Olympia

High School

1302 North Street
Olympia, WA 98501
Phone: (360) 596-7000
Attendance: (360) 596-7003
Fax: (360) 596-7001

Honors Biology schedule and homework for February 20-24, updated February 19 @ noon PST.

NOTE:  It is not realistic to expect that your first exposure to a concept will result in understanding....just like learning a new language.  Do not allow yourself to become frustrated.  With effort and repetition, you will gain the clarity your brain so desires.


TEST MAKE UP:  If you missed the test on Friday you are not alone.  I have arranged to have Lyndlee Lusk protor the make up test IN MY CLASSROOM AT 7:15 WEDNESDAY MORNING.  Ms. Lusk is based in portable 1 (study hall), but there is not enough seating there.  Please arrive on time.  You will have the same 45 minute test period that the others got.  If you're late, it will cut into your available time.  IF YOU CANNOT MAKE IT TO THE MAKE UP, YOU MUST LET ME KNOW AHEAD OF TIME.  PLEASE SPREAD THE WORD.  NOT ALL OF YOUR COLLEAGUES ARE CHECKING THIS WEBSITE.

 

* Monday - No school.....President's Day

* Tuesday -  No school....PD #2?

* Wednesday - Origin of life?  Abiogenesis?  How did it all get started?  Read sections 17.1 - 17.4, with special emphasis on the experiment illustrated in figure 17.9 on page 447.  Or if you prefer, read my own summary regarding abiogenesis (chemical evolution) below.

* Thursday - Timeline of the really significant events in the history of life.  Please bring this to class.  history_of_life_on_earth.doc

* Friday - The "Tree of Life" video:  The bacteria were the first cells to emerge from the primordial soup.

 

Notes for the week:

Abiogenesis, aka Origin of Life, aka Chemical Evolution:  This is not biological evolution, which deals only with changes in life over time.  Abiogenesis (origin of the first cells) is different.  Unlike biological evolution which is an empirical fact, the origin of the first cells is hypothetical and speculative.  Nevertheless, we have some brilliant minds working on it, and some progress has been made, but the obstacles in our understanding always come back to ORGANIZATION.  You see, if life self-organized from some sort of primordial soup primordial_soup.jpg , we really can't demonstrate self organization. You should be aware that the other two possibilities are not testable.  They are:  Panspermia (cells came to earth from outer space >3.8 billion years ago), and Supernatural/Divine intervention (which is not testable and for which there is no evidence).  In the 1920s, Oparin (Russia) and Haldane (England) both hypothesized that the early earth would have had a very chemically rich atmosphere with lots of energy.  They also hypothesized that there would not be NO OXYGEN in this atmosphere (thus a "reducing" atmosphere) because it's too reactive and must be continuously replenished by photosynthesis.  Fast forward to the 1950s at the University of Chicago, where Stanly Miller and Harold Urey developed a rudimentary contraption to test the hypothesis of Oparin and Haldane (see figure 17.9, p 447).  What they got from these experiments was exciting:  For example, these experiments produced some amino acids, nitrogenous bases, and aldehyde sugars.  But that leaves a Grand Canyon-sized chasm in understanding how these pieces could have self-assembled.  Especially problematic is the evolution of the universal genetic code. 

Timeline:  From radiometric dating, scientists have determined that the earth formed 4.56 billion years ago.  There is evidence that for the next 500 million years, the young planet was being bombarded by giant asteroids, smallish planets, and lots and lots of comets.  This is called the period of great bombardment.  Thus scientists speculate that cataclysmic impacts would wipe out any proto-life that may have formed during this time.  The bombardment ended about 4 billion years ago, and by 3.8 billion years ago there is compelling evidence of life (chemical signatures of carbon compounds known to be associated only with cellular activity).  That's a window of "only" 200 million years.  The oldest real fossils date to 3.5 billion years ago.

As we transition from the history and evolution of life on earth, we need to keep a perspective of the original life forms on the planet ... the microbes.  Please read the following short exerpt:  deep_history_of_life.doc    primordial_soup.jpgThe tree of life as represented in 1866 by Ernst Haekel (an "apostle" of Charles Darwin):  haeckel1866-1.pdf

The tree of life as represented in the 21st century: tolmmbr2009-3.pdf

A simplified version of the modern tree of life:  threedomains.pdf

In the Trees shown above, please note the difference in how the microbes are treated.

