Bio 113 Lab Schedule - Dr. C. Fall 2017

Lab meets Thursday, either at 8:15 am or 1:40 pm in Wall 104.

Read the safety form. Hard copies for signing will provided for you in lab.

Learning Objectives for Lab Course

List of Protocols Used in Bio113

We will use CATME to facilitate fair assessment of lab group projects.

schedule

Your  oral presentation will be divided into four sections: Introduction; Materials and Methods; Results; Discussion. Each person will present one section. The oral presentation must be pledged to indicate that each person made substantial contributions. You will not know which section you are presenting until 1 hour before lab, therefore you should learn all 4 parts.

For the final written lab report, each person must write his or her own (including figure legends), though you may confer about the content. The figures may be shared resources since they were produced as a team. Put your name as the first author and your labmates' names as coauthors.

Grading will be based on these grading rubrics.

Date
Topics
Lab Manual
Word Files
August 24

Introduction

1) Safety Issues
2) Submit info to CATME for Team maker
3) baseline survey
4) How to Use a "Pipetman"
5) Synthetic Biology Introduction (PDF version)
6) TOSLS survey

Lab Manual Week #1

Practice Calculations

August 31

Information & Cells

Before Lab...
1) Answer 4 Questions

2 ) Create a Registry account (top right "login", apply for new account)

3) Radio show about Synthetic Biology
(7 minutes)

During Lab...
4) Basics of cloning DNA parts
5)
Registry of Parts
6) Read papers

7) Home in on DNA control element to test
7) CATME first week

Lab Manual Week #2

September 7

Information & Cells

Before Lab...
1) Answer 4 Questions
2) What is golden gate assembly (GGA)?
Overview and Detailed explanations

During Lab...
3) Identify genetic control element DNA sequence
4) generate oligos from GGA Oligator
5) make a new part on Registry
6) name sequences and email for synthesis
7) one volunteer/group for next Wed. 4:30 pm

8) do calculations, steps 1-6
9) CATME peer review

Lab Manual Week #3
September 14

Information & Cells

Before Lab...
1) 4:30 pm day before lab, boil oligos (one per group)
2) Answer 4 Questions
3) View your receiving plasmid

During Lab...
4) dilute oligos for ligation (step 2 lab manual)
5) do GGA ligation for oligos
6) do paper GGA activity
    + optional review session in lab
7) transform 3 tubes of E. coli ( N and P controls, plus X)
8) design next week's experiments (with controls)
9
) one volunteer/group for next Wed. 4:30 pm
10) CATME peer review

Lab Manual Week #4
September 21

Information & Cells

Before Lab...
1) 4:30 pm day before lab, start cells growing (+/- treatment).
2) Answer 4 Questions

During Lab...
3) start confirmation PCR, practice loading gel
4) test cells in Synergy machine
5) quantify Synergy data (use Excel)
6) update data in Registry
7) CATME peer review

Lab Manual Week #5
September 28

Information & Cells

Oral Report Grading Rubric

Before Lab...
1) Answer 4 Questions
2) PCR animation

During Lab...
2) run PCR products on gel (1 kb ladder)
3) prepare for oral presentation (iBOP Bingo)
4) CATME peer review

Lab Manual Week #6

October 5

Information & Cells

Oral Report Grading Rubric

Before Lab...
1) Answer 4 Questions
2) prepare oral presentation, assigning email 1 hour before

During Lab...
3) give oral presentation, read peer comments

(iBOP Bingo)
4) choose the next iteration experiment (v2.0)
Research Proposal Template

5) CATME peer review

Lab Manual Week #7
October 12

Information & Cells

Before Lab...
1) Evaluate experimental design v2.0
2) Answer 4 Questions

During Lab...
3) write research proposal draft
4) CATME peer review

Lab Manual Week #8
October 19

Information & Cells

Before Lab...
1) review draft research proposal

2) DNA sequencing
3) Answer 4 Questions

During Lab...
4) refine research proposal
5)
generate oligos from GGA Oligator
6) make a new part on Registry
7) name sequences and email for synthesis
8) submit group research proposal for grading
9) one volunteer/group for next Wed. 4:30 pm

10) CATME peer review

Lab Manual Week #9
October 26

Information & Cells

Before Lab...
1) review GGA and transformation protocols
2) Answer 4 Questions

During Lab...
3) dilute oligos for ligation (calculations last week)
4) do GGA ligation for oligos
5) transform E. coli (including + and - controls)
6) design experiments (with controls)
7
) one volunteer/group for next Wed. 4:00 pm
8) CATME peer review

Lab Manual Week #10

November 2
Information & Cells

Before Lab...
1) review experimental design v2.0

2) Answer 4 Questions

During Lab...
3)  test cells in Synergy machine
4) quantify Synergy data (use Excel)
5) update data in Registry

6) CATME peer review

Lab Manual Week #11
November 9
Information & Cells

Before Lab...
1) read through mini-prep protocol
2) Answer 4 Questions

During Lab...
3) miniprep plasmid DNA
4) nanodrop DNA to determine concentration
5) send DNA off to be sequenced
6) CATME peer review

Lab Manual Week #12

November 16
Information & Cells

Written Report Grading Rubric

Before Lab...
1) review how cycle sequencing works (download ApE software - optional; on all college computers)
2) Answer 4 Questions

During Lab...
3) analyze sequencing results (instructions here)
4) CLUSTAL omega web site
download receiving plasmids,
download your sequences
4) finalize all data from semester-long projects

5) prepare for final graded lab report (each person)
6
) CATME peer review



Lab Manual Week #13
November 23  

Thanksgiving Break

Week #14

November 30
Information & Cells

Before Lab...
1) write final lab report

During Lab...
2) submit written lab report for grading
3) Fellowships for you
4) course evaluations

week #15 lab manual


Practice Calculations

Dr. Campbell's Bio113 Page


Copyright 2017 Department of Biology, Davidson College, Davidson, NC 28035
Send comments, questions, and suggestions to: macampbell@davidson.edu