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Matt Hudson Lab - Bioinformatics & Plant Genomics

CPSC 265: Genetic Engineering Laboratory

CPSC 265: Genetic Engineering Laboratory (grade requirements , syllabus)

Week 1 Aug 23 Overview, Safety, Notebooks. Micropipettes and Buffers. powerpoint file, pdf file

protocol

Week 2 Aug 30 Genomic DNA extraction

powerpoint file, pdf file

protocol, (pdf)

Week 3 Sep 6 A. Exam 1 on DNA extraction
B. Lecture on agricultural biotechnology
C. visit to Monsanto MTU

powerpoint file

Week 4 Sep 13 Extraction of RNA

powerpoint file, pdf file

protocol, protocol in pdf

Week 5 Sep 20 A. Exam 2 on RNA extraction
B. RNA electrophoresis, photograph and blot
C. Discuss DNA gel blots

powerpoint file, pdf file

protocol, (pdf)

Week 6 Sep 27 A. Detection of probe hybridization
B. Discuss probe production methods

powerpoint file, pdf file

protocol, (pdf)

Week 7 Oct 4 A. Exam 3 on gel blots
B. PCR amplification of a DNA fragment from genomic soybean DNA
C. Separation of PCR products by gel electrophoresis

powerpoint file, pdf file

protocol, (pdf)

Week 8 Oct 11 A. Exam 4 on PCR
B. Ligate PCR product into a plasmid vector
C. Transform ligation products into E. coli .

powerpoint file, pdf file

protocol, (pdf)

Week 9 Oct 18 A. Exam 5 on ligation and transformation
B. PCR amplify the plasmid insert from bacterial colonies
C. Use agarose gel electrophoresis to determine DNA size

powerpoint file, pdf file

protocol, (pdf)

Week 10 Oct 25 A. Discuss DNA sequencing
B. Computer analysis of DNA sequences
C. Homework Project (Exam 6) handed out to take home (double points!)

powerpoint file, pdf file

home assignment pdf format,

Gel results

Sequencing output (f), Sequencing output (r), control sequence.

Week 11 Nov 1 No class this week
Week 12 Nov 8 A. Exam 7 on DNA sequencing
B. Expression of a recombinant soybean protein in E. coli .
C. Analyze proteins using SDS - PAGE
D. Stain proteins in a SDS - PAGE gel

powerpoint file, pdf file

protocol, (pdf)

Week 13 Nov 15 A. Hand in Homework (Exam 6) on bioinformatics
B. Exam 8 on protein analysis
C. Discuss the results of protein expression in E. coli
D. Purify the protein using affinity chromatography.
E. Run a new protein gel

powerpoint file, pdf file

protocol, (pdf)

  Nov 22 Thanksgiving break  
Week 14 Nov 29 A. Exam 9 on protein purification
B. Electroblot proteins onto nitrocellulose (Demonstration)
C. Immunodetection of proteins (Western blot)

powerpoint file, pdf file

protocol, (pdf)

Week 15 Dec 7 A. Functional Genomics and Proteomics
B. Review of laboratory notebooks

powerpoint file, pdf file