The video this week is very personal to me, since it features Carl Woese (https://en.wikipedia.org/wiki/Carl_Woese).  In a sense, I was a student of Woese.  We corresponded with frequency during the last 4 years of his life.  He sent me dozens of his landmark papers on microbial evolution...a field completely overlooked by Darwinian evolution.  He also sent me books to read.  I read everything he sent, and then we would discuss these books and papers and their implications.  It was a mental workout. In 2010, Woese invited me to visit him at the University of Illinois.  I spent three nights and 2 full days talking with him, in meetings, getting private presentations, dining, and most memorably, "Carl" took me to the lab where he did his landmark work on the discovery of the Archaea.   Several scenes in the video were filmed in this lab.  At the time of my visit, Woese was 82 (he never retired), and he explained to me the methods he used to sequence RNA before anyone else was comparing species based on nucleotide sequences. woesebassett.jpg Furthermore, as his guest, my trip was paid for 100% by Woese.  Woese introduced me to many of his colleagues, including Norman Pace (https://en.wikipedia.org/wiki/Norman_R._Pace), also featured in the video.  Woese died December 30 2012 of pancreatic cancer.  The new lab where he worked until he couldn't work any more (October 2012) was later renamed The Carl R. Woese Institute for Genomic Biology  http://www.igb.illinois.edu/about/archaea 

 

 

 

Archived downloads and links

Test 1 Break

evolution_practice.pdf

patterns_of_evolution.doc

radiometric_dating.doc

radiometric_dating_problems.doc

https://www.pbs.org/wgbh/evolution/library/01/4/pdf/l_014_02.pdf

http://news.nationalgeographic.com/2015/09/150910-human-evolution-change/

https://www.youtube.com/watch?v=9sjwlxQ_6LI

https://www.youtube.com/watch?v=n8Cru41w5uI

radiometric_decay_series.pdf

ptclab.doc

hw_problems.doc

More Hardy-Weinberg problems:  http://www.k-state.edu/parasitology/biology198/hardwein.html

evidence_for_evolution_by_way_of_common_descent.doc

evolution101.doc

concepts_in_the_study_of_evolution-2.doc

http://news.nationalgeographic.com/2015/09/150910-human-evolution-change/

End of first semester:

pedigree_analysis.pdf

http://www.execulink.com/~ekimmel/karyotype_drag_and_drop.swf

common_genetic_disorders_in_humans.doc

pedigree_analysis.pdf

chi_square_test.doc  corn_genetics_lab.doc

terms_related_to_meiosis__and_some_perspective.doc

Contrasting mitosis and meiosis:  6:45  https://www.youtube.com/watch?v=jjEcHra3484

Meiosis video:  5:30   https://www.youtube.com/watch?v=nMEyeKQClqI

http://www.execulink.com/~ekimmel/karyotype_drag_and_drop.swf 

Test 5:

terms_related_to_meiosis__and_some_perspective.doc

Contrasting mitosis and meiosis:  6:45  https://www.youtube.com/watch?v=jjEcHra3484

Meiosis video:  5:30   https://www.youtube.com/watch?v=nMEyeKQClqI

medelian_inheritance_____level_1.doc

bacterial_gene_regulation.doc

the genetic_code-4.doc   and  gene_expression.doc

transcription_translation_mutation.doc

transcription_and_translation.doc

Videos related to gene expression:

The Crash Course guy covers it all in his own annoying (to me) way, 14 minutes  https://www.youtube.com/watch?v=itsb2SqR-R0

Transcription, 2 minutes  https://www.youtube.com/watch?v=SMtWvDbfHLo

Translation, 3 minutes  https://www.youtube.com/watch?v=TfYf_rPWUdY

tRNA, 2 minutes  https://www.youtube.com/watch?v=B6O6uRb1D38&index=4&list=PL1AD35ADA1E93EB6F

Mutations,  6 minutes  https://www.youtube.com/watch?v=xYOK-yzUWSI

 

