The present application claims priority from European Patent application serial No. 21196528.0, filed on Sep. 14, 2021, the content of which is hereby incorporated by reference into this application.
The present invention relates to a photonic crystal-based sensor for particular, but exclusive use in biosensing.
Many commonly-used biosensing technologies, such as enzyme-linked immunosorbent assay (ELISA), employ fluorescent labelling (or “tagging”) of specific biomolecules, such as antibodies. This is usually performed in the laboratory by specialists and is labour-intensive and costly. The ability to tag and track biological markers outside of the laboratory by non-specialists is of great interest, particularly if testing can be performed quickly and reliably at point-of-care.
Biosensing integrated circuits (sometimes referred to as a “lab-on-a-chip” devices) offer the possibly of performing accurate, high-throughput testing. Some of these devices use photonic crystal cavities and have demonstrated great sensitivity to small changes in their environment, thereby allowing the possibility of label-free, on-chip biosensing. An example of such a device is described in M. G. Scullion, A. Di Falco, T. F. Krauss: “Slotted photonic crystal cavities with integrated microfluidics for biosensing applications”, Biosensors and Bioelectronics, volume 27, pages 101 to 105 (2011), which is incorporated herein by reference.
Biosensing with photonic devices involves immobilising probe molecules on the surface of a photonic sensor and specifically binding these molecules to target analytes. The photonic cavity is usually integrated with a microfluidic channel to bind the probes to the cavity.
One type of probe is carried through the channel, thus enabling to detect one type of analyte at a time per channel. Microfluidics channels are, however, typically several hundreds of micrometres wide which limits minimum separation between consecutive cavities and, thus, the multiplexing capability of the sensor.
Another approach employs inkjet printing to circumvent the need for globally depositing probe molecules. The use of large inkjet droplets having a diameter of the order of tens of micrometres helps to ensure coverage of a micrometre-sized photonic cavity. Large inkjet droplets are, however, known to suffer from the so-called “coffee-ring effect” resulting in a concentration of solutes around the edge of the droplet, away from the photonic cavity.
Smaller droplets, having a diameter of the order of micrometres, are less affected by this effect and so would seem to offer a solution. Aligning a smaller droplet to a photonic crystal cavity of the same size is more difficult which is slower and requires higher fabrication tolerances.
According to a first aspect of the present invention there is provided a photonic crystal-based sensor. The sensor comprises a photonic waveguide comprising a photonic crystal comprising holes in a layer of dielectric material and a waveguide in the photonic crystal. The sensor comprises at least one strip disposed on, running across, and spaced apart along, the photonic crystal waveguide so as to form respective strip cavities along the photonic crystal waveguide. Each strip includes a respective layer of material for sensing presence of a respective analyte, for example, by specifically binding to a given analyte, such as an antibody. The sensor further comprises a slot running along (for example, along the middle of) the waveguide of the photonic crystal waveguide.
The slot can increase sensitivity and/or quality factor of the cavities. The strips can be formed by inkjet printing using femtolitre droplets and so the arrangement of the sensor helps avoid the need for reproducibly aligning a micrometre-sized droplet with a similarly-sized photonic crystal cavity, thereby relaxing fabrication tolerances and, thus, making the device easier to fabricate.
The slot may have different widths along the first photonic waveguide.
The sensor may comprise a second photonic crystal waveguide running along the first photonic waveguide (for instance along a side of the first photonic waveguide and so sharing a common portion of the photonic crystal portion) and arranged such that the strip cavities are coupled to the second photonic crystal waveguide.
The sensor is preferably a biosensor.
The holes may have a diameter between a half to three-quarters of the lattice spacing. Preferably, the holes have a diameter of about 0.6 times the lattice spacing. The diameter may be between 150 nm and 450 nm.
The layer of dielectric material has a principal surface (such as, a top surface) and the holes may extend into the dielectric material. The strip(s) lies/lie on the principal surface and preferably lie directly on the principal surface. A strip may partially or fully infiltrate holes. A strip may form respective suspended membranes over holes. The principal surface is preferably flat.
The dielectric material preferably has a refractive index greater than 2. The dielectric material may be silicon or silicon nitride. The photonic crystal may have a lattice between 300 nm and 600 nm. Holes in the photonic crystal may have a diameter of between a half and three-quarters of the lattice spacing. The dielectric material layer may have a thickness of between a quarter of the lattice spacing and three-quarters of the lattice spacing, for example, about half the lattice spacing. The sensor may comprise a bottom cladding (i.e., under the dielectric material layer). The bottom cladding may comprise an oxide layer, such as silicon dioxide. The bottom cladding may be air. The sensor may comprise an upper cladding. The upper cladding layer may comprise an oxide layer, such as silicon dioxide, which may have a thickness less than 100 nm.
