A kind of test kit that detects inheritance gene restoring capability
Technical field
The present invention relates to molecular biology and medical field, more specifically, the present invention relates to a kind of test kit that detects idiogenetics gene repair ability, assess idiogenetics gene repair ability by detecting simultaneously with the closely-related poly ADP of inheritance gene restoring capability ribose transferase gene (PARP1), the staggered complementary mononucleotide polymorphism site genotype of repairing gene 1 (XRCC1), excision repairing composite 2 genes (ERCC2) of human X ray.
Background technology
In the process that genomic nucleic acids duplicates, have complicated mechanism in the cell and guarantee that genetic information is by correct duplicating, because the hereditary conservation of DNA is to keep the metastable principal element of species.But, under the multiple factor affecting of external environment, also dna damage can appear in vivo, also claim dna mutation.Most damages are repaired by a whole set of highly effective repair system in the body, and some damage then can cause the irreversible lesion of body, cell aging, death occur or form tumour etc.
Can cause dna damage by multiple factor, as ultraviolet ray, ionizing rays, alkylating agent etc.The form of repairing also is various.Some dna damage can directly be repaired; Excision reparation is common repair mode; Recombinational repair is a dna damage repair mode more for a long time; It is the emergent repair mode of dna damage when serious that SOS repairs; Cell cycle check point control is the main mechanism that eukaryote is induced reparation.
Because the difference of inherited genetic factors, each individuality is for the repair ability of gene damage also difference to some extent, and this species diversity can have influence on body to many diseases, especially the susceptibility of cancer.
At present, verified and mechanism research clearly has poly ADP ribose transferase gene (PARP1), staggered complementary 1 gene (XRCC1), excision repairing composite 2 genes (ERCC2) etc. repaired of human X ray with the closely-related gene of gene damage repair ability.
PARP1 full name poly (ADP-ribose) polymerase family, member 1, and poly ADP ribose transferring enzyme is abbreviated as ADPRT again, is positioned at number one karyomit(e) 1q41-q42 position.Full length gene 47.3kb, mRNA total length 3861bp has 23 exons, and this mutational site is positioned at the 17th exon.PARP1 coding poly ADP ribose transferring enzyme.This kind of enzyme is revised multiple nucleoprotein by poly-ADP ribosylation reaction.This correction for example participates in multiple important cellular activity based on DNA: differentiation, propagation, metastases etc.Also participate in simultaneously the activity of molecular level, for example DNA plerosis damaged cells or the like.PARP1 is a kind of high abundance nucleoprotein, and human PARP1 has three protein structure domains, comprising a DNA calmodulin binding domain CaM.When DNA was impaired, PARP1 was attached to the DNA splitting of chain at once, revised the proteic attribute of various participation DNA repair by covalent effect, simultaneously by ribosylation to oneself, break away from the DNA chain, allow other dna repair proteins combine, repair with DNA splitting of chain point.Impaired when too serious as DNA, PARP1 can play the effect that consumes NAD (nicotinamide adeninedinucleotide) and ATP in the cell, rests on DNA splitting of chain place simultaneously, stops other dna repair proteins to be repaired, startup necrocytosis path.This that is to say that under the impaired too serious situation of certain cell DNA, PARP1 can also play the effect that causes necrocytosis, thereby avoids impaired DNA to continue to be replicated.Other has studies confirm that of other, and PARP1 can combine with DNA transcripting starting factor S PA1, and by this approach, it can suppress the carrying out of transcribing, and then the transcribing of regulatory gene, and can cause to transfer under not reparation situation of DNA and die.Rs1136410 is that to be positioned on the number one karyomit(e) C/T on the PARP1 gene polymorphic, the 762nd amino acid of albumen that causes the PARP1 genes encoding becomes Ala by Val, studies show that at present this amino acid replacement can directly cause the active reduction of ADPRT enzyme, and then have influence on the gene damage repair ability of body.
