JP4751721B2 - Genetic analyzer - Google Patents

Description

  The present invention relates to a genetic analysis apparatus using a reaction vessel suitable for performing various types of automatic analysis, for example, genetic analysis research and clinical practice, for example, polymorphisms of genomic DNA of animals and plants including humans. For example, the present invention relates to a genetic analyzer that handles a reaction vessel for detecting SNP (single nucleotide polymorphism) and the like.

The followings have been proposed as methods or apparatuses for predicting the susceptibility of diseases using genetic polymorphism.
In order to determine whether a patient is susceptible to sepsis and / or is likely to progress rapidly to sepsis, a nucleic acid sample is taken from the patient and the pattern 2 allele in the sample, or the pattern 2 allele When a marker gene that is linkage disequilibrium is detected and a marker gene that is linkage disequilibrium with the pattern 2 allele is detected, it is determined that the patient is susceptible to sepsis (see Patent Document 1). ).

  For diagnosis of one or more single nucleotide polymorphisms in the human flt-1 gene, one or more positions of human nucleic acids: 1953, 3453, 3888 (each position in EMBL accession number X51602) ), 519, 786, 1422, 1429 (according to positions in EMBL accession number D64016, respectively), 454 (according to SEQ ID NO: 3) and 696 (according to SEQ ID NO: 5). The human constitution is determined by referring to the formality (see Patent Document 2).

Many methods have been reported for so-called typing for discriminating the base of an SNP site. A typical one is the following method.
In order to perform typing on hundreds of thousands of SNP sites using a relatively small amount of nucleic acid, a plurality of base sequences including at least one single nucleotide polymorphism site can be simultaneously obtained using a nucleic acid and a plurality of pairs of primers. Using a plurality of amplified base sequences, the bases of single nucleotide polymorphic sites contained in the base sequences are discriminated by a typing process. As the typing process, the Invader (registered trademark) method or the Tuckman (registered trademark) PCR (polymerase chain reaction) method is used (see Patent Document 3).

  The present inventors have a reaction container in which a plurality of probes for typing are arranged in wells each having a small recess and dispensed through the seal material of the reagent container. Propose something. There, the size of the well is, for example, 100 μm to 2 mm in diameter and 50 μm to 1.5 mm in depth.

  In addition, the reaction vessel is provided with a PCR reaction unit as an amplification reaction unit for handling a small amount of reaction solution, and the PCR reaction unit includes a flow path serving as a reaction unit and a dispensing port connected thereto. The PCR reaction part can also be comprised by the resin plate, and can also be comprised by the resin plate and the elastic plate. When using an elastic plate, it is preferable that the dispensing port is formed of an elastic plate. The elastic plate is made of PDMS (polydimethylsiloxane), silicone rubber, or the like, and when dispensing with a disposable tip to the dispensing port, the port wall surface is elastically deformed, so that the adhesiveness is good and there is no liquid leakage.

In the PCR reaction region of the PCR reaction part, the thickness of the flow path and the outer surface of the plate cross section is as thin as 0.1 to 0.5 mm so that heat exchange is easy. The amount of the PCR reaction solution that is an amplification reaction solution handled in the PCR reaction unit is as small as about 0.1 μL to 5 μL, for example.
Japanese translation of PCT publication No. 2002-533096 JP 2001-299366 A Japanese Patent Laid-Open No. 2002-300894 Japanese Patent No. 3542717 Hsu TM, Law S. M, Duan S, Neri BP, Kwok PY, "Genotyping single-nucleotide polymorphisms by the invader assay with dual-color fluorescence polarization detection", Clin. Chem., 2001 Aug; 47 (8): 1373 -7

When a small amount of PCR reaction liquid is injected from one port of the PCR reaction unit, non-volatile liquid is also injected so that the upper layer of the reaction liquid is covered with non-volatile liquid to prevent evaporation of the reaction liquid during the reaction. To do. In that case, an air layer or a bubble may be bitten between the non-volatile liquid and the reaction liquid. If the PCR reaction is carried out in this state, the air layer and bubbles expand, the non-volatile liquid layer can repel, the reaction solution evaporates and the PCR reaction does not occur.
Therefore, in the present invention, when an amplification reaction is performed in the amplification reaction section, the reaction liquid is introduced into the amplification reaction section so that no air layer or bubbles exist between the reaction liquid and the non-volatile liquid for preventing evaporation. It is intended to do.

The gene analysis apparatus of the present invention includes a mounting section for mounting a reaction vessel having an amplification reaction section on the substrate and having at least two ports for taking in and out the liquid, and an amplification reaction liquid inside, and amplification in the amplification reaction section It has an amplification unit that controls the temperature of the amplification reaction unit to cause the gene amplification reaction in the reaction solution, and a dispensing device that transfers the amplification reaction solution and the non-volatile liquid to the amplification reaction unit. The control unit for controlling the suction in the dispensing chip of the dispensing device in a state where the upper layer is a non-volatile liquid, the intermediate layer is an amplification reaction liquid, and the lower layer is a non-volatile liquid is formed in three layers. The injection operation is controlled so as to inject the three layers from the port in order from the lower layer.
The non-volatile liquid is not particularly limited, but is preferably a liquid having a specific gravity equal to or lower than that of the amplification reaction liquid. An example of a non-volatile liquid is mineral oil.

  In the amplification reaction part, amplification may not be performed well even if the amplification reaction temperature is controlled only in a part of the amplification reaction liquid layer. It is preferable to control the amplification reaction temperature for all of the amplification reaction liquid layers injected into the amplification reaction section. For this reason, the control unit that controls the operation of the dispensing apparatus is configured so that the layer of the amplification reaction solution injected into the amplification reaction unit is disposed only in the gene amplification reaction temperature control region of the amplification unit. It is preferable to control the dispensing of the liquid.