According to a second aspect of the present invention there is provided a photonic crystal-based sensor. The sensor comprises a first photonic waveguide comprising a photonic crystal comprising holes in a layer of dielectric material and a waveguide in the photonic crystal. The sensor comprises a series of strips disposed on, running across, and spaced apart along, the first photonic crystal waveguide so as to form respective strip cavities along the first photonic crystal waveguide. Each strip includes a respective layer of material for sensing presence of a respective analyte, for example, by specifically binding to a given analyte, such as an antibody. The sensor comprises a second photonic crystal waveguide running along the first photonic waveguide (for instance along a side of the first photonic waveguide and so sharing a common portion of the photonic crystal portion) and arranged such that the strip cavities are coupled to the second photonic crystal waveguide.
The second photonic crystal waveguide may run along one side of the first photonic crystal waveguide (in other words be co-planar) and the first and second photonic crystal waveguides may share a common photonic crystal portion. The second photonic crystal waveguide may run under the first photonic crystal.
The sensor may further comprise a first coupler (for example in the form of a grating) arranged at a first end of the second photonic crystal waveguide for coupling light from an external source into the second photonic crystal waveguide, and a second coupler (for example in the form of a grating) arranged at a second end of the second photonic crystal waveguide for coupling light out of the second photonic crystal waveguide to an external detector.
The sensor may further comprise a first transition region interposed between the first coupler and the first end of the second photonic crystal and a second transition region interposed between the second end of the second photonic crystal and the second coupler. The first and second transition regions may be arranged to improve coupling into and out of the second photonic waveguide and/or reduce back reflections. The first and second transition regions comprises third and fourth photonic waveguide respectively. Holes in the third and fourth photonic crystals may increase size between a coupler and the second photonic waveguide.
The slot may have different widths along the first photonic waveguide. Different widths of slot along the first photonic waveguide can help to provide cavities with different resonant frequencies. The slot may be tapered to provide a slot with different widths.
The first photonic crystal waveguide may be an unslotted photonic crystal waveguide (in other words, there is no slot running along the waveguide).
The waveguide may have different widths (for example, the distance between inside edge of holes either side of the waveguide) along the first photonic crystal waveguide.
On one side of first photonic crystal waveguide, the photonic crystal may be broken into at least two sections, separated by at least one gap (in other words, two sections are separated by a respective gap).
Each strip may have a thickness of one monolayer. Each strip may have a respective thickness of between one and ten monolayers, particularly if the first photonic crystal waveguide is a slotted photonic crystal waveguide. The strip may comprise a bi-layer. The strip may comprise a single layer of probe molecules. The probe layer may be a biosensing layer or a chemical sensing layer.
Each strip may have a respective thickness of between 10 and 100 nm, particularly if the first photonic crystal waveguide is an unslotted photonic crystal waveguide. Each strip may comprise a first layer (of “bio-compatible layer”) for creating a respective cavity and a second layer disposed on the first layer, wherein the second layer is the layer of material for sensing presence of a respective analyte. Thus, a slot need not be used which can facilitate fabrication and/or avoid the need for infiltrating the slot.
According to a third aspect of the present invention there is provided a testing device comprising an array of the sensors supported on a common substrate and a microfluidic structure for delivering a fluidic sample to the sensors.
According to a fourth aspect of the present invention there is provided a method of forming a sensor. The method comprises providing a template device, the template device comprising a photonic crystal waveguide comprising a photonic crystal comprising holes in a layer of dielectric material and a waveguide in the photonic crystal, and a slot running along (for example, along the middle of) the waveguide of the photonic crystal waveguide. The method comprises printing at least one strip on the photonic crystal waveguide, spaced apart along, and running across the photonic crystal waveguide so as to form respective strip cavities, each strip including a respective layer of material for sensing presence of a respective analyte.
Preferably, the printing the at least one strip comprises high-resolution inkjet printing of at least one layer. Printing the at least one strip may comprise high-resolution inkjet printing one layer. Printing the at least one strip may comprise high-resolution inkjet printing of two layers. The layer or uppermost layer preferably comprises a probe layer. The strip may comprise a bi-layer. The strip may comprise a single layer of probe molecules. The probe layer may be a biosensing layer or a chemical sensing layer. The method may comprise removing the at least one strip (or layer in a strip) and printing at least one new strip (or layer in a strip).
According to a fifth aspect of the present invention there is provided a method of using a sensor, the method comprising exposing a fluid sample to the sensor or the testing device.