Staggered complementary 1 gene of repairing of human X ray, XRCC1 gene full name X-ray repair cross--complementing gene 1 is positioned at karyomit(e) 1q13.2-13.3 position No. 19.Full length gene 32.3kb, mRNA total length 2087bp has 17 exons, 634 the amino acid whose albumen of encoding.The XRCC1 encoded protein can play the effective for repairing effect to the dna single splitting of chain that causes because of ionizing rays and alkylide.XRCC1 encoded protein and dna ligase III, polymerase beta, poly ADP ribose transferring enzyme interaction, (Base Excision Repair, BER) path are repaired in the base excision that participates in DNA.Numerous studies show that, the polymorphism in site, XRCC1 gene top has confidential relation with cancer.Rs1799782 is that to be positioned at No. 19 C/T on the chromosome x RCC1 gene polymorphic, causes that the 194th amino acid of albumen of XRCC1 genes encoding becomes Trp by Arg, may cause that XRCC1 is active to reduce, and causes the DNA of individual repair ability to descend.Rs25487 is that to be positioned at No. 19 G/A on the chromosome x RCC1 gene polymorphic, causes that the 399th amino acid of albumen of XRCC1 genes encoding becomes Gln by Arg.Arg399Gln is positioned at exon No. 10, XRCC1 protein B CRT I zone.The Gln amino acid of mutant may be able to be strengthened the binding ability of XRCC1 albumen and DNA-carcinogens adducts, thus the individual tumor susceptibility of influence.
Excision repairing composite 2 genes (ERCC2) are positioned at karyomit(e) 19q13.3 position No. 13, have 23 exons.Full length gene 19.0kb, mRNA total length 2355bp, coding contains 761 amino acid whose albumen.It is that several dna damages are repaired one of path that nucleotide excision is repaired path.Participate in transcribing the reparation of link coupled nucleotide excision by the ERCC2 encoded protein, and be the moiety of basic transcription factor mixture BTF2/TFIIH.This albumen has the dependent DNA of the ATP activity of untwisting, and belongs to RAD3/XPD helicase subfamily.The disease that the sudden change of ERCC2 gene or inactivation may cause comprises: cancer, xeroderma pitmentosum, hair malnutrition, Ke Kaiyin syndrome etc.The ERCC2 path of main participation in vivo is NER (Nucleotide Excision Repair) path.Rs13181 is that to be positioned at the G/T of No. 23 exon section Lys751Gln of No. 19 karyomit(e) ERCC2 gene polymorphic.Frequency among the world crowd is about G: T=0.202: 0.798, and heterozygosity 0.322.Present multinomial studies show that, the amino acid replacement of Lys751Gln is positioned at ERCC2 PROTEIN C-terminal part, and the polymorphism in this site is relevant with diseases such as lung cancer, bladder cancer, mammary cancer, skin carcinomas.Rs1799793 is that to be positioned at the G/A of No. 10 exon section Asp312Asn of No. 19 karyomit(e) ERCC2 gene polymorphic.Frequency among the world crowd is about G: A=0.778: 0.222.Present multinomial studies show that, the performance that the polymorphic meeting in this site causes ERCC2 to participate in the transcription factor complex of formation weakens, thereby make the ability drop that dna damage is repaired, the ability of transcription factor also descends simultaneously, cause a series of such as lung cancer, the generation of diseases such as prostate cancer.
Summary of the invention
Can be used to assess on the basis of idiogenetics resistance of oxidation based on poly ADP ribose transferase gene (PARP1), staggered complementary 5 the SNPs loci polymorphisms repairing on 1 gene (XRCC1), excision repairing composite 2 genes (ERCC2) of human X ray, the invention provides a kind of test kit that detects idiogenetics gene repair ability.
This test kit comprises:
The genotypic Auele Specific Primer of rs1136410 SNP polymorphism is right to reaching the specificity fluorescent probe on the detection poly ADP ribose transferase gene;
Detect human X ray staggered complementary repair on 1 gene genotypic Auele Specific Primer of rs1799782 SNP polymorphism to and the specificity fluorescent probe right;
Detect human X ray staggered complementary repair on 1 gene genotypic Auele Specific Primer of rs25487 SNP polymorphism to and the specificity fluorescent probe right;
The genotypic Auele Specific Primer of rs1799793 SNP polymorphism is right to reaching the specificity fluorescent probe on detection excision repairing composite 2 genes;
The genotypic Auele Specific Primer of rs13181 SNP polymorphism is right to reaching the specificity fluorescent probe on detection excision repairing composite 2 genes;
The quantitative fluorescent PCR reaction component (comprises Taq enzyme, dNTP mixed solution, MgCl
2Solution, reaction buffer, deionized water etc.).
