CN118256595A - Probe and marker combination and method for determining ASO by using same - Google Patents
Probe and marker combination and method for determining ASO by using same Download PDFInfo
- Publication number
- CN118256595A CN118256595A CN202211691964.6A CN202211691964A CN118256595A CN 118256595 A CN118256595 A CN 118256595A CN 202211691964 A CN202211691964 A CN 202211691964A CN 118256595 A CN118256595 A CN 118256595A
- Authority
- CN
- China
- Prior art keywords
- probe
- hybridization
- label
- detection
- oligonucleotide
- Prior art date
- Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
- Pending
Links
- 239000000523 sample Substances 0.000 title claims abstract description 118
- 238000000034 method Methods 0.000 title claims abstract description 45
- 239000003550 marker Substances 0.000 title claims abstract description 9
- 108091034117 Oligonucleotide Proteins 0.000 claims abstract description 66
- 238000001514 detection method Methods 0.000 claims abstract description 34
- 239000000463 material Substances 0.000 claims abstract description 17
- 238000012986 modification Methods 0.000 claims abstract description 17
- 230000004048 modification Effects 0.000 claims abstract description 17
- 239000007790 solid phase Substances 0.000 claims abstract description 16
- JLCPHMBAVCMARE-UHFFFAOYSA-N [3-[[3-[[3-[[3-[[3-[[3-[[3-[[3-[[3-[[3-[[3-[[5-(2-amino-6-oxo-1H-purin-9-yl)-3-[[3-[[3-[[3-[[3-[[3-[[5-(2-amino-6-oxo-1H-purin-9-yl)-3-[[5-(2-amino-6-oxo-1H-purin-9-yl)-3-hydroxyoxolan-2-yl]methoxy-hydroxyphosphoryl]oxyoxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(5-methyl-2,4-dioxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxyoxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(5-methyl-2,4-dioxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(5-methyl-2,4-dioxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(5-methyl-2,4-dioxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methyl [5-(6-aminopurin-9-yl)-2-(hydroxymethyl)oxolan-3-yl] hydrogen phosphate Polymers Cc1cn(C2CC(OP(O)(=O)OCC3OC(CC3OP(O)(=O)OCC3OC(CC3O)n3cnc4c3nc(N)[nH]c4=O)n3cnc4c3nc(N)[nH]c4=O)C(COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3CO)n3cnc4c(N)ncnc34)n3ccc(N)nc3=O)n3cnc4c(N)ncnc34)n3ccc(N)nc3=O)n3ccc(N)nc3=O)n3ccc(N)nc3=O)n3cnc4c(N)ncnc34)n3cnc4c(N)ncnc34)n3cc(C)c(=O)[nH]c3=O)n3cc(C)c(=O)[nH]c3=O)n3ccc(N)nc3=O)n3cc(C)c(=O)[nH]c3=O)n3cnc4c3nc(N)[nH]c4=O)n3cnc4c(N)ncnc34)n3cnc4c(N)ncnc34)n3cnc4c(N)ncnc34)n3cnc4c(N)ncnc34)O2)c(=O)[nH]c1=O JLCPHMBAVCMARE-UHFFFAOYSA-N 0.000 claims abstract description 13
- 238000011002 quantification Methods 0.000 claims abstract description 3
- 238000009396 hybridization Methods 0.000 claims description 52
- 239000000074 antisense oligonucleotide Substances 0.000 claims description 26
- 238000012230 antisense oligonucleotides Methods 0.000 claims description 26
- 229960005156 digoxin Drugs 0.000 claims description 19
- 238000002360 preparation method Methods 0.000 claims description 16
- 238000006243 chemical reaction Methods 0.000 claims description 13
- YBJHBAHKTGYVGT-ZKWXMUAHSA-N (+)-Biotin Chemical compound N1C(=O)N[C@@H]2[C@H](CCCCC(=O)O)SC[C@@H]21 YBJHBAHKTGYVGT-ZKWXMUAHSA-N 0.000 claims description 12
- 239000000872 buffer Substances 0.000 claims description 12
- 238000011144 upstream manufacturing Methods 0.000 claims description 11
- 239000000203 mixture Substances 0.000 claims description 10
- FAPWRFPIFSIZLT-UHFFFAOYSA-M Sodium chloride Chemical compound [Na+].[Cl-] FAPWRFPIFSIZLT-UHFFFAOYSA-M 0.000 claims description 8
- 239000011248 coating agent Substances 0.000 claims description 8
- 238000000576 coating method Methods 0.000 claims description 8
- 210000002966 serum Anatomy 0.000 claims description 7
- LTMHDMANZUZIPE-AMTYYWEZSA-N Digoxin Natural products O([C@H]1[C@H](C)O[C@H](O[C@@H]2C[C@@H]3[C@@](C)([C@@H]4[C@H]([C@]5(O)[C@](C)([C@H](O)C4)[C@H](C4=CC(=O)OC4)CC5)CC3)CC2)C[C@@H]1O)[C@H]1O[C@H](C)[C@@H](O[C@H]2O[C@@H](C)[C@H](O)[C@@H](O)C2)[C@@H](O)C1 LTMHDMANZUZIPE-AMTYYWEZSA-N 0.000 claims description 6
- 229960002685 biotin Drugs 0.000 claims description 6
- 235000020958 biotin Nutrition 0.000 claims description 6
- 239000011616 biotin Substances 0.000 claims description 6
- LTMHDMANZUZIPE-PUGKRICDSA-N digoxin Chemical compound C1[C@H](O)[C@H](O)[C@@H](C)O[C@H]1O[C@@H]1[C@@H](C)O[C@@H](O[C@@H]2[C@H](O[C@@H](O[C@@H]3C[C@@H]4[C@]([C@@H]5[C@H]([C@]6(CC[C@@H]([C@@]6(C)[C@H](O)C5)C=5COC(=O)C=5)O)CC4)(C)CC3)C[C@@H]2O)C)C[C@@H]1O LTMHDMANZUZIPE-PUGKRICDSA-N 0.000 claims description 6
