Classifications

• • G—PHYSICS
  • G01—MEASURING; TESTING
  • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
  • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
  • G01N21/62—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light
  • G01N21/63—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light optically excited
  • G01N21/64—Fluorescence; Phosphorescence
  • G01N21/645—Specially adapted constructive features of fluorimeters
  • G01N21/6452—Individual samples arranged in a regular 2D-array, e.g. multiwell plates
• • G—PHYSICS
  • G01—MEASURING; TESTING
  • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
  • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
  • G01N21/62—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light
  • G01N21/63—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light optically excited
  • G01N21/64—Fluorescence; Phosphorescence
  • G01N21/645—Specially adapted constructive features of fluorimeters
  • G01N21/648—Specially adapted constructive features of fluorimeters using evanescent coupling or surface plasmon coupling for the excitation of fluorescence
• • G—PHYSICS
  • G01—MEASURING; TESTING
  • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
  • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
  • G01N21/62—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light
  • G01N21/63—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light optically excited
  • G01N21/64—Fluorescence; Phosphorescence
  • G01N21/6428—Measuring fluorescence of fluorescent products of reactions or of fluorochrome labelled reactive substances, e.g. measuring quenching effects, using measuring "optrodes"
  • G01N2021/6439—Measuring fluorescence of fluorescent products of reactions or of fluorochrome labelled reactive substances, e.g. measuring quenching effects, using measuring "optrodes" with indicators, stains, dyes, tags, labels, marks
  • G01N2021/6441—Measuring fluorescence of fluorescent products of reactions or of fluorochrome labelled reactive substances, e.g. measuring quenching effects, using measuring "optrodes" with indicators, stains, dyes, tags, labels, marks with two or more labels

Definitions

• the present invention relates to apparatus and to a method for use in assaying samples particularly, but not exclusively, for use in high throughput screening of biomolecules .
• Modern molecular biology and drug discovery- techniques often involve assaying large numbers of samples in order to identify positive samples.
• a common technique involves the use of fluorescent or fluorescently labelled reporter molecules which selectively bind only to those sample molecules which have a desired characteristic (eg, DNA sequence, antigen binding site, presence of certain ionic species) .
• a collection of samples is illuminated with light of a specific excitation wavelength; the reporter molecules absorb this light and re-emit light of a second, usually longer, emission wavelength. In this way positive samples can be detected.
• fluorophores attached to reporter molecules include FITC, rhodamine, Cy-5 and Texas Red. Each fluorophore has a specific excitation and emission wavelength.
• Related techniques to which the present invention may be applied include, but are not limited to, enhanced chemiluminescence detection, ELISA, fluorescence in-situ PCR, and in vivo GFP techniques.
• the present invention could also be used in the photoactivation of suitable functional surfaces to selectively immobilise chemical or biological species such as DNA, ligands, antibodies and antigens etc.
• each sample In order to screen such large numbers of samples, each sample must be illuminated by the excitation radiation. Typically the entire plate is illuminated simultaneously, and the emission radiation detected by, for example, a photographic plate.
• the materials used for manufacture of microtitre plates typically have some degree of autofluorescence, that is, they will fluoresce to some extent. This autofluorescence will often be sufficient to obscure a weak or faint signal, so leading to false positive and negative results.
• An alternative method is for a single beam of excitation radiation to illuminate each well individually in sequence; however, this may be relatively slow, and requires the excitation radiation beam to be moved precisely, exposing the system to the risk of mechanical failure .
• an apparatus for assaying samples comprising excitation means for emitting radiation of a first excitation wavelength, diffracting means for diffracting the excitation radiation in a radiation pattern, sample presentation means for presenting samples to be assayed, wherein the excitation radiation pattern coincides in location with the sample containing means, and detection means for detecting radiation of at least one emitted wavelength emitted by the samples, whereby, in use, the excitation radiation pattern creates emitted radiation of at least a second wavelength from the samples which is detected by said detection means.
• the apparatus of the present invention may conveniently be used in fluorescent biochemical assays, wherein positive samples are labelled by means of a fluorophore, a chemical group which upon excitation by radiation of a particular wavelength emits radiation at the second, usually longer, wavelength.
• the apparatus of the present invention may also be used in assays wherein samples are labelled within two or more fluorophores, such that the emitted radiation comprises a plurality of wavelengths. These wavelengths may be detected simultaneously. Where a plurality of wavelengths are to be detected, conveniently the apparatus further comprises an emission filter means for selectively admitting emitted radiation of one of said plurality of emitted wavelengths.