Auele Specific Primer described in this test kit to be meant at rs1136410 SNP site on the poly ADP ribose transferase gene, human X ray staggered complementary repair on 1 gene rs1799782 number and rs25487 SNP site, excision repairing composite 2 genes on rs1799793 number and rs13181 SNP site and design, the primer of dna fragmentation that can specific amplification goes out to comprise these 5 SNPs sites is right.Design this class primer to being that those skilled in the art can be unlabored.Preferably, comprise in the test kit have SEQ ID NO:1 and 2, the primer of sequence shown in 3 and 4,5 and 6,7 and 8,9 and 10 is right.Auele Specific Primer synthesizes the synthetic technology of available routine.Those skilled in the art will appreciate that primer of the present invention is not limited to this five pairs of primers.
Specificity fluorescent probe described in this test kit to be meant at rs1136410 SNP site on the poly ADP ribose transferase gene, human X ray staggered complementary repair on 1 gene rs1799782 number and rs25487 SNP site, excision repairing composite 2 genes on rs1799793 number and rs13181 SNP site and design, it is right to go out the Taqman probe of these five SNPs loci gene types by the fluorescent quantitative PCR technique specific detection.Designing this class probe is that those skilled in the art can be unlabored.Preferably, comprise in the test kit have SEQ ID NO:11 and 12, the Taqman probe of sequence shown in 13 and 14,15 and 16,17 and 18,19 and 20 is right.The specificity fluorescent probe synthesizes the probe synthetic technology of available routine.Those skilled in the art can understand, specificity fluorescent Taqman probe of the present invention is to being not limited to this five pairs of probes, and all can be used for probe that fluorescence quantitative PCR method detects five SNPs sites that are used for assessing inheritance gene restoring capability described in the present invention all within the scope of the present invention.
The component and the content of test kit of the present invention comprise:
5 μ l 10X quantitative fluorescent PCR reaction buffers,
0.5 μ l 25mM dNTP mixed solution,
3 μ l 25mM MgCl
2Solution,
0.125 μ l (5units/ μ l) Taq archaeal dna polymerase,
20 μ M Auele Specific Primers are to each 0.225 μ l of every primer,
10 μ M specificity fluorescent probes are to each 0.25 μ l of every probe,
Deionized water 26.625 μ l.
This test kit detects for a person-portion and uses, and the storage temperature of test kit is-20 ℃.
Embodiment
Below in conjunction with specific embodiment, further set forth the present invention.The experimental technique of unreceipted actual conditions in the following example, usually according to normal condition, or the condition of advising according to manufacturer.
The use of embodiment 1. detection kit
The extraction of step 1:DNA template
Genomic dna with silica gel adsorption extracting mouth epithelial cells.
