Team:Valencia/Project/Lab work

From 2008.igem.org

(Difference between revisions)
 
(4 intermediate revisions not shown)
Line 12: Line 12:
|
|
<h3>Materials</h3>
<h3>Materials</h3>
-
To build our own LCC we need the following material:
+
To build your own LCC you need the following materials:
*A commercial thermo flask
*A commercial thermo flask
*Armaflex©
*Armaflex©
*Thermocouple
*Thermocouple
-
*Acquisition and storing system, for instance, a datalogues with a temperature card and a RS-232 cable.
+
*Acquisition and storing systems, for instance, a dataloguer with a temperature card and a RS-232 cable.
*A computer
*A computer
Line 27: Line 27:
Building your own calorimeter system is easy. You just need to follow the next steps:
Building your own calorimeter system is easy. You just need to follow the next steps:
{|
{|
-
|<ol><li>Select the measurement device, in our case a type T thermocouple(Cu-constantan).  
+
|<ol><li>Select the measurement device, in our case a type T thermocouple (Cu-constantan).  
-
</li><li>Build the thermocouples. It is very easy!! You just peel both cables then join them and you obtain a thermometer of high precision. To see the temperature measurements of the thermocouples we connect them to a voltage acquisition card inserted on a data logger.
+
</li><li>Build the thermocouples. It is very easy!! You just peel both cables and then join them and you will obtain a high precision thermometer. To record the temperature measurements of the thermocouples, they were connected to a voltage acquisition card inserted on a data logger.
-
</li><li>Go to a calibration bath and calibrate the thermocouples according to a standard thermoresistence. The precision of the system was up to 0.01 K degrees!
+
</li><li>Go to a calibration bath and calibrate the thermocouples according to a standard thermoresistance. The precision of the system was up to 0.01 K degrees!
-
</li><li>To complete the temperature measurements acquisition process, an acquisition program using Vee pro was developed so as to allow the communication between the data logger and a computer (a RS-232 cable was used). Trough this program, we can select the time period in which the measurements have to be taken and storage the temperature readings in the computer. We can also see the temperature evolution during the experiments in real time.
+
</li><li>Develop an acquisition program. Vee pro was used to developed a program that allows communication between the data logger and the computer (a RS-232 cable was used). Through this program, we can select the measurements frequency and store the temperature readings in the computer. We can also record the temperature evolution during the experiments in real time.
-
</li><li>Take a commercial plastic and glass thermo flask (in our case we take four) and proceed to the following modifications:
+
</li><li>Take a commercial plastic and glass thermo flask (in our case we used four) and proceed to the following modifications:
-
• Cut off the handle and drilled a hole in the cap. Then, insert the thermocouple through the hole.
+
• Cut off the handle and drill a hole in the cap. Then, insert the thermocouple through the hole.
-
• Cover the thermo flask with insulation foam called Armaflex© in order to improve its thermal isolation.
+
• Cover the thermo flask with insulation foam (Armaflex©) in order to improve thermal isolation.
•      Introduce a garbage bag between the flask and the Armaflex© in order to prevent this material from getting wet. Find out more in the [[Team:Valencia/Project/Lab_work#Troubleshooting | Troubleshooting]] section.
•      Introduce a garbage bag between the flask and the Armaflex© in order to prevent this material from getting wet. Find out more in the [[Team:Valencia/Project/Lab_work#Troubleshooting | Troubleshooting]] section.
Line 55: Line 55:
<h3>Characterization results</h3>
<h3>Characterization results</h3>
<br>
<br>
-
After trying different combinations of revolution speed, flask tilt and liquid volume, we obtained a combination of conditions suitable for the experiment (allow a proper respiration of yeast culture): 270 rpm, approximately 10 º tilt.  
+
After trying different combinations of shaking speed, flask tilt and culture volume, we obtained a combination of conditions suitable for the experiment (allowing optimal respiration of yeast culture): 270 rpm, approximately 10 º tilt and 100 ml in a 1L flask, with the thermocouple measuring submerged in the liquid.
-
In this conditions, the 4 LCC were characterized with water at the temperature of the future experiments, in order to stablish the range of heat losses to the ambient of the system. The results are shown in the following figures:
+
In these conditions, the 4 LCCs were characterized with water at the temperature of the future experiments, in order to establish the range of heat losses to the environment of the system. The results are shown in the following figures:
[[Image:UCP_graf_termos.jpg|500px|center]]
[[Image:UCP_graf_termos.jpg|500px|center]]
Line 68: Line 68:
<br>
<br>
-