- LTMHDMANZUZIPE-UHFFFAOYSA-N digoxine Natural products C1C(O)C(O)C(C)OC1OC1C(C)OC(OC2C(OC(OC3CC4C(C5C(C6(CCC(C6(C)C(O)C5)C=5COC(=O)C=5)O)CC4)(C)CC3)CC2O)C)CC1O LTMHDMANZUZIPE-UHFFFAOYSA-N 0.000 claims description 6
- KCXVZYZYPLLWCC-UHFFFAOYSA-N EDTA Chemical compound OC(=O)CN(CC(O)=O)CCN(CC(O)=O)CC(O)=O KCXVZYZYPLLWCC-UHFFFAOYSA-N 0.000 claims description 4
- 229920001213 Polysorbate 20 Polymers 0.000 claims description 4
- 108010090804 Streptavidin Proteins 0.000 claims description 4
- 235000010486 polyoxyethylene sorbitan monolaurate Nutrition 0.000 claims description 4
- 239000000256 polyoxyethylene sorbitan monolaurate Substances 0.000 claims description 4
- 239000011780 sodium chloride Substances 0.000 claims description 4
- 210000004369 blood Anatomy 0.000 claims description 3
- 239000008280 blood Substances 0.000 claims description 3
- 239000000032 diagnostic agent Substances 0.000 claims description 2
- 229940039227 diagnostic agent Drugs 0.000 claims description 2
- 238000003487 electrochemical reaction Methods 0.000 claims description 2
- 238000002372 labelling Methods 0.000 claims description 2
- 229910052751 metal Inorganic materials 0.000 claims description 2
- 239000002184 metal Substances 0.000 claims description 2
- 230000035945 sensitivity Effects 0.000 abstract description 19
- 230000004907 flux Effects 0.000 abstract description 4
- 230000002255 enzymatic effect Effects 0.000 abstract description 2
- 239000003814 drug Substances 0.000 description 19
- 229940079593 drug Drugs 0.000 description 17
- 238000002965 ELISA Methods 0.000 description 13
- 230000000694 effects Effects 0.000 description 9
- 210000005228 liver tissue Anatomy 0.000 description 8
- 238000003752 polymerase chain reaction Methods 0.000 description 8
- 239000000243 solution Substances 0.000 description 8
- 238000004458 analytical method Methods 0.000 description 7
- 238000003908 quality control method Methods 0.000 description 7
- 239000003153 chemical reaction reagent Substances 0.000 description 6
- 238000001294 liquid chromatography-tandem mass spectrometry Methods 0.000 description 6
- 239000000758 substrate Substances 0.000 description 6
- 239000006228 supernatant Substances 0.000 description 6
- 239000012224 working solution Substances 0.000 description 6
- 108020004459 Small interfering RNA Proteins 0.000 description 5
- 238000007385 chemical modification Methods 0.000 description 5
- 230000000295 complement effect Effects 0.000 description 5
- 238000013461 design Methods 0.000 description 5
- 238000011161 development Methods 0.000 description 5
- 239000002207 metabolite Substances 0.000 description 5
- 108090000623 proteins and genes Proteins 0.000 description 5
- 238000007789 sealing Methods 0.000 description 5
- 229910021642 ultra pure water Inorganic materials 0.000 description 5
- 239000012498 ultrapure water Substances 0.000 description 5
- 108090000790 Enzymes Proteins 0.000 description 4
- 102000004190 Enzymes Human genes 0.000 description 4
- 238000003556 assay Methods 0.000 description 4
- 238000004445 quantitative analysis Methods 0.000 description 4
- 230000015572 biosynthetic process Effects 0.000 description 3
- 238000011067 equilibration Methods 0.000 description 3
- 238000009472 formulation Methods 0.000 description 3
- 230000014509 gene expression Effects 0.000 description 3
- 238000004895 liquid chromatography mass spectrometry Methods 0.000 description 3
- 108020004999 messenger RNA Proteins 0.000 description 3
- 239000002773 nucleotide Substances 0.000 description 3
- 125000003729 nucleotide group Chemical group 0.000 description 3
- 239000013062 quality control Sample Substances 0.000 description 3
- 239000004055 small Interfering RNA Substances 0.000 description 3
- 238000003786 synthesis reaction Methods 0.000 description 3
- 238000005406 washing Methods 0.000 description 3
- 108020000948 Antisense Oligonucleotides Proteins 0.000 description 2
- 108091023037 Aptamer Proteins 0.000 description 2
- 239000012491 analyte Substances 0.000 description 2
- 238000004638 bioanalytical method Methods 0.000 description 2
- 238000004166 bioassay Methods 0.000 description 2
- 238000007405 data analysis Methods 0.000 description 2
- 201000010099 disease Diseases 0.000 description 2