Step 2: quantitative fluorescent PCR reaction
Use the fluorescent quantificationally PCR detecting kit that detects idiogenetics gene repair ability, wherein, contain following primer right with fluorescent probe:
Adopted primer 1:5 '-TTTGCCATTCACTGTGTTGG-3 ' (SEQ ID NO:1) is arranged
Antisense primer 1:5 '-ATCCTTGCTGCTATCATCA-3 ' (SEQ ID NO:2)
Adopted primer 2: 5 '-TTAGAAGGTGACAGTGACCA-3 ' (SEQ ID NO:3) is arranged
Antisense primer 2:5 '-TCTCAACCCTACTCACTCA-3 ' (SEQ ID NO:4)
Adopted primer 3:5 '-TAACTGGCATCTTCACTTCT-3 ' (SEQ ID NO:5) is arranged
Antisense primer 3:5 '-TCCAGATTCCTGGCATTGC-3 ' (SEQ ID NO:6)
Adopted primer 4:5 '-ATCAAAGAGACAGACGAGCA-3 ' (SEQ ID NO:7) is arranged
Antisense primer 4:5 '-TCAGGAAGCCCAGGAAAT-3 ' (SEQ ID NO:8)
Adopted primer 5:5 '-ACTCAGGAGTCACCAGGAA-3 ' (SEQ ID NO:9) is arranged
Antisense primer 5:5 '-TCTGTTCTCTGCAGGAGGA-3 ' (SEQ ID NO:10)
Band VIC fluorophor probe 1:5 '-CgAGGCGGAAA-3 ' (SEQ ID NO:11)
Band FAM fluorophor probe 1:5 '-CCaAGGCGGAAA-3 ' (SEQ ID NO:12)
Band VIC fluorophor probe 2:5 '-CTTCAGCtGGATC-3 ' (SEQ ID NO:13)
Band FAM fluorophor probe 2:5 '-TCTTCAGCcGGAT-3 ' (SEQ ID NO:14)
Band VIC fluorophor probe 3:5 '-GCCCTCCCgGAG-3 ' (SEQ ID NO:15)
Band FAM fluorophor probe 3:5 '-TGCCCTCCCaGAG-3 ' (SEQ ID NO:16)
Band VIC fluorophor probe 4:5 '-CCgACGAAGTG-3 ' (SEQ ID NO:17)
Band FAM fluorophor probe 4:5 '-CCaACGAAGTG-3 ' (SEQ ID NO:18)
Band VIC fluorophor probe 5:5 '-TATCCTCTgCAGC-3 ' (SEQ ID NO:19)
Band FAM fluorophor probe 5:5 '-TATCCTCTtCAGC-3 ' (SEQ ID NO:20)
Adopted primer 1 is arranged, and antisense primer 1, band VIC fluorophor probe 1, band FAM fluorophor probe 1 are specifically at detecting rs1136410 SNP loci polymorphism on the poly ADP ribose transferase gene;
Adopted primer 2 is arranged, and antisense primer 2, band VIC fluorophor probe 2, band FAM fluorophor probe 2 are specifically at detecting the staggered complementary rs1799782 SNP loci polymorphism on 1 gene of repairing of human X ray;
Adopted primer 3 is arranged, and antisense primer 3, band VIC fluorophor probe 3, band FAM fluorophor probe 3 are specifically at detecting the staggered complementary rs25487 SNP loci polymorphism on 1 gene of repairing of human X ray;
Adopted primer 4 is arranged, and antisense primer 4, band VIC fluorophor probe 4, band FAM fluorophor probe 4 are specifically at detecting rs1799793 SNP loci polymorphism on excision repairing composite 2 genes;
Adopted primer 5 is arranged, and antisense primer 5, band VIC fluorophor probe 5, band FAM fluorophor probe 5 are specifically at detecting rs13181 SNP loci polymorphism on excision repairing composite 2 genes;
5 independently quantitative fluorescent PCR reactions are carried out in 5 SNPs sites respectively, the system of each reaction is cumulative volume 10 μ l, and comprising concentration is dna profiling 2 μ l, 1 μ l 10X quantitative fluorescent PCR reaction buffer, 0.1 μ l 25mM dNTP mixed solution, the 0.6 μ l 25mM MgCl of 20ng/ μ l
2The band VIC fluorescent probe that adopted primer and antisense primer each 0.225 μ l, 10 μ M are arranged of solution, 0.025 μ l (5units/ μ l) Taq archaeal dna polymerase, 20 μ M and each 0.25 μ l of band FAM fluorescent probe, deionized water 5.325 μ l.
React on ABI9700 type pcr amplification instrument, reaction conditions is 50 ℃, 2 minutes, 95 ℃, 10 minutes, carries out 95 ℃ of 60 round-robin, 30 seconds, 60 ℃, 1 minute.Reaction finishes the back and read the fluorescent amount on ABI7900 type quantitative real time PCR Instrument.
Step 3:SNP gene type assay
The those skilled in the art that are familiar with fluorescent quantitative PCR technique can be by the final sample fluorescence volume that shows on the identification quantitative real time PCR Instrument, can determine the genotype in the SNP site detected according to the power of different sequence probe VIC and FAM fluorescent signal.
2. couples of people of embodiment carry out the service that idiogenetics gene repair ability detects
Step 1:DNA extracts
Instructing the examinee to use the oral cavity sampling to wipe away by the hospital laboratory doctor carries out the mouth epithelial cells sampling, adopts silica gel adsorption to carry out the DNA extracting of mouth epithelial cells.
