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Evolutionary Genetics Homework Assignments January 3, 2012 – January 21, 2012 (The homework is for the night assigned and due the next day unless otherwise noted) Day/Date Week 1 Chester Class Period 4 STILL ON VACATION! Reviewed Final. Read the Preface and Chapter 1 of Ken Miller’s, Finding Darwin’s God. Here are some questions to consider as we go forward. 1. In the preface, Miller quotes one of Darwin’s three epitaphs to his most famous book, On the Origin of Species (page xii). Do you agree with Darwin that man can never be too wellstudied in the book of God’s Word and the book of God’s works, or in other words the study of religion and science? Why or why not? 1/2/2012 2. Do you believe that people who do believe in science to its fullest extent (ie- they believe in the whole theory of evolution, macro and micro) must water down any other religious or philosophical beliefs they may have in order to fully embrace scientific theories? Why or why not? 3. In Chapter 1, Miller lays out Darwin’s four main building blocks within the theory of evolution. What are they? 4. In the last few pages of Chapter 1, Miller quotes three scientists, E.O. Wilson, Richard Dawkins (we will read one of his books this spring) and Charles Williams. What are your thoughts on these three quotes about the interplay between science and religion? 1/3/2012 Day 2 5. In Chapter 2, Miller says, “science is founded on the proposition that everything we think we know about the natural world can, in principle, be rejected if it does not meet the test of observation and experiment.” Why is this founding scientific principle so very important to the success of the field of science? What should this mean to the average “joe” out there when critically considering new findings as reported in the everyday media? 6. What three atoms does Miller specifically talk about during his narrative about the sun? How does the sun produce its heat, and how does all of this relate to a hydrogen bomb? 7. How does Miller compare trash that collects in landfills to fossils? What can each tell us about the past? 8. Explain the geological principle of faunal succession. 9. Give an example from Chapter 2 that illustrates how mutations can and have benefitted an organism and increased its likelihood for survival. 10. Evolutionary theory has invoked a lot of intellectual conflict. The field of science welcomes this conflict because, as Miller states, “intellectual conflict, even on a personal level, is good for science because it motivates individual scientists to test their ideas and those of their competitors in the crucibles of experiment and observation.” As we continue our reading of Finding Darwin’s God, one of the main purposes is to challenge each of us to define our own world view in a deeper way. Can you articulate any areas where you foresee being challenged intellectually as we read this book? If your answer is no, what do you hope to gain from this reading (because no one wants to waste their time)? DROP DAY 1/4/2012 1/5/2012 Day 3 Day 4 Define boldface terms: Cytologist, Barbara McClintock, transposable elements, Ac (Activator), Ds (Dissociation),Genetic Cross, transposase, DNA Binding Protein, terminal inverted repeats (TIRs), autonomous element, nonautonomous element, gene excision, gene insertion. 1/6/2012 Day 5 Finished up class lecture on Transposable Elements. You should have read and taken good notes on pages 26-31 in the background section of your course notebook and have good notes with the corresponding power point. Read pages 32-38 about our upcoming experiment and answer the following questions: 1. From which organisms will we use either DNA, genes or other resources to conduct our experiment? 2. What is GFP and why is it necessary to use it in this experiment? 3. What is a plasmid, and how is it used to help engineer the plants used in our experiment? List a use where plasmids facilitate science, medicine, and/or day-to-day survival needs? Day/Date Week 2 Chester Class Period 4 1/9/2012 Day 2 On pages 37-38, familiarize yourself with the six DNA constructs (A-E), and in your lab notebook, write out in your own words how each construct is made and what its phenotype should be under UV light. 