  In addition, when the dispensing device has a function of collecting the amplification reaction completion solution from the amplification reaction unit after the gene amplification reaction is completed, the control unit is nonvolatile from the port used for dispensing or another port. The recovery operation can be controlled by the dispensing device so as to recover three layers of liquid / amplification reaction completion liquid / nonvolatile liquid or two layers of nonvolatile liquid / gene amplification reaction completion liquid. In that case, after the completion of the gene amplification reaction, the controller further dispensed a non-volatile liquid or other liquid from the port used for dispensing or another port, and collected the gene amplification reaction finished solution to the other port. It is preferable that the gene amplification reaction completion solution is collected later.

A preferable example of the reaction vessel further includes a non-volatile liquid storage portion formed as a recess and containing a non-volatile liquid and sealed with a film on a substrate provided with an amplification reaction portion.
A more preferable example of a reaction vessel is a substrate on which an amplification reaction part is provided, which contains a gene amplification reagent containing a plurality of primers that are formed as recesses and bonded across a plurality of polymorphic sites and sealed with a film. And a gene amplification reagent storage unit.

  A more preferable example of the reaction vessel corresponds to each of a plurality of polymorphic sites, and a typing reagent storage portion formed as a recess in a substrate on which an amplification reaction portion is provided, containing a typing reagent and sealed with a film. And a plurality of probe placement parts individually holding fluorescent probes.

  The gene analysis apparatus of the present invention sucks in the dispensing chip of the dispensing apparatus in a state where the upper layer is a non-volatile liquid, the intermediate layer is an amplification reaction liquid, and the lower layer is a non-volatile liquid. Since the three layers are injected from the lower layer in order from one port, the air layer and bubbles are not bitten between the non-volatile liquid and the reaction liquid, and a very small amount of gene amplification reaction can be efficiently performed in a short time.

If the layer of the amplification reaction solution injected into the amplification reaction part is arranged only in the gene amplification reaction temperature control region of the amplification part, the gene amplification reaction can be performed more reliably.
After the gene amplification reaction is completed, if liquid is further dispensed from the port and the gene amplification reaction end solution is collected at the other port and then the gene amplification reaction end solution is recovered, the gene amplification reaction end solution can be recovered. It becomes easy.

FIG. 1 schematically shows an example of a gene analysis apparatus to which the present invention is applied.
A mounting part for mounting a reaction vessel having an amplification reaction part for containing an amplification reaction liquid in the substrate and having at least two ports for taking in and out the liquid is provided. Further, as shown in FIG. 1, a dispensing unit 112 that moves the nozzle 28 for suction and discharge to transfer the liquid in the reaction vessel, and a control unit that controls at least the dispensing operation of the dispensing unit 112. 118 at least.

  The reaction container is a genetic polymorphism diagnosis reaction container, and as a reagent storage part, a gene amplification reagent storage part containing a gene amplification reagent including a plurality of primers that bind across a plurality of polymorphic sites, and a typing reagent And a reaction reagent that includes an amplification reaction part that performs a gene amplification reaction on the mixture of the gene amplification reagent and the sample, and further provides fluorescence corresponding to each of the plurality of polymorphic sites. Are provided with a plurality of probe placement portions that individually hold probes that emit light. The amplification reaction unit has a channel formed inside the substrate, and is a channel type reaction unit having an open port at the end of the channel. In this case, the reaction vessel processing apparatus further serves as an amplification unit for amplifying the gene by amplifying the DNA in the reaction solution of the sample and the gene amplification reagent, as shown in FIG. An amplification reaction temperature control unit 120 that controls the temperature; a typing reaction temperature control unit 110 that controls the temperature of the probe placement unit to a temperature at which the reaction solution of the nucleic acid and the typing reagent contained in the sample reacts with the probe of the probe placement unit; And a fluorescence detection unit 64 that detects fluorescence by irradiating each probe placement unit with excitation light, and a control unit 118 controls temperature of the amplification reaction temperature control unit 120, temperature control of the typing reaction temperature control unit 110, and fluorescence. The detection operation of the detection unit 64 is also performed.

When an Invader (registered trademark) reaction is used as the typing reaction, the typing reaction temperature control unit 110 is a temperature adjusting unit for the Invader (registered trademark) reaction.
When a PCR reaction is used as the gene amplification reaction, the amplification reaction temperature control unit 120 is a temperature control unit for a temperature cycle for the PCR reaction.
A personal computer (PC) 122 may be connected to the control unit 118 in order to operate the control unit 118 from the outside or display the inspection result.

  The target of polymorphism detection according to the present invention is not particularly limited, and examples include cDNA, genes of various organisms including humans, genes of various microorganisms including viruses and bacteria, and the like. Therefore, a nucleic acid having a nucleic acid sequence can be used as a template nucleic acid for nucleic acid amplification. Moreover, it does not ask | require whether it is a gene of DNA or a gene of RNA as a gene used as the object of these polymorphism detection.

