Method and device for concentrating molecules or objects dissolved in solution
11262333 · 2022-03-01
Assignee
Inventors
- Aurélien Bancaud (Toulouse, FR)
- Hubert Ranchon (Toulouse, FR)
- Thierry Leichle (Toulouse, FR)
- Pattamon Teerapanich (Toulouse, FR)
Cpc classification
B01L3/502753
PERFORMING OPERATIONS; TRANSPORTING
C12Q1/6806
CHEMISTRY; METALLURGY
B01L2300/0816
PERFORMING OPERATIONS; TRANSPORTING
B01L3/502
PERFORMING OPERATIONS; TRANSPORTING
International classification
G01N30/00
PHYSICS
B01L3/00
PERFORMING OPERATIONS; TRANSPORTING
C12Q1/6806
CHEMISTRY; METALLURGY
Abstract
A method for concentrating electrically charged objects in a non-Newtonian liquid medium comprises: feeding a sample containing electrically charged objects into a channel having a flow axis, a first transverse cross-section orthogonal to the flow axis, and at least one second transverse cross-section orthogonal to the flow axis, one dimension of the second cross-section being less than the corresponding dimension of the first cross-section; and applying a hydrodynamic flow in a direction of the channel together with the application, in the opposite direction, of an electric field in the channel, thus making it possible to move the electrically charged objects in the channel along the flow axis from the first cross-section to the second cross-section, stop the objects, and concentrate the objects in at least one area upstream from the second transverse cross-section.
Claims
1. A process for concentrating electrically charged objects in a non-newtonian liquid medium, comprising: the introduction of a sample containing electrically charged objects into a channel exhibiting a flow axis, a first transverse section orthogonal to the flow axis and at least one second transverse section orthogonal to the flow axis, the minimum dimension of said second transverse section being less than the corresponding dimension of said first transverse section, wherein temperatures within the first transverse section and within the second transverse section are at ambient temperature, the electrically charged objects being intended to migrate along the flow axis from a first reservoir to a second reservoir; the application of a hydrodynamic flow, in the first and second reservoirs by means of pressure control means of the first reservoir and of the second reservoir, in a direction of said channel in conjunction with the application, in the reverse direction, of a non-alternating electric field in said channel by means of electrodes in the first and second reservoirs, making it possible to displace the electrically charged objects in the channel along the flow axis of the first transverse section toward the second section and to halt them and to concentrate them in at least one zone upstream of said second transverse section.
2. The process as claimed in claim 1, wherein the liquid medium comprises uncharged polymers.
3. The process as claimed in claim 2, wherein the uncharged polymers are chosen from polyvinylpyrrolidone, poly(ethylene glycol), polyacrylamide and their mixtures.
4. The process as claimed in claim 3, wherein the uncharged polymers are present in a concentration by weight of 0.1 to 10%, preferably of 0.5 to 5% and more particularly preferably of 1 to 4%.
5. The process as claimed in claim 1, wherein: the applied electric field has a value of 10 V/m to 10 000 V/m, preferably of 100 V/m to 5000 V/m and more particularly preferably of 200 V/m to 1000 V/m; and/or the hydrodynamic flow is characterized by a mean velocity of 1 to 10 000 μm/s, preferably of 5 to 5000 μm/s and more particularly preferably of 10 to 1000 μm/s.
6. The process as claimed in claim 1, wherein: the introduction of the electrically charged objects is carried out in an introduction zone of the channel and the displacement of the electrically charged objects is carried out from the introduction zone toward a detection zone of the channel, the process additionally comprising: the detection of the electrically charged objects arriving in the detection zone.
7. The process as claimed in claim 1, wherein said electrically charged objects are chosen from the group consisting of: single- or double-stranded DNA or RNA molecules comprising at least 20 bases or base pairs; peptides, polypeptides or proteins comprising at least 100 amino acid units; polymeric carbohydrates or other polymers; karyotic or prokaryotic cells; nanoobjects or nanoparticles.
8. A device for concentrating electrically charged objects in a liquid medium, comprising: a channel exhibiting a flow axis, the channel being filled with a non-newtonian liquid medium, the electrically charged objects being intended to migrate along the flow axis from a first reservoir to a second reservoir; means for application of a hydrodynamic flow in the first and second reservoirs by means of pressure control means of the first reservoir and of the second reservoir; and means for application of a non-alternating electric field in the channel by means of electrodes in the first and second reservoirs, wherein said channel exhibits a first transverse section orthogonal to the flow axis and at least one second transverse section orthogonal to the flow axis, the minimum dimension of said second transverse section being lower than the corresponding dimension of said first transverse section, wherein a first temperature within the first transverse section and a second temperature within the second transverse section are at ambient temperature.