- 208000037265 diseases, disorders, signs and symptoms Diseases 0.000 description 2
- 238000012377 drug delivery Methods 0.000 description 2
- 238000002474 experimental method Methods 0.000 description 2
- 239000007791 liquid phase Substances 0.000 description 2
- 239000006166 lysate Substances 0.000 description 2
- 239000012528 membrane Substances 0.000 description 2
- 108091070501 miRNA Proteins 0.000 description 2
- 238000002156 mixing Methods 0.000 description 2
- 108020004707 nucleic acids Proteins 0.000 description 2
- 102000039446 nucleic acids Human genes 0.000 description 2
- 150000007523 nucleic acids Chemical class 0.000 description 2
- 230000001717 pathogenic effect Effects 0.000 description 2
- 230000003285 pharmacodynamic effect Effects 0.000 description 2
- 102000004169 proteins and genes Human genes 0.000 description 2
- 230000001105 regulatory effect Effects 0.000 description 2
- 238000012827 research and development Methods 0.000 description 2
- 210000001519 tissue Anatomy 0.000 description 2
- 230000002110 toxicologic effect Effects 0.000 description 2
- 231100000027 toxicology Toxicity 0.000 description 2
- 108091032973 (ribonucleotides)n+m Proteins 0.000 description 1
- 101100283604 Caenorhabditis elegans pigk-1 gene Proteins 0.000 description 1
- 101000599852 Homo sapiens Intercellular adhesion molecule 1 Proteins 0.000 description 1
- 208000022559 Inflammatory bowel disease Diseases 0.000 description 1
- 238000012408 PCR amplification Methods 0.000 description 1
- 201000004681 Psoriasis Diseases 0.000 description 1
- KJTLSVCANCCWHF-UHFFFAOYSA-N Ruthenium Chemical compound [Ru] KJTLSVCANCCWHF-UHFFFAOYSA-N 0.000 description 1
- 206010052779 Transplant rejections Diseases 0.000 description 1
- 101100532097 Vitis rotundifolia RUN1 gene Proteins 0.000 description 1
- 230000004913 activation Effects 0.000 description 1
- 230000000692 anti-sense effect Effects 0.000 description 1
- 229940125644 antibody drug Drugs 0.000 description 1
- 206010003246 arthritis Diseases 0.000 description 1
- 230000033228 biological regulation Effects 0.000 description 1
- 239000012472 biological sample Substances 0.000 description 1
- 230000003197 catalytic effect Effects 0.000 description 1
- 238000006555 catalytic reaction Methods 0.000 description 1
- 230000004700 cellular uptake Effects 0.000 description 1
- 238000013375 chromatographic separation Methods 0.000 description 1
- 150000001875 compounds Chemical class 0.000 description 1
- 239000012141 concentrate Substances 0.000 description 1
- 230000021615 conjugation Effects 0.000 description 1
- 238000007796 conventional method Methods 0.000 description 1
- 238000004925 denaturation Methods 0.000 description 1
- 230000036425 denaturation Effects 0.000 description 1
- 230000001419 dependent effect Effects 0.000 description 1
- BNIILDVGGAEEIG-UHFFFAOYSA-L disodium hydrogen phosphate Chemical compound [Na+].[Na+].OP([O-])([O-])=O BNIILDVGGAEEIG-UHFFFAOYSA-L 0.000 description 1
- 238000009509 drug development Methods 0.000 description 1
- 238000005516 engineering process Methods 0.000 description 1
- 238000006911 enzymatic reaction Methods 0.000 description 1
- 238000011156 evaluation Methods 0.000 description 1
- 230000005284 excitation Effects 0.000 description 1
- 230000030279 gene silencing Effects 0.000 description 1
- 238000012226 gene silencing method Methods 0.000 description 1
- PCHJSUWPFVWCPO-UHFFFAOYSA-N gold Chemical compound [Au] PCHJSUWPFVWCPO-UHFFFAOYSA-N 0.000 description 1
- 239000010931 gold Substances 0.000 description 1
- 229910052737 gold Inorganic materials 0.000 description 1
- 230000028993 immune response Effects 0.000 description 1
- 238000011534 incubation Methods 0.000 description 1
- 208000027866 inflammatory disease Diseases 0.000 description 1
- 230000005764 inhibitory process Effects 0.000 description 1
- 230000002452 interceptive effect Effects 0.000 description 1
- 238000004811 liquid chromatography Methods 0.000 description 1
- 239000012160 loading buffer Substances 0.000 description 1
- 238000004020 luminiscence type Methods 0.000 description 1
- 238000005259 measurement Methods 0.000 description 1
- 230000007246 mechanism Effects 0.000 description 1
- 238000001823 molecular biology technique Methods 0.000 description 1
- 239000012452 mother liquor Substances 0.000 description 1
- 108091027963 non-coding RNA Proteins 0.000 description 1
