ANTI-POLLUTION CONSUMABLE AND METHOD FOR CLUSTERED REGULARLY INTERSPACED SHORT PALINDROMIC REPEATS (CRISPR) MOLECULAR DIAGNOSIS USING SAME
20220267846 · 2022-08-25
Inventors
Cpc classification
C12N2310/20
CHEMISTRY; METALLURGY
C12N9/22
CHEMISTRY; METALLURGY
B01L2300/165
PERFORMING OPERATIONS; TRANSPORTING
B01L3/5021
PERFORMING OPERATIONS; TRANSPORTING
C12N15/11
CHEMISTRY; METALLURGY
C12N2800/80
CHEMISTRY; METALLURGY
C12Q2531/10
CHEMISTRY; METALLURGY
B01L2200/141
PERFORMING OPERATIONS; TRANSPORTING
B01L7/52
PERFORMING OPERATIONS; TRANSPORTING
B01L2300/12
PERFORMING OPERATIONS; TRANSPORTING
C12Q2531/10
CHEMISTRY; METALLURGY
C12Q1/6806
CHEMISTRY; METALLURGY
C12Q1/6876
CHEMISTRY; METALLURGY
C12Q1/6806
CHEMISTRY; METALLURGY
B01L3/50825
PERFORMING OPERATIONS; TRANSPORTING
B01L2300/161
PERFORMING OPERATIONS; TRANSPORTING
International classification
C12Q1/6876
CHEMISTRY; METALLURGY
B01L3/00
PERFORMING OPERATIONS; TRANSPORTING
C12N15/11
CHEMISTRY; METALLURGY
Abstract
The present disclosure provides an anti-pollution consumable and a method for Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) molecular diagnosis using the same, belonging to the technical field of nucleic acid detection and molecular diagnostics. The anti-pollution consumable includes an outer reaction tube, a sleeve and an inner reaction tube, where the inner reaction tube includes a second hollow cylindrical upper body and a second-type conical lower body sequentially from top to bottom; a top end of the second hollow cylindrical upper body is externally connected with a fixing ring perpendicular to the second hollow cylindrical upper body; a number of drain holes are provided at a bottom of the second-type conical lower body; the drain hole has a diameter of 0.01-0.8 mm; the drain hole is used for hydrophobic treatment; and the inner reaction tube is fixed inside the outer reaction tube through the sleeve.
Claims
1. An anti-pollution consumable comprising: an outer reaction tube including a tube cap, a first hollow cylindrical upper body, and a first-type conical lower body with a closed bottom sequentially from top to bottom, the first-type conical lower body having a maximum inner diameter smaller than an inner diameter of the first hollow cylindrical upper body; a sleeve having an outer diameter the same as the inner diameter of the first hollow cylindrical upper body of the outer reaction tube, the sleeve having a height less than a height of the first hollow cylindrical upper body; and an inner reaction tube wherein having a second hollow cylindrical upper body and a second-type conical lower body sequentially from top to bottom, a top end of the second hollow cylindrical upper body being externally connected with a fixing ring perpendicular to the second hollow cylindrical upper body, one or more drain holes being provided at a bottom of the second-type conical lower body, each drain hole having a diameter of 0.01-0.8 mm, and each drain hole being used for hydrophobic treatment, the second hollow cylindrical upper body having an outer diameter less than or equal to an inner diameter of the sleeve, the fixing ring having an outer diameter greater than the inner diameter of the sleeve and less than or equal to the inner diameter of the first hollow cylindrical upper body, and the inner reaction tube being fixed inside the outer reaction tube through the sleeve.
2. The anti-pollution consumable according to claim 1, wherein the hydrophobic treatment comprises the following steps: 1) adding isopropanol to the inner reaction tube and centrifuging; and adding deionized water and centrifuging; 2) repeating the operations in step 1) for 2-3 times, and drying the inner reaction tube; and 3) adding a Teflon AF solution of a 0.5% FC-77 fluorinated oil (mass percentage) to a dried inner reaction tube and soaking.