  A sample containing these genes is not particularly limited. That is, polymorphism detection can be performed on biological samples, biological samples, extracted nucleic acid samples, and the like. Here, a biological sample or a biological sample is a sample in a form in which a nucleic acid inclusion body (for example, a membrane structure containing nucleic acid inside, such as cells, fungi, bacteria, and viruses) is maintained without performing a nucleic acid extraction operation. is there. Examples of biological samples include organs, tissues, body fluids, excreta and the like. Body fluids include blood samples, spinal fluid, saliva, milk and the like. Blood samples include whole blood, plasma, serum and the like. Excrements include urine and feces. A biological sample is a nucleic acid inclusion body recovered from a biological sample. The method for recovering the nucleic acid inclusions is not particularly limited, and examples thereof include centrifugation and ultracentrifugation, methods using a coprecipitation agent such as polyethylene glycol, and an adsorption carrier. The extracted nucleic acid sample is a sample subjected to nucleic acid extraction operation, and may be a sample obtained by further purifying nucleic acid after extraction. Examples of the extraction method include a method using an enzyme, a surfactant, a chaotropic agent, and the like. Examples of the purification method include a method using phenol / chloroform, an ion exchange resin, a glass filter, glass beads, magnetic beads, a reagent having a protein aggregation action, and the like.

  The polymorphisms that can be detected in the present invention are not particularly limited, and include both SNPs and polymorphisms that span multiple nucleotide sequences. In the present invention, the polymorphism further includes a mutation. Specifically, examples of the polymorphism that can be detected in the present invention include SNP, insertion polymorphism, deletion polymorphism, and repeat sequence polymorphism.

Here, when the relationship between the polymorphic site and the primer is shown, in order to amplify one polymorphic site, a pair of primers that bind across the polymorphic site are required. Since there are multiple types of polymorphic sites in the target biological sample, if these polymorphic sites are located at a distance from each other, twice as many types of primers as the types of polymorphic sites are required. become. However, when two polymorphic sites are close to each other, amplification can be performed by binding a primer between each of the polymorphic sites, or between the two polymorphic sites. Amplification can also be performed by binding primers only on both sides of the sequences of the two polymorphic sites without binding. Therefore, the number of necessary primers is not necessarily twice the number of types of polymorphic sites. In the present invention, “a plurality of primers that bind each of a plurality of polymorphic sites” refers not only to a case where a pair of primers binds to a single polymorphic site but also two or more polymorphic sites. It is used to mean the type of primer necessary to amplify multiple polymorphic sites, including when binding between.
An example of a gene amplification reagent is a PCR reaction reagent.

  For SNP typing, it is essential to adjust genomic DNA at the stage of entering the amplification process, which requires labor and cost. If attention is paid only to the PCR method for amplifying nucleic acids, a method of directly performing a PCR reaction from a sample such as blood without pretreatment has also been proposed. In the nucleic acid synthesis method for amplifying a target gene in a sample, a gene inclusion in the sample containing the gene, that is, a biological sample, or a sample containing the gene itself, that is, the biological sample is added to the amplification reaction solution. The target gene in the sample containing the gene is amplified when the pH of the reaction solution after addition is 8.5 to 9.5 (25 ° C.) (see Patent Document 4).

  The typing system that has already been constructed uses a PCR method to amplify a plurality of SNP regions to be typed by the PCR method. However, the amount of nucleic acid to be collected at first can be reduced. It is necessary to perform a pre-processing for extracting the. Therefore, it takes time and labor for the preprocessing.

Until now, no automated system has been constructed that simultaneously amplifies a plurality of SNP sites intended for typing when the direct PCR method and the typing method are combined.
The invader (registered trademark) method and the Tuckman (registered trademark) PCR method can be used for the typing process. In that case, the typing reagent is an Invader (registered trademark) reagent or a Tuckman (registered trademark) PCR reagent.

FIG. 14 schematically shows a detection method for detecting a gene polymorphism using the reaction container used in the present invention as a gene polymorphism diagnostic reagent kit. Here, it is assumed that the PCR method is used for the amplification step and the Invader (registered trademark) method is used for the typing step.
In the PCR process, the PCR reaction reagent 4 is added to the biological sample 2 such as blood, or conversely, the biological sample 2 is added to the PCR reaction reagent 4.

The PCR reaction reagent 4 is prepared in advance and includes a plurality of primers for the SNP site to be measured, pH buffer for adjusting the pH, four types of deoxyribonucleotides, and thermostable synthesis. Necessary reagents such as enzymes and salts such as MgCl ₂ and KCl are added. In addition, substances such as surfactants and proteins can be added as necessary. The PCR method of the amplification step that may be used in the present invention is to simultaneously amplify a plurality of target SNP sites. The biological sample may be subjected to a nucleic acid extraction operation or may not be subjected to a nucleic acid extraction operation. Here, the biological sample that has not been subjected to the nucleic acid extraction operation is the biological sample, the biological sample, and the biological sample or biological body in which the membrane structure of the nucleic acid inclusion body is destroyed by an operation such as heat treatment or freezing treatment. Includes derived samples. When a plurality of genomic DNAs containing those SNP sites are directly amplified by PCR from a biological sample that has not been subjected to nucleic acid extraction operation, a gene amplification reaction reagent containing a plurality of primers for those SNP sites is used. The PCR reaction is allowed to occur under conditions such that when mixed with sample 2, the pH at 25 ° C. is 8.5-9.5.

As the pH buffer solution, various pH buffer solutions can be used in addition to a combination of tris (hydroxymethyl) aminomethane and a mineral acid such as hydrochloric acid, nitric acid and sulfuric acid. The pH-adjusted buffer is preferably used at a concentration between 10 mM and 100 mM in the PCR reaction reagent.
A primer refers to an oligonucleotide that serves as a starting point for DNA synthesis by a PCR reaction. The primer may be synthesized or may be isolated from the living world.