- 102000042567 non-coding RNA Human genes 0.000 description 1
- 230000009437 off-target effect Effects 0.000 description 1
- 238000005457 optimization Methods 0.000 description 1
- 210000000056 organ Anatomy 0.000 description 1
- 238000012545 processing Methods 0.000 description 1
- 238000004451 qualitative analysis Methods 0.000 description 1
- 238000011160 research Methods 0.000 description 1
- 229910052707 ruthenium Inorganic materials 0.000 description 1
- 238000000926 separation method Methods 0.000 description 1
- 229940126586 small molecule drug Drugs 0.000 description 1
- 239000000126 substance Substances 0.000 description 1
- 238000006467 substitution reaction Methods 0.000 description 1
- 230000008685 targeting Effects 0.000 description 1
- 230000009466 transformation Effects 0.000 description 1
- XLYOFNOQVPJJNP-UHFFFAOYSA-N water Substances O XLYOFNOQVPJJNP-UHFFFAOYSA-N 0.000 description 1
Abstract
The invention discloses a probe and marker combination and a method for determining ASO by using the same. The probe and label combination includes a capture probe, a detection probe, and a label; the 3 'end of the capture probe is provided with modification which can be combined with a solid phase material, and the 5' end is combined with a detection probe; the detection probes are hybridizable to the oligonucleotides and have modifications that can be detected by the labels. The method uses the probe and label combination for detection quantification. The probe and the marker have high combined sensitivity and flux, the method has good reproducibility and usability (non-enzymatic heterogeneous system), the flow is simple, and the time consumption is short (3-4 h).
Description
Technical Field
The invention belongs to the field of biological detection, and relates to a probe and marker combination and a method for determining ASO by using the same.
Background
Oligonucleotide drugs refer to short DNA or RNA sequences and analogues thereof designed and synthesized artificially to have disease treatment function. The medicine can be paired with DNA, mRNA or pre-mRNA through a base complementary pairing principle, and can regulate gene expression through a series of mechanisms such as gene silencing, non-coding RNA inhibition, gene activation and the like, so that the pathogenic protein expression is down-regulated or normal protein is recovered to be expressed, and the medicine plays a role in treating diseases at the gene level. Oligonucleotide drugs are mainly of the following types: ASO (antisense oligonucleotide), siRNA (small interfering RNA), miRNA (microrna), aptamer (Aptamer). Wherein antisense oligonucleotides (ASOs) and small interfering RNAs (siRNAs) are the main forms of oligonucleotide drugs developed clinically. Currently, 17 nucleic acid drugs are marketed globally, of which 10 are ASO and 5 are siRNA.
Compared with traditional small molecule drugs and antibody drugs, oligonucleotide drugs have multiple technical advantages, including: (1) The specificity is high, and the expression of pathogenic genes is regulated from the root; (2) long-acting, can reduce the frequency of administration; (3) The research and development period is short, and the success rate of clinical transformation and research and development is relatively high; (4) the targets are rich, and the indications are wide; and (5) the programmable design and the synthesis are simpler.
In the past, oligonucleotide drugs have not been successful in clinical applications because of lack of effective delivery systems and susceptibility to off-target effects and immune responses. In recent years, the development of drug delivery systems and chemical modification techniques has led to significant improvements in tissue targeting specificity, cellular uptake and potency of oligonucleotides, which have had a dramatic impact on efficacy and thus reduced effective doses. Quantitative analysis of oligonucleotides in biological samples is of great importance in Pharmacokinetic (PK), pharmacodynamics (PD) and toxicological safety evaluation, not only provides important information such as PK and toxicological generation for oligonucleotide drugs, but also plays a guiding role in structural modification of the drugs and optimization of delivery systems, and achieves the purposes of improving the stability of the drugs and improving the delivery efficiency.