9. The device as claimed in claim 8, wherein said channel has the shape of a hollow tube of rectangular section exhibiting a lower wall, an upper wall and two side walls, said side walls locally forming at least one constriction.
10. The device as claimed in claim 8, wherein said second section transverse exhibits a minimum dimension lower by at least 10% or by 20% or by 50% or by 95% than the corresponding dimension of said first transverse section.
11. The device as claimed in claim 9, wherein said side walls of said hollow tube each exhibit a portion forming an angle of between 10° and 65° with said flow axis.
12. The device as claimed in claim 8, wherein said channel is a lumen of a capillary exhibiting at least one constriction.
13. The device as claimed in claim 12, wherein said capillary exhibits a square or circular section.
14. The device as claimed in claim 12, wherein said capillary exhibits a portion forming an angle of between 10° and 65° with said flow axis.
15. The process as claimed in claim 1, wherein said channel has the shape of a hollow tube of rectangular section exhibiting a lower wall, an upper wall and two side walls, said side walls locally forming at least one constriction, and said side walls of said hollow tube each exhibit a portion forming an angle of between 10° and 65° with said flow axis.
16. The process as claimed in claim 1, wherein said channel has the shape of a hollow tube of rectangular section exhibiting a lower wall, an upper wall and two side walls, said side walls locally forming at least one constriction, said channel is a lumen of a capillary exhibiting at least one constriction, and said capillary exhibits a portion forming an angle of between 10° and 65° with said flow axis.
Description
BRIEF DESCRIPTION OF THE DRAWINGS
(1) The invention, and also the different advantages which it exhibits, will be more easily understood by virtue of the description which will follow of embodiments of the invention given with reference to the drawings, in which:
(2)
(3)
(4)
(5)
(6)
(7)
(8)
(9)
(10)
(11)
(12)
(13)
(14)
DESCRIPTION OF EMBODIMENTS OF THE DEVICE
(15) On referring to
(16) The structure 15 (with its recess) and the support 16 define a channel 1. Generally, that is to say over the majority of its length, the channel 1 exhibits the shape of a hollow cylinder of rectangular section defined by an upper wall 1a, a lower wall 1b and side walls 1c. The main axis of the cylinder is the flow axis 14 in the channel 1. Perpendicularly to this flow axis 14, a first transverse section of the channel 1 is defined by a height denoted h and a width denoted L. The height h corresponds to the minimum dimension of the transverse section (it is also the distance between the support 16 and the bottom of the recess of the structure 15) and the width L corresponds to the dimension in the direction orthogonal to that of the height.
(17) Generally, in use, the height h corresponds to the vertical, whereas the width L and the flow axis 14 are in the horizontal plane. The value of h can be chosen as a function of the size of the electrically charged molecules or objects to be concentrated.
(18) The device furthermore comprises an introduction zone 9 of a sample, the electrically charged molecules or objects of which it is desired to concentrate, and a detection zone 8. In the present case, the introduction zone 9 of the sample is located in the reservoir 4 and the sample is injected into the reservoir by virtue of an ancillary device.
(19) According to the invention, the channel 1 exhibits a constriction, represented in
(20) With reference to
(21) In use, the channel 1 is filled with a solution which is suitable for electrophoresis, to which have been added components which make it possible to render the fluid non-newtonian. A sample containing electrically charged molecules or objects to be concentrated is introduced into the device in the introduction zone 9.
(22) The migration of the electrically charged molecules or objects in the channel 1 is carried out along the flow axis 14, from the first reservoir 4 toward the second reservoir 6. To do this, a hydrodynamic flow is generated in the channel 1 (in particular by the pressure control means 13a, 13b of the first reservoir 4 and of the second reservoir 6).
(23) In conjunction, an electric field is generated in the channel 1 by means of the electrodes 10a, 10b in the respective reservoirs 4, 6. This electric field is appropriate for applying an electrostatic force to the electrically charged molecules or objects to be concentrated which tends to displace them in the opposite direction to the hydrodynamic flow applied.
(24) With reference to
(25) The desired hydrodynamic flow profiles (characterized in particular by given mean flow rates and velocity values) are obtained by actuating the respective pressure control means 13a, 13b, so as to generate a pressure difference between the inlet reservoir and the outlet reservoir. For example, in order to generate the hydrodynamic flow providing the migration of the electrically charged deformable molecules or objects to be concentrated from the introduction zone 9 toward the detection zone 8, a pressure difference is generated between the reservoir 4 and the reservoir 6. For example, in view of the geometry of the channels, a pressure difference of 0.01 to 10 bar, preferably of 0.05 to 4 bar and more particularly preferably of 0.1 to 1 bar makes it possible to obtain the desired hydrodynamic flow profiles.
