MIC102 - Mic102/Spr08/Appleman Final exam, 10 June 2008...

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1/11 Mic102/Spr08/Appleman Final exam, 10 June 2008 This exam is to represent only your own work . As a UC Davis student, you are bound by an honor code; if you can’t be trusted with that, can you be trusted in a career in, say, the health professions? Not only does this honor code demand personal integrity, but it also requires you to demand integrity from your peers. This exam is closed book, closed note. Please hand in a blue scantron with the answers to the multiple choice section of the exam. Make sure that it has your name, student I.D.#, and Test form A ” filled in. Published in April 2004, this is one of the most influential biology papers of the 21 st century. It introduced environmental shotgun sequencing. This technique has since been exploited to look at many environments and has given us a much richer understanding of life on earth—not to mention a better understanding of the rich and diverse community of organisms living in and on us.
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2/11 1. Why is environmental shotgun sequencing so fantastic? a) it can’t answer “who is there,” but it tells you everything about what is being done in an environment b) it does not depend upon being able to culture organisms in the lab—most organisms can’t be cultured c) it is cheap, and requires little equipment d) it correlates metabolic phenotypes with morphological phenotypes 2. Which of the following data provides useful information about the biology of the Sargasso sea? a) sequence of short (~5,000 bp) DNA fragments that cannot be assigned to a particular organism b) complete genome sequences c) incomplete genome sequences that nonetheless have genes for rRNA in them d) all of the above—even if you don’t know who has a gene, you can tell that that gene’s activity is present in the environment. 3. The authors of this study (who are very up-to-date) claim the discovery over 100 distinct new bacterial types. The criterion for a “new” type of Bacterium is a) rRNA sequence that is less than 97% similar to anything previously described. rRNA is how we define phylogeny b) a previously unknown energy generating system c) a new autotrophic pathway d) a previously unknown morphology 4. The authors made a phylogenetic “family tree” based on rRNA sequence for all the DNA they sequenced. They then did the same for other essential genes such as recA , EF-Tu. They found a) unsurprisingly, the trees were all the same b) the trees all differed, probably due to lateral gene transfer. c) the trees all differed, since rRNA is not a reliable indicator of phylogeny d) the trees all differed, since rRNA evolves more rapidly than other genes 5. In sequencing all the DNA in their samples from the Sargasso sea, the authors discovered several plasmids over 100,000 base pairs in size. These were pretty clearly conjugative plasmids, because they had tra genes. What cellular structure is associated with these plasmids?
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This note was uploaded on 06/15/2010 for the course MIC MIC 102 taught by Professor Alexappleman during the Spring '08 term at UC Davis.

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MIC102 - Mic102/Spr08/Appleman Final exam, 10 June 2008...

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