In order to adequately address the exposure-reaction relationships in complex matrices, different bioanalytical platforms need to be selected depending on the physicochemical properties of the drug, the chemical modification and the nature of the drug delivery system and conjugate. With the development and advancement of scientific instruments and molecular biology techniques, many analytical techniques are used for detection of oligonucleotide drugs in biological matrices, and are mainly classified into 4 major categories: PCR (polymerase chain reaction), LC-MS/MS (liquid chromatography-mass spectrometry platform), LC-FL (liquid phase fluorescence platform), hybridization ELISA (hybrid enzyme-linked immunosorbent assay platform), the main characteristics of these methods are as follows:
(1) PCR platforms rely on hybridization of analytes to complementary strands, requiring selection, design, and synthesis of reagents, and thus the robustness of the method will depend on the design and availability of reagents; the method is intolerant to chemical modification of oligonucleotide drugs and is mainly used for quantifying unmodified oligonucleotides; in addition, no clear regulation guidance exists at present, and only advice given by white paper is insufficient to support the development of normative bioanalytical research, so that the method is generally used for early development.
(2) The LC-MS/MS platform can separate and distinguish the metabolite and the interfering substance through the chromatographic separation, and can also separate and distinguish the metabolite and the original drug form through the molecular weight, so that the oligonucleotide drug and the metabolite thereof can be quantitatively detected simultaneously, and the specificity and the selectivity are higher; the platform does not need the design and synthesis of probes, and the development period of the method is short; but its sensitivity (5-10 ng/mL) is inferior to that of hybridization-based methods (e.g., hybridization ELISA, LC-FL) and becomes lower as the length of the oligonucleotide increases, so LC-MS/MS is suitable for analysis of oligonucleotides of shorter length (< 13 mer) and with less stringent sensitivity requirements.
(3) The LC-FL platform combines a probe complementarily paired with the oligonucleotide to be detected, performs separation through a liquid phase, performs detection through fluorescence, combines a molecular hybridization technology and a liquid chromatography, and has the advantages of being complementary to each other. The sensitivity of detection is improved (about 1 ng/mL) compared with the LC-MS method; compared with the molecular hybridization method, the method has the advantages that the selectivity and the specificity of the method are improved, the method can be selected when the specificity and the sensitivity of the method are important, but the LC-FL analysis method needs to design special primers or probes, the analysis time of single medicines is long (10-15 min) and is unfavorable for mass sample analysis, and the oligonucleotide metabolites cannot be specifically identified.
(4) The Hybridization ELISA platform is in base complementary pairing with a target sequence through the specificity of the probe, and signal detection is carried out by utilizing the reaction of the labeled enzyme in the enzyme-linked immunosorbent assay and the substrate. The sensitivity of the method is obviously increased along with the increase of the length of the nucleic acid to be detected, the method is suitable for analyzing oligonucleotide medicines with the nucleotide quantity more than 24, the overall sensitivity (which can reach the level of 0.1-1 ng/mL) is better than that of LC-MS, and the method has strong inclusion for chemical modification. For Hybridization ELISA methods, there are various options such as enzyme-labeled instrument, MSD, etc., wherein MSD platform is based on 96-well plate, and uses SULFO-TAG (ruthenium terpyridyl) as luminescent substrate, and its molecular weight is about 1kDa (about 1/40 of HRP), so that steric hindrance is small, easy to label antibody, and not easy to hinder its binding with the object to be tested or other antibodies. SULFO-TAG loses electrons on the surface of the anode, is oxidized, and can generate high-efficiency, stable and continuous electrochemical luminescence (ECL) signals under catalysis of tripropylamine cation radicals and excitation of triangle pulse voltage. Detection is performed using an electrochemiluminescence signal. The MSD platform has significant advantages over ELISA in that the generation and collection of detection signals is significantly improved: MSD sensitivity can reach pg/ml level; the effective linear range reaches 6log; on the sample dosage, no matter single index or multiple indexes, only less than or equal to 25ul of samples are needed to finish detection, and more data are provided for the study of rare samples. Although this method cannot be used for qualitative and quantitative analysis of metabolites, it has not only a higher sensitivity but also little need for sample processing, and can be selected according to the analysis requirements, as compared with other analysis platforms.
In summary, the inherent polyanionic nature of oligonucleotides makes the sensitivity of bioassay assays largely dependent on the length and chemical modification of the oligonucleotide molecule. In general, increasing the length/size of the oligonucleotide will cause a decrease in the detection sensitivity of the LC-MS/MS, but will increase the sensitivity of hybridization-based methods (e.g., hybridization ELISA, LC-FL). For absolute quantitative bioassays of oligonucleotides, hybridization ELISA and LC-FL assays are more sensitive, while LC-MS/MS assays are more specific. Currently, LC-MS/MS is generally more suitable for quantitative analysis of oligonucleotides containing 13 or fewer nucleotide units, whereas Hybridization ELISA and LC-FL based assays are more suitable for quantitative analysis of oligonucleotides containing 24 or more nucleotide units.
