WO2019242753A1 - Primer pair for detecting non-small cell lung cancer multiplex gene methylation, and reagent kit - Google Patents
Primer pair for detecting non-small cell lung cancer multiplex gene methylation, and reagent kit Download PDFInfo
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- C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
- C12Q1/6883—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material
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Definitions
- the invention relates to the technical field of EB virus detection, in particular to a primer pair and a kit for detecting multiple gene methylation of non-small cell lung cancer.
- DNA methylation is an important epigenetic mechanism, one of the key mechanisms for inactivation of tumor suppressor genes, and may be the only mechanism in some cases. Methylation of non-small cell lung cancer with multiple motions has been confirmed, suggesting that non-small cell lung cancer displays a CpG island methylation phenotype. As an early event of tumorigenesis, detection of abnormal methylation of tumor suppressor gene DNA can make molecular diagnosis before clinical manifestations or imaging evidence appears.
- ctDNA circulating tumor DNA: DNA fragments from the tumor genome that carry certain characteristics (including mutations, deletions, insertions, rearrangements, abnormal copy number, methylation, etc.) in the human blood circulation system. Its low concentration in blood and high fragmentation make it difficult to extract and reduce the sensitivity and specificity of clinical detection.
- one methylation-specific PCR reaction can only detect the methylation level of a single gene and cannot accurately predict the possibility of lung cancer.
- the uncertainty of tumor suppressor genes and the limitation of ctDNA in non-small cell lung cancer have caused the detection of methylation markers in single non-small cell lung cancer to meet clinical needs.
- the main purpose of the present invention is to provide a primer pair and a kit for detecting multiple gene methylation of non-small cell lung cancer, which aims to solve the existing methylation-specific PCR reaction that can only detect single gene methylation and cannot The problem of accurately predicting the likelihood of lung cancer.
- the present invention provides a primer pair for detecting multiple gene methylation of non-small cell lung cancer, including 6 sets of primer sequences corresponding to 6 genes as methylation markers of non-small cell lung cancer.
- the methylation markers are: CALCA, DLEC1, HOXA9, TBX5, PITX2, RASSF1a, and the six sets of primer sequences are specifically represented as follows:
- CALCA forward primer 5'-CGGAATTTTTTCGATTTATAGC-3 ';
- CALCA reverse primer 5'-AAAACCCTATAAAAACGACGAC-3 ';
- DLEC1 forward primer 5'-GATTAAGCGATGACGGGATTC-3 ';
- DLEC1 reverse primer 5'-ACCCGACTAATAACGAAATTAACG-3 ';
- HOXA9 forward primer 5'-GGTTAATGGGGGCGCGGGCGTC-3 ';
- HOXA9 reverse primer 5'-TCATATAACAACTTAATAACACCG-3 ';
- TBX5 forward primer 5'-GGGACGCGTAAAATTTAGAATC-3 ';
- TBX5 reverse primer 5'-AACACAAAACCGAAAAACGTC-3 ';
- PITX2 forward primer 5'-CGTTATTAGTTGAAGGTAAGGTCG-3 ';
- PITX2 reverse primer 5'-AACACCGAAAAATACAATCCG-3 ';
- RASSF1a forward primer 5'-GTGTTAACGCGTTGCGTATC-3 ';
- RASSF1a reverse primer 5'-AACCCCGCGAACTAAAAACGA-3 '.
- the primer pair used for detecting multiple gene methylation of non-small cell lung cancer further includes a set of primer sequences corresponding to a reference marker ⁇ -ACTIN, which is specifically expressed as follows:
- ⁇ -ACTIN forward primer 5'-TTTTTAGGGAGGAGT TGGAAGTAGT-3 ';
- ⁇ -ACTIN reverse primer 5'-AAAATATACC CTCCCCCATA CC-3 '.
- the present invention also provides an application of a primer pair for detecting multiple gene methylation of non-small cell lung cancer in preparing a non-small cell lung cancer detection reagent.
- the present invention also provides a kit for detecting multiple gene methylation of non-small cell lung cancer, including the primer pair and a PCR reaction system, wherein:
- the PCR reaction system includes a 1.8 ⁇ PCR solution, 5 mM MgCl2, 0.3 nM deoxyribonucleoside triphosphate, and 2.5 units of DNA polymerase;
- the concentrations of the primer pairs are 40 nM CALCA forward primer, 40 nM CALCA reverse primer, 40 nM DLEC1 forward primer, 40 nM DLEC1 reverse primer, 120 nM HOXA9 forward primer, 120 nM HOXA9 reverse primer, 20nM PITX2 forward primer, 20nM PITX2 reverse primer, 20nM TBX5 forward primer, 20nM TBX5 reverse primer, 280nM RASSF1a forward primer, 280nM RASSF1a reverse primer.
- the present invention also provides a kit for detecting multiple gene methylation of non-small cell lung cancer, comprising the primer pair and a PCR reaction system, wherein:
- the PCR reaction system includes a 1.8 ⁇ PCR solution, 5 mM MgCl2, 0.3 nM deoxyribonucleoside triphosphate, and 2.5 units of DNA polymerase;
- the concentrations of the primer pairs are 40 nM CALCA forward primer, 40 nM CALCA reverse primer, 40 nM DLEC1 forward primer, 40 nM DLEC1 reverse primer, 120 nM HOXA9 forward primer, 120 nM HOXA9 reverse primer, 20nM PITX2 forward primer, 20nM PITX2 reverse primer, 20nM TBX5 forward primer, 20nM TBX5 reverse primer, 280nM RASSF1a forward primer, 280nM RASSF1a reverse primer, 10nM ⁇ -ACTIN forward primer 10nM ⁇ -ACTIN reverse primer.
- the DNA polymerase is Taq Platinum DNA polymerase.
- the present invention also provides an application of a kit for detecting multiple gene methylation of non-small cell lung cancer in a marker for detecting multiple gene methylation of non-small cell lung cancer.
- the primer pair and kit for detecting multiple gene methylation of non-small cell lung cancer adopt the above technical scheme, and achieve the following technical effects: multiple non-small cell lung cancers can be detected simultaneously in one PCR reaction
- the presence of methylation markers in small cell lung cancer improves the accuracy, specificity, and sensitivity of non-small cell lung cancer detection.
- Detection of multiple gene methylation in non-small cell lung cancer by using the primer pair and the kit according to the present invention can solve a methylation-specific PCR reaction that can only detect the methylation level of a single gene and cannot accurately predict the occurrence of lung cancer. Possibility, and the uncertainty of non-small cell lung cancer tumor suppressor genes and the limitation of ctDNA lead to the problem that single non-small cell lung cancer methylation marker detection cannot meet clinical needs.
- FIG. 1 is a schematic diagram of a first preferred embodiment of a primer pair for detecting multiple gene methylation of non-small cell lung cancer according to the present invention
- Fig. 2 is a schematic diagram of a second preferred embodiment of a primer pair for detecting multiple gene methylation of non-small cell lung cancer according to the present invention.
- the invention provides a primer pair for detecting multiple gene methylation of non-small cell lung cancer, comprising 6 sets of primer sequences corresponding to 6 genes as methylation markers of non-small cell lung cancer, the methylation markers Can be used to detect non-small cell lung cancer using blood as a sample.
- the methylation markers are: CALAC, DLEC1, HOXA9, TBX5, PITX2, RASSF1a.
- FIG. 1 is a schematic diagram of a first preferred embodiment of a primer pair for detecting multiple gene methylation of non-small cell lung cancer according to the present invention.
- the primer pair for detecting non-small cell lung cancer multiple gene methylation includes six sets of primer sequences corresponding to six methylation markers, and each methylation marker corresponds to one primer. Yes, each primer pair includes forward primer (MF) and reverse primer (MR), which are specifically expressed as follows:
- CALCA forward primer 5'-CGGAATTTTTTCGATTTATAGC-3 '(SEQ ID NO.1);
- DLEC1 reverse primer 5'-ACCCGACTAATAACGAAATTAACG-3 '(SEQ ID NO.4);
- HOXA9 forward primer 5'-GGTTAATGGGGGCGCGGGCGTC-3 '(SEQ ID NO. 5);
- HOXA9 reverse primer 5'-TCATATAACAACTTAATAACACCG-3 '(SEQ ID NO.6);
- TBX5 forward primer 5'-GGGACGCGTAAAATTTAGAATC-3 '(SEQ ID NO.7);
- TBX5 reverse primer 5'-AACACAAAACCGAAAAACGTC-3 '(SEQ ID NO.8);
- PITX2 forward primer 5'-CGTTATTAGTTGAAGGTAAGGTCG-3 '(SEQ ID NO.9);
- PITX2 reverse primer 5'-AACACCGAAAAATACAATCCG-3 '(SEQ ID NO.10);
- RASSF1a forward primer 5'-GTGTTAACGCGTTGCGTATC-3 '(SEQ ID NO.11);
- RASSF1a reverse primer 5'-AACCCCGCGAACTAAAAACGA-3 '(SEQ ID NO.12).