  Synthetic enzymes are enzymes for DNA synthesis by primer addition and include chemical synthesis systems. Suitable synthases include E. coli. DNA polymerase I, E. coli Klenow fragment of DNA polymerase of E. coli, T4 DNA polymerase, Taq DNA polymerase, T. Examples include, but are not limited to, litoralis DNA polymerase, Tth DNA polymerase, Pfu DNA polymerase, Hot Start Taq polymerase, KOD DNA polymerase, EX Taq DNA polymerase, and reverse transcriptase. “Thermal stability” means the property of a compound that retains its activity at elevated temperatures, preferably at 65-95 ° C.

  In the PCR step, a PCR reaction is performed on the mixture of the biological sample 2 and the PCR reaction reagent 4 according to a predetermined temperature cycle. The PCR temperature cycle includes three steps of denaturation, primer attachment (annealing), and primer extension, and DNA is amplified by repeating the cycle. As an example of each step, the denaturation step is 94 ° C. for 1 minute, the primer attachment step is 55 ° C. for 1 minute, and the primer extension is 72 ° C. for 1 minute. The biological sample may have been subjected to a nucleic acid extraction operation, but here, a biological sample that has not been subjected to a nucleic acid extraction operation is used. Even in the case of a biological sample that has not been subjected to nucleic acid extraction operation, the nucleic acid is released from blood cells and cells at a high temperature in the PCR temperature cycle, and the reaction proceeds when a reagent necessary for the PCR reaction contacts the nucleic acid.

After completion of the PCR reaction, Invader (registered trademark) reagent 6 is added as a typing reagent. The Invader (Registered Trademark) reagent 6 includes a fluorescent (FRET) probe and a chestnut (Cleavase: structure-specific DNA degrading enzyme). A fret probe is a fluorescently labeled oligo having a sequence completely unrelated to genomic DNA, and the sequence is often common regardless of the type of SNP.

Next, the reaction solution to which the Invader (registered trademark) reagent 6 is added is added to the plurality of probe placement units 8 to cause the reaction. Each probe placement unit 8 individually holds an Invader (registered trademark) probe and a reporter probe corresponding to each of the plurality of SNP sites. The reaction solution reacts with the Invader (registered trademark) probe, and the reporter. If a SNP corresponding to the probe exists, it emits fluorescence.

The Invader (registered trademark) method is described in detail in paragraphs [0032] to [0034] of Patent Document 3.
If two types of reporter probes are prepared according to the corresponding SNP bases, it can be determined whether the SNP is a homozygote or a heterozygote.

The Invader (registered trademark) method used in the typing step is a method of typing an SNP site by hybridizing an allele-specific oligo and a DNA containing the SNP to be typed, and a DNA containing the SNP to be typed, Two types of reporter probes and one type of Invader (registered trademark) specific to each allele of the SNP to be typed and an enzyme having a special endonuclease activity for recognizing and cleaving the DNA structure are used. It is a method (refer patent document 3).

FIG. 2 is an example of a reaction vessel used in the gene analysis apparatus of the present invention. (A) is a front view, (B) is a plan view.
On the same side of the flat substrate 10, a reagent container 14 and a non-volatile liquid container 16 having a specific gravity lower than that of the reaction liquid are formed as recesses. A reaction portion 18 is also formed on the same side of the substrate 10. The reagent container 14 and the non-volatile liquid container 16 are sealed with a film 20, and when the reagent and the non-volatile liquid are sucked with a nozzle and transferred to another place, the film 20 is removed and the nozzle 20 Inhalation is performed, or the film 20 is made to be piercable by the nozzle, and the nozzle is pierced and sucked by the nozzle.
The surface of the substrate 10 is covered with a peelable sealing material 22 having a size covering the reagent storage unit 14, the non-volatile liquid storage unit 16, and the reaction unit 18 from the film 20.

As the non-volatile liquid having a specific gravity lower than that of the reaction liquid, mineral oil (mineral oil), vegetable oil, animal oil, silicone oil, diphenyl ether, or the like can be used. Mineral oil is a liquid hydrocarbon mixture obtained by distillation from petrolatum and is also called liquid paraffin, liquid petrolatum, white oil, etc., and also includes low specific gravity light oil. Examples of animal oils include cod liver oil, halibut oil, herring oil, orange luffy oil, and shark liver oil. As the vegetable oil, canola oil, tonsil oil, cottonseed oil, corn oil, olive oil, peanut oil, safflower oil, sesame oil, soybean oil, and the like can be used.
In the embodiment, mineral oil is used as the non-volatile liquid, and hereinafter, the non-volatile liquid container is referred to as a mineral oil container.

An example of a specific use of this reaction container is a genetic polymorphism diagnostic reagent kit for detecting SNP by invader (registered trademark) reaction after amplifying DNA from a sample by PCR reaction in the reaction container It is. With reference to FIG. 2, the Example as the reagent kit for a genetic polymorphism diagnosis is demonstrated in detail.

  On the same side of the flat substrate 10a, a sample injection part 12, a PCR end liquid injection part 31, a gene amplification reagent storage part 30, a typing reagent storage part 14, and a mineral oil storage part 16 are formed as recesses. An amplification reaction portion 32 and a plurality of probe placement portions 18 are further formed on the same side of the substrate 10a.

  The sample injection unit 12 is for injecting a biological sample that has not been subjected to the nucleic acid extraction operation or a biological sample that has been subjected to the nucleic acid extraction operation, and is provided in an empty state in which the sample is not yet injected before use. The PCR end solution injection unit 31 is used to mix the reaction solution that has completed the PCR reaction in the amplification reaction unit 32 and the typing reagent, and is provided in an empty state before use.

