4. Aim of the project
— Build a sensor either for Arsenic or for Coliform bacteria detection
— Sense a pathogen in water
— Process information with a device
— Real world application à go out of the lab
— Build something accessible
— More than just building a biodevice!
— Open-source informations
— Raise awareness about water quality
— Learn how to work
— As a group
— With people from different backgrounds
— Integrate different domains of studies
5. Motivation
The aims have been defined by our motivation as much as our
motivation was dependent of the aims!
— Dispose of a new way to learn
— No “knowledge feeding”
— Participation, initiative, try, search, solve problems…
— Connect different subject around one goal
— Real world aspect
— Do with what we have in terms of:
— Knowledge
— Materials
— Possibilities
7. Coliform bacteria: General informations
— Gram-negative bacteria, ferment lactose
— Found in nature and in feces of warm-blooded animals
— Used for fecal contamination determination
— Easy to culture, especially E.Coli
• Most studied coliform
• Found in the intestinal tract of animals
• Mostly harmless, but some strains are
toxic
• E.g. STEC that produces shiga-toxin,
found in ruminants gut
8. Coliform bacteria: intoxication & detection
— Symptoms of coliform intoxication:
— Bloody diarrhea, vomiting
— Complication: Hemolytic uremic syndrome (HUS)
— HUS consists in clot formation, leading to:
— blocked arteries à Ischemia
— And destroyed red blood cells
— E.Coli detection:
— Heterotrophic plate count (HPC) is commonly used, with varying
conditions (incubation, temperature, nutrient) in addition to other
tests
— Water considered safe under 100 cfu/ml
— It has some inconvenient, so other detection techniques are being
researched
9. Arsenic
— 33rd element of the periodic table,As
— AsO3, arsenic trioxyde/arsenite: most common
form in the environment.
— Soluble àWater can be contaminated byArsenic
— Industrial origin
— Geological origin
10. Arsenic poisoning
— Interfer with Krebs cycle (inhibits pyruvate conversion to
acetyl-coA)
— As a slow poison, causes diseases
— Skin diseases
— Intestinal tract problems
— Cancers
— Maximum concentration advised byWHO: 10μg/L
— Letal dose: 1mg/kg/day
— Problem in Bangladesh and someAsian countries
11. Arsenic detection
— Interest in detection:
— Industrial devices
— Academic research
— Bacteria have a constitutive arsenite and arsenate detection
mechanism.
— Expression of a specific membrane protein complex which
serves to pump the arsenite residues only when they are
present.
— Use of this mechanism to engineer a biosensor
12. Legal framework
— International framework
— Precaution principle
— Substantial equivalence principle
— Switzerland: Protection of the environment and public health
— Antibiotic resistance gene à Confinement à restrictions
— Sample-holder:
— Transport
— 3 layers
— Waste gestion
— It makes us aware of our responsibilities
— It forces us to communicate
àWe were looking what we are allowed to do and we discover that the
legal demands forces us to think HOW to continue our research and
build our prototype.
13. Fluorescence
— Emission of light by a substance that has previously been excited
by light at a specific wavelenght or by other electromagnetic
radiation.
— Green fluorescent protein: excited at 395nm, emitting green light
at 509nm.
— From jellyfishAequoreaVictoria
— Used in biology for tracking
— Expressed in the reporter bacteria after
having sensedArsenic
— Measure: light intensity at a specific wavelenght
14. Decision: the choice of fluorescence
— Do with what already exists, where the most informations are available.
— Work with Bangalore: students, responsive.
— Use fluorescence to detectArsenic via the bioreporter
— Fluorescence can also be used to detect E.Coli
— Based on intrisic fluorescence of bacteria components (in the UV range)
— Amino-acids
— Nucleic acids
Arsenic presence
E.Coli senseAs
Production of green
fluorescence:
measurable, proportional
toArsenic concentration
Activation of GFP gene
24. Improvements
— Addition of a battery and a switch
— To avoid using anArduino as a simple battery
— The LED can be individually turned on/off
— Fixation of the camera in the device
— Pictures more precise
— Vertical position of the sample
— To allow an easiest change between
different samples
27. Quantification with the Photoresistance
• More the light increases, more the resitance decreases so moreVout tends to equalVin
• Inversely, more the light decreases, more the resistance increases so moreVout tends to be null.
• Problem:The photoreistance isn’t enough sensitive.
28. Quantification with the light-to-
frequency device
330 Ω
Light to frequency device
5 V Sample holder
Arduino Analogic pin 5
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• The mechanisms are the same, but only the quantifier is different
29. Calibration
• Take measures with known arsenic concentrations.
• Plot them into a graph.
• Light = slope * concentration + const
• Concentration = (light - const) / slope
30. Data and analysis
What we have done:
Prototype 1 with dextran
Prototype 1 with eGFP
Prototype 2 with dextran
Prototype 1 with arsenic biosensor
Prototype 2 with arsenic biosensor
32. Prototype 1 with eGFP
y = 102.3x + 3.5759
R² = 0.99917
y = 1E+07x + 415889
R² = 0.99942
1
10
100
1000
10000
100000
1000000
10000000
0.000001 0.00001 0.0001 0.001 0.01 0.1 1
GreenLightintensity[au]
Sample dilution
MEAN mean x area
Linear (MEAN) Linear (mean x area)
37. Future directions
— Experiment more our prototypes with arsenic biosensor
— Learn how the different aspects interact
— Improve the devices
— Test LEDs
— Test filters
— Add lenses
— Improve reception
— Improve our prototypes
— Improve CHDK to do the analysis
— Redesign the box to be used with a smartphone, create an app
— Many samples at the same time
38. Future directions: General reflexions
— Sample holder
— Size
— Environment for bacteria activity
— Change the fluorescent protein
— Bigger difference between excitation and emission
— Longer wavelenght = cheaper LEDs
— Use another reporter than GFP?
— Shorten reaction time
— Another arsenic measuring way?
— Living matter = many parameters to manage:
Bacteria number, temperature, phase, oxygen and nutrients, …
39. Thanks
— Sachiko Hirosue
— Robin Scheibler
— Prof. Michaël Bensimon
— Nina Buffi
— José Artacho
— Sabrina Leuenberger, Heinz Straessle, Charles Joye
— Prof. Martial Geiser, FredericTruffer, Jean Iwanovski
— Prof. Jan RoelofVan der Meer, Siham Beggah, Davide
Merulla