museum, Stanford University School of Medicine. Retrieved 2 April 2010 from http://www.thetech. org/genetics/ask.php?id=232.

Sturm, R.A., and Larsson, M. (2009). Genetics of human iris colour and patterns. Pigment Cell and Melanoma Research 22: 544–562.

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Page 4“More than Meets the Eye” by Annie Prud’homme-Généreux

Part III – Genetics of Eye Color Th eir curiosity further piqued, Alexia and Evan contacted Dr. Rick Sturm1 at the University of Queensland, a leading expert on eye color.

“It used to be thought that eye colour was what we call a simple Mendelian recessive trait—in other words, brown eye colour was dominant over blue, so a person with two brown versions of the gene or a brown and a blue would have brown eyes, and only two blues with no brown could produce blue eyes. But the model of eye colour inheritance using a single gene is insuffi cient to explain the range of eye colours that appear in humans. We believe instead that there are two major genes—one that controls for brown or blue, and one that controls for green or hazel—and others that modify this trait. Th e mechanism that determines whether an eye is brown or blue is like switching on a light, whereas an eye becoming green or hazel is more like someone unscrewing the light bulb and putting in a diff erent one,” said Dr. Sturm (Sturm, quoted from: “Eyes Have it on Multiple Gene Question,” n.d).

To answer Alexia and Evan’s question, he added: “So contrary to what used to be thought, it is possible for two blue-eyed parents to have a brown-eyed child, although this is not common.” (Sturm, quoted from “Eyes Have it on Multiple Gene Question,” n.d.).

Hearing these words, Evan sighed in relief. Even though he trusted his wife, it was reassuring to hear one of the world’s leading experts on the matter say that Ryan could be their son.

Dr. Sturm went on to explain that, contrary to what is taught in high school genetics classes, there are many genes involved in the determination of eye color. Two of them are most important in determining eye color.

Th e fi rst gene, called OCA2 (or bey2 or EYCL3), is on chromosome 15. Although the exact function of the OCA2 protein in the cell is not known, it seems to be involved in the production of melanin (“OCA2”, 2009). OCA2 exists in two allelic forms: brown or blue. Th e brown (B) allele stimulates the production of high levels of melanin. Th e blue allele (b) does not produce the OCA2 protein, leading to the loss of melanin production. Th e brown allele is dominant over the blue allele. Th e mutation that produces the blue allele is a single point mutation (from T to C) in the intron of a gene upstream from OCA2 called HERC2 (Eiberg et al., 2008; Strum et al., 2008). Th is point mutation occurs in a regulatory element for OCA2. Th e mutation prevents the binding of a helicase, which makes the DNA accessible to transcription factors for OCA2 transcription.

Th e second gene, called gey, is on chromosome 19 and comes in two forms: blue or green. Green (G) codes for a protein that results in the production of some melanin, and is dominant over blue (g), which codes for a protein that results in no production of the pigment.

In eff ect, there is a hierarchy: the OCA2 gene is epistatic to the gey gene (in other words, the product of the OCA2 gene masks the product of the gey gene). If one allele at the OCA2 gene site encodes the brown eye trait, the alleles at the gey sites are irrelevant and the eyes are brown. However, if the alleles at the OCA2 site are bb, then the combination of alleles at the gey site determines whether the eyes are blue or green (Starr, 2005).

Questions 13. Which of the two genes is likely to have been the one referred to in high school genetics problems of eye color? 14. Determine all the possible genotypes (at the OCA2 and gey loci) for Alexia and Evan. 15. Are the OCA2 and gey genes genetically linked? Why or why not? 16. Make a Punnett square showing the genotypes of all possible children produced by this couple (show the OCA2

and gey gene loci in your Punnett Square). Determine the eye color of all possible children. 17. Can the OCA2 and gey genes explain why Ryan has brown eyes?

1 Dr. Rick Sturm is a leading expert in the fi eld of the genetics of eye color. While the comments attributed to him are taken from interviews and press releases (as indicated in the references to this part), this case is a work of fi ction. It is not based on Dr. Sturm’s actions or comments in response to this particular situation.

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Page 5“More than Meets the Eye” by Annie Prud’homme-Généreux

References Eiberg, H., Troelsen, J., Nielsen, M., Mikkelsen, A., Mengel-From, J., Kjaer, K.W., and Hanse, L. (2008). Blue eye

color in humans may be caused by a perfectly associated founder mutation in a regulatory element located within the HERC2 gene inhibiting OCA2 expression. Human Genetics 123: 177–187.

“OCA2” (2009). Genetics Home Reference: Your Guide to Understanding Genetic Conditions. U.S. National Library of Medicine. Retrieved 5 May 2010 from http://ghr.nlm.nih.gov/gene=oca2

Starr, B. (2005). Ask a geneticist: Has any progress been made in explaining eye colors other than brown, blue, and green? Understanding Genetics, Th e Tech Museum, Stanford University School of Medicine. Retrieved 2 April 2010 from http://www.thetech.org/genetics/ask.php?id=126

Sturm, R.A., Duff y, D.L., Zhen Zhaw. Z., Leite, F.P.N., Stark, M.S., Hayward, N.K., Martin, N.G., and Montgomery, G.W. (2008). A single SNP in an evolutionary conserved region within intron 86 of the HERC2 gene determines human blue-brown eye color. American Journal of Human Genetics 82: 424–431.

