Monday 24 November 2014

LAB REPORT 3: Preparation and Sterilization of Culture Media

Introduction
A growth medium, or culture medium is a liquid or agar designed to support the growth of microorganisms or cells. Today, there are many types of culture media available commercially but the two major types are agar plates and nutrient broth, used depending on the type of cell to be cultured.
Nutrient broth is in liquid form whereas an agar plate is a type of nutrient broth added with agar powder so that when the suspension cools down, it will coagulate as a semi-solid medium. The microorganisms will grow on the surface of the agar and this makes examination work so much easier as the colonies of microorganisms remain stationery and clearly visible.

The agar preparation is similar to the preparation of a nutrient broth. The composition of both types of growth media is as listed below:
Peptone                 5.00 g/L
Beef extract          1.50 g/L
Sodium Chloride  5.00 g/L
Yeast extract         1.50 g/L
The difference between the two is that the agar-nutrient broth has been added with 15.00g/L of agar powder. The nutrient broth and the agar-nutrient broth contained essential nutrients for the growth of the microorganisms, therefore it has to undergo the autoclaving process to be sterilized so that there won’t be any other unwanted microorganisms growing in the media.

Autoclaving, sometimes called steam sterilization, is the use of pressurized steam to kill infectious agents and denature proteins. This kind of "wet heat" is considered the most dependable method of sterilizing laboratory equipment and decontaminating biohazardous waste. Usually it utilises moist heat and pressure that reach 121°C or 15 psi in 15 minutes to disinfect medical supplies and laboratory equipment, extending their useful lifespan.


           
Objective
To prepare sterile culture media for microorganisms culturing


Materials and reagents
Commercial Nutrient Agar
Lactobacillus MRS Broth
Brain Heart Infusion Broth (BHI)
Trypticase Soy Broth (TSAYE)
Peptone powder
Beef extract powder
Sodium chloride
Yeast extract
 Balance
Distilled water
Scott bottles
Measuring cylinder
Glass rod
Beakers

Procedure
Commercial Nutrient Agar
1.)    13.00 g of the commercial nutrient agar and 15.00 g of the agar are weighed using the balance and are put into the beaker.
2.)    1000 ml of distilled water is measured by measuring cylinder. The nutrient media is mixed up with the distilled water. By using the glass rod, the solution is stirred until it mixes well.
3.)    The solution is then poured into the scott bottle that have been sterilized.
4.)    The bottle is loosely recapped and is set aside for the sterilization.
5.)    All media is sterilized at 121°C for 15 minutes.
6.)    The media is removed after autoclaving. The broth preparation is allowed to cool and then the cap of each bottle is tighten.
                         


Own Prepared Nutrient Agar
1.)    5.00 g of peptone,  1.50 g of beef extract, 5.00 g NaCI2, 1.50 g of yeast extract and 15.00 g of the agar are weighed using the balance and are put into the beaker.
2.)    1000 ml of distilled water is measured by measuring cylinder. The nutrient media is mixed up with the distilled water. By using the glass rod, the solution is stirred until it mixes well.
3.)    The solution is then poured into the Scott bottle that have been sterilized.
4.)    The bottle is loosely recapped and is set aside for the sterilization.
5.)    All media is sterilized at 121°C for 15 minutes.
6.)    The media is removed after autoclaving. The broth preparation is allowed to cool and then the cap of each bottle is tighten.

                      

Lactobacillus MRS Broth
1.)    13.79 g of Lactobacillus MRS broth in powder form is weighed using the balance and is put into the beaker.
2.)    250 ml of distilled water is measured by measuring cylinder. The nutrient media is mixed up with the distilled water. By using the glass rod, the solution is stirred until it mixes well.
3.)    The solution is then poured into the scott bottle that have been sterilized.
4.)    The bottle is loosely recapped and is set aside for the sterilization.
5.)    The media is sterilized at 121°C for 15 minutes.
6.)    The media is removed after autoclaving. The broth preparation is allowed to cool and then the cap of the bottle is tighten.