- the present invention in order to verify the correctness of the ctDNA conversion and PCR reaction process in the blood sample to be tested to ensure the accuracy of the detection of non-small cell lung cancer, the present invention will refer to the primer pair corresponding to the marker ⁇ -ACTIN ( Including ⁇ -ACTIN forward primer and ⁇ -ACTIN reverse primer) were added to the PCR reaction system.
- FIG. 2 is a schematic diagram of a second preferred embodiment of a primer pair for detecting multiple gene methylation of non-small cell lung cancer according to the present invention.
- the primer pair for detecting non-small cell lung cancer multiple gene methylation according to the present invention includes not only the six sets of primer sequences corresponding to the six methylation markers, but also a reference marker Corresponding set of primer sequences.
- a set of primer sequences corresponding to a reference marker includes:
- ⁇ -ACTIN reverse primer 5’-AAAATATACC CTCCCCCATA CC-3 ’(SEQ ID NO.14).
- the invention also provides the application of the primer pair for detecting non-small cell lung cancer multiple gene methylation in preparing a non-small cell lung cancer detection reagent, for example, preparing a non-small cell lung cancer multiple gene methylation Kit, this non-small cell lung cancer detection reagent can be used to detect the multiple gene methylation level of non-small cell lung cancer, and improve the accuracy, specificity and sensitivity of lung cancer detection.
- the invention also provides a kit for detecting multiple gene methylation of non-small cell lung cancer, which can be applied to detect a specific multiple methylation marker of non-small cell lung cancer.
- the kit includes the six primers corresponding to the six non-small cell lung cancer-related genes as methylation markers and a PCR reaction system, wherein the PCR reaction system includes 1.8 ⁇ PCR solution, 5 mM MgCl 2 , 0.3 nM deoxyribonucleoside triphosphate, and 2.5 units of DNA polymerase, for example, Taq Platinum DNA polymerase is preferred; the concentration of the primer pair is CALCA forward primer of 40 nM, 40nM CALCA reverse primer, 40nM DLEC1 forward primer, 40nM DLEC1 reverse primer, 120nM HOXA9 forward primer, 120nM HOXA9 reverse primer, 20nM PITX2 forward primer, 20nM PITX2 reverse primer, 20nM TBX5 forward primer, 20
- the kit includes 6 sets of primer pairs corresponding to the methylation markers, 1 set of primer pairs corresponding to a reference marker, and a PCR reaction system, wherein: the The PCR reaction system includes 1.8 ⁇ PCR solution, 5mM MgCl2, 0.3nM deoxyribonucleoside triphosphate, and 2.5 units of DNADNA polymerase, for example, Taq Platinum DNA polymerase is preferred; the concentration of each of the primer pairs is 40nM.
- CALCA forward primer 40nM CALCA reverse primer, 40nM DLEC1 forward primer, 40nM DLEC1 reverse primer, 120nM HOXA9 forward primer, 120nM HOXA9 reverse primer, 20nM PITX2 forward primer, 20nM PITX2 Reverse primer, 20nM TBX5 forward primer, 20nM TBX5 reverse primer, 280nM RASSF1a forward primer, 280nM RASSF1a reverse primer, 10nM ⁇ -ACTIN forward primer, 10nM ⁇ -ACTIN reverse primer.
- the present invention also provides an application of a kit for detecting multiple gene methylation of non-small cell lung cancer in detecting a specific multiple methylation marker of non-small cell lung cancer. That is, the kit of the present invention can be used to detect multiple gene methylation markers of non-small cell lung cancer, which is convenient for users to detect non-small cell lung cancer, and can detect the presence of multiple non-small cell lung cancers in a single PCR reaction. Basic markers improve the accuracy, specificity and sensitivity of lung cancer detection.
- Step 1 Select 6 genes as methylation markers of NSCLC and 1 gene as reference marker; specifically, based on pre-lung cancer research and existing research results, select 6 genes as NSCLC
- the methylation markers are: CALCA, DLEC1, HOXA9, TBX5, PITX2, RASSF1a.
- the gene as a reference marker is different from the gene of the methylation marker, and the reference marker is ⁇ -ACTIN .
- Step 2 Construct six primer pairs corresponding to the six methylation markers and one primer pair corresponding to the one reference marker; in this embodiment, each methylation marker corresponds to one primer pair, each One primer pair includes a forward primer (MF) and a reverse primer (MR).
- the forward primer of the reference marker ⁇ -ACTIN is a positive control
- the sequence of the ⁇ -ACTIN forward primer is: 5′-TTTTTAGGGAGGAGT TGGAAGTAGT-3 ′
- the reverse primer of the reference marker is a negative control.
- the sequence of ⁇ -ACTIN reverse primer is: 5'-AAAATATACC CTCCCCCATA CC-3 '.
- FIG. 2 lists seven sets of primer sequences, including six sets of primer sequences corresponding to six methylation markers and one set of primer sequences corresponding to one reference marker.
- Step 3 Extract the free ctDNA in the blood sample to be tested.
- the concentration of ctDNA in the blood of the blood sample is 3-24 times that in the plasma, but the coagulation process is easily contaminated by impurities.
- CtDNA was extracted from plasma, and ctDNA was purified and transformed.
- ctDNA is easily decomposed by DNase in the blood. The purification of ctDNA needs to be performed as soon as possible.
- the purification method can use the industry's common magnetic bead method or spin column method to extract free ctDNA in the blood sample to be tested to remove impurities
- the ctDNA is purified, and the reagent used for the conversion treatment may be sulfite or bisulfite, that is, the ctDNA is subjected to sulfite or bisulfite conversion treatment.
- Step 4 Take 4ul (27ng) of the transformed ctDNA and add it to a 25ul PCR reaction system; in this embodiment, the PCR reaction system includes: 1.8 ⁇ PCR solution, 5mM MgCl2, 0.3nM deoxyribonucleoside triphosphate , 6 primers corresponding to 6 methylation markers (40 nM of forward and reverse primers for DLEC1, 20 nM of forward and reverse primers for PITX2, 20 nM of forward and reverse primers for TBX5, CALCA forward primer and reverse primer each 40nM, RASSF1a forward primer and reverse primer each 280nM, HOXA9 forward primer and reverse primer each 120nM), 1 reference marker ⁇ -ACTIN 1 primer (10-M each of the forward primer and the reverse primer of ⁇ -ACTIN) and a 2.5-unit DNA polymerase, for example, Taq Platinum DNA polymerase is preferred).
- 6 primers corresponding to 6 methylation markers 40 nM of forward and reverse primers for DLEC
- Step 5 Put the PCR reaction system into a PCR instrument, and perform a PCR amplification reaction on the PCR reaction system according to a set PCR reaction program to obtain a PCR reaction product.
- the PCR reaction procedure includes the following steps: (1), lasting for 3 minutes at a temperature of 95 ° C; (2), continuing for 1 minute at a temperature of 94 ° C, for 30 seconds at a temperature of 60 ° C, This step is performed for 4 seconds at a temperature of 65 ° C, and a total of 4 cycles are performed; (3) This step is performed for 1 minute at a temperature of 94 ° C, for 1 minute at a temperature of 56 ° C, and for 45 seconds at a temperature of 65 ° C A total of 36 amplification cycles were performed; (4), at 65 ° C for 4 minutes, as an extension reaction; (5), the PCR reaction was stopped at 4 ° C, and the PCR reaction product was stored at 4 ° C.
- Step 6 Perform gel electrophoresis on the PCR reaction product. Specifically, perform gel electrophoresis on the PCR reaction product.
- the gel electrophoresis may be agarose gel electrophoresis, and the concentration may be selected as: The agarose gel has an agarose concentration of 2.5%) or polyacrylamide gel electrophoresis (PAGE).
- Step 7 Stain the gel after electrophoresis using a staining agent, and perform fluorescence analysis on the gel after staining using a gel imager; specifically, stain the gel after electrophoresis by using a staining agent as the preferred
- the staining agent can be selected from ethidium bromide (EB), SYBR Green I, GelRed or GoldView staining agent, and a gel imager is used to perform fluorescence analysis on the stained gel and pass the gel imager. Read the fluorescent band in the stained gel.
- Step 8 Determine whether three or more fluorescent color bands appear in the gel; in this embodiment, whether the gel imager reads three or more fluorescent color bands from the dyed gel, Among them, one fluorescent band is the PCR reaction band of the reference marker ⁇ -ACTIN, and the other fluorescent band is the PCR reaction band of the mutant gene marker.
- Step 9 If three or more fluorescent color bands appear in the gel, the gel imager determines that the blood sample to be tested contains a non-small cell lung cancer gene mutation DNA fragment.