“Th e eyes have it on multiple gene question” (n.d.). Th e University of Queensland Australia, Institute for Molecular Bioscience. Retrieved 2 April 2010 from http://www.imb.uq.edu.au/index.html?page=57400&pid=11690

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Page 6“More than Meets the Eye” by Annie Prud’homme-Généreux

Part IV – What Else Could Be Going On? Alexia and Evan were baffl ed. Th e two genes were not suffi cient to explain how a blue-eyed couple could have a brown-eyed child.

However, they remembered Dr. Sturm’s words: “So contrary to what used to be thought, it is possible for two blue-eyed parents to have a brown-eyed child, although this is not common.”

Th e couple pooled their knowledge of genetics to think of ways in which two blue-eyed parents might have a brown- eyed child.

Questions 18. Re-examine your answer to Question 11 and the information learned in the previous section. How similar are

the DNA at the associated regions of blue-eyed and brown-eyed people likely to be? Based on this, propose a mechanism that could account for Ryan’s eye color. Be as specifi c as you can in explaining what might have happened.

19. Many genes are known to aff ect eye color. More than two are known to have an eff ect. You have already reviewed the eff ects of OCA2, HERC2, and gey, and your answer to Question 8 may have identifi ed a few more possibilities. Th ese genes work together to aff ect the quantity, distribution, and quality of the melanin found in the front of the iris. Each must work well for the formation of brown irises. Non-brown eyes result when there is a mutation in any one of these gene products. Do blue-eyed parents always share the same mutation? What if they didn’t? How might this account for Ryan’s eyes?

20. Do organisms that have identical DNA always share a common phenotype (think of identical twins)? What can account for observed diff erences in phenotype? How might this play out at the molecular level? How might this apply in Ryan’s case?

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Part V – Three Hypotheses Following their refl ections, Alexia and Evan contacted Dr. Barry Starr2 at Stanford University to confi rm their three hypotheses.

Hypothesis 1: A Mutation “Genetics is complicated by the fact that genes don’t always stay the same.[…] Our DNA copying machinery is nearly perfect but it still will make an occasional mistake. If that mistake happens in sperm or egg cells, it will get passed on. And if the change is in the right place in the blue eye gene, blue-eyed parents can now have a brown-eyed child. [...] Genes for things like blue and brown eyes are very, very similar. In fact, they are really just diff erent versions of the same gene. [...] So, to turn a blue eye gene into a brown eye gene, you may only need to change a single letter” (Starr, n.d.)

Hypothesis 2: Epigenetic Eff ects Dr. Starr also off ered an alternate hypothesis.

“Sometimes a gene can be read in one person but is unreadable in another. What happens if a gene is unreadable in a parent but a child’s cells can read it? Th at’s right, a blue-eyed parent can have a brown-eyed child. Believe it or not, sometimes what your mom eats while she is pregnant can aff ect your hair color. Well, if you’re a mouse, anyway... Scientists did an experiment where they fed a mouse one food and her pups were black. A diff erent food resulted in [yellow] pups. And all of the A, G, C, or T’s were the same between the pups. What happened? Th e food ended up attaching little chemical groups called methyls to the DNA. Th ese methyls made the gene unreadable. So even though genetics would predict the same color pups, the environment changed the outcome” (Starr, n.d.)

Hypothesis 3: Genetic Complementation Alexia and Evan also contacted another biologist, Ky Sha,3 while they were at Stanford University.

Ky had a diff erent idea to explain their situation. Because eye color is determined by many genes, it is possible that each gene product collaborates to synthesize melanin as though they were stations in an assembly line (in other words, the gene products work in series; this is called a biochemical pathway). If this is true, diff erent enzymes work one after the other on intermediates in the assembly line. If an enzyme working on the melanin pigment ahead of them “breaks down,” then all the enzymes downstream on the assembly line cannot do their job. Th e assembly line stalls. Imagine that Parent 1 has a mutation in Enzyme 1 (on both chromosomes) that prevents the formation of melanin. Parent 2 has a diff erent mutation (also on both chromosomes) that aff ects a station more downstream in the assembly line, but Parent 2 is also not able to put together melanin. Both parents will have blue eyes because they lack the fi nal product: melanin. However, when the parents combine their genes to produce a child, the child inherits one production line that breaks down at Enzyme 1,

A B Melanin

A B Melanin

A B Melanin

Parent 1

A B Melanin

A B Melanin

Parent 2

A B Melanin

A B Melanin

Child

2 Dr. Barry Starr is a biologist at Stanford University. While the comments attributed to him are taken from an article he has written (as indicated in the references to this part), this case is a work of fi ction. It is not based on Dr. Starr’s actions or comments in response to this particular situation.