According to a sixth aspect of the present invention there is described a method which includes creating a cavity on top of a photonic crystal waveguide with inkjet-printed solutions containing either the probes used for sensing or a biomaterial to which the probes preferably bind. In one embodiment, a bio-cavity is directly created from the probe forming a thin layer of organic material covalently bound to the surface of a slotted photonic crystal waveguide. In other embodiment, a bio-cavity is formed from a thicker layer of organic material on the surface of a photonic crystal waveguide and functionalised by inkjet-printed probes covalently bound to the organic material. The organic material can be removed, thus allowing the possibility of re-using the photonic crystal waveguide template with different probes.
A method and device are herein described for optically sensing a high density of different analytes on a chip in a high-throughput manner without the need for fluorescent tags. This can be achieved by patterning biological probes or organic materials on a photonic crystal template using inkjet printing. Optical cavities can be formed in this step, with each cavity arranged to have its own characteristic resonance wavelength. Each cavity can contain a unique probe which specifically binds to a target analyte. A binding event can cause a shift of the resonance wavelength of the corresponding cavity thus enabling identification of the analyte.
A multiplexed photonic biosensor can be formed by creating an array of such cavities along a photonic crystal waveguide. The multiplex sensor is side connected to another photonic crystal waveguide carrying a light source which couples to all cavities of the sensor, resulting in characteristic dips in the transmission spectra of the light guiding waveguide. A probe-to-target analyte binding event can cause a spectral shift of the dip in the transmission spectra associated to a shift of the resonance wavelength of the corresponding cavity, thus enabling to identify analytes in a solution.
In one embodiment, a strip of probe biomolecules is patterned (or “formed”) across a slotted photonic crystal waveguide with high-resolution inkjet printing. The thin strip of organic material created by the monolayer of biomolecules bound to the surface of the photonic crystal can form a cavity at the intersection of the strip and slotted photonic crystal waveguide due to the locally increased refractive index of the waveguide. The presence of the air slot can greatly increase sensitivity and the quality of the cavity. The slot is preferably tapered along the waveguide which, upon patterning with the strips, provides cavities with different resonance wavelengths to produce a multiplex biosensor.
In another embodiment, a strip of organic material, such as a bio-compatible polymer, is first printed on a photonic crystal waveguide without a slot. The strip is significantly thicker than a monolayer of probe molecules and, as a result, does not necessarily require the presence of a slot to create a high-quality cavity. The cavity is formed at an intersection of the strip and the photonic crystal waveguide by a local increase of the refractive index of the waveguide at the intersection. The thickness of the strip can be controlled by the concentration of the bio-compatible polymer in the printed solution or by the number of printer passes overlapping the strip. The strip thickness controls the resonance wavelength of the cavity created in this way thus creating the basis for a multiplex biosensor, but the multiplexing capability can also be obtained from a geometrical variation of the photonic crystal waveguide. Following this step, a strip of probe biomolecules is printed on the bio-compatible polymer with a unique probe covalently bound to each polymer cavity. The probes covalently bind to the polymer which is not covalently bound to the surface of the chip, thus the cavities and therefore the probes can be removed, and the chip re-used with new probes.
Microfluidics can be incorporated with the biosensors to bring the target analytes in close contact with the probes on the photonic crystal surface. The light-guiding photonic crystal waveguide enables monitoring of changes in resonance wavelength of the cavities. In another configuration, a sample can be dipped in a solution containing all target analytes or such solution can be printed on the probe cavities, resulting in a change of the resonance wavelength following incubation and washing. This configuration does not require microfluidics and results in an end point reading and is suited to fast diagnostic of biological fluids.
Devices are herein described for a highly multiplexed biosensor with high sensitivity where cavities are created on demand during the deposition of biomolecules or bio-materials on the surface of a photonic crystal template. Bio-solutions can be locally deposited using high resolution electrohydrodynamic inkjet printing, thus helping to minimize usage of microfluidics and the volume of reagents consumed. Minimal alignment is required and allows matching of surface coverage between the probe and the cavity to create a label-free biosensor. It offers the possibility to re-use the template to create new cavities and pattern fresh probes.
Certain embodiments of the present invention will now be described, by way of example, with reference to the accompanying drawings, in which:
In the following like parts are denoted by like reference numbers.
Devices and methods herein described can be used in applications involving detection of biological molecules (or “biomolecules”), for example DNA, RNA and proteins such as antibodies and enzymes, without the need for fluorescent labels. The devices and methods herein described involve creating one or more cavities by depositing localised layers (or “strips”) of bio-probes or bio-polymer on the surface of a photonic crystal template and arranging for each cavity to a specific resonance wavelength to form a multiplexed biosensor.