3. The anti-pollution consumable according to claim 1, wherein there are one to three drain holes.
4. The anti-pollution consumable according to claim 1, wherein the outer reaction tube is made of polypropylene, and the sleeve and the inner reaction tube are made of polymethyl methacrylate (PMMA).
5. The anti-pollution consumable according to claim 1, wherein the inner reaction tube and the sleeve are integratedly synthesized.
6. The anti-pollution consumable according to claim 1, wherein the inner reaction tube and the sleeve are separately synthesized.
7. A method for Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) molecular diagnosis, the method comprising the following steps: providing an anti-pollution consumable comprising: an outer reaction tube including a tube cap, a first hollow cylindrical upper body, and a first-type conical lower body with a closed bottom sequentially from top to bottom, the first-type conical lower body having a maximum inner diameter smaller than an inner diameter of the first hollow cylindrical upper body; a sleeve having an outer diameter the same as the inner diameter of the first hollow cylindrical upper body of the outer reaction tube, the sleeve having a height less than a height of the first hollow cylindrical upper body; and an inner reaction tube, wherein having a second hollow cylindrical upper body and a second-type conical lower body sequentially from top to bottom, a top end of the second hollow cylindrical upper body being externally connected with a fixing ring perpendicular to the second hollow cylindrical upper body, one or more drain holes being provided at a bottom of the second-type conical lower body, each drain hole having a diameter of 0.01-0.8 mm, and each drain hole being used for hydrophobic treatment, the second hollow cylindrical upper body having an outer diameter less than or equal to an inner diameter of the sleeve, the fixing ring having an outer diameter greater than the inner diameter of the sleeve and less than or equal to the inner diameter of the first hollow cylindrical upper body, and the inner reaction tube being fixed inside the outer reaction tube through the sleeve; adding a CRISPR reagent to the outer reaction tube, and fixing the sleeve in the outer reaction tube; adding a nucleic acid isothermal amplification reagent to the inner reaction tube, and fixing the inner reaction tube inside the sleeve through the fixing ring; adding a nucleic acid sample to be detected into the inner reaction tube, and covering the tube cap of the outer reaction tube; conducting nucleic acid isothermal amplification; centrifuging after the nucleic acid isothermal amplification is finished; and conducting nucleic acid detection.
8. The method according to claim 7, wherein the centrifuging is conducted at 600-6,000 rpm for 5-20 seconds.
9. The method according to claim 7, wherein the nucleic acid isothermal amplification is conducted at 36-40° C. for 20-30 minutes.
10. The method according to claim 7, wherein the nucleic acid detection is conducted at 36-40° C. for 15-20 minutes.
11. The anti-pollution consumable according to claim 2, wherein there are one to three drain holes.
12. The anti-pollution consumable according to claim 2, wherein the outer reaction tube is made of polypropylene, and the sleeve and the inner reaction tube are made of polymethyl methacrylate (PMMA).
13. The anti-pollution consumable according to claim 2, wherein the inner reaction tube and the sleeve are integratedly synthesized.
14. The anti-pollution consumable according to claim 2, wherein the inner reaction tube and the sleeve are separately synthesized.
Description
BRIEF DESCRIPTION OF THE DRAWINGS
[0032]
[0033]
[0034]
[0035]
[0036]
[0037]
[0038]
[0039]
[0040]
[0041]
[0042]
[0043]
[0044]
[0045]
[0046] in
[0047]
DETAILED DESCRIPTION OF THE EMBODIMENTS
[0048] The present disclosure provides an anti-pollution consumable, including an outer reaction tube, a sleeve and an inner reaction tube.