- Step 10 If there are 2 or 1 fluorescent bands in the gel, the gel imager determines that the blood sample to be tested does not contain a mutant DNA fragment of a non-small cell lung cancer gene.
- Step 11 If there is no fluorescent band in the gel, the gel imager determines that the ctDNA conversion and PCR reaction are invalid during the methylation detection of lung cancer characteristics. It is not possible to verify whether the blood sample to be tested contains non-small cell lung cancer. Gene mutation DNA fragment. Therefore, in this embodiment, the reference marker ⁇ -ACTIN forward primer and reverse primer are added to the PCR reaction system, mainly to verify whether the ctDNA conversion and the PCR reaction process are correct to ensure the accuracy of the detection of non-small cell lung cancer.
- the primer pair and the kit of the present invention By using the primer pair and the kit of the present invention, the presence of multiple non-small cell lung cancer methylation markers can be detected simultaneously in one PCR reaction detection, which improves the accuracy, specificity, and sensitivity of lung cancer detection.
- the primer pair and the kit of the invention are widely used for detecting methylation of non-small cell lung cancer genes, and solve a methylation-specific PCR reaction that can only detect the methylation level of a single gene and cannot accurately predict lung cancer.
- the possibility of occurrence, and the uncertainty of non-small cell lung cancer tumor suppressor genes and the limitations of ctDNA lead to the problem that single non-small cell lung cancer methylation marker detection cannot meet the clinical needs.
- the primer pair and kit for detecting multiple gene methylation of non-small cell lung cancer adopt the above technical scheme, and achieve the following technical effects: multiple non-small cell lung cancers can be detected simultaneously in one PCR reaction
- the presence of methylation markers in small cell lung cancer improves the accuracy, specificity, and sensitivity of non-small cell lung cancer detection.
- Detection of multiple gene methylation in non-small cell lung cancer by using the primer pair and the kit according to the present invention can solve a methylation-specific PCR reaction that can only detect the methylation level of a single gene and cannot accurately predict the occurrence of lung cancer. Possibility, and the uncertainty of non-small cell lung cancer tumor suppressor genes and the limitation of ctDNA lead to the problem that single non-small cell lung cancer methylation marker detection cannot meet clinical needs.
- AAAACCC TAT AAAAACGACG AC It is the case with the following: twenty two
- TC The following is the name of the TC: twenty two
- GTGTTAACGC GTTGCGTATC The following is the name of the GTTGCGTATC: 20
- AACCCC GCGA ACTAAAAACG A The following is the case with the following: twenty one
- AAAATATACC CTCCCCCATA CC It is the case of the following: twenty two
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Abstract
A primer pair for detecting non-small cell lung cancer multiplex gene methylation, and a reagent kit, the primer pair comprising 6 sets of primer sequences corresponding to 6 genes serving as methylation markers of non-small cell lung cancer, the methylation markers respectively being: CALCA, DLEC1, HOXA9, TBX5, PITX2, and RASSF1a, and the 6 sets of primer sequences comprising CALCA forward primer, CALCA reverse primer, DLEC1 forward primer, DLEC1 reverse primer, HOXA9 forward primer, HOXA9 reverse primer, TBX5 forward primer, TBX5 reverse primer, PITX2 forward primer, PITX2 reverse primer, RASSF1a forward primer, and RASSF1a reverse primer. The primer pairs also comprise one set of primer sequences corresponding to one representative marker β-ACTIN, specifically comprising β-ACTIN forward primer and β-ACTIN reverse primer. A single PCR reaction detection can be used to simultaneously detect the presence of multiple non-small cell lung cancer methylation markers, improving the accuracy, specificity, and sensitivity of non-small cell lung cancer detection.
Description
本发明涉及EB病毒检测的技术领域,尤其涉及一种用于检测非小细胞肺癌多重基因甲基化的引物对及试剂盒。The invention relates to the technical field of EB virus detection, in particular to a primer pair and a kit for detecting multiple gene methylation of non-small cell lung cancer.
DNA甲基化是重要的表观遗传学机制,是抑癌基因失活的关键机制之一,在某些情况下可能是唯一的机制。目前已证实非小细胞肺癌汇总有多个议案一件的甲基化提示非小细胞肺癌显示出CpG岛甲基化表型。作为肿瘤发生的早期事件,抑癌基因DNA异常甲基化检测可在患者出现临床表现或影像学证据前做到分子诊断。DNA methylation is an important epigenetic mechanism, one of the key mechanisms for inactivation of tumor suppressor genes, and may be the only mechanism in some cases. Methylation of non-small cell lung cancer with multiple motions has been confirmed, suggesting that non-small cell lung cancer displays a CpG island methylation phenotype. As an early event of tumorigenesis, detection of abnormal methylation of tumor suppressor gene DNA can make molecular diagnosis before clinical manifestations or imaging evidence appears.
ctDNA(circulating
tumor DNA):人体血液循环系统中不断流动的携带一定特征(包括突变、缺少、插入、重排,拷贝数异常、甲基化等)来自肿瘤基因组的DNA片段。其在血液中浓度低,且高度碎片化,提取难度高,降低了临床检测的敏感性和特异性。现有技术中,一次甲基化特异性PCR反应只能检测单个基因的甲基化水平,无法准确的预测肺癌发生的可能性。同时,非小细胞肺癌抑癌基因的不确定性及ctDNA的局限性,导致单一非小细胞肺癌甲基化标志物检测无法满足临床需求。ctDNA (circulating
tumor DNA): DNA fragments from the tumor genome that carry certain characteristics (including mutations, deletions, insertions, rearrangements, abnormal copy number, methylation, etc.) in the human blood circulation system. Its low concentration in blood and high fragmentation make it difficult to extract and reduce the sensitivity and specificity of clinical detection. In the prior art, one methylation-specific PCR reaction can only detect the methylation level of a single gene and cannot accurately predict the possibility of lung cancer. At the same time, the uncertainty of tumor suppressor genes and the limitation of ctDNA in non-small cell lung cancer have caused the detection of methylation markers in single non-small cell lung cancer to meet clinical needs.
本发明的主要目的在于提供一种用于检测非小细胞肺癌多重基因甲基化的引物对及试剂盒,旨在解决现有甲基化特异性PCR反应只能检测单个基因甲基化而无法准确预测肺癌发生的可能性的问题。The main purpose of the present invention is to provide a primer pair and a kit for detecting multiple gene methylation of non-small cell lung cancer, which aims to solve the existing methylation-specific PCR reaction that can only detect single gene methylation and cannot The problem of accurately predicting the likelihood of lung cancer.
为实现上述目的,本发明提供一种用于检测非小细胞肺癌多重基因甲基化的引物对,包括以6个基因作为非小细胞肺癌的甲基化标志物对应的6组引物序列,所述甲基化标志物为分别为:CALCA、DLEC1、HOXA9、TBX5、PITX2、RASSF1a,所述6组引物序列具体表示如下:To achieve the above object, the present invention provides a primer pair for detecting multiple gene methylation of non-small cell lung cancer, including 6 sets of primer sequences corresponding to 6 genes as methylation markers of non-small cell lung cancer. The methylation markers are: CALCA, DLEC1, HOXA9, TBX5, PITX2, RASSF1a, and the six sets of primer sequences are specifically represented as follows:
CALCA正向引物:5’-CGGAATTTTTTCGATTTATAGC-3’;CALCA forward primer: 5'-CGGAATTTTTTCGATTTATAGC-3 ';
CALCA反向引物:5’-AAAACCCTATAAAAACGACGAC-3’;CALCA reverse primer: 5'-AAAACCCTATAAAAACGACGAC-3 ';
DLEC1正向引物:5’-GATTAAGCGATGACGGGATTC-3’;DLEC1 forward primer: 5'-GATTAAGCGATGACGGGATTC-3 ';
DLEC1反向引物:5’-ACCCGACTAATAACGAAATTAACG-3’;DLEC1 reverse primer: 5'-ACCCGACTAATAACGAAATTAACG-3 ';
HOXA9正向引物:5’-GGTTAATGGGGGCGCGGGCGTC-3’;HOXA9 forward primer: 5'-GGTTAATGGGGGCGCGGGCGTC-3 ';
HOXA9反向引物:5’-TCATATAACAACTTAATAACACCG-3’;HOXA9 reverse primer: 5'-TCATATAACAACTTAATAACACCG-3 ';
TBX5正向引物:5’-GGGACGCGTAAAATTTAGAATC-3’;TBX5 forward primer: 5'-GGGACGCGTAAAATTTAGAATC-3 ';
TBX5反向引物:5’-AACACAAAACCGAAAAACGTC-3’;TBX5 reverse primer: 5'-AACACAAAACCGAAAAACGTC-3 ';
PITX2正向引物:5’-CGTTATTAGTTGAAGGTAAGGTCG-3’;PITX2 forward primer: 5'-CGTTATTAGTTGAAGGTAAGGTCG-3 ';
PITX2反向引物:5’-AACACCGAAAAATACAATCCG-3’;PITX2 reverse primer: 5'-AACACCGAAAAATACAATCCG-3 ';
RASSF1a正向引物:5’-GTGTTAACGCGTTGCGTATC-3’;RASSF1a forward primer: 5'-GTGTTAACGCGTTGCGTATC-3 ';
RASSF1a反向引物:5’-AACCCCGCGAACTAAAAACGA-3’。RASSF1a reverse primer: 5'-AACCCCGCGAACTAAAAACGA-3 '.