The gene amplification reagent storage unit 30 stores 2 to 300 μL of a PCR reaction reagent as a gene amplification reagent including a plurality of primers that are combined with each other across a plurality of polymorphic sites. The typing reagent storage unit 14 stores about 10 to 300 μL of a typing reagent prepared corresponding to a plurality of polymorphic sites. The mineral oil storage unit 16 stores 20 to 300 μL of mineral oil for preventing the reaction liquid from evaporating. The gene amplification reagent container 30, the typing reagent container 14, and the mineral oil container 16 are sealed with a film 20 that can be penetrated by a nozzle. Such a film 20 is, for example, an aluminum foil, a laminated film of aluminum and a resin such as a PET (polyethylene terephthalate) film, and is attached by fusion or adhesion so as not to be easily peeled off.
The amplification reaction unit 32 performs a gene amplification reaction on the mixture of the PCR reaction reagent and the sample.

  Each probe placement unit 18 individually holds a fluorescent probe corresponding to each of a plurality of polymorphic sites, and holds the mineral oil when the mineral oil from the mineral oil storage unit 16 is dispensed. It is a recess that can be made. The size of the concave portion of each probe placement portion 18 is, for example, a circle having a diameter of 100 μm to 2 mm and a depth of 50 μm to 1.5 mm.

  The surface of the substrate 10 is formed on the film 20 from the sample injection unit 12, the PCR end solution injection unit 31, the gene amplification reagent storage unit 30, the typing reagent storage unit 14, the mineral oil storage unit 16, the amplification reaction unit 32, and the probe placement unit. 18 is covered with a peelable sealing material 22 having a size covering 18. The sealing material 22 is also an aluminum foil, a laminated film of aluminum and resin, etc., but the bonding strength is weaker than that of the film 20 and is bonded to such an extent that it can be peeled off with an adhesive or the like.

  In order to measure fluorescence from the bottom surface side, the substrate 10 is formed of a material such as a resin having a low autofluorescence property (a property of generating less fluorescence from itself) and a light transmitting resin, for example, polycarbonate. The thickness of the substrate 10 is 0.3 to 4 mm, preferably 1 to 2 mm. From the viewpoint of low autofluorescence, the substrate 10 is preferably as thin as possible.

  FIG. 3 shows an enlarged cross section of the amplification reaction part 32. 3 is a cross-sectional view taken along the line YY in FIG. As shown in FIG. 3, the amplification reaction section 32 has ports 34a and 34b at both ends thereof, and the ports 34a and 34b have openings 36a and 36b opened upward corresponding to the tip shape of the nozzle 28, It is made of an elastic material such as PDMS or silicone rubber so as to be in close contact with the tip of the nozzle 28.

In order that the amplification reaction part 32 may improve thermal conductivity, the lower surface side of the substrate 10a of that part is thin as shown in FIG. 2 (C) and FIG. The thickness of the portion is, for example, 0.1 to 0.5 mm.
The amplification reaction unit 32 includes a flow channel-shaped reaction chamber 33 formed in the substrate, and ports 34a and 34b that are connected to both ends of the flow channel in which the reaction chamber 33 is formed and open upward.

FIG. 4A shows a first form of the reaction chamber 33a having a flow path, and the flow path constituting the reaction chamber 33a extends linearly between the ports 34a and 34b.
FIG. 4B shows a second form of the flow channel-like reaction chamber 33b, and the flow channel constituting the reaction chamber 33b is bent in a “U” shape between the ports 34a and 34b. .
Temperature control units 37a and 37b come into contact with the planar portion of the amplification reaction section 32 from above and below to control the temperature of the reaction solution in the reaction chambers 33a and 33b, thereby causing an amplification reaction.

The usage method of this reaction container is shown.
As shown in FIG. 5, the sealing material 22 is peeled off during use. The film 20 that seals the typing reagent container 14, the mineral oil container 18, and the gene amplification reagent container 30 remains without being peeled off.

The sample 25 is injected into the sample injection unit 12 by 0.5 to 2 μL, for example, 1 μL, using a pipette 26 or the like. The sample is a biological sample that has not been subjected to a nucleic acid extraction operation, such as blood. The sample may be a biological sample subjected to a nucleic acid extraction operation. After sample injection, this reaction vessel is attached to the gene analyzer.
A disposable dispensing tip is set in the gene analyzer.

In the gene analyzer, the dispensing device attaches a disposable dispensing tip to the nozzle 28. The nozzle 28 performs a dispensing operation with a dispensing tip attached to its tip.
The nozzle 28 penetrates the film 20 and is inserted into the gene amplification reagent storage unit 30 to suck in the PCR reaction reagent. The PCR reaction reagent is transferred to the sample injection unit 12 by 2 to 20 μL through the nozzle 28. In the sample injection unit 12, the suction and discharge by the nozzle 28 are repeated, whereby the sample reaction solution and the PCR reaction reagent are mixed to form a PCR reaction solution.

  Next, the PCR reaction liquid is sucked by the nozzle 28. At this time, as shown in FIG. 6, the mineral oil 39, the PCR reaction liquid 38, and the mineral oil 39 are sucked into the dispensing tip in this order and dispensed. In the chip, the mineral oil 39 is formed in the upper layer, the PCR reaction solution 38 is formed in the intermediate layer, and the mineral oil is formed in the lower layer in three layers.

