Feb26_DNAbarcode - Integrative Biology 200A PRINCIPLES OF...

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Unformatted text preview: Integrative Biology 200A PRINCIPLES OF PHYLOGENETICS Spring 2008 University of California, Berkeley Kipling Will- 26 Feb DNA barcodes "We are convinced that the sole prospect for a sustainable identification capability lies in the construction of systems that employ DNA sequences as taxon barcodes." (Hebert et al. 2003) How it is proposed to work: A short sequence, ~650bp, potentially contains enough information to resolve 10-100million species. Now micro barcodes of 100bp are being proposed for more degraded materials. A good DNA barcode sequence is conserved enough to be amplified with universal primers while divergent enough to resolve closely related species. COI is presumed to have these properties. 1. Gather this short sequence from all samples. 2. Build "profile" trees. Generally NJ is used. 3. Match taxonomic names to terms. 4. For unknowns their identity can be read from the resultant topology, typically, but not always by grouping with a cluster that is 98% or more similar. grouping with a cluster that is 98% or more similar....
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This note was uploaded on 08/01/2008 for the course IB 200 taught by Professor Lindberg,mishler,will during the Spring '08 term at University of California, Berkeley.

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Feb26_DNAbarcode - Integrative Biology 200A PRINCIPLES OF...

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