All Quiz 3 Answers - Question 1a a. (1 point) You are...

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Question 1a a. (1 point) You are working in a mouse lab and are giving a tour to your friend who works on fruit flies. Your friend is surprised when you tell her that there are four Hox clusters in mice, because there is only one cluster in flies. What is your explanation for why there are four mouse Hox clusters? 2 rounds of whole genome duplication generated 4 Hox clusters. b. (1 point) You take the 11 th gene in the fly Hox cluster and BLAST it against the mouse genome. You find 4 genes in the mouse genome that are highly homologous to the fly sequence. Because one is in each Hox cluster, you term these genes Hoxa11 , Hoxb11 , Hoxc11 , and Hoxd11 . You look by in situ hybridization to see where the 4 Hox11 genes are expressed. You find that Hoxa11 , Hoxc11 , and Hoxd11 are expressed in a stripe near the pelvis, but Hoxb11 is not expressed anywhere in the mouse. Upon further inspection you find a nonsense mutation in Hoxb11 . What term best applies to Hoxb11 ? Pseudogene c. (3 points) You want to identify the enhancer that causes Hoxa11 to be expressed in a stripe near the pelvis. You identify a 450 base pair region of DNA downstream of Hoxa11 that is highly conserved across all vertebrates. Design an experiment to test the hypothesis that this region is the stripe enhancer. State your expected result. Make a plasmid containing the 450 bp putative enhancer, a basal promoter, and a reporter gene like GFP (or LacZ). Inject this plasmid into a mouse embryo and look for fluorescence (or stain for LacZ expression by adding a chemical that becomes colored in the presence of B-galactosidase). If the region is the stripe enhancer, you should see a stripe of fluorescence (purple) near the pelvis.
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Question 1b a. (2 points) You are working for the Butterball Turkey Company. You want to minimize the effort spent plucking turkey feathers, so you decide to study a wild strain of turkey that lacks feathers. You hypothesize that a difference in expression of a gene called fea2 is responsible for the lack of feathers. Name 2 techniques you could use to detect expression of fea2 in developing turkeys. Immunolocalization In situ hybridization Indeed, you find that fea2 is expressed in spots in the developing turkey skin in wildtype, feathered turkeys—but not in featherless turkeys. You next perform an array Comparative Genomic Hybridization (aCGH) experiment. You label DNA from the featherless strain with a red probe, and label DNA from the wildtype strain with a green probe. You mix the labeled DNAs together and add them to a chip containing genomic DNA clones. You detect an interesting pattern downstream of the fea2 coding region: b. (1 point) What type of mutation is present in the featherless strain? Deletion OR Copy number variant
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This note was uploaded on 01/28/2010 for the course MCB 104 taught by Professor Urnov during the Fall '09 term at University of California, Berkeley.

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All Quiz 3 Answers - Question 1a a. (1 point) You are...

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