  Next, it is injected into the amplification reaction section 32. That is, as shown in FIG. 7A, the nozzle 28 is inserted into one port 34a of the amplification reaction section 32, and three layers of liquid in the dispensing tip are injected as it is. 7 (B). This state is a state in which the injected PCR reaction solution 38 is disposed only in the gene amplification reaction temperature control region of the amplifying unit, and the control device controls the mineral oil 39 in the dispensing device so as to be in such a state. The dispensing amount of the PCR reaction solution 38 and the mineral oil 39 is controlled. In addition, this state is a state in which both ends of the PCR reaction solution 38 are closed with mineral oil 39 in order to prevent the PCR reaction solution 38 from evaporating during the reaction in the amplification reaction section 32.

After completion of the PCR reaction, the PCR reaction end solution 38a is recovered from the port 34a or 34b by the nozzle 28. At this time, it is recovered in the three layers of mineral oil 39 / PCR reaction end solution 38a / mineral oil 39 or in the two layers of mineral oil 39 / PCR reaction end solution 38a. Here, in order to facilitate recovery, mineral oil may be injected from one port 34a of the amplification reaction section 32 as shown in FIGS. 8 (A) and 8 (B). The PCR reaction end solution 38a is pushed to the other port 34b. Therefore, the nozzle 28 is inserted into the port 34b, and the PCR reaction end solution 38a is sucked into the nozzle 28. When collecting the PCR reaction end solution 38a, three layers of mineral oil 39 / PCR reaction end solution 38a / mineral oil 39 may be sucked into the nozzle 28, or two layers of mineral oil 39 / PCR reaction end solution 38a. May be inhaled. The ports 34a and 34b have openings 36a and 36b formed in accordance with the shape of the nozzle 28, and are made of an elastic material, so that the nozzle 28 is in close contact with the ports 34a and 34b to prevent liquid leakage, and PCR. The reaction liquid injection and recovery operations are easy.
Here, the liquid injected from the port 34a is not limited to the mineral oil 40 but may be other liquids. Preferably, the specific gravity is the same as or lower than that of the reaction liquid.

  The PCR reaction completion liquid 38a after completion of the reaction collected from the amplification reaction section 32 by the nozzle 28 is transferred to the PCR completion liquid injection section 31 and injected. At this time, the mineral oil 39 layer of the recovered liquid may be discarded in the PCR end liquid injection unit 31 and only the PCR reaction end liquid 38a may be dispensed, or the entire mineral oil 39 may be dispensed as it is. The mineral oil 39 does not inhibit the reaction in the next step.

  Next, as shown in FIG. 9, the nozzle 28 penetrates the film 20 and is inserted into the typing reagent container 14 to suck the typing reagent, and the typing reagent is transferred to the PCR end solution injection unit 31 by the nozzle 28. Being injected. In the PCR end liquid injecting unit 31, the PCR reaction end liquid and the typing reagent are mixed by repeating suction and discharge by the nozzle 28.

Thereafter, the reaction solution of the PCR reaction solution and the typing reagent is dispensed by the nozzle 28 to each probe placement unit 18 by 0.5 to 4 μL. Mineral oil is dispensed into each probe placement portion 18 by 0.5 to 10 μL from the mineral oil storage portion 16 by the nozzle 28. The dispensing of the mineral oil to the probe placement unit 18 may be before the reaction solution is dispensed to the probe placement unit 18. In each probe arrangement unit 18, mineral oil covers the surface of the reaction solution, and prevents evaporation of the reaction solution during the typing reaction time accompanied by heating in the typing reaction temperature control unit of the detection device.
In each probe placement unit 18, if the reaction solution reacts with the probe and there is a predetermined SNP, fluorescence is emitted from the probe. Fluorescence is detected by irradiating excitation light from the back side of the substrate 10.

Hereinafter, although the composition of each reaction reagent is shown and the present invention is described in detail, the technical scope of the present invention is not limited to these reaction vessels.
PCR reaction reagents are known, and for example, reaction reagents including primers, DNA polymerase, and TaqStart (manufactured by CLONTECH Laboratories) as described in paragraph [0046] of Patent Document 3 can be used. In addition, AmpDirect (manufactured by Shimadzu Corporation) may be mixed in the PCR reaction reagent. As the primer, for example, SNP IDs 1 to 20 described in Table 1 of Patent Document 3 and SEQ ID NOs: 1 to 40 can be used.

Invader (registered trademark) reagent is used as a typing reagent. As the Invader (registered trademark) reagent, an Invader (registered trademark) assay kit (manufactured by Third Wave Technology) is used. For example, a signal buffer, a fret probe, a structure-specific DNA degrading enzyme, and an allele-specific probe are prepared at concentrations as described in paragraph [0046] of Patent Document 3.

FIG. 10 shows an embodiment in which the present invention is applied to a simple reaction container processing apparatus for detecting SNP of a biological sample using the above reaction container as a reagent kit.
A pair of heat blocks 60 and 62 are arranged vertically as heaters in the apparatus. The reaction vessel mounting portion is configured by forming a guide portion on which the reaction vessel 41 shown in FIG. 2 slides and is positioned at a predetermined position on the lower heat block 60. In the reaction vessel mounting portion, five pieces of samples injected into the reaction vessel 41 are arranged in parallel. These heat blocks 60 and 62 can move in the Y direction indicated by arrows.

  The lower heat block 60 constitutes an amplification reaction temperature control unit that controls the temperature of the amplification reaction unit 32 to be a predetermined temperature cycle. In addition, a typing reaction temperature control unit that controls the temperature of the probe placement unit 18 to a temperature at which the DNA and the probe are reacted by both the heat blocks 60 and 62 is provided. The amplification reaction temperature control unit and the typing reaction temperature control unit are denoted by reference numerals 120 and 110 in FIG. 1, respectively. The temperature of the amplification reaction temperature control unit is set so that, for example, it is changed in three stages of 94 ° C., 55 ° C., and 72 ° C. in that order, and the cycle is repeated. The temperature of the typing reaction temperature control unit is set to 63 ° C., for example.

