BISC209/F13: Lab2: Difference between revisions

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==Assignment==
==Assignment==
'''Graded Assignment''':<br>
'''Graded Assignment''':<br>
Write an explanation of the "Great Plate Count Anomaly" with citations and references. This assignment will become part of your final paper, useful in both the Introduction and Discussion.  Remember that you will NOT use the data you collected this week on the number of microbes in your soil community. You will use that evidence in next week's assignment.
The directions for this assignment found at: Lab 2 Assignment: [[BISC209/F13: Assignment_209_Lab2 | Assignment 2]].  
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Consult the full directions for this assignment found at: Lab 2 Assignment: [[BISC209/S13: Assignment_209_Lab2 | Assignment: Great Plate Anomaly]].  


'''Do before next lab:''' <BR>
'''Do before next lab:''' <BR>
1. '''Someone from your team must go to the Greenhouse and collect a new soil sample from your sampling site.''' On the day of lab next week, BEFORE lab begins, stop by the lab to pick up a plastic bag containing materials for collecting a new soil sample from your sampling site in the greenhouse. You will only need enough soil to fill half of a sterile, small 15ml, orange capped, conical tube. Make sure you get the sample for THE SAME sampling site as your original sample. Again avoid the top few millimeters of surface soil and wear gloves to avoid contaminating the sample with bacteria from your skin. You probably won't need to use the corer; a disinfected metal spatula or even a spoon should work fine.  
1. '''Someone from your team must go to your sample site and collect a new soil sample as you did in Lab 1.''' On the day of Lab 3, BEFORE lab begins, stop by the lab to pick up a plastic bag containing materials for collecting a new soil sample from your sampling site. This time your group will only need enough soil to fill half of a sterile, 15ml, orange capped, conical tube. Make sure you get the sample for THE SAME sampling site as your original sample. Again avoid the top few millimeters of surface soil and wear gloves to avoid contaminating the sample with bacteria from your skin. You probably won't need to use the corer; a disinfected metal spatula or even a spoon should work fine.  
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2. '''Goal for Cultured Bacteria Isolation: Characterize a variety of spore forming, nitrogen cycling, or other interesting bacteria in a soil community'''<BR>
2. '''Goal for Cultured Bacteria Isolation: Characterize a variety of spore forming, nitrogen cycling, or other interesting bacteria in a soil community'''<BR>
One goal in this project is for your group to end up with 16 unique bacteria (4 each) found in the soil community you sampled.  Work with your partners so that you each choose different looking bacterial colonies from each medium and keep consulting with each other to ensure that your subset is likely to be unique.<BR><BR>
One goal in this project is for your group to end up with pure cultures of 16 unique soil bacteria (4 per person) of the groups we enriched and selected for (antibiotic producers, endospore formers, contributors to the nitrogen cycle) and from other random groups.  Work with your partners over the next several weeks so that you each choose different looking bacterial colonies to isolate to pure culture. Make sure that some come from all the different media. Your goal is for each team member's subset to be unique and for the whole group sample to be as diverse as possible.<BR><BR>


Isolation of desired bacteria from mixed culture is challenging. Your best organizational skills are required. You will be expected to come in at times, on your own, to start, continue or complete this process of isolating to pure culture. We will make every attempt to make the media and reagents that you require available when you need them, but that availability requires advance planning on your part as well as on ours. Communicating your needs or desires well in advance of time of use, will reduce frustration and speed up the process. Remember that because this is an investigative, project based lab course, your instructors do not know the identity of the bacteria you are culturing from your soil habitat. The success of this project is in your hands. Early and continual updating of the plan you devise is crucial. You will not turn in your plan for a grade next week, but your instructor would like for you to create a master plan or flow chart with a preliminary time line and have it in your lab notebook for reference.
Note that isolation of desired bacteria from mixed culture is challenging. Your best technical and organizational skills are required. You will be expected to come in outside of lab time, on your own, to start, continue or complete the process of isolating to pure culture. We will make every attempt to make the media and reagents that you require available when you need them, but that availability requires advance planning on your part as well as on ours. Communicating your needs or desires well in advance of time of use, will reduce frustration and speed up the process. Remember that because this is an investigative, project based lab course, your instructors do not know the identity of the bacteria you are culturing from your soil habitat. The success of this project is in your hands.


==Links to Labs==
==Links to Labs==
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