1/10/2012 Day 3 Drop Day 1/11/2012 Day 4 Long Period 1/12/2012 Day 5 1/13/2012 Day 1 You need to keep up with laboratory protocols in your notebook. We did the DAY ONE protocol today, and we will complete the DAY TWO protocol tomorrow, which will mean we will have completed our extraction and isolation of Arabidopsis Thaliana by the end of the day tomorrow! We will also pour gels tomorrow so that we can run them out on Friday and see if we have good DNA to go forward with our PCR at some point next week. Finish Extraction and Isolation. Do DNA Dilutions if there is time! Pour gels for tomorrow. Please make sure to write some notes in your lab notebooks about the overall goal of this experiment so that I can tell that you know what we are trying to accomplish by doing this experiment . . .as part of your grade will be given based on my assessment of your understanding of what we are doing. Run genomic DNA. Make sure to add LOADING DYE before loading gels!!! (to make sure we have some before we set up PCR next week) Day/Date Week 3 Chester Class Period 4 MLK Holiday 1/17/2011 1/19/2011 Day 4 Day 5 Long Period 1/20/2011 Day 1 Analyze Genomic DNA Pictures. Prepare for DNA Dilutions and PCR set up. Guest Speakers – Dr. Chris Franklin and Dr. Paul Schliekelman, UGA Statistics Department Finish Transgenics Lecture. For homework, please write a paragraph explaining in your own words how the various DNA constructs for this experiment were made. Also, explain why a given DNA construct (ie – genotype) will present a particular phenotype. How will we know when we run our PCR which plant is which based on the results of the gels? 1/21/2011 Day 2 Do DNA Dilutions and set up PCR. Day/Date Week 4 Chester Class Period 4 1/24/2011 Day 4 1/25/2011 Day 5 1/26/2011 Day 1 1/27/2011 Day 2 1/28/2011 Day 3 DROP DAY Day/Date Week 5 Chester Class Period 4 1/31/2011 Day 5 2/1/2011 Day 1 2/2/2011 Day 2 Long Period 2/3/2011 Day 3 Drop Day 2/4/2011 Day 4 Day/Date Week 1 2/8/2011 Day 1 2/9/2011 Day 2 Long Period 2/10/2011 Day 3 Drop Day 1/18/2011 Chester Class Period 4 2/11/2011 Day 4 2/12/2011 Day 5 Day/Date Week 2 2/15/2011 Day 2 2/16/2011 Day 3 Drop Day 2/17/2011 Day 4 Long Period 2/18/2011 Day 5 2/19/2011 Day 1 Day/Date Week 3 2/22/2011 Day 3 2/23/2011 Day 4 2/24/2011 Day 5 2/25/2011 Day 1 2/26/2011 Day 2 Day/Date Week 4 3/1/2011 Day 4 3/2/2011 Day 5 Chester Class Period 4 Chester Class Period 4 Drop Day Long Period – Possible Greenhouse Field Trip Chester Class Period 4 US Conference Day 3/3/2011 3/4/2011 Day 2 Long Period 3/5/2011 Day 3 Drop Day Day/Date Spring Break Chester Class Period 4 3/8/2010 – 3/12/2010 Have a fabulous Spring Break! Day/Date Week 5 3/15/2010 Day 5 3/16/2010 Day 1 3/17/2010 Day 2 Chester Class Period 4 Long Period Drop Day 3/18/2010 Day 3 3/19/2010 Day 4 Day/Date Week 1 3/22/2010 Day 1 3/23/2010 Day 2 Long Period 3/24/2010 Day 3 Drop Day 3/25/2010 Day 4 3/26/2010 Day 5 Day/Date Week 2 3/29/2010 Day 2 3/30/2010 Day 3 Drop Day 3/31/2010 Long Period 4/1/2010 Day 4 Student Holiday 4/2/2010 School Holiday Day/Date Week 3 4/5/2010 Day 3 4/6/2010 Day 4 4/7/2010 Day 5 4/8/2010 Day 1 4/9/2010 Day 2 Day/Date Week 4 4/12/2010 Day 4 4/13/2010 Day 5 4/14/2010 Day 1 4/15/2010 Day 2 Long Period 4/16/2010 Day 3 Day/Date Week 5 Drop Day Chester Class Period 4 Chester Class Period 4 Chester Class Period 4 Enjoy the Holiday! Chester Class Period 4 Drop Day Long Period Chester Class Period 4 4/19/2010 Day 5 4/20/2010 4/21/2010 Day 1 Day 2 Altered Schedule Cum Laude 4/22/2010 Day 3 Drop Day 4/23/2010 Day 4 Day/Date Week 1 4/26/2010 Day 1 4/27/2010 Day 2 Long Period 4/28/2010 Day 3 Drop Day 4/29/2010 Day 4 4/30/2010 Day 5 Day/Date Week 2 5/3/2010 Day 2 5/4/2010 Day 3 Drop Day 5/5/2010 Day 4 5/6/2010 Day 5 5/7/2010 Day 1 Long Period Will have several students absent this day for AP study AP US History Final – several students will be absent Day/Date Week 3 5/10/2010 Day 3 Chester Class Period 4 Drop Day 5/11/2010 5/12/2010 Day 4 Day 5 Altered Schedule Senior Exit Chapel/BBQ Boogie 5/13/2010 Day 1 5/14/2010 Day 2 Day/Date Week 4 5/17/2010 Day 4 Chester Class Period 4 Chester Class Period 4 Chester Class Period 4 5/18/2010 5/19/2010 5/20/2010 Day 5 Day 1 Altered Schedule Activities Awards Assembly Long Period 5/21/2010 Day 2 US Review Day Day/Date Exams Chester Class Period 4 5/24/2010 US Review Day 5/25/2010 Final Exams 5/26/2010 Final Exams 5/27/2010 Final Exams 5/28/2010 Final Exams Honors Day