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Lab-on-Chip for DNA Analysis With Resolution Length of 3 bp and Concentration of 10 nM

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HAL Id: hal-01686185

https://hal.archives-ouvertes.fr/hal-01686185

Submitted on 17 Jan 2018

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Lab-on-Chip for DNA Analysis With Resolution Length of 3 bp and Concentration of 10 nM

Bayan Chami, Marius Socol, Rémi Malbec, Aurélien Bancaud

To cite this version:

Bayan Chami, Marius Socol, Rémi Malbec, Aurélien Bancaud. Lab-on-Chip for DNA Analysis With

Resolution Length of 3 bp and Concentration of 10 nM. MICROFLUIDICS2017-Ecole thématique,

Jun 2017, Carcans Maubuisson, France. 2017. �hal-01686185�

(2)

Laboratoire conventionné avec l’Université Fédérale Toulouse Midi-Pyrénées LAAS-CNRS

/ Laboratoire d’analyse et d’architecture des systèmes du CNRS

Lab-on-Chip for DNA Analysis With Resolution Length of 3 bp and Concentration of 10 nM

Bayan CHAMI, Marius SOCOL, Rémi MALBEC, Aurélien BANCAUD

objective Stopped DNA

Objective: Analyze circulating DNA by size for the detection of cancer

P E

Separation in funnel region

tank

Microfluidic chip

Technique: Microfluidic lab-on-chip(µLAS) with Bidirectional flows in Viscoelastic polymer solution induce transverse forces that stop the DNA fragments by size in the funnel region

Chip holder

Fluorescence images of DNA ladder bands

Labeled DNA in viscoelatic

fluid

Results: Optimizing the Separation Resolution

Chip Design

Actuation Parameters Viscoelastic

Polymer Solution

Optimizing the Chip Design

Comparison: linear vs. power-law profile

Clewin design of the microfluidic channel containing two different geometries (linear and power-law)

DNA separation and enrichment in the linear versus power-law geometries and their corresponding intensity profiles. In the linear profile bands below 200 bp are unresolved while they are in the power-law profile

-0,5 0 0,5 1 1,5 2 2,5 3

10% 13% 15% 18% 20% 20% 2% 3% 4% 5%

R eso lution

Polymer Solution Concentration

75-100bp avg Res 75-100bp max Res

PVP 40 KDa PEG 10 KDa PVP 1.3 MDa

Optimizing the Polymer Solution

The average and maximum resolution obtained for a 75 bp band in a power- law geometry for different viscoelastic polymer solutions. Low molecular weight solutions produce higher resolutions.

The Resolution length as a function of DNA size obtained for each polymer solution in the same chip geometry.

Polymer Elasticity plays an important role!

Optimizing the Actuation Parameters

The Physical Model

1,8 2 2,2 2,4 2,6 2,8 3

290 310 330 350 370 390 410

R eso lution

Voltage (V)

13% PVP 40 KDa in power-law chip

600 bp 7 bar

8 bar 9 bar 10 bar

There is a balance between the pressure and electric field resulting in the optimum resolution

The optimum Pressure and Voltage couple depend on the chip geometry and the polymer solution

(Ho and Leal 1976)

Comsol simulations to find the transverse force profile

From the transverse force we can predict the position and width of the band in the

constriction hence the resolution Comsol simulation; transverse froce for different values of V e as a function of bead position in z

Rouse model

for the DNA

(Ranchon et al. 2016)

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