PPO > Sudden Oak Death Research and Education Program > Monitoring > Volunteer Stream Monitoring Program > 2011 study > Stream monitoring sites 2011 by county > 2011-1103 Clarks Creek Headwaters > Stream sampling using “bait in a bottle” method at Clarks Creek > PCR for DNA sequence analysis and identification of Oomycetes

PCR for DNA sequence analysis and identification of Oomycetes

Setting up PCR 5 24 2011

a woman in a green shirt holds a pipette with a disposable tip attached and looks at it as two students watch
Katie Coats, molecular biologist, showing students pipetting skills. Accurate pipetting is very important in DNA analysis.
a woman in a green shirt stands bent over. the desk in front of her has four rows of small petri dishes. Behind the dishes is a machine with an unknown purpose.
Samples which were isolated onto V8 agar in pure culture will be tested.
Two students standing at a lab bench. In front of them are boxes of different sized pipette tips and a rack with four pipettes hanging from it.
A master mix of chemicals used in PCR is prepared.
Two students at a lab bench. The student further from the camera is closing the purple lid of a mini centrifuge, the rest of which is hidden behind a vortexer. On the bench in front of the student closer to the camera are some small petri dishes, a paper with highlighted text, a pipette laying on its side, and a "dry bath" for heating microcentrifuge tubes to specified temperatures. On the bench to the right of the vortexer is an orange frame with an autoclavable bag attached at the top.
Samples are centrifuged to mix thoroughly.
Two students standing in front of a midsized centrifuge with its lid down. The student closer to the camera is holding up a pipette with a tip on it as the second student hands them a 2mL microcentrifuge tube with an open pop-up lid.
a woman in a green shirt wearing latex gloves is holding a small petri dish without its lid on and a pipette with a tip pointed at it as two students watch. The student closer to the camera is wearing purple gloves.
A sterile pipette tip is scraped across the surface of a culture to obtain a sample for PCR.
A student stands at a lab bench. a midsize centrifuge with its lid down is to their right. In front of the student are a tray holding a single popcap microcentrifuge tube, a small purple tray for holding and keeping cold 0.6mL tubes, a jar with its lid off filled with clear liquid, a blue tray with five microcentrifuge-sized tubes, , and several different sizes of pipette tip containers with their lids off. A mini centrifuge with a purple lid is in the left near the bottom of the frame.
Then the chemicals are pipetted into microtubes for each sample.
a woman in a green shirt holds two trays for small tubes in one hand as she gestures at a machine out of sight on the counter in front, demonstrating to the student looking in from far right of the frame how to set the thermocycler.
All samples are placed in the thermocycler for PCR, which runs about 2 hours. Then the PCR product is sent off for sequencing.

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Last updated 9/24/2025