[0049] In the present disclosure, the anti-pollution consumable includes the outer reaction tube; the outer reaction tube includes a tube cap, a first hollow cylindrical upper body, and a first-type conical lower body with a closed bottom sequentially from top to bottom; the first-type conical lower body has a maximum inner diameter smaller than an inner diameter of the first hollow cylindrical upper body. The tube cap is fixedly connected to the outer reaction tube, and is used for sealing the outer reaction tube to ensure that the nucleic acid sample are not volatilized out of the tube to cause aerosol pollution. The outer reaction tube is preferably made of polypropylene and preferably manufactured by an injection molding process. The outer reaction tube is used for storing a CRISPR reagent and serves as a container for nucleic acid detection reaction after nucleic acid amplification is completed.
[0050] In the present disclosure, the anti-pollution consumable includes the sleeve, the sleeve has an outer diameter the same as an inner diameter of the first hollow cylindrical upper body of the outer reaction tube; and the sleeve has a height of less than that of the first hollow cylindrical upper body. The sleeve can be clamped on the first-type conical lower body inside the outer reaction tube, and can also clamp to fix and support the inner reaction tube to ensure that the inner reaction tube is half-suspended in the outer reaction tube and does not fall off. The outer reaction tube fixes supports the sleeve. The sleeve is preferably made of PMMA and preferably manufactured by an injection molding process.
[0051] In the present disclosure, the anti-pollution consumable includes the inner reaction tube. The inner reaction tube includes a second hollow cylindrical upper body and a second-type conical lower body sequentially from top to bottom; a top end of the second hollow cylindrical upper body is externally connected with a fixing ring perpendicular to the second hollow cylindrical upper body; the second hollow cylindrical upper body has an outer diameter less than or equal to an inner diameter of the sleeve; the fixing ring has an outer diameter greater than the inner diameter of the sleeve and less than or equal to the inner diameter of the first hollow cylindrical upper body; and the inner reaction tube is fixed inside the outer reaction tube through the sleeve. A number of drain holes are provided at a bottom of the second-type conical lower body; the drain hole has a diameter of 0.01-0.8 mm, preferably 0.4-0.6 mm, and most preferably 0.5 mm; and the drain hole is used for hydrophobic treatment. The hydrophobic treatment includes the following steps: 1) adding isopropanol to the inner reaction tube and centrifuging; and adding deionized water and centrifuging; 2) repeating the operations in step 1) for 2-3 times, and drying the inner reaction tube; and 3) adding a Teflon AF solution of a 0.5% FC-77 fluorinated oil (mass percentage) to a dried inner reaction tube and soaking.
[0052] In the present disclosure, the centrifuging is conducted at preferably 2,500-3,500 rpm, more preferably 3,000 rpm for preferably 8-12 sec, more preferably 10 sec; the centrifuging is to drain the isopropanol or the deionized water through the drain holes; the isopropanol is a cleaner and an oil remover, and the deionized water is to clean residual isopropanol; the FC-77 fluorinated oil is preferably purchased from Minnesota Mining and Manufacturing Company (3M Company, the United States), and is to conduct hydrophobic treatment on the drain holes. In step 2), the drying is conducted preferably by nitrogen; the soaking in the Teflon AF solution of a 0.5% FC-77 fluorinated oil (mass percentage) is conducted preferably for 0.5-1.5 h, more preferably 1 h; after the soaking, preferably the inner reaction tube is dried by nitrogen, and autoclaved for later use.
[0053] In the present disclosure, the drain hole has a small pore size. Without the interference of strong external forces, due to the surface tension of droplets and the atmospheric pressure, the drain hole can prevent the nucleic acid amplification reagent from flowing from the inner reaction tube to the outer reaction tube. The inner reaction tube is preferably made of PMMA and preferably manufactured by an injection molding process. The inner reaction tube is used for storing the nucleic acid amplification reagent, and also serves as a reaction container for the nucleic acid amplification.
[0054] In the present disclosure, optionally, the inner reaction tube and the sleeve are integrately synthesized and fixedly connected, or separately synthesized and detachably connected.