We have encountered some adversities regarding Armaflex©. This material is sensitive to mechanical damage and especially to water. No matter how careful we were, we found the insulation capacity of our system had drastically decreased in the first weeks.  
+
We have encountered some adversities regarding Armaflex©. This material is sensitive to mechanical damage and especially to water. No matter how careful we were, we found the insulation capacity of our system had drastically decreased after a few weeks.  
<br>
<br>
Line 75: Line 75:
|The main problem was cleaning the LCCs, since it was very difficult for them not to get wet. We tried different protocols, such as covering them with aluminum foil and sealing with parafilm or using funnels, but the water got inside anyway. Every time the temperatures were falling more than usual, we had to stop the experiment, remove Armaflex© cover and use a hair dryer to dry it.
|The main problem was cleaning the LCCs, since it was very difficult for them not to get wet. We tried different protocols, such as covering them with aluminum foil and sealing with parafilm or using funnels, but the water got inside anyway. Every time the temperatures were falling more than usual, we had to stop the experiment, remove Armaflex© cover and use a hair dryer to dry it.
<br>
<br>
-
Covering the outside was not enough; we needed something that covered the Armaflex© in the inside, between the flask and the Armaflex©. We used a garbage bag to do this, and surprisingly it has worked up to now.   
+
Covering the outside was not enough; we needed something that covered the inner part of the Armaflex©, between the flask and the Armaflex©. We used a garbage bag to do this, and surprisingly, it has worked up to now.   
|}
|}
<br>
<br>
{|
{|
-
|With regard to the LCCs characterization, we have also gone through different conditions combinations. The first problem we encountered was the apparition of sudden periodic oscillations of temperature in some of the experiments. The best explanation was that water was somehow coming in contact with the thermocouple, which was placed in the upper part of the flask at that time. To try and solve that, we reduced the liquid volume, but the problem persisted. After watching this phenomenon was not produced when the shaking was stopped, it became clear the oscillations were related to it, probably because of a condensation process.  
+
|With regard to the LCCs characterization, we have also gone through different conditions. The first problem we encountered was the apparition of sudden periodic oscillations of temperature in some of the experiments. The best explanation was that water was somehow coming in contact with the thermocouple, which was placed in the upper part of the flask at that time. To try and solve that, we reduced the liquid volume, but the problem persisted. After checking that this phenomenon was not produced when the shaking was stopped, it became clear the oscillations were related to it, probably because of a condensation process.  
|[[Image:Valencia_LCC3.JPG|141px|right]]
|[[Image:Valencia_LCC3.JPG|141px|right]]
|[[Image:Valencia_LCC2.JPG|250px|right]]
|[[Image:Valencia_LCC2.JPG|250px|right]]
Line 87: Line 87:
<br>
<br>
-
Another condition we changed was the position of the thermocouple inside the flask. They had been always placed in the upper part, having no contact with the liquid because of contamination reasons. However, our engineer team members suggested it would be better for the thermocouples to be submerged in the liquid. After carrying out an experiment, we saw there was not too much different between both positions, but there were not contaminations problems either. Since the data obtained is more exact with the thermocouple submerged, we decided to keep them that way.
+
Another condition we changed was the position of the thermocouple inside the flask. They had been always placed in the upper part, having no contact with the liquid because of contamination reasons. However, our engineer team members suggested it would be better for the thermocouples to be submerged in the liquid. After carrying out an experiment, we saw there was not significant difference between both positions and none of them resulted in contamination either. Since the data obtained is more exact with the thermocouple submerged, we decided to keep them that way.
Line 98: Line 98:
<div style="padding: 10px; width: 500px; color: #000000; background-color: #FFB428">
<div style="padding: 10px; width: 500px; color: #000000; background-color: #FFB428">
-
<center><font face="trebuchet ms" style="color:#047DB5" size="3"> [[Team:Valencia/Project/Objectives | <font color="#047DB5">'''Objectives'''</font>]] << '''LCC Construction ''' >> [[Team:Valencia/Project/Lab_work/2_experiments | <font color="#047DB5">'''Hot Yeast Experiments'''</font>]]</font>
+
<center><font face="trebuchet ms" style="color:#047DB5" size="3"> [[Team:Valencia/Project/Objectives | <font color="#047DB5">'''Objectives'''</font>]] << '''1.LCC Construction ''' >> [[Team:Valencia/Project/Lab_work/2_experiments | <font color="#047DB5">'''2.Hot Yeast Experiments'''</font>]]</font>
</center>
</center>
</div style>
</div style>

Latest revision as of 00:23, 30 October 2008



1.- Construction of a Liquid Culture Calorimeter (LCC).