• the apparatus further comprises a filter to reduce the amount of excitation radiation reaching the detection means.
• the sample presentation means comprises multiple sample-receiving areas.
• the diffracting means is a diffractive optical element comprising a diffraction grating etched on the surface of a radiation-transparent plate.
• the plate is a quartz plate.
• the plate is a frequency dependent substrate, such that applying energy at a given selected frequency to the plate will cause the plate to alter its conformation, and so the conformation of the diffraction grating.
• the frequency-dependent substrate is a piezoelectric material such that application of electrical energy to the substrate will cause the substrate to deform.
• the diffracting means diffracts a single input radiation beam of a defined wavelength into a defined multiple beam pattern.
• this defined multiple beam pattern corresponds with the pattern of the multiple sample-receiving areas.
• the complex wave amplitude description of the desired image is inverse-propagated, for example, by means of an inverse Fourier or Fresnel transformation, from the image plane to the diffractive element.
• the pattern thus defined may then be created on the substrate by means of, for example, photolithography and reactive ion etching, embossing techniques, ion-beam- milling, diamond turning or contact printing.
• the depth of the etch corresponds to an optical phase change ⁇ , where:
• n s is the index of the diffractive element
• h is the etch depth
• ⁇ is the wavelength of operation.
• the diffractive element is binary. If the process is repeated the diffractive element has four phases, and if three levels of lithography are used the diffractive element has eight phases.
• the apparatus further comprises an additional diffractive optical element which diffracts the multiple beam pattern into a parallel beam pattern.
• This may be a separate lens, or may conveniently be formed integrally with the diffracting means.
• the apparatus further includes multiple diffractive optical elements, organised in a spatial arrangement corresponding to the arrangement of the multiple sample-receiving areas for collecting and focussing radiation emitted by each sample.
• these multiple diffractive optical elements are formed integrally with the sample-containing means.
• the multiple diffractive optical elements may conveniently be multiple Fresnel lenses.
• the radiation detection means may be photo-multiplier tubes, photo-diodes, a linear diode array, or photographic film or plates, but is preferably a CCD array. While the above-described apparatus is suitable for assays in which the emitted radiation is of a single wavelength, in some applications it may be desirable to assay samples in which multiple fluorophores are used, and so the emitted radiation is of multiple wavelengths, and multiple excitation wavelengths may also be necessary.
• apparatus for assaying samples comprising a first and a second excitation means for emitting radiation at a first and a second wavelength respectively, a first and a second diffracting means for diffracting the respective first and second excitation radiation emissions in respective first and second radiation patterns, sample presentation means for presenting samples to be assayed, wherein the first and second diffracted excitation radiation emissions coincide in location with the sample presentation means, filter means for selectively admitting emitted radiation of one of said first and second emitted wavelengths, and detection means for detecting radiation emitted by the sample .
• the filter means comprises a further diffractive optical element for diffracting radiation of the first and second emitted wavelengths to different extents, thereby creating two distinct signal patterns on the detection means, one for each emitted wavelength.
• the apparatus of the present invention may be used with many types of samples; typically the presentation means may be 96 -well plates, or high-density microtitre plates; however, the apparatus is suitable for use with such samples as liquids, gels, nylon membranes, solid supports, and DNA chips, among others.
• a method of assaying multiple samples simultaneously comprising the steps of: providing at least one source of excitation radiation of at least a first wavelength; diffracting the excitation radiation into multiple radiation beams, the spatial pattern of the beams corresponding to a spatial arrangement of multiple samples; exciting the samples by the excitation radiation, and detecting radiation of at least a first emitted wavelength emitted by the samples.
• the spatial arrangement of multiple samples is a two-dimensional array of samples.
• two sources of excitation radiation are provided, one source providing excitation radiation at a first wavelength and the other source providing excitation radiation at a second wavelength.
• radiation of said first and said second emitted wavelengths is detected.
• a sample holder for use with apparatus for assaying samples having excitation means for emitting excitation radiation and detection means for detecting radiation emitted in use by samples, the sample holder having multiple sample-receiving areas and multiple optical elements arranged in locations corresponding to the sample-receiving areas, each of which, in use, collects and focuses radiation emitted by each sample for detection by said detection means.
• the multiple sample-receiving areas are arranged in a two-dimensional array.
• the sample holder may further include an additional diffractive optical element for diffracting excitation radiation, in use, to form a radiation pattern corresponding to the multiple sample-receiving areas.