Brain Heart Infusion Agar (BHI)
1.)    5.20 g of  BHI agar in powder form is weighed using the balance and is put into the beaker.
2.)    100 ml of distilled water is measured by measuring cylinder. The nutrient media is mixed up with the distilled water. By using the glass rod, the solution is stirred until it mixes well.
3.)    The solution is then poured into the scott bottle that have been sterilized.
4.)    The bottle is loosely recapped and is set aside for the sterilization.
5.)    The media is sterilized at 121°C for 15 minutes.
6.)    The media is removed after autoclaving. The broth preparation is allowed to cool and then the cap of the bottle is tighten.



Trypticase Soy Agar (TSAYE)
1.)    4.00 g of  TSAYE agar in powder form is weighed using the balance and is put into the beaker.
2.)    100 ml of distilled water is measured by measuring cylinder. The nutrient media is mixed up with the distilled water. By using the glass rod, the solution is stirred until it mixes well.
3.)    The solution is then poured into the scott bottle that have been sterilized.
4.)    The bottle is loosely recapped and is set aside for the sterilization.
5.)    The media is sterilized at 121°C for 15 minutes.
6.)    The media is removed after autoclaving. The broth preparation is allowed to cool and then the cap of the bottle is tighten.

Distilled water
1.)    500 ml of distilled water is measured using measuring cylinder.
2.)    The distilled water measured is then poured into the scott bottle that have been sterilized.
3.)    The bottle is loosely recapped and is set aside for the sterilization.
4.)    The media is sterilized at 121°C for 15 minutes.
5.)    The media is removed after autoclaving. The broth preparation is allowed to cool and then the cap of the bottle is tighten.


Results
  1. 6 culture media has been prepared which are 1 L of commercial Nutrient Broth ( with 15 g/ L of Agar ), 1 L of own-prepared Nutrient Broth Agar (NBA) , 250 mL of Lactobacilli MRS broth, 100 mL of Brain-Heart Infusion (BHI) broth, 100 mL of Trypticase Soy Agar with 0.6% Yeast Extract (TSAYE) and 500 mL of water (H20).
  2. For the own-prepared NBA, the recipe is as stated below:
          Peptone                5.00 g/L
          Beef extract         1.50 g/L
          Sodium Chloride 5.00 g/L
          Yeast extract       1.50 g/L
          Agar                    15.00 g/L

  1. Each particular nutrient medium above are weighed appropriately and then dissolve in subsequent amount of distilled water. Those medium are then mixed well and thoroughly with water.

Discussion
1. There are a few precautions that need to be highlighted when conducting this lab work:
       ·         The pan and the balance is cleaned with a small brush to ensure more accurate reading.
       ·         All of the doors of the electronic balance are closed before weighing and the ‘tare’ button is                pressed every time after the beaker with substances is put into the balance to avoid zero                        error.
       ·         All of the apparatus are cleaned and rinsed with distilled water before used to avoid                              contamination.
       ·         All of the media are stirred well with a spatula or rod to ensure balance mixing with distilled              water and to maintain the concentration of the media.
       ·         The caps of the Scott bottles are tightened until a slightly tight feeling (but not over tight) is      felt to prevent the Scott bottles from breaking during the autoclaving process.
2. All of the Scott bottles which contain the different medium are then placed into a special basket then the whole basket with all the Scott bottles is put into the autoclave chamber for sterilization. The steps are as stated below:
  •  The drain screen at the bottom of the chamber is checked  before using the autoclave.
  • Any debris noticed is cleaned up for efficient heat transfer as steam must flush out of the autoclave chamber. If the drain screen is blocked with debris, a layer of air may form at the bottom of the autoclave and prevent proper operation.
  • The water level is ensured to be higher than the bottles in the autoclave.      
  • The cover of the autoclave chamber is tightened.
  • The exhaust valve is tightened too to ensure the pressure goes up.
  • The temperature is checked so it is always maintained at 121 oC and the pressure is ensured to reach 103 kPa above the atmospheric pressure, with steam is continuously forced into the chamber.
  • The time for destruction of the most resistant bacterial spore is now reduced to about 15 minutes. For denser objects, up to 30 minutes of exposure may be required. The conditions must be carefully controlled or serious problems may occur.
  • Then, the exhaust valve is opened to ensure the pressure drops to nearly 0 kPa before removing the basket with Scott bottles from the autoclave chamber.