Test 4 break

https://www.youtube.com/watch?v=C6hn3sA0ip0

http://www.dnalc.org/resources/3d/07-how-dna-is-packaged-basic.html

I made this crossword puzzle for you:  cell_puzzle.pdf

https://www.youtube.com/watch?v=0JpOJ4F4984

1.interphase-with_nucleoilprophaser.jpg

2.early_prophaselmetaphaser.jpg

3.prophaselmetaphaser.jpg

4.prometaphaselc.jpg

5.metaphasel.jpg

6.early_anaphase_with_telophase-cytokinesisbelow.jpg

7.anaphase.jpg

8.telophase-cytokinesislc.jpg

9.telophasel.jpg

DNA Replication:  https://www.youtube.com/watch?v=wcOZHK5bRLs

DNA from Bozeman:  https://www.youtube.com/watch?v=q6PP-C4udkA

Inner life of the cell:  Harvard biologists made a bunch of computer-animated videos that are incredible.  This is some seriously cool stuff.  I'll show some short exerts in class as we come to that particular structure/function.  You can check it out as you like....it's amazing:  https://www.youtube.com/results?search_query=inner+life+of+a+cell

endomembrane_system.doc

cytoskeleton.doc

evolution_of_cells.doc

Khan Academy cells:  https://www.youtube.com/watch?v=Hmwvj9X4GNY

Features of cells:  https://www.youtube.com/watch?v=1Z9pqST72is

cell_type_comparison.doc

Test 3 break:

plant_pigments.doc

completed_organizer.doc

14_photosynthesis.mp3

13_respiration__what_goes_in_what_comes_out.mp3

This is an excellent video overview of cellular respiration:  https://www.youtube.com/watch?v=XIJvVCA9RPs

Photosynthesis video from the same production company:  https://www.youtube.com/watch?v=QSFUHB8VnD0

Mr. Anderson's photosynthesis video:  https://www.youtube.com/watch?v=g78utcLQrJ4

Hank's photosynthesis video:  https://video.search.yahoo.com/yhs/search?fr=yhs-Lkry-SF01&hsimp=yhs-SF01&hspart=Lkry&p=crash+course+photosynthesis#id=1&vid=5c917e42e2423538a0c3fba258e1fbef&action=click

Photosynthesis video game, tutorial, and quiz from Bioman:  http://www.biomanbio.com/GamesandLabs/PhotoRespgames/photointeractive.html

Ted Ed's Calvin Cycle video:  https://www.youtube.com/watch?v=0UzMaoaXKaM

photosynthesis_overview.jpg

energetics-organizer.doc

cellular_respiration-1.doc

Test 2 break

sample_data_analyses.doc

water_potential-5.doc

 catalase_data.doc

lab_report_format-2.doc

https://www.youtube.com/watch?v=g159zCnvpBs

https://www.youtube.com/watch?v=w3_8FSrqc-I

plant video:  https://archive.org/details/ThePrivateLifeOfPlants_581

test_correction_format.doc

grading_codes_for_lab_reports.pdf

biology_laboratory_safety.pdf

This 12 minute video will help you understand the concept and terminology of enzymes. http://www.youtube.com/watch?v=ok9esggzN18

Test 1 break

Water:  Hank https://www.youtube.com/watch?v=HVT3Y3_gHGg

Carbohydrates:  https://www.youtube.com/watch?v=_zm_DyD6FJ0

amino-acid-formulas.doc

Try this crossword puzzle I made (optional).     chemistrycrosswordclues.doc     chemistrycrossword.pdf

https://www.youtube.com/watch?v=VGHD9e3yRIU

https://www.youtube.com/watch?v=2Jgb_DpaQhM

functional_groups-3.doc

period_table_review.doc

http://www.sciencerox.net/PeriodicTables/AtomicRadius.pdf

molecularmodels.doc

ions-adics-bases-ph.doc

molecular_mass.doc

five_tips_for_success_in_honors_biology.doc

 

ABOUT TEST CORRECTIONS:  Because of issues in the past, I'm tightening up my test correction policy.  I reserved the right to disregard all submitted test corrections if I find that a student is purposefully attempting to submit phony test corrections.  For full credit, please follow these guidelines:  ONLY HAND WRITTEN CORRECTIONS WILL BE ACCEPTED FOR CREDIT.

1.  Do not:  Restate the question and/or answer options as written on the test.

2.  Do not:  Share your personal reflections on what you were thinking (or not thinking) while you were taking the test.

3.  Do not:  Say the same thing over and over again.

4.  DO:  Identify the concept that the question deals with.  Use 1/2 page to address that concept using words, labeled diagrams, etc.  test_correction_format.doc

5.  ALL TEST CORRECTIONS MUST BE HAND WRITTEN/DRAWN, AND LEGIBLE.