A photonic crystal template (or simply a “photonic crystal”) herein described comprises of a triangular lattice of etched holes in an inorganic, non-toxic material layer with a sufficiently high refractive index, preferably greater than 2, such as silicon or silicon nitride. The lattice spacing a is usually on the order of the emission wavelength of a cavity, for example, between 300 nm and 600 nm. The lattice spacing a depends on the refractive index of the template material and whether biosensor cavities emit in the visible or near-infrared part of the spectra. The hole size ∅ (i.e., hole diameter) is usually between a half and three-quarters of the lattice spacing a, and is preferably about 0.6 a. For example, the hole size ∅ may be between 150 nm and 450 nm. The lattice pattern can be defined by using deep UV or E-beam lithography and transferred to the inorganic material by reactive ion etching. The thickness of the photonic crystal template is typically half the lattice spacing, for example, between 100 nm and 200 nm. The photonic crystal template provides vertical confinement to an optical mode similar to a conventional optical waveguide. Bottom cladding, under the photonic crystal template, is preferably provided by an oxide layer, such as silicon dioxide. The bottom cladding may, however, be air, formed by a suspended photonic crystal membrane. Upper cladding, above the photonic crystal, is preferably provided by air. Upper cladding may, however, be provided by a layer of silicon dioxide. In that case, the thickness of the silicon dioxide layer is kept sufficiently small, typically below 100 nm, to allow effective sensing of biomolecules on the photonic crystal surface. The refractive index of the claddings should be smaller than that of the photonic crystal template.
Referring to
The microphotonic device 1 can be formed on a substrate 2 and comprises a bottom cladding layer 3 having first and second opposite faces 4, 5 and a patterned layer 6 (or “photonic crystal template”) having first and second opposite face 7, 8 (hereinafter referred to as “upper and lower faces” or “upper and lower surfaces”) disposed on the first face 4 of the bottom cladding layer 3.
The photonic crystal template 6 comprises a two-dimensional, hole-based photonic crystal waveguide 9 comprising a photonic crystal 10 formed by a lattice of holes 11 (or “air-holes”) in a layer 12 of dielectric material (also referred to as the “slab” or “body”), and a waveguide 13 in the photonic crystal 10 formed by defects in the lattice (i.e., the absences of holes 11), and an elongate slot 14 running along the middle of the waveguide 13. Herein, the photonic crystal waveguide 9 and slot 14 is referred to as a slotted waveguide 6. The slot 14 is rectangular with parallel long sides 16. As will be explained in more detail later, the slot 14 can be tapered (i.e., with straight, non-parallel long sides). A rectangular layer 18 of biomolecules runs transversely across the photonic crystal template 6 on the upper surface 7 of the photonic crystal template 6. A strip cavity 19 is formed where the biomolecular layer 18 intersects with the slotted photonic crystal waveguide 6.
The lattice spacing a is between 300 nm and 600 nm. The hole diameter ∅ is between a half to three-quarters of the lattice spacing a, for example, about two-thirds of the lattice spacing a. The dielectric material is silicon or silicon nitride and has a thickness t of between about 180 and 360 nm. The bottom cladding layer 3 may comprise a dielectric material, such as silicon dioxide. The layer 18 of biomolecules can be formed by depositing (or “printing”) a solution (not shown) containing biomolecules using high-resolution electrohydrodynamic inkjet printing, for example, as described in EP 3 333 605 A1 which is incorporated herein by reference.
Referring to
The second microphotonic device 21 is similar to the first microphotonic device 1 (
As will be explained in more detail hereinafter, non-slotted photonic crystal waveguides are generally less suited to creating cavities using ultra-thin layers of organic material, such as a mono-layer of biomolecules, whereas a slotted photonic crystal waveguide 6 (
Performance of optical sensors may be evaluated via their sensitivity to a change in the refractive index of the local environment. For a biosensor, an index change can be caused by the binding of a target molecule to a probe molecule attached to the surface of the sensor. If the sensor consists of an optical cavity, an index change Δn results in a change of in cavity resonance wavelength Δλ which can be detected by, for example, a spectrometer. The shift is proportional to the amount of target molecules binding to the sensor. Thus, the sensor can be used to identify a particular molecule and to determine its concentration. For optical sensors, the sensitivity S is defined by S=Δλ/Δn in units of nm per Refractive Index Unit, nm/RIU. The ability to resolve a shift depends on the linewidth δλ of the resonance and is expressed by FoM=S/δλ, where FoM is the Figure of Merit. The linewidth is linked to the quality factor Q of the cavity via the relation Q=λ/δλ and thus FoM=SQ/λ.