Conclusion:
Preparation and sterilization of culture media are very important to prevent contamination of the unwanted microorganisms. Besides, different types of agar are needed for the cultivation of different types of microorganisms. Any of the precaution steps should be carried out carefully to ensure unwanted errors to occur.  Last but not least, autoclaving is a good sterilization process.



Reference

3.)   obtained from  http://ibg102.wordpress.com/ on 21/11/14

Monday 17 November 2014

LAB REPORT 2 ( Group 2) MEASUREMENT AND COUNTING OF CELLS USING MICROSCOPE

2.1 Ocular Micrometer
Introduction
Ocular micrometer is a glass disk that fits in a microscope eyepiece and that has a ruled scale. In some microscopes, the ocular has to be disassembled so that the disk can be placed on a shelf in the ocular tube between the two lenses. However, in most of the microscopes, the ocular micrometer is simply inserted into the bottom of the ocular.  Before an ocular micrometer can be used, it is necessary to calibrate it for each of the objectives by using a stage micrometer. The physical length of the marks on the scale depends on the degree of magnification. When calibrated with a stage micrometer, direct measurements of a microscopic object can be made. To conclude it, ocular micrometer can be used to measure the size of magnified object. It can also be used to compare the size of prokaryotic and even eukaryotic microorganisms. When the ocular micrometer is placed in the eyepiece, the line superimposed certain distance markers on the microscope field. The distance between the lines of an ocular micrometer is an arbitrary measurement that only has meaning if the ocular micrometer is calibrated for the objective being used.  A stage micrometer, also known as an objective micrometer, has scribed lines on it that are exactly 0.01mm (10 micrometers) apart. The exact distance between each ocular division  measures on the microscopic field can be calculated by determining how many units of the ocular micrometer superimpose a certain distance on the stage micrometer. The calibration is important in order to obtain the measurement with  more accurate and precise. In addition, It is important to know that the system should be recalibrated when the objective lens is changed. After calibration of the ocular micrometer, the stage micrometer is replaced with a slide containing microorganism. The dimension of the microorganism used, including length and width will be determined based on the calibration of system done before.





















Objective
1.)   To learn the proper way of measuring and counting cells using a microscope

2.)   To learn the technique in calibration of the ocular micrometer

Materials and Reagents
Microscope fitted with an ocular micrometer
Slide micrometer
Stained preparation of yeast and bacteria

Procedure
1.)   The stage micrometer is placed on the stage
2.)   The microscope is focused using the lowest power objective until the image on the stage micrometer is observed superimposed on the eyepiece scale.
3.)   The amount of the divisions of the eyepiece scale corresponding top a definite number of divisions on the stage scale is determined.
4.)   The measurement of an eyepiece division in micrometer is calculated.
5.)   The process is repeated by using the high-power and oil immersion objective.
6.)   An example is shown as below:-
Each division of the stage micrometer = 10 µm.
If 100 eyepiece divisions = 11 stage division = 110 µm,
then :
            1 eyepiece division = 110/100 = 1.1 µm

7. The diameter of the field for each objective is calculated and recorded for further reference.
8. The average dimensions of a sample of yeast cells is determined and the process is repeated using a sample of bacterial cells.
Ocular Micrometer

                                                           
Stage Micrometer


Stage Micrometer

The figures below shows the calibration and the calculation of the measurement of the samples. First image shows the superimposed image of the ocular micrometer and the stage micrometer.
The ratio of the two micrometers are evaluate by simple calculation:
Taking point A as 7.8 units and point B as 11.6 unit sin the scale of ocular micrometer, we are able to conclude that:
10 division in the stage micrometer (equivalent to 0.1 mm) = (11.6-7.8) = 3.8

After getting the ratio of the scale of ocular micrometer to the scale of the stage micrometer. We are now done with the calibration part and will begin our measuring procedure for the specimens.
5 specimens which are closer to the ocular scale are chosen due to the reason of accuracy of the readings.





