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Week Four: (July 12 - July 16, 2010) - Final Extractions (For Now....)

Submitted by Deirdre McAteer on July 18, 2010 - 7:55pm

7/12/10:  Today was filled with six extractions, a PCR, and several gels.  In the morning I extracted four samples all together and finished in about four hours (I’m getting a lot better at this now!)  I also ran the gel for the duplex PCR that I did on Thursday, but the signals on the gel were too good, meaning I either had to much of the sample or I needed to dilute the PCR products.  I re-ran the gel with less of the sample, but I still had a very strong signal, so Dr. Zuber had me re-run the PCR (18S and NITS).

More 28S and a trip to OHSU

Submitted by Matthew Geniza on July 18, 2010 - 3:43pm

Continuing on last week's progress, I obtained more 28S sequences. However, since the specific primers start from the ITS 2 region, only a fragment of about 400 base pairs of the 28S region is amplified. The 28S region is approximately 3000 base pairs long. Next week I plan on developing primers within the 28S region to obtain more of the sequence.

Week 3: Growing things

Submitted by Graham Frank on July 16, 2010 - 1:18pm
Returning Monday from a week-long absence due to cross country camp and the ASE Midsummer conference, I found myself forgetting where a few things are around the lab. Roberto took every opportunity to poke fun at me for it, say that my brain had "gone to mush" while I was gone. Jokingly, of course.

VI: Presentations, cooler temperatures, and resolving the outliers of decay curves

Submitted by Danielle Miles on July 16, 2010 - 11:20am

This week I embarked on another temperature study on the decay of persulfate. My previous data was taken at 70° C to provide strong comparisons with reference literature. That data was particularly clean and fit well to our hypothesis for first order kinetics decay model. The half life for persulfate decay was 8 hours in deionized water and 10-11 hours in saline samples. Unfortunately, my workday limited the possibility of taking measurements for sebsequent half lives. Therefore, at a lower temperature I could observe slower decay which extends over several days.

Week 3 & 4: completed first activities, attended the ASE conference & EARTH workshop

Submitted by Monica on July 14, 2010 - 11:07am

These two weeks have been very successful and fun. I completed the three activities Grant gave me to translate. Week 3 was really short though, we had Monday off due to the holiday and Friday too for the ASE interns because we went to OSU for our mid summer conference.

Week 3 & 4: Environmental Sample Extraction

Submitted by Chelsea Edgmont on July 13, 2010 - 8:54pm

During these two weeks my time was spent trying to get my newly extracted CR-20 samples to amplify.  We discovered that the problem was our primers.  Somehow the general bacterial primers we were using had degraded.  We ordered new primers during week four.  Because we had bad results when we sent our first set of CR-20 samples to the primate center for sequencing we decided to clone them again and send them back to make sure a mistake was not made.  If this comes back with the results that don't show contamination, than we won't have to amplify the samples that we

Sports and Outdoor Recreation

Submitted by Nirzwan Bandolin on July 13, 2010 - 4:07pm

 OHSU might not have any "official" teams, but it doesn't mean we don't play any sports around here! 

We already have the following teams set up for any number of races & tournaments throughout the year including: 
running 
biking (cyclocross starts October 3rd!) 
disc golf
golf
table tennis
basketball 
soccer
swim team

The Fifth Week – On Stupidity

Submitted by Lacey Kloster on July 13, 2010 - 10:12am
Everyone who does research is stupid, and we must accept this. We are all equally clueless about the problem being unraveled because it is all completely original information; never been looked about before. At the beginning of this internship we all received an article entitled “The Importance of Stupidity in scientific research” that really articulates this point well. (I’ve attached it to this blog entry too.)
 

Cleaning, Presentation, and Pictures

Submitted by Jared Maybee on July 12, 2010 - 4:01pm

7-12-10
All of the rock samples from both sites were imaged using the Stereoscope today. The first picture was at the lowest magnification, followed by 1.25, 1.6, and finally 2.0. In each, I tried to find the biofilm and obtain images of that specifically, gradually building toward the highest magnification used.

Week three: Midlife crisis and ASE conference

Submitted by Katherine on July 12, 2010 - 11:12am
After the third week I’m feeling what I’m guessing midlife crisis is like: I can’t believe that I have been here for so long and that so little time is left. Yet unlike midlife crisis I won’t be buying a shiny red convertible or a toupee; I will begin testing surface modifications to my titanium dioxide catalyst.
 

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Views expressed are those of the author and do not necessarily reflect those of CMOP or OHSU. All content posted here must be consistent with OHSU's Acceptable Use of Computing and Telecommunications Resources policy.