In order to study the pharmacokinetics and biodistribution of ASO-type oligonucleotides, the present invention selects ASO drug ISIS2302 detected in the method of non-patent document 1 (Anal biochem.2002May 1;304 (1): 19-25.), which is a thio-oligonucleotide having antisense activity against human intercellular adhesion molecule-1 mRNA, for use in the treatment of various inflammatory diseases including organ transplant rejection, inflammatory bowel disease, arthritis, psoriasis, and the like. And provides a probe and marker combination and a method for determining ASO by using the same, wherein the principle (figure 1) is as follows: (1) Coating a biotin-labeled capture probe on a streptavidin-pre-coated MSD 96-well plate; (2) Mixing ASO substrate to be detected with complementary upstream probes and downstream probes on a PCR instrument for hybridization, adding the hybridization mixture into a 96-well plate, and carrying out secondary hybridization with capture probes on the plate; (3) And then adding a Sulfo-Tag labeled anti-digoxin antibody, adding a Read Buffer for electrochemiluminescence signal detection, fitting relevant parameters of a standard curve by a four-parameter regression model through biological analysis software, and calculating the concentration of the sample.
In order to develop a quantitative oligonucleotide method meeting high requirements in drug development, the inventor develops an oligonucleotide bioanalytical method with high sensitivity and flux, good reproducibility and usability (non-enzymatic reaction), simple flow and short time consumption (3-4 h) based on the existing Hybridization ELISA platform, thereby completing the invention.
Disclosure of Invention
The invention aims to solve the technical problems that the oligonucleotide detection and quantification method is complex, long in time consumption, small in flux and poor in reproducibility in the prior art, and provides a non-enzymatic heterogeneous Hybridization ELISA method which has no participation of catalytic enzyme, and a secondary hybridization step is added, so that compared with the conventional Hybridization ELISA method, the sensitivity is ensured, and the reproducibility, the usability and the specificity are better.
The invention solves the technical problems through the following technical proposal.
In a first aspect the invention provides a probe and label combination comprising a capture probe, a detection probe and a label.
In the present invention, the 3 'end of the capture probe has a modification that can bind to a solid phase material, and the 5' end of the capture probe binds to a detection probe.
In some embodiments of the invention, the 3' end of the capture probe has a biotin modification.
In the present invention, the detection probe is hybridizable to the oligonucleotide and has a modification that can be detected by the label.
In the present invention, the detection probe comprises a downstream probe and an upstream probe, wherein the upstream probe is bound to the capture probe and hybridized with the oligonucleotide together with the downstream probe, and the 3' -end of the downstream probe has a non-biotin modification that can be detected by a label.
In some embodiments of the invention, the non-biotin modification at the 3' end of the downstream probe is a digoxin modification.
In the invention, the marker is anti-digoxin antibody identification and marking with SULFO-TAG; and/or, the oligonucleotide is an antisense oligonucleotide (ASO).
In some embodiments of the invention, the ASO is from a serum sample.
In a second aspect the invention provides a kit comprising a probe and label combination as described in the first aspect.
In the present invention, the kit further comprises one or more of a solid phase material, an anti-digoxin antibody and a hybridization buffer.
In some embodiments of the invention, the solid phase material is a streptavidin pre-coated solid phase material; the anti-digoxin antibody is SULFO-TAG anti-digoxin antibody; the hybridization buffer included 60mM Na 2 HPO4, 1M NaCl, 5mM EDTA, and 0.02% Tween 20; the percentages are by volume.
In some embodiments of the invention, the solid phase material may be conventional in the art, preferably a 96-well plate.
In a third aspect the present invention provides a method of detecting and quantifying an oligonucleotide using a probe and label combination as described in the first aspect or a kit as described in the second aspect, comprising the steps of:
(1) Coating the capture probes of the first aspect on a solid phase material; preferably, the solid phase material is a 96-well plate pre-coated with streptavidin;
(2) Hybridizing the sample to be detected with the detection probe according to the first aspect to generate a hybridization mixture; the hybridization reaction is carried out, for example, in a PCR instrument, incubator, metal bath;
(3) Adding the hybridization mixture into the solid phase material coated with the capture probes for hybridization;
(4) Detecting the detection probe of the first aspect with the label of the first aspect; preferably, the detection probes comprise an upstream probe and a downstream probe; more preferably, the 3' end of the downstream probe is provided with digoxin modification, and the marker is an anti-digoxin antibody;
(5) Detecting and quantifying the electrochemical signal; preferably, the label carries SULFO-TAG, which can be luminescent and quantified by an electrochemical reaction.