• a diffractive element holder for use with an apparatus for assaying samples including excitation means for emitting excitation radiation, sample presentation means, and detection means for detecting radiation emitted in use by samples; wherein the diffractive element holder comprises a plurality of spaced substantially coplanar diffractive optical elements, each respective diffractive optical element being adapted to diffract radiation of a particular wavelength into a respective radiation pattern, the location of each diffractive optical element being adjustable with respect to said sample presentation means so as to enable each element to be used independently of the other elements to create its respective radiation pattern.
• the respective radiation patterns are substantially identical .
• the respective patterns have substantially identical footprints.
• the diffractive optical elements are formed on separate substrates; in an alternative embodiment, the multiple diffractive optical elements are formed on a single substrate. Conveniently, this is achieved by etching a diffraction grating on a substrate such that the depth and arrangement of the etches varies across the length of the diffraction grating.
• a method of manufacturing a substrate bearing an array of bound molecules comprising the steps of: providing at least one source of excitation radiation; diffracting the excitation radiation into multiple radiation beams, the spatial pattern of the beams corresponding to a desired spatial arrangement of bound molecules ; exciting a substrate bearing unbound molecules with the excitation radiation, so as to activate a photochemical reaction between the unbound molecules and the substrate and to bind the molecules to the substrate on those parts of the substrate excited by the excitation radiation; and removing any remaining unbound molecules from the substrate .
• Figure 1 shows a schematic diagram of a system for assaying samples according to a first embodiment of the present invention
• Figure 2 shows an apparatus for assaying samples according to the system outlined in Figure 1;
• Figures 3a and 3b show respective enlarged sectional views of two embodiments of a sample holder suitable for use with the apparatus of Figure 2;
• Figure 4 shows a diagram of an apparatus for assaying samples according to a second embodiment of the present invention
• FIGS 5a and 5b show two focussing structures for providing parallel excitation beams for use with the present invention
• Figure 6 shows a diffractive element holder of multiple diffraction gratings for use with the apparatus of Figure 2 or Figure 4 in accordance with a further embodiment of the present invention
• Figure 7 shows an alternative diffractive element holder
• Figure 8 shows a further embodiment of an apparatus for assaying samples in accordance with an aspect of the present invention
• Figure 9 is a sketch showing the use of an embodiment of the present invention in a surface plasmon resonance assay.
• the apparatus 10 comprises an excitation means 12, such as a laser, for emitting excitation radiation of a specific wavelength.
• a beam of excitation radiation 14 is emitted and directed toward a radiation-transparent plate 16, with a diffraction grating 18 etched on the surface of the plate 16.
• the excitation radiation 14 is diffracted by diffraction grating 18 into a number of separate excitation beams 20.
• the diffraction grating 18 is constructed in such a manner that the pattern of the radiation beams 20 corresponds to the pattern of sample wells 22 on a sample plate 24 located at a specific distance from the diffraction grating 18.
• each sample well 22 contains a sample to be assayed, the positive samples of which include a fluorophore which is excited by the radiation beams 20, and emits emission radiation 26.
• This radiation 26 is detected by a detector 28, which is connected to an image processor 30, whereby the results of the assay may be studied and analysed.
• FIG. 2 shows a more detailed diagram of an apparatus as described above.
• the apparatus 40 includes an excitation radiation source 42 connected to a power supply 44.
• the radiation source 42 is a HeNe laser, emitting radiation 46 at a wavelength of 632nm with a beam diameter of 0.5mm-5mm.
• a diffraction grating is etched on a quartz plate 48, designed specifically for use with 632nm light, at a predetermined distance from both radiation source 42 and sample holder 50. It is a straightforward matter for those of skill in the art to design diffraction gratings having the desired characteristics, by means of tools such as are known in the art, as described above.
• the quartz plate 48 diffracts the radiation 46 into a pattern 49 corresponding to the pattern of sample wells 51 on a standard 96-well plate such as sample holder 50.
• Each excitation beam 49 excites a sample 52 in well
• Cy-5 is used as a fluorophore, which absorbs light at 632nm, and emits light at 640nm to 800nm with a pH and local environment dependent peak about 670nm.
• the emission radiation 54 passes through the lower surface of the sample holder 50, which in this embodiment incorporates a number of Fresnel lenses 56 to focus the light from each sample.
• the focussed light 58 is directed through an emission filter 59,. which allows only emitted light to continue toward a CCD array 60, which detects the positive signals and which is connected to a personal computer 62, which processes the signals.