A numerical study is used to investigate creation of a cavity using a strip with refractive index 1.5 on top of a silicon photonic crystal template in an aqueous (water) environment defining the top cladding. The photonic crystal template bottom cladding is silicon dioxide. The refractive index of the strip is chosen to match that of a layer of single-strand DNA (ssDNA), which in this example is the probe layer. The water top cladding simulates the sensor properties when encased by microfluidics to deliver the target analytes. Refractive indices of 1.3 for water, 1.45 for silicon dioxide and 3.5 for silicon are used. In this example, a strip having a width of 4.75 a is used, where a is the lattice spacing. This corresponds to a strip having a width wt of 1.75 μm for a lattice spacing a of 370 nm and targeted cavity resonance wavelength around 1.3 μm. A strip width wt of between 1 and 5 μm can be used to create the cavity.
Referring to
The cavity mode distributions 311, 312, 313 are created by respective strips 181, 182, 183 on a non-slotted photonic crystal waveguide template 29 (i.e., the same unslotted photonic waveguide) with a top water cladding and a strip thickness ts.
For the first cavity mode distribution 311, a first strip 181 has a thickness is of 10 nm. For the second cavity mode distribution 312, a second strip 182 has a thickness is of 20 nm. For the third cavity mode distribution 313, a third strip 183 has a thickness is of 30 nm.
Referring also to
Reasonably high Q cavity can be created in all cases, but as the strip thickness ts is reduced, the mode volume increases significantly due to mode leaking out of the photonic crystal waveguide 131, 132, 133, resulting in a strong decrease in the value of Q. Given that a strip made from a monolayer of bio-probes, such as DNA molecules, has a thickness of between 2 or 3 nm to 10 nm, this strip-cavity configuration (i.e., using an unslotted photonic waveguide) does not perform sufficiently well when immersed in water and, thus, tends to be unsuited for use with microfluidics.
Referring to
Referring also to
The cavity mode distributions 314, 315, 316 and the line plots 34, 35 show that a cavity with a high Q and small mode volume can be created by a strip covering the surface of the slotted photonic waveguide 9. The optical mode is the strongest in the air-slot 14 as opposed to inside the photonic crystal material 12 (
Referring to
In particular,
Comparison of the performance of biosensors is usually based on their sensitivity to a change of the refractive index of the medium surrounding the sensor, and not just a thin strip layer, as described above.
Referring to
Referring to
The first multiplexed biosensor 50 comprises a first part 51 comprising a slotted photonic waveguide 52. The slotted photonic waveguide 52 has a similar structure to slotted photonic crystal waveguide 9 (
The multiplexed biosensor 50 comprises a second part 61 comprising an unslotted photonic waveguide 62. The unslotted photonic waveguide 62 has a similar structure to unslotted photonic crystal waveguide 29 (
The slotted and unslotted photonic waveguides 52, 62 run side by side and share a common photonic crystal portion 65, for example, by virtue of holes 54.
The unslotted photonic waveguide 62 is interposed between first and second light-couplers 66, 67 in the form of gratings which, in this case, comprise multiple, concentric, half-ring-shaped slots 68. Light passes between a coupler 66, 67 and an end of the unslotted photonic waveguide 62 through transition regions 69, 70 comprising short, unslotted photonic waveguide sections. Air holes 54 in the transition regions 69, 70 are shown shaded to aid clarity.
In this configuration, light 71 which is guided through the unslotted photonic waveguide 62 is side-coupled into the slotted photonic waveguide 52 and the strip cavities 601, 602, 603. Each cavity 601, 602, 603 has a respective, different resonance λ1, λ2, λ3. Coupling into the cavities 601, 602, 603 results in sharp dips 721, 722, 723 in the transmission spectra of the waveguide 62, each dip 721, 722, 723 corresponding to a cavity resonance λ1, λ2, λ3.
Thus, all the cavities 601, 602, 603 can be simultaneously monitored through the unslotted photonic waveguide 62.
Light 75 from a single mode TE polarized fibre (not shown) can couple into the first light coupler 66. Examples of suitable gratings are described in A. Faraon, I. Fushman, D. Englund, N. Stoltz, P. Petroff, J. Vuckovic: “Dipole induced transparency in waveguide coupled photonic crystal cavities”, Optical Express, volume 16, pages 12154 to 12162 (2008) and Y. Zou, S. Chakravarty, D. N. Kwong, W. C. Lai, X. Xu, X. Lin, A. Hosseini, R. T. Chen: “Cavity-Waveguide Coupling Engineered High Sensitivity Silicon Photonic Crystal Microcavity Biosensors With High Yield” IEEE Journal of Selected Topics in Quantum Electronics, volume 20, Art no. 6900710 (2014) which provides a 50 nm bandwidth. This light-coupling arrangement tends to require less stringent alignment than a fibre-contacting arrangement.