[0055] The present disclosure further provides a method for CRISPR molecular diagnosis using the anti-pollution consumable, including the following steps: adding a CRISPR reagent to the outer reaction tube, and fixing the sleeve in the outer reaction tube; adding a nucleic acid amplification reagent to the inner reaction tube, and fixing the inner reaction tube inside the sleeve through the fixing ring; and adding a nucleic acid sample to be detected into the inner reaction tube, and covering the tube cap of the outer reaction tube; conducting nucleic acid amplification, centrifuging after the nucleic acid amplification is finished, and conducting nucleic acid detection.
[0056] In the present disclosure, the CRISPR reagent is added to the outer reaction tube, and the sleeve is fixed in the outer reaction tube. There is no special limitation on specific composition and concentration of the CRISPR reagent, and conventional CRISPR reagents in the art can be used; the CRISPR reagent has a volume of preferably 20 μl; the CRISPR reagent is preferably added to the bottom of the outer reaction tube; the schematic diagram of the outer reaction tube added with the CRISPR reagent is shown in
[0057] In the present disclosure, the nucleic acid amplification reagent is added to the inner reaction tube, and the inner reaction tube is fixed inside the sleeve through the fixing ring. There is no special limitation on specific composition and concentration of the nucleic acid amplification reagent, and conventional nucleic acid amplification reagents in the art can be used. The nucleic acid amplification reagent has a volume of preferably 10 μl. The nucleic acid amplification reagent is preferably added to the bottom of the inner reaction tube. The schematic diagram of the inner reaction tube added with the nucleic acid amplification reagent is shown in
[0058] In the present disclosure, the nucleic acid sample to be detected is added into the inner reaction tube, and the tube cap of the outer reaction tube is covered. There is no special limitation on the nucleic acid sample to be detected, and any kind of nucleic acid sample to be detected can be used. The nucleic acid sample to be detected has a volume of preferably 2 μl. The schematic diagram of the outer reaction tube after the tube cap is covered is shown in
[0059] In the present disclosure, the nucleic acid amplification is conducted after the tube cap of outer reaction tube is covered, centrifuging is conducted after the nucleic acid amplification is finished, and nucleic acid detection is conducted. The nucleic acid amplification is conducted at preferably 36-40° C. for 20-30 min, more preferably 39° C. for 20 min; the centrifuging is conducted at preferably 600-6,000 rpm, more preferably 1,500 rpm for preferably 5-20 sec, more preferably 10 sec. The schematic diagram showing the nucleic acid sample after centrifugation entering the outer reaction tube to be mixed with the CRISPR reagent is shown in
[0060] Through the anti-pollution consumable and the method provided by the present disclosure, a seamless connection can be realized from nucleic acid sample amplification to nucleic acid sample detection, and manual operations are reduced to save the time and improve the efficiency of nucleic acid detection. Meanwhile, the anti-pollution consumable and the method can avoid the aerosol pollution in the laboratory caused by opening cap, transferring nucleic acid samples and closing cap from the nucleic acid amplification to the nucleic acid detection.
[0061] The technical solution provided by the present disclosure will be described in detail below with reference to examples, but the examples should not be construed as limiting the protection scope of the present disclosure.
Example 1
[0062] A size and a preparation method of a specific structure of each part of an anti-pollution consumable were provided.
[0063] 1. An outer reaction tube was made of high-quality polypropylene material; the high-quality polypropylene material was put into an injection molding machine for heating and melting, a product was extruded into a mold cavity by a screw under pressure, and processed through cooling and molding; this part was suitable for conventional PCR, had a specific size shown in
[0064] 2. An inner reaction tube was made of high-quality PMMA material; the high-quality PMMA material was put into an injection molding machine for heating and melting, a product was extruded into a mold cavity by a screw under pressure, and processed through cooling and molding; the inner reaction tube was provided with drain holes on one side, had a specific size shown in
[0065] 3. A sleeve was made of high-quality PMMA material; the high-quality PMMA material was put into an injection molding machine for heating and melting, a product was extruded into a mold cavity by a screw under pressure, and processed through cooling and molding; the sleeve had a specific size shown in
[0066] 4. The outer reaction tube, the sleeve, and the inner reaction tube were nested into each other, and a stereoscopic diagram after the nesting was shown in
Example 2
[0067] A structure of the anti-pollution consumable and a schematic diagram of each step were shown in
[0068] Now taking hepatitis B virus (HBV) as an example, a workflow of the anti-pollution consumable for CRISPR was described.