优选的,所述的用于检测非小细胞肺癌多重基因甲基化的引物对还包括1个参照标志物β-ACTIN对应的1组引物序列,具体表示如下:Preferably, the primer pair used for detecting multiple gene methylation of non-small cell lung cancer further includes a set of primer sequences corresponding to a reference marker β-ACTIN, which is specifically expressed as follows:
β-ACTIN正向引物:5’-TTTTTAGGGAGGAGT TGGAAGTAGT-3’;β-ACTIN forward primer: 5'-TTTTTAGGGAGGAGT TGGAAGTAGT-3 ';
β-ACTIN反向引物:5’-AAAATATACC CTCCCCCATA CC-3’。β-ACTIN reverse primer: 5'-AAAATATACC CTCCCCCATA CC-3 '.
另一方面,本发明还提供一种用于检测非小细胞肺癌多重基因甲基化的引物对在制备非小细胞肺癌检测试剂中的应用。In another aspect, the present invention also provides an application of a primer pair for detecting multiple gene methylation of non-small cell lung cancer in preparing a non-small cell lung cancer detection reagent.
另一方面,本发明还提供一种用于检测非小细胞肺癌多重基因甲基化的试剂盒,包括所述的引物对以及PCR反应体系,其中:In another aspect, the present invention also provides a kit for detecting multiple gene methylation of non-small cell lung cancer, including the primer pair and a PCR reaction system, wherein:
所述PCR反应体系包括1.8×PCR溶液、5mM的MgCl2、0.3nM的脱氧核糖核苷三磷酸以及2.5个单元的DNA聚合酶;The PCR reaction system includes a 1.8 × PCR solution, 5 mM MgCl2, 0.3 nM deoxyribonucleoside triphosphate, and 2.5 units of DNA polymerase;
所述引物对的浓度分别为40nM的CALCA正向引物、40nM的CALCA反向引物、40nM的DLEC1正向引物、40nM的DLEC1反向引物、120nM的HOXA9正向引物、120nM的HOXA9反向引物、20nM的PITX2正向引物、20nM的PITX2反向引物、20nM的TBX5正向引物、20nM的TBX5反向引物、280nM的RASSF1a正向引物、280nM的RASSF1a反向引物。The concentrations of the primer pairs are 40 nM CALCA forward primer, 40 nM CALCA reverse primer, 40 nM DLEC1 forward primer, 40 nM DLEC1 reverse primer, 120 nM HOXA9 forward primer, 120 nM HOXA9 reverse primer, 20nM PITX2 forward primer, 20nM PITX2 reverse primer, 20nM TBX5 forward primer, 20nM TBX5 reverse primer, 280nM RASSF1a forward primer, 280nM RASSF1a reverse primer.
优选的,本发明还提供一种用于检测非小细胞肺癌多重基因甲基化的试剂盒,包括所述的引物对以及PCR反应体系,其中:Preferably, the present invention also provides a kit for detecting multiple gene methylation of non-small cell lung cancer, comprising the primer pair and a PCR reaction system, wherein:
所述PCR反应体系包括1.8×PCR溶液、5mM的MgCl2、0.3nM的脱氧核糖核苷三磷酸以及2.5个单元的DNA聚合酶;The PCR reaction system includes a 1.8 × PCR solution, 5 mM MgCl2, 0.3 nM deoxyribonucleoside triphosphate, and 2.5 units of DNA polymerase;
所述引物对的浓度分别为40nM的CALCA正向引物、40nM的CALCA反向引物、40nM的DLEC1正向引物、40nM的DLEC1反向引物、120nM的HOXA9正向引物、120nM的HOXA9反向引物、20nM的PITX2正向引物、20nM的PITX2反向引物、20nM的TBX5正向引物、20nM的TBX5反向引物、280nM的RASSF1a正向引物、280nM的RASSF1a反向引物、10nM的β-ACTIN正向引物、10nM的β-ACTIN反向引物。The concentrations of the primer pairs are 40 nM CALCA forward primer, 40 nM CALCA reverse primer, 40 nM DLEC1 forward primer, 40 nM DLEC1 reverse primer, 120 nM HOXA9 forward primer, 120 nM HOXA9 reverse primer, 20nM PITX2 forward primer, 20nM PITX2 reverse primer, 20nM TBX5 forward primer, 20nM TBX5 reverse primer, 280nM RASSF1a forward primer, 280nM RASSF1a reverse primer, 10nM β-ACTIN forward primer 10nM β-ACTIN reverse primer.
优选的,所述DNA聚合酶为Taq Platinum DNA聚合酶。Preferably, the DNA polymerase is Taq Platinum DNA polymerase.
另一方面,本发明还提供一种用于检测非小细胞肺癌多重基因甲基化的试剂盒在检测非小细胞肺癌多重基因甲基化标志物中的应用。In another aspect, the present invention also provides an application of a kit for detecting multiple gene methylation of non-small cell lung cancer in a marker for detecting multiple gene methylation of non-small cell lung cancer.
相较于现有技术,本发明所述用于检测非小细胞肺癌多重基因甲基化的引物对及试剂盒采用上述技术方案,取得如下技术效果:能够在一次PCR反应检测同时检测多个非小细胞肺癌甲基化标志物的存在,提高了非小细胞肺癌检测的准确性、特异性和敏感性。使用本发明所述引物对和试剂盒对非小细胞肺癌多重基因甲基化进行检测,能够解决一次甲基化特异性PCR反应只能检测单个基因的甲基化水平而无法准确预测肺癌发生的可能性,以及因非小细胞肺癌抑癌基因的不确定性及ctDNA的局限性导致单一非小细胞肺癌甲基化标志物检测无法满足临床需求的问题。Compared with the prior art, the primer pair and kit for detecting multiple gene methylation of non-small cell lung cancer according to the present invention adopt the above technical scheme, and achieve the following technical effects: multiple non-small cell lung cancers can be detected simultaneously in one PCR reaction The presence of methylation markers in small cell lung cancer improves the accuracy, specificity, and sensitivity of non-small cell lung cancer detection. Detection of multiple gene methylation in non-small cell lung cancer by using the primer pair and the kit according to the present invention can solve a methylation-specific PCR reaction that can only detect the methylation level of a single gene and cannot accurately predict the occurrence of lung cancer. Possibility, and the uncertainty of non-small cell lung cancer tumor suppressor genes and the limitation of ctDNA lead to the problem that single non-small cell lung cancer methylation marker detection cannot meet clinical needs.
图1是本发明用于检测非小细胞肺癌多重基因甲基化的引物对第一优选实施例的示意图;1 is a schematic diagram of a first preferred embodiment of a primer pair for detecting multiple gene methylation of non-small cell lung cancer according to the present invention;
图2是本发明用于检测非小细胞肺癌多重基因甲基化的引物对第二优选实施例的示意图。Fig. 2 is a schematic diagram of a second preferred embodiment of a primer pair for detecting multiple gene methylation of non-small cell lung cancer according to the present invention.
本发明目的的实现、功能特点及优点将结合实施例,参照附图做进一步说明。The realization of the purpose, functional characteristics and advantages of the present invention will be further described with reference to the embodiments and the drawings.
为更进一步阐述本发明为达成预定发明目的所采取的技术手段及功效,以下结合附图及较佳实施例,对本发明的具体实施方式、结构、特征及其功效,详细说明如下。应当理解,此处所描述的具体实施例仅仅用以解释本发明,并不用于限定本发明。In order to further explain the technical means and effects adopted by the present invention to achieve the intended purpose of the present invention, the specific implementation, structure, features, and effects of the present invention are described in detail below with reference to the drawings and preferred embodiments. It should be understood that the specific embodiments described herein are only used to explain the present invention and are not intended to limit the present invention.
发明提供一种用于检测非小细胞肺癌多重基因甲基化的引物对,包括以6个基因作为非小细胞肺癌的甲基化标志物对应的6组引物序列,所述甲基化标志物可以用于用血液作为样本检测非小细胞肺癌。作为优选实施例,所述甲基化标志物分别为:CALCA、DLEC1、HOXA9、TBX5、PITX2、RASSF1a。The invention provides a primer pair for detecting multiple gene methylation of non-small cell lung cancer, comprising 6 sets of primer sequences corresponding to 6 genes as methylation markers of non-small cell lung cancer, the methylation markers Can be used to detect non-small cell lung cancer using blood as a sample. As a preferred embodiment, the methylation markers are: CALAC, DLEC1, HOXA9, TBX5, PITX2, RASSF1a.
