Difference between revisions of "Arsenic Prototype 4.0"
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Revision as of 23:13, 13 January 2016
- 1 Principles
- 2 Tools
- 3 Safety
- 4 Materials
- 5 Step by Step Buildling
- 6 Lens assembly
- 7 Links other References
The basis of the prototype remains the same - the bioreporter, a GMO bacteria expressing eGFP (Green Fluorescent Protein) is incubated with a water sample, where the fluorescence is detected optically and can be quantified in order to measure the concentration of Arsenic in the water
- A vial containing the water sample we want to test is positioned on a socket through which a fluorescent excitation LED (blue 488nm for eGFP) passes.
- GFP absorbs this blue light (λ=475 nm) and emits green light (λ=504 nm) which is detected by a photosensor on which the light is concentrated with the help of two lenses that avoid loss of intensity
- A long-pass filter allow only the signal eGFP fluorescence to reach the photosensor
Moreover, a red LED was added to measure the transmittance, which can be converted into turbidity. The measurement of turbidity will allow us to normalize our results.
- A red LED is placed in-line with the photosensor
We use an arduino to take the measurements, and we have a liquid crystal display (LCD) to read out the numbers.
With these measures, compared against a standard curve of water containing known arsenic concentrations, one can determine the concentration of arsenic in the sample and so know if the water is drinkable or not.
In summary, the most current version consists of:
lasercut chassis blue LED for eGFP fluorescence excitation at 90 degrees from detector red LED for transmittance measurements in line with detector vial holder matching the vial approved by the Swiss authorities light to frequency detector a filter to block excitation light LCD screen read out based on the arduino
- Soldering iron
- Screwdriver phillips #1
- Vice (for crimping the ribbon cable)
- Don't burn the wires on the table with the soldering iron
- Mind your fingers
- When knipping the legs of the components, hold the loose end so that it doesn't fly into someone's eye.
- Apply common sense
You can find the bill of materials here:
For the full BOM including reference numbers see this sheet.
- 1x LCD 8x2 HDM08216L-3-L30S
- 1x resistor 1K (R1)
- 1x Trimpot 10K
- 2x Tactile switch 17mm (S1, S2)
- 1x Potentiometer
- 1x Micromatch connector 10 pin SMD female 8-338069-0
- 1x 1x40 pin header straight long (17mm)
- 1x 2x8 pin header straight
LED Driver board
- 1x LED 485nm (blue) SMD XPEBBL-L1-0000-00Z01
- 1x P-channel MOSFET TO-220
- 1x P-channel MOSFET TO-92
- 1x Micromatch connector 10 pin SMD female 8-338069-0
- 1x Resistor 5 ohm 3W
- 1x Resistor 150 Ohms 1/4W
- 1x 1x3 pin header 90 degree bent
- 1x 1x2 pin header 90 degree bent
Optical density (red LED)
- 1x red LED 5mm
- 1x 1x2 pin header straight
- 1x Light To Frequency Converter – TSL235R
- 1x 1x3 pin header straight
- 2x Plastic Biconvex Lenses LPP1009
- 1x Plastic long pass filter 510FAP5050
- 1x Arduino UNO Rev 3
- 1x 2.1mm DC barrel jack
- 1x 9V battery snap and contact connector
- 5x Jumper cables female-to-female 10 cm
- 1x 9V Battery
- 20cm Ribbon cables 1.27 10 wires
- 2x Micromatch connector 10 pin male 8-215083-0
- 12x M3 screws 10mm
- 12x M3 nuts
- 10x M3 washers
Step by Step Buildling
Laser Cutting the Inner Scaffold Pieces
|Groove LED (fluo)||scan||50 (100)||35||x_unilat||0.1|
|Text and Logo||scan||250 (100)||25||x_unilat||0.3|
With these parameters, the 3mm thickness pieces take 5 min to cut, and the 2mm thickness pieces take min.
Assembling the Electronics
There are four PCBs for:
- Blue LED (for the eGFP excitation)
- LCD screen
- Red LED (for the transmittance)
- Light to frequency meter (to detect the light)
TIP: if this is your first time soldering, we suggest to start with the LCD screen
Each of the PCBs except the LCD screen PCB are fixed onto the lasercut fiber boards using M3 screws.
Soldering and Mounting
Now mounting onto the particle board:
Soldering the pieces:
- 1. Take out the Arduino board from its package. Cut a piece of electrical tape and cover the USB connector as shown on the picture.
- 2. Place all the pinheader in the female connectors of the Arduino board as shown.
- 3. Place the green PCB board on top of it with the pin headers sticking out at the correct place. Solder all the pin headers in place.
light to frequency meter
- LFD 1.JPG
1. place the legs of the light to frequency detector (LFD) in the PCB without bending or soldering
File:battery_connector_parts.jpg|1. get the DC barrel jack, unscrew the plastic part and drive the wires through it before soldering anything
File:battery_connector_wires.jpg|2. drive the red wire through the central hoop from inside out, and the black wire to the larger outer rim also from inside out, bend back the wires
File:battery_connector_3rd_hand.jpg|3. with the help of a 3rd hand, immobilize the connector and solder the wires into place
- Place the two sides next to each other. They should be both marked with the *same* letter (A/A or B/B).
- Place the lens in the groove on one side.
- Place the second side on top, with letters towards the inside for both sides.
- Fix together with 2 screws and 2 bolts.
The LCD screen board is ready to be mounted on the arduino.
We are now ready to test it out.
Testing the Electronics
Uploading the arduino code
Reading the measurements
First test the firmware and the hardware without sample.
- When you push the start button, does the blue LED go on?
- Do you see the measurement on the LCD screen?
- Do you then see the red LED go on?
Then try it with sample with fluorescence
- Do you see changes in the measurement?
Now we are ready for the actual bacterial samples.
Transmittance and absorbance
What we actually measure with the red LEDis the transmittance - how much of the red LED light goes through the sample and reaches the other side.
Absorbance (optical density) is then calculated.
A = - log10 T
where T = (Red LED captured by the light to frequency meter with sample / with buffers (no bacteria))
Making the Outer Housing
What we have built so far leaves the samples exposed to ambient light.
So we need to make outer housing that can mount the LCD screen, house the battery, enclose the scaffold inside, and have easy access to put the samples in and out while keeping the light and optics dark.
Links other References