Step 2: genotype tests
Use test kit provided by the invention, to rs1136410 SNP site on the poly ADP ribose transferase gene of detected person's genomic dna, human X ray staggered complementary repair on 1 gene rs1799782 number and rs25487 SNP site, excision repairing composite 2 genes on rs1799793 number and rs13181 SNP site carry out fluorescence quantitative PCR detection respectively, determine the genotype in these five SNPs sites.
Step 3: the analysis of idiogenetics gene repair ability
By to the genotypic analysis of detected person SNPs, provide the analysis report list of idiogenetics gene repair ability.The merchant who describes detected person's inheritance gene restoring capability in the report in detail is low, and describes and understand idiogenetics gene repair capability analysis report by the doctor in detail to the examinee.
Sequence table
<110〉Shanghai Zhujian Biological Engineering Co., Ltd
<120〉a kind of test kit that detects idiogenetics gene repair ability
<160>20
<210>1
<211>20
<212>DNA
<213〉artificial sequence
<220>
<223〉primer
<400>1
TTTGCCATTC?ACTGTGTTGG 20
<210>2
<211>19
<212>DNA
<213〉artificial sequence
<220>
<223〉primer
<400>2
ATCCTTGCTG?CTATCATCA 19
<210>3
<211>20
<212>DNA
<213〉artificial sequence
<220>
<223〉primer
<400>3
TTAGAAGGTG?ACAGTGACCA 20
<210>4
<211>19
<212>DNA
<213〉artificial sequence
<220>
<223〉primer
<400>4
TCTCAACCCT?ACTCACTCA 19
<210>5
<211>20
<212>DNA
<213〉artificial sequence
<220>
<223〉primer
<400>5
TAACTGGCAT?CTTCACTTCT 20
<210>6
<211>19
<212>DNA
<213〉artificial sequence
<220>
<223〉primer
<400>6
TCCAGATTCC?TGGCATTGC 19
<210>7
<211>20
<212>DNA
<213〉artificial sequence
<220>
<223〉primer
<400>7
ATCAAAGAGA?CAGACGAGCA 20
<210>8
<211>18
<212>DNA
<213〉artificial sequence
<220>
<223〉primer
<400>8
TCAGGAAGCC?CAGGAAAT 18
<210>9
<211>19
<212>DNA
<213〉artificial sequence
<220>
<223〉primer
<400>9
ACTCAGGAGT?CACCAGGAA 19
<210>10
<211>19
<212>DNA
<213〉artificial sequence
<220>
<223〉primer
<400>10
TCTGTTCTCT?GCAGGAGGA 19
<210>11
<211>11
<212>DNA
<213〉artificial sequence
<220>
<223〉probe
<400>11
CgAGGCGGAA?A 11
<210>12
<211>12
<212>DNA
<213〉artificial sequence
<220>
<223〉probe
<400>12
CCaAGGCGGA?AA 12
<210>13
<211>13
<212>DNA
<213〉artificial sequence
<220>
<223〉probe
<400>13
CTTCAGCtGG?ATC 13
<210>14
<211>13
<212>DNA
<213〉artificial sequence
<220>
<223〉probe
<400>14
TCTTCAGCcG?GAT 13
<210>15
<211>12
<212>DNA
<213〉artificial sequence
<220>
<223〉probe
<400>15
GCCCTCCCgG?AG 12
<210>16
<211>13
<212>DNA
<213〉artificial sequence
<220>
<223〉probe
<400>16
TGCCCTCCCa?GAG 13
<210>17
<211>11
<212>DNA
<213〉artificial sequence
<220>
<223〉probe
<400>17
CCgACGAAGT?G 11
<210>18
<211>11
<212>DNA
<213〉artificial sequence
<220>
<223〉probe
<400>18
CCaACGAAGT?G 11
<210>19
<211>13
<212>DNA
<213〉artificial sequence
<220>
<223〉probe
<400>19
TATCCTCTgC?AGC 13
<210>20
<211>13
<212>DNA
<213〉artificial sequence
<220>
<223〉probe
<400>20
TATCCTCTtC?AGC 13