In some embodiments of the invention, the reaction conditions for coating the capture probes are: incubating for 1 h+ -5min at 25+ -1deg.C under shaking at 450rpm and in the dark; and/or the reaction conditions for hybridization of the detection probe and the sample to be detected are as follows: hybridization was performed at 90℃for 5min and at 35℃for 30min.
In some embodiments of the invention, the reaction conditions for the second hybridization are: at 37+/-1 ℃, standing and incubating for 1 h+/-5 min in dark; and/or, the reaction conditions for labeling digoxin on the downstream probe with SULFO-TAG anti-digoxin antibody are: incubating for 1 h+ -5 min at 25+ -1deg.C under shaking at 450rpm and in the dark; preferably, the 96-well plate is washed before coating, before the second hybridization, and after the second hybridization.
In a fourth aspect the present invention provides the use of a probe and label combination as described in the first aspect for the preparation of a diagnostic agent for detecting an oligonucleotide.
In the present invention, the oligonucleotide may be conventional in the art, preferably an antisense oligonucleotide.
In some embodiments of the invention, the oligonucleotide is from a blood sample, such as serum.
The invention has the positive progress effects that:
(1) The non-enzyme heterogeneous reaction system established by the invention has high sensitivity (up to 0.400 ng/mL), good reproducibility and easy usability.
(2) The oligonucleotide bioanalytical method has high flux, simple flow and short time consumption (3-4 h).
Drawings
FIG. 1 is a schematic view of the operation mode
FIG. 2 shows RUN1 standard curve and parameters thereof in SD rat serum
FIG. 3 shows RUN2 standard curves and parameters thereof in SD rat serum
FIG. 4 Standard Curve and parameters thereof in liver tissue homogenate supernatant of Mixed SD rat
Detailed Description
The invention is further illustrated by means of the following examples, which are not intended to limit the scope of the invention. The experimental methods, in which specific conditions are not noted in the following examples, were selected according to conventional methods and conditions, or according to the commercial specifications.
Example 1: configuration of reagents
Preparation of mixed SD rat liver tissue homogenate supernatant:
5 SD rat liver tissues from different sources were taken, each sample was weighed, and about 1000mg each was cut into fine pieces and placed into a 50mL centrifuge tube. The lysate (Clarity OTX Lysis-Loading Buffer v 2.0) was added in a proportion of 100. Mu.l of lysate per 10mg of tissue. Samples were placed on ice and homogenized with a manual homogenizer. Centrifuge at 4000rpm for 5min at 4deg.C (set temperature) and collect the supernatant. Thus obtaining the prepared mixed SD rat liver tissue homogenate supernatant.
Preparation of hybridization buffer:
The hybridization buffer comprises the following components: 60mM Na 2HPO4, 1M NaCl, 5mM EDTA, 0.02% Tween 20.
The specific preparation method comprises the following steps: 1.7035g of anhydrous disodium hydrogen phosphate is weighed, added into 100mL of ultrapure water, 40mL of 5M NaCl solution, 2mL of 0.5M EDTA solution and 40 mu L of Tween20 reagent are weighed into the ultrapure water, and the mixture is uniformly mixed until the mixture is completely dissolved, and then the ultrapure water is subjected to constant volume to 200mL. The refrigerator (2-8 ℃) is preserved, and the effective period is 1 month.
Preparation of 1 XKPL wash:
KPL Wash Solution Concentrate (20×) mother liquor was diluted 20 times with ultrapure water and mixed well for use.
Preparation of ISIS2302 (ASO substrate)/capture probe/upstream probe and downstream probe complex solution:
The substrate complex solution or probe complex solution was diluted with DEPC water to give a concentration of 100. Mu.M.
Preparation of SULFO-TAG-anti-Digoxigenin antibody:
Anti-Digoxigenin antibody was SULFO-TAG labeled using MSD GOLD SULFO-TAG NHS-Ester Conjugation Pack 1 kit, and the labeled reagent was designated SULFO-TAG-Anti-Digoxigeninantibody.
Preparing a capture probe working solution:
the capture probe multiplex solution was diluted to 50nM with PBS.
Preparing a mixed working solution of an upstream probe and a downstream probe:
The upstream probe and downstream probe complex solutions were diluted with hybridization buffer to a final concentration of 50nM, respectively. Preparation of SULFO-TAG-anti-Digoxigenin antibody working solution:
SULFO-TAG-anti-Digoxigenin antibody was diluted 500-fold with hybridization buffer.
Preparation of 2×read Buffer:
MSD Read Buffer T (4×) was diluted with ultrapure water to a 2×read Buffer.
TABLE 1 reagents and materials information
Example 2: experimental procedure
(1) Washing the plate: plates were washed by adding 1 XKPL wash to MSD 96-well plates after equilibration to room temperature.