• the emission filter 59 may be omitted, and the apparatus used with non-fluorescently-labelled samples
• FIG. 3a shows a section of the 96-well plate 48, including a number of wells 51, formed with Fresnel lenses 56 on the lower surface.
• the diagram shows how light 54 emitted by a sample 52 radiates in all directions from the sample, but is generally focussed to a point 80 by the lens 56, in combination with mirrored walls 53 of the wells 51.
• FIG. 4 shows an apparatus for assaying samples according to another embodiment of the present invention.
• the apparatus 100 is suitable for detection of two fluorophores simultaneously.
• the apparatus 100 includes two light sources 102,104, producing light 106,108 at different wavelengths.
• Two diffraction gratings 110 and 112 are provided, each designed for use with a specific wavelength of light.
• the diffraction gratings are designed so as to diffract light from each light source into the same pattern on the same sample holder 114.
• each sample contains two fluorophores which are excited at different, first wavelengths, and emit at different, second wavelengths.
• the mixed emitted light 116 passes through and is focussed by Fresnel lenses 118, and then to a further diffraction grating 120 which serves as a filter.
• the grating 120 diffracts light of different wavelengths by different amounts, so producing two beams of emitted light 122, 124 from each well, and generating multiple non-overlapping signals from each sample on the CCD array 126. In this manner multiple fluorophores may be detected simultaneously.
• Figure 5a shows a focussing structure for obtaining parallel excitation beams. For many applications it may be desirable for the excitation beams to be made parallel before contacting the sample holders.
• Figure 5a shows schematically a system 130, whereby a diffraction grating 132 produces multiple divergent beams 134.
• a convex lens 136 collimates the beams 134, such that the beams may be used to excite samples at any distance from the diffraction grating 132.
• the lens 136 may be used with the apparatus of Figure 2, and is located between the sample holder 50 and the diffractive element 132,48.
• Figure 6 shows a diffractive element holder for receiving several different gratings for use with the apparatus of the embodiments described above. It is often of use to be able to excite samples with different wavelengths of light, in order to detect different fluorophores. As each wavelength of light requires a specifically-made diffraction grating, the holder 150 containing a number of different gratings 152 is of great benefit . The holder may be rotated in use to select the appropriate grating by bringing the desired grating 152 into alignment with the excitation beam source and the sample holder.
• Figure 7 shows an alternative embodiment of a diffractive element holder 160 located over a microtitre plate 161.
• the element holder 160 comprises a single substrate 162, on which is etched a diffractive grating pattern 164 which varies over the length of substrate 162.
• a user may move the holder 160 in the direction of arrows A to make use of the varying properties of the diffraction grating and, consequently, change the radiation pattern reaching plate 161.
• Figure 8 shows an embodiment of the present invention in the form of an apparatus for assaying epifluorescence of a sample.
• the apparatus 180 is similar to those described above, comprising a light source 182, an excitation filter 184, a collimating lens arrangement 186, a diffraction grating 188, a sample holder 190, and a CCD array 192.
• the epifluorescence apparatus differs from those described previously in that a dichroic mirror 194 is provided between the diffraction grating 188 and sample holder 190, which reflects excitation radiation toward the sample holder 190, while emission radiation from the sample is allowed to pass through the dichroic mirror 194 where it is directed by a further series of mirror 196, lens 198, and emission filter 200 towards the CCD array 192.
• An alternative arrangement may be made for measuring fluorescence polarisation of a sample, by the addition of a polariser 202 in the excitation path, and an analyser 204 (essentially another polariser) in the emission path.
• the polariser 202 and analyser 204 are marked on figure 8 in dotted outline.
• fluorescence emission is partially polarised.
• the degree of polarisation is related to rotational correlation time of an analyte . Therefore, the degree of binding between two molecules in a sample may be measured; the present invention allows multiple readings to be made simultaneously.
• FIG 9 shows the measurement of surface plasmon resonance (SPR) of a sample.
• Multiple parallel excitation beams 210 are showing impinging on a test sample at an angle ⁇ .
• the test sample comprises a translucent dielectric 212, such as glass, with a surface layer 214 of metal, such as gold, of a thickness of a few nanometers. If the angle ⁇ is selected correctly, (dependent on the metal used and the desired depth of penetration) the excitation radiation generates an evanescent electric field 213 on the surface layer 214 of gold which propagates along the surface layer 214 as shown.
• This field 213 is sufficient to excite samples 216 bound to the gold layer 214, which then generates an emission radiation 218, which is detected by a CCD detector 220. Multiple samples may be detected simultaneously, using the multiple parallel beams generated by the embodiments of the present invention.