如图1所示,图1为本发明用于检测非小细胞肺癌多重基因甲基化的引物对第一优选实施例的示意图。在第一优选实施例中,所述用于检测非小细胞肺癌多重基因甲基化的引物对包括6个甲基化标志物对应的6组引物序列,每一个甲基化标志物对应一个引物对,每一个引物对包括正向引物(MF)和反向引物(MR),具体表示如下:As shown in FIG. 1, FIG. 1 is a schematic diagram of a first preferred embodiment of a primer pair for detecting multiple gene methylation of non-small cell lung cancer according to the present invention. In a first preferred embodiment, the primer pair for detecting non-small cell lung cancer multiple gene methylation includes six sets of primer sequences corresponding to six methylation markers, and each methylation marker corresponds to one primer. Yes, each primer pair includes forward primer (MF) and reverse primer (MR), which are specifically expressed as follows:
(1)、CALCA正向引物:5’-CGGAATTTTTTCGATTTATAGC-3’(SEQ ID NO.1);(1) CALCA forward primer: 5'-CGGAATTTTTTCGATTTATAGC-3 '(SEQ ID NO.1);
(2)、CALCA反向引物:5’-AAAACCCTATAAAAACGACGAC-3’(SEQ ID NO.2);(2) CALCA reverse primer: 5'-AAAACCCTATAAAAACGACGAC-3 '(SEQ ID NO. 2);
(3)、DLEC1正向引物:5’-GATTAAGCGATGACGGGATTC-3’(SEQ ID NO.3);(3) DLEC1 forward primer: 5'-GATTAAGCGATGACGGGATTC-3 '(SEQ ID NO. 3);
(4)、DLEC1反向引物:5’-ACCCGACTAATAACGAAATTAACG-3’(SEQ ID NO.4);(4) DLEC1 reverse primer: 5'-ACCCGACTAATAACGAAATTAACG-3 '(SEQ ID NO.4);
(5)、HOXA9正向引物:5’-GGTTAATGGGGGCGCGGGCGTC-3’(SEQ ID NO.5);(5) HOXA9 forward primer: 5'-GGTTAATGGGGGCGCGGGCGTC-3 '(SEQ ID NO. 5);
(6)、HOXA9反向引物:5’-TCATATAACAACTTAATAACACCG-3’(SEQ ID NO.6);(6) HOXA9 reverse primer: 5'-TCATATAACAACTTAATAACACCG-3 '(SEQ ID NO.6);
(7)、TBX5正向引物:5’-GGGACGCGTAAAATTTAGAATC-3’(SEQ ID NO.7);(7) TBX5 forward primer: 5'-GGGACGCGTAAAATTTAGAATC-3 '(SEQ ID NO.7);
(8)、TBX5反向引物:5’-AACACAAAACCGAAAAACGTC-3’(SEQ ID NO.8);(8) TBX5 reverse primer: 5'-AACACAAAACCGAAAAACGTC-3 '(SEQ ID NO.8);
(9)、PITX2正向引物:5’-CGTTATTAGTTGAAGGTAAGGTCG-3’(SEQ ID NO.9);(9) PITX2 forward primer: 5'-CGTTATTAGTTGAAGGTAAGGTCG-3 '(SEQ ID NO.9);
(10)、PITX2反向引物:5’-AACACCGAAAAATACAATCCG-3’(SEQ ID NO.10);(10) PITX2 reverse primer: 5'-AACACCGAAAAATACAATCCG-3 '(SEQ ID NO.10);
(11)、RASSF1a正向引物:5’-GTGTTAACGCGTTGCGTATC-3’(SEQ ID NO.11);(11) RASSF1a forward primer: 5'-GTGTTAACGCGTTGCGTATC-3 '(SEQ ID NO.11);
(12)、RASSF1a反向引物:5’-AACCCCGCGAACTAAAAACGA-3’(SEQ ID NO.12)。(12) RASSF1a reverse primer: 5'-AACCCCGCGAACTAAAAACGA-3 '(SEQ ID NO.12).
作为另外一个优选实施方式,为了验证待测血液样品中的ctDNA转化和PCR反应过程的正确性,以确保非小细胞肺癌检测的准确性,本发明将参照标志物β-ACTIN对应的引物对(包括β-ACTIN正向引物和β-ACTIN反向引物)加入至PCR反应体系中。As another preferred embodiment, in order to verify the correctness of the ctDNA conversion and PCR reaction process in the blood sample to be tested to ensure the accuracy of the detection of non-small cell lung cancer, the present invention will refer to the primer pair corresponding to the marker β-ACTIN ( Including β-ACTIN forward primer and β-ACTIN reverse primer) were added to the PCR reaction system.
如图2所示,图2为本发明用于检测非小细胞肺癌多重基因甲基化的引物对第二优选实施例的示意图。在第二实施例中,本发明所述用于检测非小细胞肺癌多重基因甲基化的引物对不仅包括上述6个甲基化标志物对应的6组引物序列,还包括1个参照标志物对应的1组引物序列。其中,1个参照标志物对应的1组引物序列包括:As shown in FIG. 2, FIG. 2 is a schematic diagram of a second preferred embodiment of a primer pair for detecting multiple gene methylation of non-small cell lung cancer according to the present invention. In a second embodiment, the primer pair for detecting non-small cell lung cancer multiple gene methylation according to the present invention includes not only the six sets of primer sequences corresponding to the six methylation markers, but also a reference marker Corresponding set of primer sequences. Among them, a set of primer sequences corresponding to a reference marker includes:
(13)、β-ACTIN正向引物:5’-TTTTTAGGGAGGAGT
TGGAAGTAGT-3’ (SEQ ID NO.13);(13) β-ACTIN forward primer: 5’-TTTTTAGGGAGGAGT
TGGAAGTAGT-3 '(SEQ ID NO. 13);
(14)、β-ACTIN的反向引物:5’-AAAATATACC
CTCCCCCATA CC-3’ (SEQ
ID NO.14)。(14) β-ACTIN reverse primer: 5’-AAAATATACC
CTCCCCCATA CC-3 ’(SEQ
ID NO.14).
本发明还提供所述的用于检测非小细胞肺癌多重基因甲基化的引物对在制备非小细胞肺癌检测试剂中的应用,例如制备一种用于检测非小细胞肺癌多重基因甲基化的试剂盒,该非小细胞肺癌检测试剂可以用于检测非小细胞肺癌多重基因甲基化水平,提高肺癌检测的准确性、特异性和敏感性。The invention also provides the application of the primer pair for detecting non-small cell lung cancer multiple gene methylation in preparing a non-small cell lung cancer detection reagent, for example, preparing a non-small cell lung cancer multiple gene methylation Kit, this non-small cell lung cancer detection reagent can be used to detect the multiple gene methylation level of non-small cell lung cancer, and improve the accuracy, specificity and sensitivity of lung cancer detection.
本发明还提供一种用于检测非小细胞肺癌多重基因甲基化的试剂盒,可以应用于检测非小细胞肺癌特异性多重甲基化标志物。作为本发明一个优选的实施例,所述试剂盒包括上述6个非小细胞肺癌相关的基因作为甲基化标志物对应的6个引物以及PCR反应体系,其中:所述PCR反应体系包括1.8×PCR溶液、5mM的MgCl
2、0.3nM的脱氧核糖核苷三磷酸以及2.5个单元的DNA聚合酶,例如优选为Taq Platinum DNA聚合酶;所述引物对的浓度分别为40nM的CALCA正向引物、40nM的CALCA反向引物、40nM的DLEC1正向引物、40nM的DLEC1反向引物、120nM的HOXA9正向引物、120nM的HOXA9反向引物、20nM的PITX2正向引物、20nM的PITX2反向引物、20nM的TBX5正向引物、20nM的TBX5反向引物、280nM的RASSF1a正向引物、280nM的RASSF1a反向引物。
The invention also provides a kit for detecting multiple gene methylation of non-small cell lung cancer, which can be applied to detect a specific multiple methylation marker of non-small cell lung cancer. As a preferred embodiment of the present invention, the kit includes the six primers corresponding to the six non-small cell lung cancer-related genes as methylation markers and a PCR reaction system, wherein the PCR reaction system includes 1.8 × PCR solution, 5 mM MgCl 2 , 0.3 nM deoxyribonucleoside triphosphate, and 2.5 units of DNA polymerase, for example, Taq Platinum DNA polymerase is preferred; the concentration of the primer pair is CALCA forward primer of 40 nM, 40nM CALCA reverse primer, 40nM DLEC1 forward primer, 40nM DLEC1 reverse primer, 120nM HOXA9 forward primer, 120nM HOXA9 reverse primer, 20nM PITX2 forward primer, 20nM PITX2 reverse primer, 20nM TBX5 forward primer, 20nM TBX5 reverse primer, 280nM RASSF1a forward primer, 280nM RASSF1a reverse primer.