The calculation are carried out by using the ratio of 0.1 mm is to 3.8 units to calculate the real measurement of these samples. The average reading will be calculate and taken as the final result.



The average =  The total of stage measurement / the total number of specimen

                    = 394.74 / 2  
        =   78.948
                    = ( two decimal places )78.95µm


2.2 Neubauer Hemocytometer Chamber
Introduction
For microbiology, cell culture, and many applications that require use of suspensions of cells, cell concentration is necessary to be determined and identified. One can often determine cell density of a suspension spectrophotometrically, however that form of determination does not allow an assessment of cell viability, nor can one distinguish cell types.
Counting chamber is a device used for determining the number of cells per unit volume of a suspension. The most widely used type of chamber is called a hemocytometer, since it was originally designed for performing blood cell counts. The hemocytometer was invented by Louis-Charles Malassez and consists of a thick glass microscope slide with a rectangular indentation that creates a chamber. This chamber is engraved with a laser-etched grid of perpendicular lines. The device is carefully crafted so that the area bounded by the lines is known, and the depth of the chamber is also known. It is therefore possible to count the number of cells or particles in a specific volume of fluid, and thereby calculate the concentration of cells in the fluid overall.

Neubauer hemocytometer chamber

Materials and Reagents
Yeast culture
Neubauer and coverslip
Sterile dropper

Procedure
1.     The empty neubauer hemocytometer chamber is observed under the microscope with 40x objective lens.
2.     The coverslip is placed on the H-shaped trough.
3.     By using the sterile dropper, the yeast culture is transferred into the trough of the empty neubauer hemocytometer carefully to avoid the formation of air bubbles.
4.     The neubauer with the yeast culture is observed under the microscope again with the same magnification.
5.     The number of yeast cells in the 16 randomly chosen squares are recorded.

Counting
1.     The large middle square of the neubauer hemocytometer is chosen.
2.     The 16 smaller squares are randomly chosen from the large square.
3.     The number of yeast cells is counted from the 16 small squares.
4.     The average number of yeast cells per small squares is calculated (Only the cells inside a square and the cells that touch the upper and left grids are counted.  For example, there are 7 yeast cells counted in a small square with red grids on the top and left in the diagram below.)

5.     The volume confined in a small square is calculated.
6.     The cell concentration per ml is calculated using the average number of yeast cells and the volume confined in a small square.

Results
1.     Data of number of yeast cells in the 16 small squares:
18
14
10
8
16
7
13
10
12
2
14
15
16
4
8
7
Total = 174 cells
Average/ Mean = 174/16 = 10.875 cells per small square
2.     Length of small square = 0.05 mm
            Depth of the small square = 0.1 mm
            Volume confined of a small square = 0.05 x 0.05 x 0.1= 2.5 x 10-4 mm3
3.     Average number of yeast cells in 16 squares per volume confined of the square = 10.875 / 2.5 x 10-4 mm3 =  43500 cells/ mm3
4.     Number of cells in 1 cm3 of yeast culture = 43500 / (0.1)3
                                                                  = 43500000 cells/ cm3
5.     Since 1 ml = 1cm3,
 number of cells in 1ml yeast culture =  43500000 cells/ ml

Conclusion
With ocular micrometer, we are able to measure the size of the specimen more precisely. With the nuebauer hemocytometer chamber, we are able to count the number of cells more accurately and are able to determine the cell concentration in a culture.

Reference