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wiki:documentation:wiki:documentation:nicolina:project_summary [2020/01/14 12:01] (current)
nzjacic created
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 +====== Project summary ======
 +
 +
 +===== Project title =====
 +
 +Smell as a primer for food intake in //C. elegans// through pre-emptive pumping
 +
 +==== short summary ====
 +
 +//C. elegans// takes in food through pharyngeal pumping, which is triggered by the presence of food or serotonin in the environment. //C. elegans// is known to "​sample"​ its environment via slow, regular pumping, then increase its pumping rate upon encounter with a substantial food source. However, we observed that //C. elegans// already begins rapid pumping before encountering a high concentration of food in a defined area, such as a bacterial lawn. We hypothesize that smell plays a role in priming //C. elegans// for the intake of food by increasing pharyngeal pumping pre-emptively. We aim to also isolate the main neurons responsible for this behavior.
 +
 +----
 +
 +^  **Parameters** ​     ^  Estimates ​ ^
 +|  **Estimated time** ​ |     6 months ​       |
 +|  **Audience** ​       |       worm community and biologists ​     |
 +|  **Topic** ​          ​| ​     systems biology and technology and methods development ​      |
 +
 +Possible audience(s):​
 +  * worm community
 +  * computational neuroscience
 +  * physicists
 +  * biologists
 +
 +Possible topics:
 +  * Technology and Methods development
 +  * Molecular
 +  * Systems
 +  * Physics/​Information theory
 +
 +
 +
 +
 +----
 +
 +
 +==== Motivation ====
 +
 +To explain the observed behavior and find the neurons responsible for this physical response in //C. elegans// to food.
 +
 +----
 +
 +
 +==== Goals ====
 +
 +To use video recordings of free-moving //C. elegans// to track pumping rate before, during and after entry into a bacterial lawn, in order to determine how close to a food source worms begin to pump pre-emptively and whether this is affected by the deletion of neurons involved in smell.
 +
 +----
 +
 +
 +==== Approach ====
 +
 +Worms with integrated mCherry signal isolated to the pharynx are placed on either side of an OP50-GFP lawn. Those that enter the field of view of the camera are recorded entering the lawn and for a period afterward. An automatic Python algorithm measures the velocity and pumping rate of the worms throughout the video to determine when pre-emptive pumping occurs.
 +
 +The mCherry worms will also be crosses with various smell-deficient mutants to determine if smell affects pre-emptive pumping.
 +
 +----
 +
 +
 +==== Best possible outcome/​result ====
 +
 +The method is successful in being able to measure pre-emptive pumping, giving evidence that an algorithm tracking pumping in free-moving //C. elegans// is possible using the affordable microscopes constructed in this lab. We are also able to establish the neuron(s) that play a vital role in this behavior (and, if there is time, what concentration of food is considered enough to trigger this behavior).
 +
 +----
 +
 +==== Required technology ====
 +
 +Basler camera
 +
 +Microscope
 +
 +Monika'​s Python algorithm
 +
 +Computer with high enough power to compute the algorithm
 +
 +Raspberry pie for data collection (?)
 +
 +== New dependencies ==
 +== Theory/ analysis aspects ==
 +== Experimental aspects ==
 +
  
wiki/documentation/wiki/documentation/nicolina/project_summary.txt ยท Last modified: 2020/01/14 12:01 by nzjacic

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