作为本发明另一个优选的实施例,所述试剂盒包括所述的甲基化标志物对应的6组引物对、1个参照标志物对应的1组引物对以及PCR反应体系,其中:所述PCR反应体系包括1.8×PCR溶液、5mM的MgCl2、0.3nM的脱氧核糖核苷三磷酸以及2.5个单元的DNADNA聚合酶,例如优选为Taq Platinum DNA聚合酶;所述引物对的浓度分别为40nM的CALCA正向引物、40nM的CALCA反向引物、40nM的DLEC1正向引物、40nM的DLEC1反向引物、120nM的HOXA9正向引物、120nM的HOXA9反向引物、20nM的PITX2正向引物、20nM的PITX2反向引物、20nM的TBX5正向引物、20nM的TBX5反向引物、280nM的RASSF1a正向引物、280nM的RASSF1a反向引物、10nM的β-ACTIN正向引物、10nM的β-ACTIN反向引物。As another preferred embodiment of the present invention, the kit includes 6 sets of primer pairs corresponding to the methylation markers, 1 set of primer pairs corresponding to a reference marker, and a PCR reaction system, wherein: the The PCR reaction system includes 1.8 × PCR solution, 5mM MgCl2, 0.3nM deoxyribonucleoside triphosphate, and 2.5 units of DNADNA polymerase, for example, Taq Platinum DNA polymerase is preferred; the concentration of each of the primer pairs is 40nM. CALCA forward primer, 40nM CALCA reverse primer, 40nM DLEC1 forward primer, 40nM DLEC1 reverse primer, 120nM HOXA9 forward primer, 120nM HOXA9 reverse primer, 20nM PITX2 forward primer, 20nM PITX2 Reverse primer, 20nM TBX5 forward primer, 20nM TBX5 reverse primer, 280nM RASSF1a forward primer, 280nM RASSF1a reverse primer, 10nM β-ACTIN forward primer, 10nM β-ACTIN reverse primer.
在本实施例中,本发明还提供一种用于检测非小细胞肺癌多重基因甲基化的试剂盒在检测非小细胞肺癌特异性多重甲基化标志物中的应用。即:能够使用本发明所述试剂盒检测非小细胞肺癌多重基因甲基化标志物,方便用户对非小细胞肺癌进行检测,能够在一次PCR反应检测同时检测是否存在多个非小细胞肺癌甲基化标志物,提高肺癌检测的准确性、特异性和敏感性。In this embodiment, the present invention also provides an application of a kit for detecting multiple gene methylation of non-small cell lung cancer in detecting a specific multiple methylation marker of non-small cell lung cancer. That is, the kit of the present invention can be used to detect multiple gene methylation markers of non-small cell lung cancer, which is convenient for users to detect non-small cell lung cancer, and can detect the presence of multiple non-small cell lung cancers in a single PCR reaction. Basic markers improve the accuracy, specificity and sensitivity of lung cancer detection.
以下阐述利用本发明所述引物对及试剂盒检测非小细胞肺癌多重基因甲基化标志物的方法,具体包括如下步骤:The following describes a method for detecting multiple gene methylation markers of non-small cell lung cancer using the primer pair and the kit according to the present invention, which specifically include the following steps:
步骤1:选取6个基因作为非小细胞肺癌的甲基化标志物以及1个基因作为参照标志物;具体地,基于肺癌前期研究和已有的研究成果,选取6个基因作为非小细胞肺癌的甲基化标志物,其分别为:CALCA、DLEC1、HOXA9、TBX5、PITX2、RASSF1a,此外,作为参照标志物的基因与甲基化标志物的基因不同,所述参照标志物为β-ACTIN。Step 1: Select 6 genes as methylation markers of NSCLC and 1 gene as reference marker; specifically, based on pre-lung cancer research and existing research results, select 6 genes as NSCLC The methylation markers are: CALCA, DLEC1, HOXA9, TBX5, PITX2, RASSF1a. In addition, the gene as a reference marker is different from the gene of the methylation marker, and the reference marker is β-ACTIN .
步骤2:分别构造6个甲基化标志物对应的6个引物对以及1个参照标志物对应的1个引物对;在本实施例中,每一个甲基化标志物对应一个引物对,每一个引物对包括正向引物(MF)和反向引物(MR)。在本实施例中,参照标志物β-ACTIN的正向引物为阳性对照品,β-ACTIN正向引物序列为:5’-TTTTTAGGGAGGAGT TGGAAGTAGT-3’,该参照标志物的反向引物为阴性对照品,β-ACTIN反向引物序列为:5’-AAAATATACC CTCCCCCATA CC-3’。如图2所示,图2列出了7组引物序列,包括6个甲基化标志物对应的6组引物序列以及1个参照标志物对应的1组引物序列。Step 2: Construct six primer pairs corresponding to the six methylation markers and one primer pair corresponding to the one reference marker; in this embodiment, each methylation marker corresponds to one primer pair, each One primer pair includes a forward primer (MF) and a reverse primer (MR). In this example, the forward primer of the reference marker β-ACTIN is a positive control, and the sequence of the β-ACTIN forward primer is: 5′-TTTTTAGGGAGGAGT TGGAAGTAGT-3 ′, and the reverse primer of the reference marker is a negative control. The sequence of β-ACTIN reverse primer is: 5'-AAAATATACC CTCCCCCATA CC-3 '. As shown in FIG. 2, FIG. 2 lists seven sets of primer sequences, including six sets of primer sequences corresponding to six methylation markers and one set of primer sequences corresponding to one reference marker.
步骤3:提取待测血液样品中的游离ctDNA,在本实施例中,考虑血液样品的血清中ctDNA浓度为血浆中的3-24倍,但凝血过程容易被杂质污染,因而优选从血液样品的血浆中提取ctDNA,并对ctDNA进行纯化和转化处理。在本实施例中,ctDNA易被血液中的DNA酶分解,ctDNA的纯化需要尽快进行,纯化方法可以使用业界通用的磁珠法或者离心柱法提取待测血液样品中的游离ctDNA,以去除杂质对ctDNA进行纯化,所述转换处理所采用的试剂可以为亚硫酸盐或重亚硫酸盐,即对ctDNA进行亚硫酸盐或重亚硫酸盐转化处理。Step 3: Extract the free ctDNA in the blood sample to be tested. In this example, it is considered that the concentration of ctDNA in the blood of the blood sample is 3-24 times that in the plasma, but the coagulation process is easily contaminated by impurities. CtDNA was extracted from plasma, and ctDNA was purified and transformed. In this embodiment, ctDNA is easily decomposed by DNase in the blood. The purification of ctDNA needs to be performed as soon as possible. The purification method can use the industry's common magnetic bead method or spin column method to extract free ctDNA in the blood sample to be tested to remove impurities The ctDNA is purified, and the reagent used for the conversion treatment may be sulfite or bisulfite, that is, the ctDNA is subjected to sulfite or bisulfite conversion treatment.
步骤4:取4ul(27ng)经过转化处理的ctDNA加入到25ul PCR反应体系中;在本实施例中,所述PCR反应体系包括:1.8×PCR溶液、5mM MgCl2、0.3nM 脱氧核糖核苷三磷酸、6个甲基化标志物对应的6个引物(DLEC1的正向引物和反向引物各40nM、PITX2的正向引物和反向引物各20nM、TBX5的正向引物和反向引物各20nM、CALCA的正向引物和反向引物各40nM、RASSF1a的正向引物和反向引物各280nM、HOXA9的正向引物和反向引物各120nM)、1个参照标志物β-ACTIN对应的1个引物(β-ACTIN的正向引物和反向引物各10nM)以及2.5个单元的DNA聚合酶,例如优选为Taq Platinum DNA聚合酶)。Step 4: Take 4ul (27ng) of the transformed ctDNA and add it to a 25ul PCR reaction system; in this embodiment, the PCR reaction system includes: 1.8 × PCR solution, 5mM MgCl2, 0.3nM deoxyribonucleoside triphosphate , 6 primers corresponding to 6 methylation markers (40 nM of forward and reverse primers for DLEC1, 20 nM of forward and reverse primers for PITX2, 20 nM of forward and reverse primers for TBX5, CALCA forward primer and reverse primer each 40nM, RASSF1a forward primer and reverse primer each 280nM, HOXA9 forward primer and reverse primer each 120nM), 1 reference marker β-ACTIN 1 primer (10-M each of the forward primer and the reverse primer of β-ACTIN) and a 2.5-unit DNA polymerase, for example, Taq Platinum DNA polymerase is preferred).