[0069] 1. As shown in
[0070] 2. As shown in
[0071] 3. As shown in
[0072] 4. As shown in
[0073] 5. The nucleic acid sample to be amplified was added to the bottom of the inner reaction tube 2, and the reagent was blown repeatedly twice to mix the reagent evenly.
[0074] 6. As shown in
[0075] 7. As shown in
[0076] 8. The entire PCR test tube was incubated at 37° C. for 20 min, and the fluorescence could be observed to conveniently and quickly detect the nucleic acid.
[0077] For the following 20 unknown samples, parallel detection was conducted using a real-time fluorescence quantitative PCR technology and the technical method of the present disclosure, respectively.
[0078] For an unknown sample, the fluorescence quantitative PCR detection included the specific steps as follows.
[0079] 1) Corresponding real-time fluorescence quantitative PCR reagents were prepared, including a Taq enzyme, a PCR buffer, dNTP, an HBV upstream primer, an HBV downstream primer, a 20×.sub.SYBRGreen dye, double distilled water and a target.
[0080] 2) Two PCR test tubes were labeled separately, namely a outer reaction tube 1 and a outer reaction tube 2.
[0081] 3) A corresponding amplification reagent was configured and added by the following sequence into the 0.2 ml outer reaction tube 1.
TABLE-US-00001 No. Reagent name Volume (μl) 1 10X PCR buffer 15 2 dNTP (2.5 Mm) 12 3 Taq enzyme (5 u/μl) 3 4 20X.sub.SYBRGreen dye 3 5 HBV upstream primer (10 μM) 7.5 6 HBV downstream primer (10 μM) 7.5 7 Double distilled water 72 8 Total 120
[0082] 4) The outer reaction tube 1 (containing reagents) was placed in a shaker, shook well for 10 sec, and centrifuged for 12 sec in a small centrifuge at 2,000 rpm/min.
[0083] 5) 60 μl of a centrifuged reagent from the outer reaction tube 1 was added to the outer reaction tube 2, 15 μl of double distilled water was added to the outer reaction tube 1, 15 μl of the corresponding target sample was added to the outer reaction tube 2, and the tube cap was covered.
[0084] 6) The outer reaction tube 1 containing reagents and the outer reaction tube 2 containing reagents were placed in a shaker, shook well for 10 sec, and centrifuged for 12 sec in a small centrifuge at 2,000 rpm/min.
[0085] 7) Six tubes were marked as a, b, c, d, e and f.
[0086] 8) 20 μl of the reagent in the outer reaction tube 1 was added to tubes a, b and c, and 20 μl of the reagent in the outer reaction tube 2 was added to tubes d, e and f.
[0087] 9) The tubes a, b, c, d, e and f were put into the centrifuge and centrifuged for 15 sec at 2,000 rpm/min.
[0088] 10) The tubes a, b, c, d, e and f were put into a real-time fluorescence PCR machine for detection, and a program was set as follows:
[0089] 95° C. for 5 min;
[0090] 94° C. for 6 sec;
##STR00001##
[0091] 60° C. for 30 sec, detecting fluorescence; conducting 45 cycles
[0092] 11) The results of the experiment were observed to determine whether it is positive or negative.
[0093] Moreover, detection verification was conducted using the method described in the present disclosure. The results of the above PCR detection method are shown in Table 1, where + represents that the result is positive, and − represents that the result is negative.