  As shown in FIG. 11, the upper heat block 62 constituting the typing reaction temperature controller has an opening 150 only at a position corresponding to the probe placement portion, and the lower heat block 60 constitutes the typing reaction temperature controller. This portion also has an opening 152 only at a position corresponding to the probe placement portion. A typing reaction temperature control unit cover 154 is put on the heat block 62, and the opening 156 is also opened only at the position of the opening 150 of the heat block 62. The reaction solution is dispensed to the probe placement portion of the reaction vessel 41 by the nozzle 28 through the openings 150 and 156.

  Returning to FIG. 10, in order to transfer, suck, and discharge the liquid by the nozzle 28, a liquid feeding arm 66 that moves in the X direction, the Y direction, and the Z direction is provided as a dispensing unit. The arm 66 includes a nozzle 28. The dispensing part is indicated by reference numeral 112 in FIG.

FIG. 12 shows the tip of the nozzle 28. A disposable dispensing tip 70 is detachably attached to the tip of the nozzle 28. (A) shows a state where the dispensing tip 70 is not attached to the nozzle 28, and (B) shows a state where the dispensing tip 70 is attached to the nozzle 28. The nozzle 28 sucks and discharges the liquid into the dispensing tip 70. Therefore, the nozzle 28 has a mounting portion 28a having an outer dimension for mounting the dispensing tip 70 at the tip, and a length at the tip of the mounting portion 28a that is not in contact with the liquid to be dispensed and is more external than the mounting portion 28a. And a projection 28b having a small size.
The nozzle 28 has a dispensing tip 70 attached to the tip when sucking and discharging the liquid.

  As shown in FIG. 11, a fluorescence detection unit 64 that performs fluorescence detection is disposed below the heater block 60, and the fluorescence detection unit 64 passes through the opening 152 of the heater block 60 from the lower surface side of the reaction vessel 41. The probe placement portion is irradiated with excitation light, and fluorescence from the probe placement portion is detected via the opening 152 of the heater block 60 on the lower surface side of the reaction vessel 41. The fluorescence detection unit 64 detects the fluorescence from the probe placement unit 18 by moving in the arrow X direction in FIG. Fluorescence detection is performed on each probe by moving the probe placement unit 18 in the Y direction by the reaction vessel mounting unit and moving the fluorescence detection unit 64 in the X direction.

  Returning to FIG. 10, in order to control the operations of the heat blocks 60 and 62, the fluorescence detection unit 64, and the liquid feeding arm 66, a control unit 118 is disposed near them. The control unit 118 includes a CPU and holds a program for operation. The control unit 118 controls the temperature of the typing reaction temperature control unit 110 and the amplification reaction temperature control unit 120 realized by the heat blocks 60 and 62, the detection operation of the fluorescence detection unit 64, and the distribution arm 66 of the dispensing unit 112. Controls the pouring operation and the recovery operation of the amplification reaction completed solution.

  FIG. 13 shows the fluorescence detection unit 64 in detail. The fluorescence detection unit 64 includes a laser diode (LD) or a light emitting diode (LED) 92 that emits a laser beam of 473 nm as an excitation light source, and a pair of the laser beam is focused and irradiated on the bottom surface of the probe placement unit of the reaction vessel 41. Lenses 94 and 96 are provided. The lens 94 condenses the laser light from the laser diode 92 into parallel light, and the lens 96 is an objective lens that converges and irradiates the collimated laser light on the bottom surface of the reaction vessel 41. The objective lens 96 also functions as a lens that collects the fluorescence generated from the reaction vessel 41. A dichroic mirror 98 is provided between the pair of lenses 94 and 96, and the dichroic mirror 98 has wavelength characteristics set so as to transmit excitation light and reflect fluorescence. A dichroic mirror 100 is further arranged on the optical path of the reflected light (fluorescence) of the dichroic mirror 98. The dichroic mirror 100 has a wavelength characteristic that reflects 525 nm light and transmits 605 nm light. A lens 102 and a light detector 104 are arranged on the optical path of reflected light by the dichroic mirror 100 so as to detect fluorescence of 525 nm, and a lens so as to detect fluorescence of 605 nm on the optical path of transmitted light by the dichroic mirror 100. 106 and a photodetector 108 are arranged. The presence or absence of a SNP corresponding to an invader probe fixed at each probe placement position and whether the SNP is a homozygote or a heterozygote by two types of fluorescence detection by the two photodetectors 104 and 108. Is detected. As the labeling phosphor, for example, FAM, ROX, VIC, TAMRA, Redmond Red, or the like can be used.

  The detector 64 in FIG. 11 is configured to be excited with excitation light from one light source and measure fluorescence of two wavelengths, but the detector 64 can be excited with different excitation wavelengths for fluorescence measurement of two wavelengths. As described above, two light sources may be used.

  In addition to measurement of various chemical reactions, the present invention can be used for various automatic analyzes in, for example, genetic analysis research and clinical fields. For example, polymorphisms of genomic DNA of animals and plants including humans, In particular, SNPs can be detected, and the results are used to diagnose disease prevalence, diagnose the relationship between the type of drug administered, effects and side effects, animal and plant breeding, and infection diagnosis It can also be used for (type determination of infecting bacteria).

