Difference between revisions of "Evolutionary Biology Spring 2016"

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{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/EEB2245_S2015_Activity6_NatureReserveDesign.pdf}}Activity 6
 
{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/EEB2245_S2015_Activity6_NatureReserveDesign.pdf}}Activity 6
 
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|<span style="font-size: small"><font color="#FF3300">'''Feb 10'''</font></span>||<span style="font-size: small"><font color="#FF3300">'''EXAM 1 (50 pts)'''</font></span> & Natural selection || Ch 11 ||
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|Feb 9|| Selection on genotypes || Ch 6.6 ||[http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_5_-_Feb_5th_2015 Study Questions]<br>
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{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/EEB2245_S2015_Activity6_NatureReserveDesign.pdf}}Activity 6
 
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|Feb 11|| Genetic Drift || Ch 6.4-6.5 ||[http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lectures_6_.26_7_-_Feb_10th_and_12th_2015 Study Questions]<br>
 
|Feb 11|| Genetic Drift || Ch 6.4-6.5 ||[http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lectures_6_.26_7_-_Feb_10th_and_12th_2015 Study Questions]<br>
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<span style="font-size: small"><font color="#FF3300"> '''Review Session tonight 7-9pm BPP 130'''</font></span> <span style="font-size: small"><font color="#FF3300">
 
<span style="font-size: small"><font color="#FF3300"> '''Review Session tonight 7-9pm BPP 130'''</font></span> <span style="font-size: small"><font color="#FF3300">
 
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|<span style="font-size: small"><font color="#FF3300"> '''Mar 5'''</font></span>|| <span style="font-size: small"><font color="#FF3300">'''EXAM 2 (100 pts, midterm covering all lectures)'''</font></span> ||||
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|<span style="font-size: small"><font color="#FF3300"> '''Mar 3'''</font></span>|| <span style="font-size: small"><font color="#FF3300">'''MIDTERM EXAM (100 pts)'''</font></span> ||||
 
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| || '''Part II: Mar 10 - May 7, Dr. Chris Simon''' ||  ||
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| || '''Part II: Mar 8 - May 7, Dr. Yaowu Yuan''' ||  ||
 
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|Mar 10 || Mechanisms of Speciation: Reproductive Isolation. (taught by Dr. Jockusch) || Ch 17 & 18 || [http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_13_-_Mar_10th_2015 Study Questions]
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|Mar 8 || Phylogenetics: concepts and forensic applications || Ch 4 || [http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_13_-_Mar_10th_2015 Study Questions]
 
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|Mar 12 || Species Concepts; Hybridization (taught by Dr. Wade)|| Ch 17 & 18 ||[http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_14_-_Mar_12th_2015 Discussion Questions]<br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/EEB2245_S15_Dr.Wade_12Mar15.pdf}} '''Lecture 14'''  
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|Mar 10 || The tree of life and inferring phylogenies|| Ch 4, 9.3 ||[http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_14_-_Mar_12th_2015 Discussion Questions]<br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/EEB2245_S15_Dr.Wade_12Mar15.pdf}} '''Lecture 14'''  
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|Mar 15|| '''SPRING BREAK''' ||||
 
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|Mar 17|| '''SPRING BREAK''' ||||
 
|Mar 17|| '''SPRING BREAK''' ||||
 
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|Mar 19|| '''SPRING BREAK''' ||||
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|Mar 22|| Molecular evolution I || Ch 5.1, 9 || [http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_15_-_Mar_24th_2015 Discussion Questions] <br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/EEB%202245%20Speciation%20Mechanisms%20Spring%2015.pdf}} '''Lecture 15'''
 