The transition regions 69, 70 comprise etched air-holes 54 of gradually increasing size ∅T1, ∅T2, . . . , ∅TN, i.e., increasing in size between the coupler 66, 67 and the unslotted photonic waveguide 62. This can improve coupling into and out of the unslotted photonic waveguide 62, as well as reducing Fabry Perot back reflections.
Coupling between the unslotted photonic waveguide 62 and slotted photonic waveguide 52 is permitted by matched mode symmetry. In this example, the waveguide 64 in the unslotted photonic waveguide 62 has a width of 0.9 a and the waveguide 57 in the slotted waveguide 52 has a width of 1.2 a wide (where a is the lattice spacing).
A cavity 601, 602, 603 created from a strip 591, 592, 593 has a resonance frequency corresponding to the bottom of the slotted photonic waveguide 52.
Referring also to
Referring also to
The second and third dispersion bands B, C correspond to the unslotted waveguide whose mode profile has same symmetry as slotted waveguide band D and, therefore, the same symmetry as the cavity of the slotted waveguide. Modes from third band C cannot couple to band B because of mismatched symmetry. To couple the unslotted waveguide to the cavity, the resonance frequency of the cavity should be within the frequency range 82 spanned by the second and third frequencies around the third band C (shown shaded region). Thus, the waveguide width for the slotted and unslotted waveguides should satisfy these conditions. A slotted waveguide should be wider than an unslotted waveguide. Here, for a slotted waveguide width 1.2 a, the unslotted waveguide width matching these conditions is about 0.9 a.
Referring in particular to
Each strip 591, 592, 593 has a length L. Each strip 591, 592, 593 is sufficiently long that it crosses over the slot 58. Each strip 591, 592, 593 can extend, on its far side (i.e., the side furthest from the unslotted photonic waveguide 62), beyond the edge 77 of the slotted photonic crystal waveguide 52. The strip 591, 592, 593 does not extend over the waveguide 64 of the unslotted photonic crystal waveguide 62 and so does not form any additional cavities.
The slot 58 has different widths wc at different positions along the waveguide 52 to provide strip cavities 601, 602, 603 with different resonance wavelengths λ1, λ2, λ3. In this case, this is achieved by smoothly tapering the slot 58. However, a slot 58 having steps in width (which may or may not vary monotonically along its length) may be used.
Referring to
For a spacing of about 1 μm between the edges of each strip cavity and a strip width of 1.75 μm, then the length of the slotted photonic waveguide needs to be about 140 μm to accommodate 50 cavities.
Referring to
Referring also to
The testing device 100 includes a common coupler 66 and light received via the common coupler 66 is delivered to each biosensor 50 via a network of optical splitters 104.
Before using a biosensor, a protocol is followed which generally includes activating the photonic crystal surface to enable bio-probes to bind to the surface of the photonic crystal, depositing the bio-probes to form strips on a slotted photonic crystal waveguide, incubating, washing, blocking non-specific binding, incorporating microfluidic channels on the photonic crystal waveguide to bring the target analytes, incubating and performing a final wash.
A protocol for binding a target cDNA to a ssDNA probe (hybridization) anchored on a silicon (Si), silicon dioxide (SiO2) or silicon nitride (SixNy)sample will now be described.
The sample surface is activated by oxygen plasma treatment or by exposure to a piranha solution to create OH groups. The OH groups enable covalent binding of silane groups, such as APTES ((3-Aminopropyl)trimethoxysilane) or GPTS ((3-Glycidyloxypropyl)trimethoxysilane) and formation of a self-assembled monolayer (SAM) either via liquid or gas phase.
The sample is washed with toluene, ethanol, acetone (all with >95% purity), dried with nitrogen and stored in a low humidity environment, for example, an argon- or nitrogen-filled storage cabinet.
Following this treatment, ssDNA strands in water can covalently bind to the SAM surface and left to incubate overnight in a sealed container (not shown) under a relatively high humidity.
Following incubation, the sample is washed in a PBS buffer with ultrasonic bath to remove unbound bio-probes (i.e., ssDNA) and left in ultrapure water for 5 minutes to block all OH groups left on the surface.