Materials

To build your own LCC you need the following materials:

  • A commercial thermo flask
  • Armaflex©
  • Thermocouple
  • Acquisition and storing systems, for instance, a dataloguer with a temperature card and a RS-232 cable.
  • A computer

Valencia LCC.png

Method

Building your own calorimeter system is easy. You just need to follow the next steps:

  1. Select the measurement device, in our case a type T thermocouple (Cu-constantan).
  2. Build the thermocouples. It is very easy!! You just peel both cables and then join them and you will obtain a high precision thermometer. To record the temperature measurements of the thermocouples, they were connected to a voltage acquisition card inserted on a data logger.
  3. Go to a calibration bath and calibrate the thermocouples according to a standard thermoresistance. The precision of the system was up to 0.01 K degrees!
  4. Develop an acquisition program. Vee pro was used to developed a program that allows communication between the data logger and the computer (a RS-232 cable was used). Through this program, we can select the measurements frequency and store the temperature readings in the computer. We can also record the temperature evolution during the experiments in real time.
  5. Take a commercial plastic and glass thermo flask (in our case we used four) and proceed to the following modifications:

    • Cut off the handle and drill a hole in the cap. Then, insert the thermocouple through the hole.

    • Cover the thermo flask with insulation foam (Armaflex©) in order to improve thermal isolation.

    • Introduce a garbage bag between the flask and the Armaflex© in order to prevent this material from getting wet. Find out more in the Troubleshooting section.

Picture of one of our thermocouples
Valencia datalogger.png Termogenina.png


Characterization results


After trying different combinations of shaking speed, flask tilt and culture volume, we obtained a combination of conditions suitable for the experiment (allowing optimal respiration of yeast culture): 270 rpm, approximately 10 º tilt and 100 ml in a 1L flask, with the thermocouple measuring submerged in the liquid.

In these conditions, the 4 LCCs were characterized with water at the temperature of the future experiments, in order to establish the range of heat losses to the environment of the system. The results are shown in the following figures:

UCP graf termos.jpg

To show how room temperature can affect temperature inside the LCCs, we repeated the experiment producing a variation in room temperature. The result was:

UCP graf termos room temperature.png

Troubleshooting


We have encountered some adversities regarding Armaflex©. This material is sensitive to mechanical damage and especially to water. No matter how careful we were, we found the insulation capacity of our system had drastically decreased after a few weeks.


Valencia LCC4.JPG
The main problem was cleaning the LCCs, since it was very difficult for them not to get wet. We tried different protocols, such as covering them with aluminum foil and sealing with parafilm or using funnels, but the water got inside anyway. Every time the temperatures were falling more than usual, we had to stop the experiment, remove Armaflex© cover and use a hair dryer to dry it.


Covering the outside was not enough; we needed something that covered the inner part of the Armaflex©, between the flask and the Armaflex©. We used a garbage bag to do this, and surprisingly, it has worked up to now.


With regard to the LCCs characterization, we have also gone through different conditions. The first problem we encountered was the apparition of sudden periodic oscillations of temperature in some of the experiments. The best explanation was that water was somehow coming in contact with the thermocouple, which was placed in the upper part of the flask at that time. To try and solve that, we reduced the liquid volume, but the problem persisted. After checking that this phenomenon was not produced when the shaking was stopped, it became clear the oscillations were related to it, probably because of a condensation process.
Valencia LCC3.JPG
Valencia LCC2.JPG


The solution to this problem appeared, as usual, when we were not looking for it. In order to provide more oxygen to the culture, we increased the shaking speed and the flask tilt in an experiment with water. Surprisingly, the periodic oscillations disappeared and the temperature not only did not fall so much, but slightly increased. We found we could regulate the temperature with these two factors; therefore, we adjusted them so as to obtain almost stable temperature with a high shaking speed suitable for culture growth.


Another condition we changed was the position of the thermocouple inside the flask. They had been always placed in the upper part, having no contact with the liquid because of contamination reasons. However, our engineer team members suggested it would be better for the thermocouples to be submerged in the liquid. After carrying out an experiment, we saw there was not significant difference between both positions and none of them resulted in contamination either. Since the data obtained is more exact with the thermocouple submerged, we decided to keep them that way.


Click below to watch our system working during one of our experiments!


Objectives << 1.LCC Construction >> 2.Hot Yeast Experiments