Bio 471, Senior Seminar  (spring 2014)

Schedule:
30 Apr  No class.
There is no final exam for Bio 471.

Excellent books


Austad SN. Why We Age. Both the physiological why and the evolutionary why.
Brand, S. Whole Earth Discipline: An Ecopragmatist Manifesto. Only science and engineering can solve environmental problems.  Nuclear power and genetically-modified organisms are good.
Csikszentmihalyi M. Finding Flow. Happiness comes from doing difficult things.
Dawkins R. The Selfish Gene. Evolution is stranger than you thought.
Diamond J. Guns, Germs, and Steel. Why didn't Native Americans invade Europe?
Kelly, K. What Technology Wants. There is only one machine.  Biology and technology are inseparable.
McDougall, C. Born to Run. Tarahumara distance runners and the biomechanics of running.
Tufte E. The Cognitive Style of PowerPoint. PPT weakens reasoning. Never read aloud from slides.
Vogel S. Life in Moving Fluids. Clear writing about the interface between physics and biology.
Weiner J. The Beak of the Finch. A lifetime of field work on the evolution of Galapagos finches.
Weiner J. Time, Love, Memory. How to be an experimental biologist, and why fruit fly behavior matters.
Wilson EO. The Social Conquest of Earth.  Ants and humans rule because of their social structures.  Group selection can work.
Bio 112, General Biology II  (spring 2014)

Schedule for the last two weeks of class:
Fri 25 Apr   Mechanisms of evolution.  Course evaluation.

Mon 28 Apr  Problem set.
Wed 30 Apr   Review and questions.  Last day to appeal exam #5 scores.
Fri 2 May   No class.

Tue 6 May, 1:30 pm, Cramer 120:  Final exam.  
No early or late final exams will be given.

Required handouts and video (date assigned):
Syllabus (13 Jan);  First day questions (13 Jan);  Control of gene expression handout (15 Jan);  Control of gene expression video (15 Jan)   Problem set (17 Jan);  Animal development (20 Jan);  Problem set (27 Jan);  Hormones (31 Jan);  Exam #1 Key (3 Feb);  Blood sugar regulation (5 Feb);  Female reproductive cycle (10 Feb);  Problem set (12 Feb);  Neurons (14 Feb);  Problem set (17 Feb);  Exam #2 Key (19 Feb);  Synapses (26 Feb);  Problem set (3 Mar);  Exam #3 Key (5 Mar);  Sensory physiology (10 Mar);  Muscles (12 Mar);  Problem set (24 Mar);  Exam #4 Key (26 Mar);  Exercise physiology (28 Mar);  Evidence for evolution (4 Apr);  Problem set (14 Apr);  Exam #5 Key (16 Apr);  Natural selection (23 Apr)

Slides (diagrams and photos) used in lectures:
Gene expression and development (20 Jan);  Hox genes (24 Jan);  Neurons and the connectome (28 Feb);  Muscles (12 Mar);  Evidence for evolution (9 Apr)

Recommended readings:
A college-level introductory biology textbook for majors, e.g. texts by Sadava, Freeman, Raven, or Campbell.
Control of gene expression: Essentials of Cell Biology, Unit 2.3.
Embyonic development.   Frog embryology.   Hox genes in development.
Human hormones.  Female reproductive cycle.   Menstrual cycle.
Neuroscience Online: Chapters 1-3 and  6.
Illustrated screencasts on muscle structure and function: 1,  2,  3.
The sliding filament "theory" of muscle contraction.
Science and creationism (A good summary of the evidence for evolution, from the National Academy of Sciences).
Evolution is change in the inherited traits of a population through successive generations (An introduction, from nature.com).

Other resources:
Results of the optional, anonymous evolution survey.
Exams from last year's Bio 112, with keys.
nature:Education:  EvolutionMutationsNatural selection.
TalkOrigins, especially:  Radiometric datingTransitional formsAnatomical vestigesFive major misconceptions about evolution.
Why evolution is true.   Understanding Evolution.  Your Inner Fish.
Bio 344  Ecology  (spring 2014)

Schedule for the last two weeks of class:
Fri 25 Apr   Required class: short problem set on writing; course evaluation; exams back.

Mon 28 Apr   No class.
Wed 30 Apr   2nd research proposal due at 1:00 pm.
Fri 2 May   No class.  Late 2nd research proposals not accepted after 5:00 pm.

There is no final exam for Bio 344.

Required handouts (date assigned):
Syllabus (13 Jan);  First day questions (13 Jan);  Thermal ecology (15 Jan);  Problem set (17 Jan);  Allometry handout (20 Jan);  Allometry video (20 Jan);  Discussion of Deutsch 2008 (24 Jan);  Problem set (31 Jan);  Exam #1 Key (3 Feb);  Photosynthesis (3 Feb);  Cohort life tables (5 Feb);  Discussion of Zanette 2011 (7 Feb);  Mortality and fecundity (10 Feb);  Research proposals (10 Feb);  Problem set (14 Feb);  How to use Gapminder (14 Feb);  Problem set (17 Feb);  Exam #2 Key (19 Feb);  Discussion of Nordling 1998 (21 Feb);  Population growth equations (24 Feb);  SIR model of epidemics (24 Feb);  Problem set (3 Mar);  Exam #3 Key (5 Mar);  Discussion of Rickard 2010 (10 Mar);  Global C cycle (26 Mar);  Second research proposal (7 Apr);  Geoengineering (9 Apr);  Discussion of Dorrepaal 2009 (11 Apr);  Problem set (14 Apr)

Required papers:
#1:  Deutsch et al. 2008. Impacts of climate warming on terrestrial ectotherms across latitude.
#2:  Zanette et al. 2011.  Perceived predation risk reduces the number of offspring songbirds produce per year.  (Video)
#3:  Nordling et al. 1998. Reproductive effort reduces specific immune response and parasite resistance.
#4:  Rickard et al. 2010. Food availability at birth limited reproductive success in historical humans.
#5:  Norby et al. 2010. CO2 enhancement of forest productivity constrained by limited nitrogen availability.
#6:  Dorrepaal et al. 2009.  Carbon respiration from subsurface peat accelerated by climate warming in the subarctic.  (Supplementary Information)

Papers cited in lectures, handouts or problem sets:
Portner and Knust. 2007.  Climate change affects marine fishes (eelpout)...
Bettencourt et al. 2007. Growth, innovation, scaling, and the pace of life in cities.
Jones et al. 2014. Diversity of ageing across the tree of life.
Gapminder video: 200 years that changed the world.
Robock et al. 2009.  Benefits, risks, and costs of stratospheric geoengineering.

Other resources:
The surprising math of cities and corporations, a TED talk by G. West.
Gapminder.org, beautiful data graphics on human demography and economics.
Falkowski et al. 2000. The global C cycle ...
NRDC, an effective group of activist environmental lawyers and scientists.
Some excellent graduate programs in ecology: UC DavisUC BerkeleyHarvardUNM.
MPA and MPP programs with an emphasis on environmental policy: ColumbiaDukeUCSB.
The best environmental law schools: VermontUC BerkeleyLewis and Clark.