(26)
(27) Each molecule is thus subjected, as a function of its position in the detection zone, to different hydrodynamic and electrophoretic fields. The velocity of propagation of each electrically charged molecule or object thus varies during its displacement in the constriction zone along the flow axis.
(28) The principle at the basis of the invention is explained with reference to
(29) A sample containing DNA molecules comprising 48.5 kpb was introduced into a device of the type of that described above but not exhibiting a constriction, the channel of the device in question exhibiting a section with a minimum dimension of 2 μm. This introduction was carried out so as to observe an unvarying net flow of molecules. The ranges of electrophoretic velocities (ev) and hydrodynamic velocities (hv) were swept by varying the electrophoretic field and also the hydrostatic pressure differential applied to the device. It was found experimentally that the DNA molecule was halted for different pairs of values of hydrodynamic velocity (hv) and electrophoretic velocity (ev) represented on the curve of
(30) The spot where this straight line cuts the curve combining the points for which the velocity is zero (represented by a circle in
(31) Furthermore, it is found, with reference to
(32) Thus, by sweeping different electrophoretic and hydrodynamic velocity values within the constriction, as represented by the arrow, it is possible to concentrate and to halt different DNA molecules at different spots.
(33) Without wishing to be committed by theory, the inventors consider that, in the presence of a non-newtonian fluid, the shearing of the fluid generates nonlinear couplings between the hydrodynamic flow and the electrophoretic mobility via a transverse force which tends to flatten the molecules toward the wall. This transverse force explains the feeble growth of the response curve of the DNA: the faster the velocity of the flow, the lower the intensity of the electric field necessary to halt a molecule. This force is furthermore dependent on the size of the DNA handled, since a long molecule induces a greater perturbation of the flow and thus an increased non-newtonian effect. Consequently, for given parameters for actuating the fluids (electric field and hydrostatic pressure differential), there exists a series of stopping points of the molecules which make it possible to halt them at a different position along the pipe.
(34) The device according to the invention, in the presence of a non-newtonian fluid, thus makes it possible to concentrate and to separate electrically charged objects of different size, even those of similar mobility (like the devices of the prior art).
(35) In the presence of a newtonian fluid, as will be demonstrated, it is not possible to concentrate electrically charged objects or to separate them.
(36) This is because, in a newtonian fluid, the electrophoretic velocity depends linearly on the electric field according to the relationship ev(y)=μE(y), where μ is the electrophoretic mobility of the DNA which does not depend on the size of the chain, and the hydrodynamic velocity is equal to the mean velocity of the fluid according to the position y of the molecule, i.e. hv(y)=v(y), y being the direction of flow of the fluid in the channel. The molecules will thus be halted when ev(y)=hv(y), i.e. E(y)=1/μ.Math.v(y). The halting curve, in the case of a non-newtonian fluid, is thus a straight line passing through the origin and of gradient 1/μ, as illustrated in
(37) The variations in electric field and in hydrodynamic velocity which may be induced by a constriction are now considered. As the electric field E and the flow velocity v have a conservative flux, to a first approximation, it may be considered that:
v(y)=SO/S(y).Math.v0
E(y)=SO/S(y).Math.E0
where S(y) is the section of the channel in the constriction at the position y; and S0, E0 and v0 denote the values of the section of the channel, of the electric field and of the velocity of the fluid far from the constriction, in the absence of the perturbation induced by the constriction.
(38) The constriction thus makes it possible to sweep an assembly of electric field/flow velocity pairs on a straight line passing through the origin, the gradient of which has a value E0/v0, E0 being the electric field applied in the channel and v0 being the flow velocity in the channel in the absence of constriction.
(39) Thus, in order to be able to halt a molecule, it is necessary to apply, in the absence or in the presence of constriction, experimental conditions such as E0/v0=1/μ. On the other hand, this molecule might not be displaced in the fluid in order to be able to be concentrated since its velocity would be invariant and zero throughout the channel. This is because, in order to be able to concentrate molecules at the same spot, it is necessary for the overall displacement velocity of the molecule ev=hv to decrease before cancelling each out at the stopping point. It will subsequently be seen that, when the sample comprises several electrically charged molecules or objects, for example of similar mobility but of different size, such as DNA molecules, when the parameters, such as the constriction angle and the values of the hydrodynamic and electrophoretic fields applied, are appropriately chosen, it is possible to halt the different molecules or objects at different positions along the flow axis when these molecules or objects are dissolved in a non-newtonian fluid. In this case, the invention also makes it possible to separate the electrically charged molecules or objects of similar mobility. The detection means are not represented in the figures. They can comprise a microscope lens on the side of the support 16 opposite the channel 1, and a detector connected to this, such as a CDD camera. The electrically charged individual molecules or individual objects can thus be detected on the acquired image, and an overall intensity measurement in the detection zone 8 or a portion of the latter as a function of the time can be carried out.
