Week 3 in-class assignment

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School

University of Missouri, Columbia *

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3710

Subject

Biology

Date

Jan 9, 2024

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docx

Pages

5

Uploaded by MajorJackalMaster971

Part 1: Creating a phylogeny Develop a hypothesis of the relationships between the list of candy bars below. Although this exercise may seem to be frivolous, the strategies that you will need to employ are the same as if you were studying real organisms. Assume that these candy bars evolved by descent with modification. What is the simplest scenario of descent (i.e., most parsimonious) that would explain the distribution of features among the candy bars? Your goal is to create a phylogeny (hypothesis of relationships) for these "organisms." Note: There are many possible phylogenies so there is not one single correct tree. Try to make the most parsimonious tree you can, but no need to stress about whether your tree is "right". Instructions: Candy Bar "Organisms" Kit Kat (milk chocolate) Kit Kat (raspberry creme chocolate) Three Musketeers Peppermint twist hard candy Snickers Snickers Almond Milky Way Mr. Goodbar Krakel Hershey's Milk Chocolate Bar Hershey's Special Dark If on zoom, search the internet to find out what features each candy bar has if you are not familiar with that candy bar. e.g. https://en.wikipedia.org/wiki/3_Musketeers_(chocolate_bar) . If you are in person, you can observe your candy bars. If you need to cut one open, there is a “dissection station” at the front of the room. Try to determine which candy bar you want to use as the outgroup , or most dissimilar taxon. This is the taxon that you will use to polarize all the characters (determine which state is ancestral and which is derived). Keep in mind that evolution can simplify (absence as a character state) organisms as well as make them more complex. Organize your ideas in a table on the table provided. Create a column for each trait and then list the character state for each taxon. For example, you could define "milk chocolate" as a character that is either present (+) or absent (-) for each candy bar. Chocolate is given as an example. You will want to identify at least 5 more characters, though you may need more to define your clades so no need to limit yourself to this number. You will upload your completed table in Question 4. Use these characters to make your phylogeny (your hypothesis of relationships). Once you have your phylogeny, map each of your characters onto your tree. You will upload your completed tree in Question 5. You can either make a tree using lines and text boxes in a program like powerpoint & save it as an image file, or just draw your tree and take an image with your phone or other device and upload the image.
Questions 1) What characters were most useful in defining monophyletic groups? What characters were not useful? Give one example of each along with a reason it was or was not helpful. Nuts were not useful because there was not a common ancestor. For example, both snickers and Mr. Goodbar had nuts, but they were very far apart on the tree, meaning they weren’t very related. Crunch was very useful because we had a lot of groups that were crunchy, like Krakel, Kit Kat, and Kit Kat Raspberry and we could use crunch as a common ancestor. 2) Do you have evidence of convergent evolution ( homoplasy ) in your phylogeny? Did similar features arise more than once? In your answer, state which characters showed evidence of homoplasy. Note : the answer may vary depending on your phylogeny. We do have evidence of homplasy. Nuts arose twice, once with Mr. Goodbar and then with Snickers and Snickers Almonds. 3) Choose one node and circle it on your phylogeny. What characters would you predict the common ancestor that node represents would have? The node I circled, I would predict that ancestor would have sugar, chocolate, milk chocolate, and nougat. 4) Upload your completed table of characters Character Chocolate Nut s Wafer Carame l Nougat Milk Chocolate Dark Chocolate Sugar Crunchy (not nuts) Almonds Kit Kat (milk Chocolate) Y N Y N N Y N Y Y N Kit Kat (raspberry) Y N Y N N Y N Y Y N Three Musketeers Y N N N Y Y N Y N N Peppermint twist N N N N N N N Y N N Snickers Y Y N Y Y Y N Y N N Milky Way Y N N Y Y Y N Y N N Mr. Goodbar Y Y N N N Y N Y N N Krakel Y N N N N Y N Y Y N Hershey's Milk chocolate bar Y N N N N Y N Y N N Hershey's Special Dark Y N N N N N Y Y N N Snickers Almond Y Y N Y Y Y N Y N Y 5) Upload your completed phylogeny. Make sure it has your mapped characters and the circled node from #3.
Part 2: Computing the consequences of a phylogeny
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