步骤5:将PCR反应体系放入PCR仪中,并按照设定的PCR反应程序对PCR反应体系做PCR扩增反应得到PCR反应产物。在本实施例中,所述PCR反应程序包括如下步骤:(1)、在95℃温度下持续3分钟;(2)、在94℃温度下持续1分钟、在60℃温度下持续30秒、在65℃温度下持续45秒,该步骤共执行4个循环;(3)、在94℃温度下持续1分钟、在56℃温度下持续1分钟、在65℃温度下持续45秒,该步骤共执行36个扩增循环;(4)、在65℃温度下持续4分钟,作为延伸反应;(5)、在4℃温度下中止PCR反应,并在4℃温度下保存PCR反应产物。Step 5: Put the PCR reaction system into a PCR instrument, and perform a PCR amplification reaction on the PCR reaction system according to a set PCR reaction program to obtain a PCR reaction product. In this embodiment, the PCR reaction procedure includes the following steps: (1), lasting for 3 minutes at a temperature of 95 ° C; (2), continuing for 1 minute at a temperature of 94 ° C, for 30 seconds at a temperature of 60 ° C, This step is performed for 4 seconds at a temperature of 65 ° C, and a total of 4 cycles are performed; (3) This step is performed for 1 minute at a temperature of 94 ° C, for 1 minute at a temperature of 56 ° C, and for 45 seconds at a temperature of 65 ° C A total of 36 amplification cycles were performed; (4), at 65 ° C for 4 minutes, as an extension reaction; (5), the PCR reaction was stopped at 4 ° C, and the PCR reaction product was stored at 4 ° C.
步骤6:对PCR反应产物进行凝胶电泳;具体地,对PCR反应后的产物进行凝胶电泳,在本实施例中,所述凝胶电泳可以为琼脂糖凝胶电泳,可选取浓度为:琼脂糖凝胶中琼脂糖浓度为2.5%)、或者为聚丙烯酰胺凝胶电泳(PAGE)。Step 6: Perform gel electrophoresis on the PCR reaction product. Specifically, perform gel electrophoresis on the PCR reaction product. In this embodiment, the gel electrophoresis may be agarose gel electrophoresis, and the concentration may be selected as: The agarose gel has an agarose concentration of 2.5%) or polyacrylamide gel electrophoresis (PAGE).
步骤7:,利用染色剂对电泳后的凝胶进行染色,并使用凝胶成像仪对染色后的凝胶进行荧光分析;具体地,利用染色剂对电泳后的凝胶进行染色,作为优选的实施方式,所述染色剂可选择如溴化乙锭(EB)、SYBR Green I、GelRed或GoldView染色剂,并使用凝胶成像仪对染色后的凝胶进行荧光分析,并通过凝胶成像仪读取染色凝胶中的荧光色带。Step 7: Stain the gel after electrophoresis using a staining agent, and perform fluorescence analysis on the gel after staining using a gel imager; specifically, stain the gel after electrophoresis by using a staining agent as the preferred In an embodiment, the staining agent can be selected from ethidium bromide (EB), SYBR Green I, GelRed or GoldView staining agent, and a gel imager is used to perform fluorescence analysis on the stained gel and pass the gel imager. Read the fluorescent band in the stained gel.
步骤8:,判断凝胶中是否出现3条或3条以上的荧光色带;在本实施例中,凝胶成像仪是否从染色凝胶读取到3条或3条以上的荧光色带,其中,1条荧光色带为参照标志物β-ACTIN的PCR反应条带,其它荧光色带为突变基因标志物的PCR反应条带。Step 8: Determine whether three or more fluorescent color bands appear in the gel; in this embodiment, whether the gel imager reads three or more fluorescent color bands from the dyed gel, Among them, one fluorescent band is the PCR reaction band of the reference marker β-ACTIN, and the other fluorescent band is the PCR reaction band of the mutant gene marker.
步骤9:如果凝胶中出现3条或3条以上的荧光色带,凝胶成像仪则判定待测血液样品中包含非小细胞肺癌的基因突变DNA片段。Step 9: If three or more fluorescent color bands appear in the gel, the gel imager determines that the blood sample to be tested contains a non-small cell lung cancer gene mutation DNA fragment.
步骤10:如果凝胶中出现2条或者1条荧光色带,凝胶成像仪则判定待测血液样品中没有包含非小细胞肺癌的基因突变DNA片段。Step 10: If there are 2 or 1 fluorescent bands in the gel, the gel imager determines that the blood sample to be tested does not contain a mutant DNA fragment of a non-small cell lung cancer gene.
步骤11:如果凝胶中没有出现任何荧光色带,凝胶成像仪则判定肺癌特性甲基化检测过程中ctDNA转化和PCR反应失效,不能够验证待测血液样品中是否包含非小细胞肺癌的基因突变DNA片段。因此,本实施例将参照标志物β-ACTIN正向引物和反向引物加入至PCR反应体系中,主要是为了验证ctDNA转化和PCR反应过程是否正确,以确保非小细胞肺癌检测的准确性。Step 11: If there is no fluorescent band in the gel, the gel imager determines that the ctDNA conversion and PCR reaction are invalid during the methylation detection of lung cancer characteristics. It is not possible to verify whether the blood sample to be tested contains non-small cell lung cancer. Gene mutation DNA fragment. Therefore, in this embodiment, the reference marker β-ACTIN forward primer and reverse primer are added to the PCR reaction system, mainly to verify whether the ctDNA conversion and the PCR reaction process are correct to ensure the accuracy of the detection of non-small cell lung cancer.
使用本发明所述的引物对和试剂盒能够在一次PCR反应检测同时检测多个非小细胞肺癌甲基化标志物的存在,提高了肺癌检测的准确性、特异性和敏感性。使用本发明所述的引物对和试剂盒广泛应用于检测非小细胞肺癌基因甲基化情况,解决了一次甲基化特异性PCR反应只能检测单个基因的甲基化水平而无法准确预测肺癌发生的可能性,以及因非小细胞肺癌抑癌基因的不确定性及ctDNA的局限性,导致单一非小细胞肺癌甲基化标志物检测无法满足临床需求的问题。By using the primer pair and the kit of the present invention, the presence of multiple non-small cell lung cancer methylation markers can be detected simultaneously in one PCR reaction detection, which improves the accuracy, specificity, and sensitivity of lung cancer detection. The primer pair and the kit of the invention are widely used for detecting methylation of non-small cell lung cancer genes, and solve a methylation-specific PCR reaction that can only detect the methylation level of a single gene and cannot accurately predict lung cancer. The possibility of occurrence, and the uncertainty of non-small cell lung cancer tumor suppressor genes and the limitations of ctDNA lead to the problem that single non-small cell lung cancer methylation marker detection cannot meet the clinical needs.
以上仅为本发明的优选实施例,并非因此限制本发明的专利范围,凡是利用本发明说明书及附图内容所作的等效结构或等效流程变换,或直接或间接运用在其他相关的技术领域,均同理包括在本发明的专利保护范围内。The above are only preferred embodiments of the present invention, and thus do not limit the patent scope of the present invention. Any equivalent structure or equivalent process transformation made by using the description and drawings of the present invention, or directly or indirectly used in other related technical fields All are included in the patent protection scope of the present invention.
相较于现有技术,本发明所述用于检测非小细胞肺癌多重基因甲基化的引物对及试剂盒采用上述技术方案,取得如下技术效果:能够在一次PCR反应检测同时检测多个非小细胞肺癌甲基化标志物的存在,提高了非小细胞肺癌检测的准确性、特异性和敏感性。使用本发明所述引物对和试剂盒对非小细胞肺癌多重基因甲基化进行检测,能够解决一次甲基化特异性PCR反应只能检测单个基因的甲基化水平而无法准确预测肺癌发生的可能性,以及因非小细胞肺癌抑癌基因的不确定性及ctDNA的局限性导致单一非小细胞肺癌甲基化标志物检测无法满足临床需求的问题。Compared with the prior art, the primer pair and kit for detecting multiple gene methylation of non-small cell lung cancer according to the present invention adopt the above technical scheme, and achieve the following technical effects: multiple non-small cell lung cancers can be detected simultaneously in one PCR reaction The presence of methylation markers in small cell lung cancer improves the accuracy, specificity, and sensitivity of non-small cell lung cancer detection. Detection of multiple gene methylation in non-small cell lung cancer by using the primer pair and the kit according to the present invention can solve a methylation-specific PCR reaction that can only detect the methylation level of a single gene and cannot accurately predict the occurrence of lung cancer. Possibility, and the uncertainty of non-small cell lung cancer tumor suppressor genes and the limitation of ctDNA lead to the problem that single non-small cell lung cancer methylation marker detection cannot meet clinical needs.
<110>
深圳市圣必智科技开发有限公司<110>
Shenzhen Shengbizhi Technology Development Co., Ltd.