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|Mar 24|| Speciation Mechanisms. Spatial, temporal, chromosomal with and without hybridization|| Ch 17, 18 & 531-533pp (ch 19) || [http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_15_-_Mar_24th_2015 Discussion Questions] <br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/EEB%202245%20Speciation%20Mechanisms%20Spring%2015.pdf}} '''Lecture 15'''
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|Mar 24|| Molecular evolution II|| Ch 9 || [http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_16_-_Mar_26th_2015 Discussion Questions]<br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect%2016.%20Part%20I.%20EEB%202245%20Speciation%20Mechanisms%20Spring%2015.pdf}} '''Lecture 16 part I'''<br>{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect%2016.%20Part%202.%20%20Systematics-Tree%20thinking%20EEB%202245%20S%202015.pdf}} '''Lecture 16 part II'''
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|Mar 26|| Systematics, the study of biodiversity and its origins.<br> Problems in constructing relationships: polymorphisms and homoplasy.<br> Tree thinking.|| Ch 2 & 3 || [http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_16_-_Mar_26th_2015 Discussion Questions]<br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect%2016.%20Part%20I.%20EEB%202245%20Speciation%20Mechanisms%20Spring%2015.pdf}} '''Lecture 16 part I'''<br>{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect%2016.%20Part%202.%20%20Systematics-Tree%20thinking%20EEB%202245%20S%202015.pdf}} '''Lecture 16 part II'''
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|Mar 26||'''Discussion Session''' 7-8pm BPB 131|| Discussion questions<br> Lectures 14, 15 & 16||
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|Mar 30||'''Discussion Session''' 8-9pm BPB 131|| Discussion questions<br> Lectures 14, 15 & 16||
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|Mar 31|| Homoplasy (continued): convergence, parallelisms, and reversals in evolution. ||Ch 2 & 3||[http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_17_-_Mar_31st_2015 Discussion Questions]<br>{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect17EEB2245_small.pdf}} '''Lecture 17''' <br>  
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|Mar 29|| Genome evolution ||Ch 9||[http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_17_-_Mar_31st_2015 Discussion Questions]<br>{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect17EEB2245_small.pdf}} '''Lecture 17''' <br>  
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|Apr 2|| Reconstructing evolutionary trees from morphological and molecular data. ||Ch 2 & 3|| [http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_18_-_Apr_02nd_2015 Discussion Questions]<br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect%2018.%20F15%20EEB2245%20Tree%20building%20to%20post%20corrected%202%20Apr%2015.pdf}} '''Lecture 18 corrected'''
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|Apr 2||'''Discussion Session''' 7-9pm BPB 131|| Discussion questions<br> Lectures 17 & 18 + Exam review||
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|Apr 7||'''Discussion Session''' 7-9pm BPB 131|| Discussion questions<br> Lectures 17, 18 & 19 + Exam review|| 
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|Apr 7|| Reconstructing evolutionary trees from morphological and molecular data.<br> How molecules evolve. Is there a molecular clock?  ||Ch 2 & 3||[http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_19_-_Apr_07th_2015 Discussion Questions] <br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect%2019.%20F15%20EEB2245%20Tree%20building%20part%202.%20Clock%20part%201%20revised%207Apr15%20.pdf}} '''Lecture 19 revised'''
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|<span style="font-size: small"><font color="#FF3300">'''Apr 9'''</font></span>|| Molecular Clock (continued) <br> <span style="font-size: small"><font color="#FF3300">'''EXAM 3 (50 pts)'''</font></span>|| || [http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_20_-_Apr_09th_2015 Discussion Questions]<br>{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect%2020.%20F15%20EEB2245%20Molecular%20Clock%20part%202.%209Apr15%20%20.pdf}} '''Lecture 20'''
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|Apr 9||'''Discussion Session''' '''CANCELLED'''|| ||
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|Apr 13||'''Discussion Session''' 8-9pm BPB 131|| Discussion questions<br> Lectures 19 & 20||
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|Apr 14|| An overview of life|| This is mostly review from intro-biology || [http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_21_-_Apr_14th_2015 Discussion Questions] <br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect21.pdf}} '''Lecture 21'''
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|Apr 16|| Introduction and overview of the fossil record.  The origin of life.<br> The RNA world.  Prokaryote world.  The origin of animals; the Ediacaran Fauna. Mass extinctions. || Ch 4 & 5, pp 168-171, Box 7A ||[http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_22_-_Apr_16th_2015 Discussion Questions] <br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect22.pdf}} '''Lecture 22'''
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|Apr 16||'''Discussion Session''' 7-8pm BPB 131|| Discussion questions<br> Lectures 21 & 22||
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|Apr 20||'''Discussion Session''' 8-9pm BPB 130|| Discussion questions<br> Lectures 21 & 22||
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|Mar 31 || The origin of life ||Web sources|| [http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_18_-_Apr_02nd_2015 Discussion Questions]<br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect%2018.%20F15%20EEB2245%20Tree%20building%20to%20post%20corrected%202%20Apr%2015.pdf}} '''Lecture 18 corrected'''
 