Prior to hybridization, the sample with ssDNA is immersed in a buffer containing Tris-Cl, NaCl, EDTA, Tween-20 and BSA for 30 minutes to prevent electrostatic binding of the target cDNA strand. Binding of the cDNA to ssDNA involves a buffer containing Tris-Cl, NaCl, EDTA, Tween-20 and the cDNA strands heated to about 90° C. before adding the sample with the bound ssDNA. Following incubation, the non-hybridized DNA can be removed with a buffer containing NaCl, trisodium citrate and SDS.
The bio-probe strips can be patterned with feature size smaller than 5 μm. Such resolution can be achieved via printing, preferably with electrohydrodynamic inkjet printing. Modified AFM tips, however, could also be used.
Referring to
The hybridized DNA microdots 110 are formed following the protocol hereinbefore described. ssDNA dots 110′ about 3 μm in diameter are printed with an electrohydrodynamic inkjet printer (not shown) on a silicon substrate (not shown) having a thin (50 nm) capping layer 111 of silicon dioxide (SiO2). The SiO2 layer 111 helps to avoid destructive optical interference and quenching by the silicon substrate when exciting the fluorescent label attached to the DNA.
The bio-ink (not shown) consists of ssDNA strands in water with 10% glycerol to avoid drying-induced clogging of the printer nozzle. Inkjet-printed ssDNA strands are hybridized with their cDNA strands in Eppendorf tubes (not shown) and the fluorescent signal measured with a confocal microscope (not shown). Integration with the label-free photonic crystal biosensor involves incorporating microfluidic channels made from, for example, PDMS to deliver the target analytes (cDNA). Reference is made to M. G. Scullion, A. Di Falco, T. F. Krauss: “Slotted photonic crystal cavities with integrated microfluidics for biosensing applications”, Biosensors and Bioelectronics, volume 27, issue 1, pages 101-105 (2011).
The movement of fluid within these channels enables separation of bound and unbound molecules to the bio-probe strip. Specific binding results in a shift of the resonance wavelength of the strip cavity which can be monitored by the light transmitted through the non-slotted photonic crystal waveguide. PDMS maintains mechanical stability for up to 200° C. Thus, the heated cDNA solution can be directly injected through the microchannel and left to incubate with the printed ssDNA bio-probes, typically for a few hours, before washing the surface with injected ultra-pure water. ssDNA is used as the bio-probe material. However, aptamers, antibodies and other proteins could also be used.
Referring to
The second multiplexed biosensor 150 is similar to the first multiplexed biosensor 50 (
The second multiplexed biosensor 150 has a first part 151 which differs from the first part 51 (
First, the first part 151 has an unslotted photonic waveguide 152, although a slot may be used.
Secondly and thirdly, the unslotted photonic crystal waveguide 152 comprises a photonic crystal 153 comprising first and second parts 1781, 1782 either side of variable-width waveguide 1571, 1572, 1573 and the first side 1781 is non-continuous, instead broken into discrete sections 1791, 1792, 1793 separated by gaps 1801, 1802. Waveguide width, WA1, WA2, WA3 is defined by centre-to-centre distance of the air-holes 154, for example, having values between 0.98 and 1.0 a.
Coupling between modes of the waveguides follows the same principle as hereinbefore described in relation to modes of slotted and unslotted waveguides. In this case, the frequency range 182 spanned by the waveguide without the strip is highlighted.
In the case of slotted cavities, no gaps and no discrete sections are needed because lattice symmetry is preserved between cavities. In this case, transition from one cavity to the next cannot be done without breaking the lattice symmetry due to the change in waveguide width. Preservation of symmetry is usually preferred to avoid additional reflections and losses. In addition, air gaps prevent potential coupling between different waveguide modes. A gap length of a few lattices (for instance 5 lattices) is usually sufficient.
Fourthly, the overlying strips 1711, 1712, 1713 of biocompatible material are thicker than a monolayer (for example, greater than or equal to 10 nm) and less than or equal to 100 nm. Keeping the strip thickness below 100 nm can help to preserve the sensor surface sensitivity and the high Q of strip cavities.
Each strip 1711, 1712, 1713 is a bi-layer which comprises a base layer 1721 of a respective bio-compatible material which is solution-processable, which is transparent at the cavity resonance wavelength, and which is able to immobilize bio-probes 1591. Bio-compatible materials can be of a type which can be cleaned from the sample surface 173 (i.e., surface 173 of layer 155) and printed again to immobilize fresh probes 1591 thereby providing a re-usable biosensor. For example, polydopamine is a bio-compatible material which is transparent in the near-infrared, which can be inkjet-printed, and which can be used to immobilize proteins, as well as thiol or amine-containing molecules.