TABLE-US-00002 TABLE 1 Detection results of nucleic acid PCR nucleic acid CRISPR technology-based No. detection +/− nucleic acid detection +/− 1 + + 2 + + 3 − − 4 − − 5 + + 6 − − 7 + + 8 − − 9 + + 10 + + 11 + + 12 + + 13 − − 14 + + 15 + + 16 + + 17 + + 18 − − 19 + + 20 + +
[0094] After comparing with results measured by a standard PCR technology, this method has the results consistent with those of the standard PCR-based nucleic acid detection. It is proved that this method can achieve nucleic acid detection with accurate experimental results. At the same time, the cap is covered during the entire process from the end of the amplification to the realization of CRISPR detection, the laboratory aerosol pollution caused by the leakage of amplicons is eliminated, such that the results are highly reliable. In addition, the reliability of the method in preventing laboratory aerosol pollution was studied as follows, and the experimental results obtained also prove that the method has desirable reliability in preventing the aerosol pollution.
[0095] In order to verify the reliability of the method in preventing aerosol pollution, in a confined space, corresponding detection of the same nucleic acid sample was conducted under blue light irradiation using the method multiple times; and in each detection, a negative control experiment was set up, where the negative control used nuclease-free water instead of the nucleic acid sample, and other conditions remained the same; after multiple experiments (detection times >10), the results showed that the negative control of this method did not show false positive results. Meanwhile, the previous CRISPR detection method was compared with this method; being different with this method, the previous CRISPR detection technology had operations of cap opening and sample adding, which might increase the possibility of laboratory aerosol pollution to a certain extent. After the experiment, it was found that in the second or third nucleic acid sample detection, the negative control experiment with nuclease-free water had the false positive results. The comparison of the two experimental results proves that the method is highly reliable in preventing the laboratory aerosol pollution. The results are shown in Table 2 and Table 3, where + represents that the results are positive, and − represents that the results are negative.
TABLE-US-00003 TABLE 2 Negative and positive detection results of the anti-pollution consumable and method provided by the present disclosure Number of Positive target Nuclease-free water experiment test results test results 1 + − 2 + − 3 + − 4 + − 5 + − 6 + − 7 + − 8 + − 9 + − 10 + − 11 + −
TABLE-US-00004 TABLE 3 Negative and positive detection results of the consumable and method of the conventional CRISPR nucleic acid detection Number of Positive target Nuclease-free water experiment test results test results 1 + − 2 + − 3 + + 4 + + 5 + + 6 + + 7 + + 8 + + 9 + + 10 + + 11 + +
[0096] Moreover, the detection sensitivity of nucleic acid samples was explored using this method. An initial nucleic acid sample was configured at a concentration of 2×10.sup.5 copies per microliter, and detection was conducted using this method under blue light irradiation, and the result showed a clear positive fluorescent signal; the initial nucleic acid sample was diluted tenfold, and the nucleic acid sample detection was conducted sequentially according to the concentrations from high to low starting from 2×10.sup.4 copies per microliter, and the experimental results were shown in Table 4. The results show that when the nucleic acid concentration is 2×10.sup.0 copies per microliter, obvious experimental results can be observed; but when the nucleic acid concentration is 2×10.sup.−1 copies per microliter, no experimental result can be observed. Therefore, this method has a sensitivity of at least 2×10.sup.0 copies per microliter.
TABLE-US-00005 TABLE 4 Determination results of sample concentrations Nucleic acid sample concentration No. (copies per microliter) Detection results 1 2 × 10.sup.5 + 2 2 × 10.sup.4 + 3 2 × 10.sup.3 + 4 2 × 10.sup.2 + 5 2 × 10.sup.1 + 6 2 × 10.sup.0 + 7 .sup. 2 × 10.sup.−1 −
[0097] The foregoing are merely descriptions of preferred embodiments of the present disclosure. It should be noted that several improvements and modifications can be made by a person of ordinary skill in the art without departing from the principle of the present disclosure, and these improvements and modifications shall also be deemed as falling within the protection scope of the present disclosure.