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|Apr 21|| '''The Paleozoic:''' Cambrian explosion (or was it?). The origin of vertebrates and the invasion of land. Ordovician (the age of jawless vertebrates), Silurian (first life on land), Devonian (the age of fishes). Carboniferous (Dragonflies w/ 2 ft. wing span, clubmoss forests); Permian. The origin of mammals. The Permo-Triassic boundary mass extinction. || Ch 4 & 5, 168-171, box 7A ||[http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_23_-_Apr_21st_2015  Discussion Questions]<br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect23.pdf}} '''Lecture 23 Paleozoic''' <br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect23_mesozoic.pdf}} '''Lecture 23 Mesozoic''' <br> [http://www.pbs.org/your-inner-fish/home/ Your Inner Fish] '''PBS 3-episode show on the evolution of tetrapods.''' Very cool animations! First episode is all about Tiktaalik.
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|Apr 5||Macroevolution, the fossil records, and biogeography I || Ch 13, 14||
 
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|Apr 23|| '''The Mesozoic:''' The age of reptiles. Pangea breaks up followed by Laurasia and Gondwanaland. The evolution of birds from dinosaurs, insects and angiosperms radiate. The K-T Boundary. The extinction of the dinosaurs. Birds and mammals cross the boundary. || Ch 4, 5 & 6 ||[http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_24_-_Apr_23rd_2015 Discussion Questions] <br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect24.pdf}} '''Lecture 24 Mesozoic continued'''<br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect24_25_cenozoic}} '''Lecture 24 and 25 Cenozoic'''<br>
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|Apr 7||Macroevolution, the fossil records, and biogeography II|| Ch 13, 14 ||
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[https://www.youtube.com/watch?v=ujYNSDYIZKw Evolution: Great Transformations] <br> [https://www.youtube.com/watch?v=twv9V4Zeugc What Darwin Never Knew]
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|Apr 23||'''Discussion Session''' 7-8pm BPB 131|| Lectures 23 & 24||
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|Apr 12|| Evolution of morphological variation (Evo-Devo) I ||Ch 10.5-10.11 ||[http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_19_-_Apr_07th_2015 Discussion Questions] <br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect%2019.%20F15%20EEB2245%20Tree%20building%20part%202.%20Clock%20part%201%20revised%207Apr15%20.pdf}} '''Lecture 19 revised'''
 
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|Apr 27||'''Discussion Session''' 8-9pm BPB 130|| Lectures 23 & 24||
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|Apr 14||Evolution of morphological variation (Evo-Devo) II || Ch 10.5-10.11 ||
 
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|Apr 28|| '''The Cenozoic:''' Greenhouse to Icehouse. Continental drift, land bridges, mountain building. Modern biogeographic distributions take shape. The great American interchange. Primate evolution. || Ch 4, 5 & 6 || [http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_25_-_Apr_28th_2015 Discussion Questions] <br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect25_cenozoic_part2.pdf}} '''Lecture 25 Cenozoic part 2''' <br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect26_human_evolution.pdf}} '''Lecture 26a Primate & Human Evolution'''
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|Apr 19||Species interactions and coevolution|| Ch 15||
 
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|Apr 30|| Human evolution; Mitochondrial Eve and her relatives. Africa, our most diverse continent. Humans invade Asia and the Pacific and later North America. Biogeography and Biodiversity. || Ch 4, 5 & 6|| [http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_26_-_Apr_30th_2015 Discussion Questions] <br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect26b_human_evol_cont.pdf}} '''Lecture 26b Human Evolution continued'''<br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect%2026c_Biogeography_Biodiversity.pdf}} '''Lecture 26c Biogeography and Biodiversity'''
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|Apr 21|| Evolution of social behavior|| Ch 16.6-16.10 || [http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_21_-_Apr_14th_2015 Discussion Questions] <br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect21.pdf}} '''Lecture 21'''
 
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|Apr 30||'''Discussion Session''' 7-8pm BPB 130|| Lectures 25 & 26 + Final review ||{{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Recommended_videos_evolution.pdf}} Short videos about evolution. This can help you study for the exam.
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|Apr 26|| Evolutionary Medicine : Epidemiology || Ch 18 ||[http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Evolutionary_Biology_Spring_2015_Study_Questions#Lecture_22_-_Apr_16th_2015 Discussion Questions] <br> {{pdf|http://hydrodictyon.eeb.uconn.edu/courses/eeb245W/csimon/Lect22.pdf}} '''Lecture 22'''
 
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|May 4 || Office hours '''BPB 130 2-4 pm''' || TA available for questions ||'''Come ask any questions you may have on the material before the final. This is NOT a review session. Come prepared with questions'''||
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|Apr 28|| Evolutionary Medicine: Cancer || Ch 18||
 
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|<span style="font-size: small"><font color="#FF3300">'''May 7''' </font></span>|| <span style="font-size: small"><font color="#FF3300">'''EXAM 4 (100 pts) & COMPREHENSIVE FINAL EXAM (70 pts)''' </font></span> '''8 - 10am TLS 154''' ||||
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|<span style="font-size: small"><font color="#FF3300">'''May 7''' </font></span>|| <span style="font-size: small"><font color="#FF3300">'''COMPREHENSIVE FINAL EXAM (150 pts)''' </font></span> '''8 - 10am TLS 154''' ||||
 
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[[Category:EEB Courses]]
 
[[Category:EEB Courses]]

Revision as of 15:07, 20 January 2016

Lecture Schedule

Please read assigned chapters, as indicated below, prior to class
This schedule is subject to change. Check regularly for updates!


