BICD123 Syllabus, Handouts, and Lectures  

Mon April 2^nd 

- Course introduction

- Introduction to genetic crosses
  Handout

- Safety video

- Pollination of ap3 mutants

Wed April 4^th    

- Seed storage protein expression/protein gels
  Handout

- Cut off tops of wt Arabidopsis for transformation

Mon April 9^th

- PCR amplification of ap3 mutants 
  Handout
  PCR review

- Seed protein gel analysis 
  Protein ladder

- Check if ap3 mutants were pollinated

- Arabidopsis transformation
   Handout

- General lab report guidelines

- Lab report 1 (Seed storage protein) guidelines

Wed April 11^th          

- Agarose gels, Ligations, Transformations
  Handout
  1 kb plus ladder

- Seed protein gel analysis 
  Protein ladder
  Group 1 gel
  Group 2 gel
  Group 3 gel
  Group 4 gel
  Group 5 gel
  Group 6 gel
  Group 7 gel
  Group 8 gel
  Group 9 gel
  Group 10 gel
  Group 11 gel
  Group 12 gel
  Group 13 gel
  Group 14 gel
  Group 15 gel
  Group 16 gel
  *Best gel*

  Example paper (format of lab report)

**LAB REPORT 1 (SEED STORAGE PROTEINS) DUE FRIDAY APRIL 20, 5PM**
**Turn in lab report at Marty's office (Muir 3212)**
**Late lab reports will be penalized. Lab reports over the page limit will also be penalized.**

Mon April 16^th

- Minipreps, Digests, Gels, Sequencing
  Handout
  Wizard miniprep instructions

  DNA ladder

  AP3 PCR gel

Wed April 18^th    

- Sequence analyses/database search
  Handout
  AP3 cDNA
  AP3 genomic
  AP3 Sequence
  TOPO vector map

  Group 1 WT AP3 sequencing results
  Group 2 WT AP3 sequencing results
  Group 3 WT AP3 sequencing results
  Group 4 WT AP3 sequencing results
  Group 5 WT AP3 sequencing results
  Group 6 WT AP3 sequencing results
  Group 7 WT AP3 sequencing results
  Group 8 WT AP3 sequencing results
  Group 9 WT AP3 sequencing results
  Group 10 WT AP3 sequencing results
  Group 11 WT AP3 sequencing results
  Group 12 WT AP3 sequencing results
  Group 13 WT AP3 sequencing results
  Group 14 WT AP3 sequencing results
  Group 15 WT AP3 sequencing results
  Group 16 WT AP3 sequencing results

  Group 1 mutant ap3 sequencing results
  Group 2 mutant ap3 sequencing results
  Group 3 mutant ap3 sequencing results
  Group 4 mutant ap3 sequencing results
  Group 5 mutant ap3 sequencing results
  Group 6 mutant ap3 sequencing results
  Group 7 mutant ap3 sequencing results
  Group 8 mutant ap3 sequencing results
  Group 9 mutant ap3 sequencing results
  Group 10 mutant ap3 sequencing results
  Group 11 mutant ap3 sequencing results
  Group 12 mutant ap3 sequencing results
  Group 13 mutant ap3 sequencing results
  Group 14 mutant ap3 sequencing results
  Group 15 mutant ap3 sequencing results
  Group 16 mutant ap3 sequencing results

Mon April 23^rd

- Stomatal movements
  Handout
  Reading 1
  Reading 2

Wed April 25^th    

- Nitrate reductase biochemical assay
  Handout 1: overview of nitrate reductase experiments
  Handout 2

**LAB REPORT 2 (AP3 MUTANT SEQUENCE ANALYSIS) DUE FRIDAY MAY 4, 5PM**
**Turn in lab report at Marty's office (Muir 3212)**
**Late lab reports will be penalized. Lab reports over the page limit will also be penalized.**

- General lab report guidelines

- Lab report 2 (AP3 mutant sequence analysis) guidelines

- AP3 papers
  Coen & Meyerowitz 1991

Mon April 30^th   

- Yeast complementation/heavy metal resistance
  Handout

- Plasmids
  AtPCS1
  TaPCS1
  pYES2

  **Example lab 1**

Wed May 2^nd    

- Environmental induction of nitrate reductase
  Handout (refer to Handout 1)

  **Example methods section**

Mon May 7^th    

- Light signaling (Plate seeds on MS)
  Handout

- ap3 crosses (Plant seeds on soil)

- Transformed plants (Plate seeds on MS+Kan)

Wed May 9^th    

- Auxin signaling (RNA extraction)
  Handout

- Put transformed seeds, light seeds, ap3 crosses into growth room

Mon May 14^th    

- Light signaling (hypocotyl measurement)
  Handout

**LAB REPORT 3 (LIGHT REGULATED DEVELOPMENT) DUE MONDAY MAY 21, 1:05PM**
**Turn in lab report in class**
**Late lab reports will be penalized. Lab reports over the page limit will also be penalized.**

- Lab report 3 guidelines

- Photomorphogenesis background information
- Citation information

- Example figure of light signaling results (Excel worksheet)
- Example figure of light signaling results (Word file)

Wed May 16^th    

- Auxin signaling (RT-PCR)
  Handout
  Superscript III RT-PCR Invitrogen Kit

Mon May 21^st    

- CAPS-based mapping
  Handout

Wed May 23^rd    

- CAPS-based mapping
  Handout
  Class data (Excel)
  Class data (pdf)

**LAB REPORT 4 (MAPPING) DUE FRIDAY JUNE 1, 5PM**
**Turn in lab report at Marty's office (Muir 3212)**

- Lab report 4 guidelines

**Late lab reports will be penalized. Lab reports over the page limit will also be penalized.**

Mon May 28^th     

**NO CLASS -- MEMORIAL DAY**

Wed May 30^th    

- Allelism/mutant screen
  Worksheet

Mon June 4^th    

- GUS staining vs. in situs
  Handout

Wed June 6^th    

- FINAL EXAM
  Review for final exam

Lectures