Monday Dec 2
Conduct restriction digestions
tape down mushrooms grow bags
inspect mushrooms for pinning
water basil
Tuesday Dec 3
1 missed test
Run digestions on gels
Students mixing in the running buffer is critical to prevent sample loss.
Wednesday Dec 4
Analyze results
more bands appeared 24 hour after staining
DNA replication lesson and Intro to PCR:
Amoeba sisters DNA replication: https://www.youtube.com/watch?v=Qqe4thU-os8&t=3s
Amoeba sisters PCR 8 min: https://www.youtube.com/watch?v=a5jmdh9AnS4&t=2s
Return tests
Return executive summaries
Thursday Dec 5
Analyze results from restriction digestion and enter in lab book
Continue lesson on PCR
Homework:
Lab manual question set 1: PCR reading. Here is the PCR lab manual for an experiment we will be doing in the lab. . https://drive.google.com/file/d/1B4hpfxGpe-j4ZMp44WdGsjDcGuVe2rlC/view?usp=sharing Read the first 10 pages (39-49) and answer the 4 questions on page 49.
Friday Dec 6
Check on mushrooms
Check on basil
Transformations?
Blooket on PCR: https://dashboard.blooket.com/set/632a36e1ff56f0fe6914e157
Image of 3' end and 5' end of DNA. https://i.ytimg.com/vi/IV53GZGr11g/maxresdefault.jpg
Watched this Khan Academy video 10 minutes : https://www.khanacademy.org/science/ap-biology/gene-expression-and-regulation/biotechnology/v/the-polymerase-chain-reaction-pcr
Optional:
Read this chapter on PCR: https://www.khanacademy.org/science/ap-biology/gene-expression-and-regulation/biotechnology/a/polymerase-chain-reaction-pcr
Complete PCR simulation: https://www.labxchange.org/library/items/lb:LabXchange:e145d666:lx_simulation:1?fullscreen=true
Homework:
Lab manual question set 2 on PCR. Please read pages 50-56 and answer the questions on page 56. Student manual for this lab: https://drive.google.com/file/d/1B4hpfxGpe-j4ZMp44WdGsjDcGuVe2rlC/view?usp=sharing
Lesson 3 on PCR and amplifying the Alu repeats: Read pages 57 to 68 and answer questions on page 68. Student manual for this lab:
Monday Dec 9
Test Tuesday Dec 17
Mr. Wyche is away. You have important work to do today. You must make sure that you understand the lab and are ready to begin conducting the first part of (DNA isolation from your cheek cells) on Tuesday.
Please watch these videos in your small groups. Spread out in the room with one device per group to all watch on.
Another teacher explaining the lab and background 15 min: https://www.youtube.com/watch?v=8y0HNDaeerw\
Steps of the lab explained with cartoons 8 min: https://www.youtube.com/watch?v=5cVk0D8LMUo
Video showing the steps in our lab by BioRad 5 min: https://www.youtube.com/watch?v=D_kU2RC7_48
Make sure that you have read the lab manual up to page 68 and completed all questions. Keep your answers in a place where I can check them.
Student manual: https://drive.google.com/file/d/1B4hpfxGpe-j4ZMp44WdGsjDcGuVe2rlC/view?usp=sharing
Answers to all student questions in the student manual: https://drive.google.com/file/d/1PXcKRjKx_fD12Qk5LTN7lP4AE5FjbNt5/view?usp=sharing
Tuesday Dec 10
Conduct lab (DNA isolation) Protocol: https://drive.google.com/file/d/1Bq9Ikky4OP82YKZY02yhrgnccZt36SID/view?usp=sharing
Get started right away as this takes the majority of the period.
Program PCR machines. Parameters: https://drive.google.com/file/d/1PyXVvaHInOa3HLp-o_h71vDB2r0pTMg6/view?usp=sharing
Check all homework
Wed Dec 11
Conduct lab - PCR protocol: https://drive.google.com/file/d/1SVlmtHDX_9Cu8AvSwOzBJeHKLlAsffZq/view?usp=sharing
Label PCR tubes carefully - the marker always rubs off
Do not carry-over any instagene matrix
Thu Dec 12
Conduct lab (Run gel)
fully mix in the loading buffer to prevent sample loss
Load precisely and quickly to avoid sample loss
Do not jiggle the gel to prevent sample loss
Watched: PV92 locus on chromosome 16 video 19 minutes https://www.youtube.com/watch?v=z_skFoKYD5M
The list bit is relevant and about our experiment. The first bit was too technical and students did not like it or learn much from it.
