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Exam Review Lecture Notes

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Department
Biology
Course
Biology 3594A
Professor
Kathleen Hill
Semester
Fall

Description
Model Organisms Discuss limitations and advantages • Mouse • Dog • Songbird • Tasmanian Devil • Human • Primary Cultures • Mini Organ Cultures Mutation Targets • PLAP Assay - Reverse mutation detection assay, not forward. Mutant human sequence was put inside the mouse (G11) and we are looking for the reverse mutation back to G10. The mutation is a single base pair deletion. • CII Assay - The mutation target is the CII gene. We sequenced about 400 nucleotides, however only 269 are the effective mutation target. Define mutation target and effective mutation target (where you can detect the mutation). Lesser number of sites where you can actually see the mutation. • TCGA - a restriction site in RMC, this was the mutation target for Random Mutation Capture. The mutation target and the effective mutation target are the same. We are looking for it to be destructed, mutations can eliminate that restriction site. • Entire mitochondrial genome was both the mutation target and the effective mutation target in the Ultra Deep Sequencing study. • You could extend sequencing to the entire nuclear genome, however it is quite costly. CII Assay • CII mutation detection assay - requires a special mouse (more expensive) and is called the Big Blue Mouse. This mouse is transgenic (Tg) and it was manufactured this way. • Lambda is a virus and a bacteriophage. It infects E. Coli. Lambda DNA is about 50-55 kb in size and is double stranded DNA genome, also completely sequenced. It is used to carry DNA into bacteria and we can use this to put DNA in the mouse. • In the making of the transgenic mouse, the company that made the mouse would have many genomes. They can form concatomer (has many lambda genes that are stuck end on end). • The concatomer went into the mouse genome at chromosome four. These chromosomes are telocentric from the MGDA paper. 40 copies in tandem of the lambda genome on chromosome four and this is a mutation target. Every one of these cop
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