<120>
用于检测非小细胞肺癌多重基因甲基化的引物对及试剂盒<120>
Primer pair and kit for detecting multiple gene methylation of non-small cell lung cancer
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2018<130>
2018
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14 <160>
14
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PatentIn version 3.5<170>
PatentIn version 3.5
Zh
<210>
1<210>
1
<211>
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twenty two
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1<400>
1
CGGAATTTTT
TCGATTTATA
GC
22CGGAATTTTT
TCGATTTATA
GC: The following is the case:
twenty two
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2<210>
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AAAACCC TAT
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22AAAACCC TAT
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21<211>
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GATTAAGCGA
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AAAATATACC
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Claims (8)
- 一种用于检测非小细胞肺癌多重基因甲基化的引物对,其特征在于,包括以6个基因作为非小细胞肺癌的甲基化标志物对应的6组引物序列,所述甲基化标志物为分别为:CALCA、DLEC1、HOXA9、TBX5、PITX2、RASSF1a,所述6组引物序列具体表示如下:A primer pair for detecting multiple gene methylation of non-small cell lung cancer, characterized in that it comprises 6 sets of primer sequences corresponding to 6 genes as methylation markers of non-small cell lung cancer, the methylation The markers are: CALCA, DLEC1, HOXA9, TBX5, PITX2, RASSF1a, and the six sets of primer sequences are specifically expressed as follows:CALCA正向引物:5’-CGGAATTTTTTCGATTTATAGC-3’;CALCA forward primer: 5'-CGGAATTTTTTCGATTTATAGC-3 ';CALCA反向引物:5’-AAAACCCTATAAAAACGACGAC-3’;CALCA reverse primer: 5'-AAAACCCTATAAAAACGACGAC-3 ';DLEC1正向引物:5’-GATTAAGCGATGACGGGATTC-3’;DLEC1 forward primer: 5'-GATTAAGCGATGACGGGATTC-3 ';DLEC1反向引物:5’-ACCCGACTAATAACGAAATTAACG-3’;DLEC1 reverse primer: 5'-ACCCGACTAATAACGAAATTAACG-3 ';HOXA9正向引物:5’-GGTTAATGGGGGCGCGGGCGTC-3’;HOXA9 forward primer: 5'-GGTTAATGGGGGCGCGGGCGTC-3 ';HOXA9反向引物:5’-TCATATAACAACTTAATAACACCG-3’;HOXA9 reverse primer: 5'-TCATATAACAACTTAATAACACCG-3 ';TBX5正向引物:5’-GGGACGCGTAAAATTTAGAATC-3’;TBX5 forward primer: 5'-GGGACGCGTAAAATTTAGAATC-3 ';TBX5反向引物:5’-AACACAAAACCGAAAAACGTC-3’;TBX5 reverse primer: 5'-AACACAAAACCGAAAAACGTC-3 ';PITX2正向引物:5’-CGTTATTAGTTGAAGGTAAGGTCG-3’;PITX2 forward primer: 5'-CGTTATTAGTTGAAGGTAAGGTCG-3 ';PITX2反向引物:5’-AACACCGAAAAATACAATCCG-3’;PITX2 reverse primer: 5'-AACACCGAAAAATACAATCCG-3 ';RASSF1a正向引物:5’-GTGTTAACGCGTTGCGTATC-3’;RASSF1a forward primer: 5'-GTGTTAACGCGTTGCGTATC-3 ';RASSF1a反向引物:5’-AACCCCGCGAACTAAAAACGA-3’。RASSF1a reverse primer: 5'-AACCCCGCGAACTAAAAACGA-3 '.
- 如权利要求1所述的用于检测非小细胞肺癌多重基因甲基化的引物对,其特征在于,还包括1个参照标志物β-ACTIN对应的1组引物序列,具体表示如下:The primer pair for detecting multiple gene methylation of non-small cell lung cancer according to claim 1, further comprising a set of primer sequences corresponding to a reference marker β-ACTIN, which are specifically expressed as follows:β-ACTIN正向引物:5’-TTTTTAGGGAGGAGT TGGAAGTAGT-3’;β-ACTIN forward primer: 5’-TTTTTAGGGAGGAGT TGGAAGTAGT-3 ’;β-ACTIN反向引物:5’-AAAATATACC CTCCCCCATA CC-3’。β-ACTIN reverse primer: 5'-AAAATATACC CTCCCCCATA CC-3 '.
- 权利要求1或2所述的用于检测非小细胞肺癌多重基因甲基化的引物对在制备非小细胞肺癌检测试剂中的应用。The use of the primer pair for detecting multiple gene methylation of non-small cell lung cancer according to claim 1 or 2 in the preparation of a reagent for detecting non-small cell lung cancer.
- 一种用于检测非小细胞肺癌多重基因甲基化的试剂盒,其特征在于,包括含有如权利要求1所述的引物对以及PCR反应体系,其中:A kit for detecting multiple gene methylation of non-small cell lung cancer, comprising a primer pair according to claim 1 and a PCR reaction system, wherein:所述PCR反应体系包括1.8×PCR溶液、5mM的MgCl 2、0.3nM的脱氧核糖核苷三磷酸以及2.5个单元的DNA聚合酶; The PCR reaction system includes a 1.8 × PCR solution, 5 mM MgCl 2 , 0.3 nM deoxyribonucleoside triphosphate, and 2.5 units of DNA polymerase;所述引物对的浓度分别为40nM的CALCA正向引物、40nM的CALCA反向引物、40nM的DLEC1正向引物、40nM的DLEC1反向引物、120nM的HOXA9正向引物、120nM的HOXA9反向引物、20nM的PITX2正向引物、20nM的PITX2反向引物、20nM的TBX5正向引物、20nM的TBX5反向引物、280nM的RASSF1a正向引物、280nM的RASSF1a反向引物。The concentrations of the primer pairs are 40 nM CALCA forward primer, 40 nM CALCA reverse primer, 40 nM DLEC1 forward primer, 40 nM DLEC1 reverse primer, 120 nM HOXA9 forward primer, 120 nM HOXA9 reverse primer, 20nM PITX2 forward primer, 20nM PITX2 reverse primer, 20nM TBX5 forward primer, 20nM TBX5 reverse primer, 280nM RASSF1a forward primer, 280nM RASSF1a reverse primer.
- 如权利要求4所述的用于检测非小细胞肺癌多重基因甲基化的试剂盒,其特征在于,所述DNA聚合酶为Taq Platinum DNA聚合酶。The kit for detecting multiple gene methylation of non-small cell lung cancer according to claim 4, wherein the DNA polymerase is Taq Platinum DNA polymerase.
- 一种用于检测非小细胞肺癌多重基因甲基化的试剂盒,其特征在于,包括含有如权利要求2所述的引物对以及PCR反应体系,其中:A kit for detecting multiple gene methylation of non-small cell lung cancer, comprising a primer pair according to claim 2 and a PCR reaction system, wherein:所述PCR反应体系包括1.8×PCR溶液、5mM的MgCl2、0.3nM的脱氧核糖核苷三磷酸以及2.5个单元的DNADNA聚合酶;The PCR reaction system includes a 1.8 × PCR solution, 5mM MgCl2, 0.3nM deoxyribonucleoside triphosphate, and 2.5 units of DNADNA polymerase;所述引物对的浓度分别为40nM的CALCA正向引物、40nM的CALCA反向引物、40nM的DLEC1正向引物、40nM的DLEC1反向引物、120nM的HOXA9正向引物、120nM的HOXA9反向引物、20nM的PITX2正向引物、20nM的PITX2反向引物、20nM的TBX5正向引物、20nM的TBX5反向引物、280nM的RASSF1a正向引物、280nM的RASSF1a反向引物、10nM的β-ACTIN正向引物、10nM的β-ACTIN反向引物。The concentrations of the primer pairs are 40 nM CALCA forward primer, 40 nM CALCA reverse primer, 40 nM DLEC1 forward primer, 40 nM DLEC1 reverse primer, 120 nM HOXA9 forward primer, 120 nM HOXA9 reverse primer, 20nM PITX2 forward primer, 20nM PITX2 reverse primer, 20nM TBX5 forward primer, 20nM TBX5 reverse primer, 280nM RASSF1a forward primer, 280nM RASSF1a reverse primer, 10nM β-ACTIN forward primer 10nM β-ACTIN reverse primer.
- 如权利要求6所述的用于检测非小细胞肺癌多重基因甲基化的试剂盒,其特征在于,所述DNA聚合酶为Taq Platinum DNA聚合酶。The kit for detecting multiple gene methylation of non-small cell lung cancer according to claim 6, wherein the DNA polymerase is Taq Platinum DNA polymerase.
- 权利要求4至7任一项所述的用于检测非小细胞肺癌多重基因甲基化的试剂盒在检测非小细胞肺癌多重基因甲基化标志物中的应用。Application of the kit for detecting multiple gene methylation of non-small cell lung cancer according to any one of claims 4 to 7 in detecting a multiple gene methylation marker of non-small cell lung cancer.
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