Fri Dec 13
Analyze results
Practice test questions: https://docs.google.com/document/d/1nmxFN0ueokaQn6RosxNZ5g-uQzOo_vav4rmpyYPMAYI/edit?usp=sharing
Student generate multiple choice. Please add in a multiple choice question: https://docs.google.com/forms/d/e/1FAIpQLSdd04LdvjuFdXE1b4MBu1DTT4oSOW__5VfHVPhX9IPCstaxKQ/viewform?usp=header
Student results: https://docs.google.com/document/d/1xNCfHwjTEKB8mpu9-b-wdrAJVwMfrE9KkqEvrOyioG4/edit?usp=sharing
Blookets on PCR
Longer one: https://dashboard.blooket.com/set/640b7d463bc0c7a6c67699aa
Shorter one: https://dashboard.blooket.com/set/65e15280d1ea5226413993da
Blooket on gel electrophoresis: https://dashboard.blooket.com/set/655be78d3f3c825ece8f7749
Homework: get your lab up to date. Create a multiple choice question for your peers.
Monday Dec 16
Go over control pictures I posted yesterday on the google classroom. Talk about the positive and negative controls.
Review and practice test
Intro to research project: https://docs.google.com/document/d/19lNHVrUKpDjm2SIwnIU3kmzyIcz26m07SZuG1gevMXk/edit?usp=sharing
Tuesday Dec 17
PCR, restriction enzymes, and gel electrophoresis test
Fry-up
Research report
Wed Dec 18
Grad forum
Thu Dec 19
Lab clean-up
Two week check-in
Take home basil
Decide on due date
Work on research report
Enter papers here: https://docs.google.com/spreadsheets/d/1Hww05c4D7D-NQFsgyY4h5KjJ-vYsD8ZaP_calVlhpC8/edit?gid=0#gid=0
nuanced conclusion, debates, understanding journal articles
Fri Dec 20
Work on research report (Marty's merry everything)
For interest: bias: https://www.youtube.com/watch?v=zB_OApdxcno or TedEd on Bias: https://www.youtube.com/watch?v=8yOoOL9PC-o
____________________________________________________________________________________________________________________
Lesson on lab procedure
PV92 preplab
Video showing the steps in our lab by biorad 5 min: https://www.youtube.com/watch?v=D_kU2RC7_48
Another teacher explaining the lab and background 15 min: https://www.youtube.com/watch?v=8y0HNDaeerw
Steps of the lab explained with cartoons 8 min: https://www.youtube.com/watch?v=5cVk0D8LMUo
Website about our lab: https://brianmccauley.net/bio-6b/6b-lab/pv92-pcr
Program PCR machines. Parameters for PCR: https://drive.google.com/file/d/1PyXVvaHInOa3HLp-o_h71vDB2r0pTMg6/view?usp=sharing
Teacher: see note to teacher about changes for next year
======================
DNA replication lesson and Intro to PCR:
Amoeba sisters DNA replication: https://www.youtube.com/watch?v=Qqe4thU-os8&t=3s
Amoeba sisters PCR 8 min: https://www.youtube.com/watch?v=a5jmdh9AnS4&t=2s
Continue lesson on PCR
Image of 3' end and 5' end of DNA. https://i.ytimg.com/vi/IV53GZGr11g/maxresdefault.jpg
Watched this Khan Academy video 10 minutes : https://www.khanacademy.org/science/ap-biology/gene-expression-and-regulation/biotechnology/v/the-polymerase-chain-reaction-pcr
Read this chapter on PCR: https://www.khanacademy.org/science/ap-biology/gene-expression-and-regulation/biotechnology/a/polymerase-chain-reaction-pcr
Complete PCR simulation: https://www.labxchange.org/library/items/lb:LabXchange:e145d666:lx_simulation:1?fullscreen=true
Homework: PCR reading. Here is the PCR lab manual for an experiment we will be doing in the lab. . https://drive.google.com/file/d/1B4hpfxGpe-j4ZMp44WdGsjDcGuVe2rlC/view?usp=sharing Read the first 10 pages (39-49) and answer the 4 questions on page 49.
Lesson 2 on PCR. Please read pages 50-56 and answer the questions on page 56. Student manual for this lab: https://drive.google.com/file/d/1B4hpfxGpe-j4ZMp44WdGsjDcGuVe2rlC/view?usp=sharing
________
Blooket: https://dashboard.blooket.com/set/632a36e1ff56f0fe6914e157
Lesson on PV92 locus on chromosome 16 and the alu inserts
Optional: ALU sequence 2min: https://www.youtube.com/watch?v=ayoB8y7GJWI
Transposable elements explained 1 min: https://www.youtube.com/watch?v=JEBuiImSY2s
Lesson 3 on PCR and amplifying the Alu repeats: Read pages 57 to 68 and answer questions on page 68. Student manual for this lab: https://drive.google.com/file/d/1B4hpfxGpe-j4ZMp44WdGsjDcGuVe2rlC/view?usp=sharing
Answers to all student questions in the PCR book: https://drive.google.com/file/d/1PXcKRjKx_fD12Qk5LTN7lP4AE5FjbNt5/view?usp=sharing