Polydopamine can be removed from silicon or silicon dioxide substrate using acetone thereby providing a re-usable photonic crystal biosensor. Other bio-compatible and transparent materials include chitosan for the immobilization of amino groups or enzymes and cellulose for the immobilization of antibodies and enzymes.
The thickness of the base layer can be adjusted by the concentration of the bio-compatible material in solution which, in for polydopamine, is a Tris-buffer. It can also be adjusted according to the number of printer passes.
Employing thicker strips allows unslotted photonic crystal waveguides to be used. This can help make the device easier to fabricate and avoid the need to infiltrate a slot.
Referring still to
Similar to the first multiplexed biosensor 50 (
The unslotted photonic waveguide 162 has a similar structure to unslotted photonic crystal waveguide 29 (
Referring also to
In the second multiplexed biosensor 150, strips 1711, 1712, 1713 with different thicknesses provide cavities with different resonant wavelengths allowing multiplexing. Larger variations of resonance wavelength can be achieved by geometric variation of the photonic crystal waveguide 152, such as a reduction in width WA in different parts of the waveguide, i.e., WA1≠WA2≠WA3.
The second multiplexed biosensor 150 can be prepared in two ways.
In one approach, bio-compatible materials (such as polydopamine) are deposited to form strips 1721 on the photonic crystal waveguide via high-resolution inkjet printing, then bio-probes 1592 (such as thiol and amine modified probes) are deposited on the biocompatible material strips 1721 with the same printer. This is followed by incubation, washing, blocking of non-specific binding, incorporation of microfluidic channels on the photonic crystal waveguide to bring target analytes, incubate and a final wash.
In another approach, modified bio-compatible materials (such as modified polydopamine), which contains functional groups suitable for bio-probe binding, is chemically synthesised, and is directly deposited onto the photonic crystal template followed by printing of the bio-probe 1592.
In a variation of the first and second devices, the resonance wavelengths of the printed strip cavities can be first measured with the bio-probes only. The sample is then immersed in a solution containing all target molecules. Alternatively, a solution containing all target molecules is printed directly on the bio-probes with the same inkjet printer. Following incubation and washing, analytes having no affinity with a bio-probe are removed and the strongly-bound ones result in a shift of the cavity resonance which can be detected as end-point reading. This approach does not require microfluidics. Thus, the device is simpler, but does not allow continuous monitoring of the binding process during the incubation time.
Devices herein described allow detection and quantification of biomolecules on a silicon-based photonic chip. Pathogens, such as virus antigens, and specific enzymes secreted by cancerous cells can be detected. Due to the inert nature of silicon, blood samples and corrosive solutions, such as urine, can be analysed.
More generally, the devices can be used to detect, chemical species (i.e., they do not necessarily need to be biochemical species). Strips of printed polymers or probe molecules can bind to chemical species (which may be presented as a gas or liquid). The polymers or probe molecules can react to a change in environmental conditions, such as temperature, humidity, pressure, or pH of liquids.
Thin (<100 nm) printed polymers or probe molecules can be dissolved by the presence of particular chemical species in small concentrations. Provided these species do not react with the photonic crystal substrate, suppression of a cavity resonance can indicate the presence of a particular chemical and its concentration by the rate at which the resonance peak is suppressed. The possibility to sense the presence of a target molecule by monitoring both the spectral shift and intensity of the cavity resonance is a feature of a strip cavity which is not available to cavities fabricated in an inorganic photonic crystal template. In other words, it cannot be obtained by a cavity made using e-beam lithography, for instance, since e-beam-defined cavities are embedded (or “permanently formed”) in the photonic crystal template and, thus, cannot be dissolved.
It will be appreciated that various modifications may be made to the embodiments hereinbefore described. Such modifications may involve equivalent and other features which are already known in the design, manufacture and use of photonic biosensors and component parts thereof and which may be used instead of or in addition to features already described herein. Features of one embodiment may be replaced or supplemented by features of another embodiment.
Although claims have been formulated in this application to particular combinations of features, it should be understood that the scope of the disclosure of the present invention also includes any novel features or any novel combination of features disclosed herein either explicitly or implicitly or any generalization thereof, whether or not it relates to the same invention as presently claimed in any claim and whether or not it mitigates any or all of the same technical problems as does the present invention. The applicants hereby give notice that new claims may be formulated to such features and/or combinations of such features during the prosecution of the present application or of any further application derived therefrom.
Number | Date | Country | Kind |
---|---|---|---|
21196528.0 | Sep 2021 | EP | regional |