David Coil edited 16S rDNA Sequencing and Analysis (Organism Identification).md  almost 10 years ago

Commit id: 68d1adeb4d77a3b0a98332a2c701700dbecd78b0

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Centrifuge 1mL of the overnight culture until the bacteria form a pellet at the bottom of the tube (about 5 minutes at 10,000g), pour off the supernatant and resuspend in 100ul of sterile DNAase-free water. Incubate the samples at 100°C for 10 minutes to help lyse the cells. Use the resulting solution as the template in the PCR reaction below  ##PCR reaction  This reaction uses the 27F (AGAGTTTGATCMTGGCTCAG) and 1391R (GACGGGCGGTGTGTRCA) primers which amplify a near full-length bacterial 16S rRNA gene. Our lab uses either the ___ or the ___ PCR reagents, with an annealing temperature of 54 deg \(54\,^{\circ}\mathrm{C}\)  and an extension at 72deg \(72\,^{\circ}\mathrm{C}\)  of 90 seconds. Don't forget to include positive (any sample containing bacterial genomic DNA) and negative (water) controls. After PCR is completed, confirm the PCR reaction worked by agarose gel electrophoresis, all controls behaved as expected, and that you have DNA fragments of the correct size (380bp).