It is a block diagram which shows roughly the reaction container processing apparatus to which this invention is applied. It is a figure which shows the example of reaction container, (A) is a front view, (B) is a top view, (C) is an expanded sectional view in the XX line position of (B). It is an expanded sectional view which shows the amplification reaction part in the same reaction container in the YY line position of FIG. 2 (B). (A), (B) is a perspective view which shows the example of an amplification reaction part as a perspective view, respectively. It is a figure which shows the first half part of the process of the SNP detection method using the reaction container, (A) is a front view, (B) is a top view. It is process drawing which shows the suction | inhalation method of the PCR reaction liquid of the liquid to the dispensing tip of a dispensing nozzle front-end | tip. (A), (B) is front sectional drawing which shows the injection | pouring method of the liquid from a dispensing nozzle to an amplification reaction part. (A), (B) is front sectional drawing which shows the collection | recovery method of the PCR reaction completion | finish liquid from an amplification reaction part to a dispensing nozzle. It is a figure which shows the latter half part of the process of the SNP detection method using the reaction container, (A) is a front view, (B) is a top view. It is a schematic perspective view which shows one Example of the gene-analysis apparatus of this invention. It is sectional drawing which shows the typing reaction temperature control part in the Example. It is the front view showing the nozzle front-end | tip part in the Example, (A) represents the state in which the dispensing tip is not attached to the nozzle, and (B) represents the state in which the dispensing tip is attached to the nozzle. It is a schematic block diagram which shows the fluorescence detection part in the Example. FIG. 2 is a flow chart diagram schematically illustrating a SNP detection method to which the present invention may relate.

Explanation of symbols

2 Sample 4 PCR reaction reagent 6 Invader (registered trademark) reagent 8 Probe placement part 10a Substrate 12 Sample injection part 14 Typing reagent storage part 16 Mineral oil storage part 18 Probe placement part 20 Film 22 Sealing material 28 Dispensing nozzle 30 Gene amplification reagent Storage unit 31 PCR end solution injection unit 32 Amplification reaction unit 34a, 34b Port 36a, 36b Port opening 38 PCR reaction solution 38a PCR reaction end solution 41 Reaction vessel 60, 62 Heat block 64 Fluorescence detection unit 66 Liquid supply arm 70 Dispensing Tip 110 Typing reaction temperature control unit 112 Dispensing unit 118 Control unit

Claims (7)

The substrate has a channel-like reaction chamber arranged along the surface of the substrate, and has at least two ports for opening and exiting the substrate surface at both ends of the reaction chamber and amplifying the reaction chamber . A reaction vessel equipped with an amplification reaction part for containing the reaction solution on the substrate, an attachment part for attaching the substrate surface in a horizontal direction, and an amplification reaction to cause the amplification reaction solution in the amplification reaction part to perform a gene amplification reaction In a gene analyzer comprising an amplification unit that controls the temperature of the unit, and a dispensing device that transfers the amplification reaction solution and the non-volatile liquid to the amplification reaction unit,
The control unit for controlling the operation of the dispensing device is configured to suck the non-volatile liquid, the amplification reaction liquid and the non-volatile liquid in this order into the dispensing chip of the dispensing device in this order , amplification reactions in the intermediate layer, the state in which the three layers of the non-volatile liquid in the lower layer, as well as injecting the three layers in order from the lower layer from one port of the amplification reaction unit, said in the amplification reaction section nonvolatile liquid, A gene analyzing apparatus characterized in that an amplification reaction liquid and a non-volatile liquid are arranged along a flow path in this order, and an injection operation is controlled so that boundaries of the non-volatile liquid exist at both ends of the amplification reaction liquid . The control unit controls dispensing of the three layers of liquid by the dispensing device so that the amplification reaction solution injected into the amplification reaction unit is disposed only in the gene amplification reaction temperature control region of the amplification unit. The gene analysis apparatus according to claim 1. The dispensing device has a function of recovering the amplification reaction completion solution from the amplification reaction part after the completion of the gene amplification reaction,
The controller sucks the non- volatile liquid, the amplification reaction end liquid, and the non-volatile liquid in this order from the port used for the dispensing or another port in this order, and includes three liquids of non-volatile liquid / amplification reaction end liquid / non-volatile liquid. The dispensing operation is controlled by the dispensing device so that two liquids of the non-volatile liquid / gene amplification reaction end liquid are recovered by sucking the non- volatile liquid and the amplification reaction end liquid in this order. The gene analysis apparatus according to claim 1 or 2.   After the completion of the gene amplification reaction, the control unit further dispenses a non-volatile liquid or other liquid from the port used for the dispensing or another port, and collects the gene amplification reaction finished solution to the other port. The gene analysis apparatus according to claim 3, wherein the gene amplification reaction completion solution is collected.   The gene according to any one of claims 1 to 4, wherein the reaction container further includes a non-volatile liquid storage portion formed as a recess in the substrate, containing the non-volatile liquid and sealed with a film. Analysis device.   The reaction container further includes a gene amplification reagent storage unit that stores a gene amplification reagent that includes a plurality of primers that are formed as recesses and bind to each of the plurality of polymorphic sites, and is sealed with a film. The gene analysis apparatus according to any one of claims 1 to 5, wherein   The reaction container individually holds a typing reagent storage part formed as a recess, containing a typing reagent and sealed with a film, and a probe emitting fluorescence corresponding to each of a plurality of polymorphic sites on the substrate. The gene analysis apparatus according to any one of claims 1 to 6, which is a genetic polymorphism diagnosis reaction vessel provided with a plurality of probe placement units.

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