• An variation of this embodiment of the invention makes use of the total internal reflective properties of a transparent dielectric to excite samples bound directly to the surface of such a dielectric 212, rather than to a gold surface layer 214 because the electric field generated by the impinging excitation beams is sufficient to penetrate the dielectric surface and excite the bound samples .
• a sample holder for use with the present invention may include integral Fresnel lenses to focus the emitted radiation, as described above.
• a focussing mechanism may be provided separately of the sample holder; or, for some applications, a focussing mechanism may not be necessary and is not provided.
• Each Fresnel lens may also be provided with an individual integral detection means.
• Figure 3b shows a section of an alternative sample holder 90; in this case a support for electrophoretic gels 92.
• the gel 92 contains DNA or RNA fragments 94, which are illuminated by excitation radiation 96.
• the lenses 98 are formed separately from the sample holder 90.
• the diffraction grating 120 may be replaced by a pair of interchangeable filters which each admit light of only one wavelength. In this manner, the signal from each fluorophore may be detected individually.
• an alternative collimating structure 140 is shown in Figure 5b.
• the plate 142 on which the diffraction grating is etched is itself lenticular, thereby automatically collimating the beams 144 as they leave the diffraction grating.
• the embodiments thus far described have one or two diffractive optical elements for splitting excitation radiation into a defined, fixed multiple beam pattern.
• the diffractive optical element includes a piezoelectric plate as a substrate. Varying the frequency of electricity applied to the plate causes the plate to alter conformation which, in turn, alters the multiple beam pattern produced by the plate. This enables a single diffractive optical element to be used with a number of alternate arrangements of samples, so providing greater flexibility to the system.
• the diffractive element holder described above may be produced for use with the system of Figure 4, wherein multiple gratings may be used simultaneously with separate light sources. Selectable pairs of gratings may of course be provided.
• the holder need not be rotatable: a linear arrangement of gratings may be provided, or indeed a column of gratings, one of which may be aligned with the light source and the sample holder.
• the apparatus and method have an application in photochemistry, where light or other electromagnetic radiation of a specific wavelength may be used to cause a chemical reaction in an array of defined locations.
• an array of molecules may be built up on a substrate by coating the substrate with a solution of photoactivatable molecules, illuminating the substrate in a predetermined pattern by means of a diffraction grating and laser, substantially as described above, such that those areas which are illuminated are activated to bind the molecule to the substrate, and washing off the unbound molecules.
• This process may be repeated several times, with different diffraction gratings if desired or by rotating the diffraction grating or substrate between exposures, in order to build up a complex array of bound molecules.
• Such a method is of use in assembling DNA "chips", or combinatorial chemistry libraries, and the like, by sequentially binding layers of nucleotides or amino acids for example.
• excitation radiation passing through the diffraction grating will be diffracted, some will not be diffracted, and will pass directly to the sample.
• Such "zeroth order" radiation may be used in any of the embodiments of the present invention to calibrate the amount of radiation reaching the sample, or to provide an alignment marker for aligning sample holders with the diffracted excitation radiation.
• a further use of the present invention is with turbidity or nephrometry assays.
• the beam diameter and diffracted beam pattern may be varied by adjusting the ratio of focal lengths of the objective lenses as shown in, for example, figure 8, or by varying the position of the diffraction grating.
• the present invention provides an assay system whereby multiple samples may be assayed simultaneously and rapidly, with a high signal-to-noise ratio, high sensitivity, high speed, and reliably, as there are no moving parts to the system.

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• Health & Medical Sciences (AREA)
• Nuclear Medicine, Radiotherapy & Molecular Imaging (AREA)
• Physics & Mathematics (AREA)
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• General Health & Medical Sciences (AREA)
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• Immunology (AREA)
• Pathology (AREA)
• Investigating, Analyzing Materials By Fluorescence Or Luminescence (AREA)
• Investigating Or Analysing Materials By Optical Means (AREA)

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• 1999
  • 1999-03-26 GB GBGB9906929.6A patent/GB9906929D0/en not_active Ceased
• 2000
  • 2000-03-27 EP EP00912758A patent/EP1166092A2/de not_active Withdrawn
  • 2000-03-27 WO PCT/GB2000/001050 patent/WO2000058715A2/en not_active Application Discontinuation
  • 2000-03-27 JP JP2000608162A patent/JP2002540423A/ja active Pending
  • 2000-03-27 AU AU34409/00A patent/AU3440900A/en not_active Abandoned

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