Date Topic Readings Study Questions / Problem Sets
Part I: Jan 20 - Mar 6, Dr. Elizabeth Jockusch
Jan 19 Class organization; Introduction to the study of evolutionary biology Ch 1 Study Questions

Pdficon small.gif Activity 1, Evolutionary vs. non-evolutionary change
Bird-of-paradise courtship

Jan 21 Natural Selection on Phenotypes Ch 2, 8 Study Questions
Pdficon small.gif Activity 2, testing for HWE
Jan 26 Natural Selection II Ch 8
Jan 28 Quantitative Genetics Ch 7 Study Questions

More about kuru and prions
Pdficon small.gif The math behind the HWE
Pdficon small.gif Activity 3, assortative mating vs inbreeding
Pdficon small.gifActivity 4-due Mon. Feb. 2 by 11pm

Feb 2 Sexual Selection Ch 11 Study Questions

Pdficon small.gifProblem Set 1
Pdficon small.gif Activity 4 results
Pdficon small.gifActivity 5-due Thurs. Feb. 5 at 9:15 am
Pdficon small.gif Activity 5 answers

Feb 4 Hardy-Weinberg equilibrium Ch 6.1-6.3 Study Questions

Pdficon small.gifActivity 6

Feb 9 Selection on genotypes Ch 6.6 Study Questions

Pdficon small.gifActivity 6

Feb 11 Genetic Drift Ch 6.4-6.5 Study Questions

Pdficon small.gifActivity 7

Feb 16 Mutation, migration &nonrandom mating Ch 6.7-6.8 Study Questions

Pdficon small.gifActivity 8-due Tues. Feb. 17 at 9:15 am

Feb 18 Applications of population genetics I: conservation TBA Study Questions

Pdficon small.gifActivity 9-Mean fitness table at end of Activity 8 due in class today

Feb 23 Applications II: variation within and between populations TBA Study Questions

Pdficon small.gifActivity 10-Selection on dominant vs. recessive alleles : online portion due before class; bring your graphs to class

Feb 25 Speciation I Ch 13 Study Questions
Mar 1 Speciation II Ch 13 Study Questions

Review Session tonight 7-9pm BPP 130

Mar 3 MIDTERM EXAM (100 pts)
Part II: Mar 8 - May 7, Dr. Yaowu Yuan
Mar 8 Phylogenetics: concepts and forensic applications Ch 4 Study Questions
Mar 10 The tree of life and inferring phylogenies Ch 4, 9.3 Discussion Questions
Pdficon small.gif Lecture 14
Mar 15 SPRING BREAK
Mar 17 SPRING BREAK
Mar 22 Molecular evolution I Ch 5.1, 9 Discussion Questions
Pdficon small.gif Lecture 15
Mar 24 Molecular evolution II Ch 9 Discussion Questions
Pdficon small.gif Lecture 16 part I
Pdficon small.gif Lecture 16 part II
Mar 29 Genome evolution Ch 9 Discussion Questions
Pdficon small.gif Lecture 17
Mar 31 The origin of life Web sources Discussion Questions
Pdficon small.gif Lecture 18 corrected
Apr 5 Macroevolution, the fossil records, and biogeography I Ch 13, 14
Apr 7 Macroevolution, the fossil records, and biogeography II Ch 13, 14
Apr 12 Evolution of morphological variation (Evo-Devo) I Ch 10.5-10.11 Discussion Questions
Pdficon small.gif Lecture 19 revised
Apr 14 Evolution of morphological variation (Evo-Devo) II Ch 10.5-10.11
Apr 19 Species interactions and coevolution Ch 15
Apr 21 Evolution of social behavior Ch 16.6-16.10 Discussion Questions
Pdficon small.gif Lecture 21
Apr 26 Evolutionary Medicine : Epidemiology Ch 18 Discussion Questions
Pdficon small.gif Lecture 22
Apr 28 Evolutionary Medicine: Cancer Ch 18
May 7 COMPREHENSIVE FINAL EXAM (150 pts) 8 - 10am TLS 154
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