(40) Means for analysis of the measurements and of presentation of the data obtained can be combined with this device.
(41) The device can also be incorporated in a lab-on-chip, comprising, for example, other channels, reservoirs and/or electrodes similar to those described above. For example, the lab-on-chip can comprise a chemical or biochemical reaction device coupled downstream to the separation device according to the invention. Thus, the use of the concentrating process according to the invention makes it possible to analyze the products from a chemical or biochemical reaction carried out in the lab-on-chip.
(42) The lab-on-chip can also comprise means for collecting fractions corresponding to the different electrically charged molecules or objects concentrated. These collecting means can be provided downstream of the detection zone 8. Alternatively, they can replace the detection zone 8, in which case the device is used for a solely preparative purpose.
(43) These collecting means can be provided in combination with the abovementioned chemical or biochemical reaction device, or without it.
EXAMPLES
(44) A standard buffer solution for the electrophoresis of DNA, consisting of 80 mM of Tris-HCl, 80 mM of boric acid, 5 mM of ethylenediaminetetraacetic acid, 0.5 μM of dithiothreitol, to which 2% by weight of 360 kDa PVP have been added, was used to dilute different DNA samples. As described above, the introduction of the PVP makes it possible to render the buffer solution non-newtonian. Generally, different samples of DNA of different sizes were diluted in this buffer solution in a proportion of 1 to 10 ng/μl of nucleic acids.
(45) The nucleic acids present in the DNA fragments are rendered fluorescent by labeling using an intercalating agent (YOYO(R), Molecular Probes) in a proportion of one probe per 4 base pairs.
(46) The device used for separating and analyzing this population of molecules is as represented in
Example 1
Sample Containing Two Types of DNA Having Small Sizes and Large Sizes
(47) In this example, the invention is used to separate and concentrate Lambda DNA comprising 48.5 kpb and PhiX174 DNA comprising 5.4 kpb present in a buffer solution as described above.
(48) An overall pressure difference of 100 mbar and an overall voltage difference of 40 V were used with crossed hydrodynamic and electrophoretic flows, that is to say flows oriented along the flow axis but along opposite axes. After waiting for one minute, a fluorescence microscopy photograph was taken. This photograph is represented in
Example 2
Sample Containing Three Types of DNA
(49) The invention has also been used with a sample containing three types of DNA, of 15 kbp, 35 kbp and 49 bp. An overall pressure difference of 50 mbar and an overall voltage difference of 7 V were used with crossed hydrodynamic and electrophoretic flows. After waiting for 100 seconds, a fluorescence microscopy photograph was taken. This photograph is represented in
Example 3
Sample Containing DNAs Having Small Sizes
(50) The invention has also been used on a 1 kpb DNA ladder molecular weight label comprising 500 to 10 000 base pairs.
(51) An overall pressure difference of 100 mbar and an overall voltage difference of 40 V were used with crossed hydrodynamic and electrophoretic flows.
(52) After waiting for 17 seconds, a fluorescence microscopy photograph was taken. This photograph is represented in
Example 4
Sample Containing Microbeads
(53) The invention has also been used with a sample containing fluorescent polystyrene microbeads with a diameter of 100 nm (Fluorospheres™, Invitrogen). The deformability of such microbeads is fairly low, its Young's modulus being of the order of 3 GPa. The microbeads were diluted in a solution comprising an abovementioned buffer solution and 2% by weight of 360 kDa PVP. The same device as that described above for the separation and the concentration of the DNA was used. In this example, 200 μl of solution based on TBE and on PVP, such as that described above, were used. An overall pressure difference of 150 mbar and an overall voltage difference of 40 V were used with crossed hydrodynamic and electrophoretic flows. After waiting for 18 seconds, a fluorescence microscopy photograph was taken. This photograph is represented in
(54) It should be noted that, according to the composition of the sample and the electrophoretic and hydrodynamic field values, some electrically charged molecules or some electrically charged objects can maintain a positive displacement velocity during their displacement along the flow axis of the channel. These molecules are thus not halted upstream of the constriction and can be collected downstream. The device according to the invention can thus also be used as device for filtering molecules.
(55) In the different embodiments and examples represented here, the channel had the shape of a hollow tube of rectangular section, one of the faces of which is transparent so as to make possible the optical detection of the electrically charged molecules or objects.
(56) It is also possible to consider a channel formed by the lumen of a capillary, that is to say of a tubular structure, of preferably square or circular section, made of a transparent material, such as, for example, glass.
(57) It should furthermore be noted that, in other embodiments, the constriction can consist of walls which approach the flow axis in a nonlinear fashion.