(2) Coating: adding a capture probe working solution into each well of an MSD 96 well plate, sealing a plate, placing in a biochemical incubator at 25+/-1 ℃, oscillating at 450rpm, and carrying out light-proof incubation for 1 h+/-5 min.
(3) Sample pretreatment: ISIS2302 (ASO substrate) was diluted according to the concentration gradient in tables 1 and 2 and then diluted 20-fold with hybridization buffer.
(4) Off-plate hybridization: adding the mixed working solution of the upstream probe and the downstream probe into a PCR plate, adding the diluted and pretreated standard curve quality control and sample into the PCR plate, uniformly mixing by vibration, and then placing the PCR plate into a PCR amplification instrument for off-plate hybridization under the following hybridization conditions: denaturation at 90℃for 5min, hybridization at 35℃for 30min, and final holding at 12 ℃.
(5) In-plate hybridization: according to the experimental layout, adding the off-board hybridization compound into the corresponding hole, sealing the plate by a sealing plate membrane, and standing and incubating for 1 h+/-5 min at 37+/-1 ℃ in a biochemical incubator.
(6) Washing the plate: plates were washed by adding 1 XKPL wash to MSD 96-well plates after equilibration to room temperature.
(7) Adding SULFO-TAG-anti-Digoxigenin antibody working solution, sealing the plate membrane, sealing the plate, shaking at 450rpm in a biochemical incubator at 25+ -1deg.C, and incubating for 1 h+ -5 min under dark conditions.
(8) Washing the plate: plates were washed by adding 1 XKPL wash to MSD 96-well plates after equilibration to room temperature.
(9) Add Read Buffer: 2 XRead Buffer was added to MSD 96 well plates and Read in 1-10 min.
(10) Detecting and reading: usingSector S600 electrochemiluminescence was read from MSD 96 well plates.
(11) Data analysis: data analysis was performed using SoftMax Pro software.
Example 3: preparation of standard curve and quality control sample
The related preparation listed in the method is only a clear preparation method, and the specific preparation volume can be adjusted proportionally according to actual conditions.
Table 2 standard curve sample formulation procedure
In the table: STD is an abbreviation for Standard.
TABLE 3 preparation of precision and accuracy samples
In the table: ULOQ is the upper limit of quantitation (Upper Limit of Quantitation), HQC is the high concentration quality control (High Concentration Quality Control), MQC is the medium concentration quality control (Medium Concentration Quality Control), LQC is the low concentration quality control (Low Concentration Quality Control), and LLOQ is the lower limit of quantitation (Lower Limit of Quantitation).
Example 4: standard curve regression method
And taking the concentration of the sample to be detected as an abscissa, taking the Signal value difference between the complex Kong Junzhi of the object to be detected and the blank complex Kong Junzhi as an ordinate, fitting a standard curve through a four-parameter regression model, and calculating the actual measurement concentration of the analyte in the sample by using the obtained regression equation.
The measured concentration of analyte in the sample is calculated from the following regression equation:
Y=(A-D)/[1+(x/C)B]+D
Wherein A: estimating the asymptote under the curve
D: asymptote estimation on a curve
B: slope of curve
C: corresponding concentration at half maximum binding
Weight factor: 1/y 2
TABLE 4 summary of standard curve results
From the data in the table, the standard curve for ASO detection in blood according to the present invention is stable in the concentration range of 0.4 ng/mL-40 ng/mL, and the standard curve is shown in FIGS. 2 and 3.
Table 5 summary of quality control sample precision and accuracy results
In the table: CV% is the coefficient of variation (Coefficient of variation), RE% is the Relative deviation (Relative Error), TE% is the Total Error of the method (Total Error).
According to the table, the comparison method is used for measuring ASO, the result value and the theoretical value are lower in CV%, RE% and TE%, and the accuracy and the sensitivity of measuring ASO in serum are high, and the sensitivity can reach 0.400ng/mL.
Example 5: results of the hook effect
The hook effect procedure is detailed in example 2.
TABLE 6 hook effect sample formulation table
In the table: 5 parts of DL 1-DL 2 hook effect samples are prepared in parallel, and the samples are named as DL1-1, DL1-2, DL1-3, DL1-4 and DL1-5 respectively; DL2-1, DL2-2, DL2-3, DL2-4, DL2-5.
TABLE 7 hook effect results
According to the above table, ASO samples with theoretical concentrations of 6000ng/mL and 600ng/mL were tested for the hook effect, and found that the signal values were higher than the signal values corresponding to the concentration points of ULOQ, indicating no hook effect.
Example 6: liver tissue sample results
The procedure for liver tissue samples is detailed in example 2.
Table 8 standard curve sample formulation procedure
TABLE 9 preparation of precision and accuracy samples
Table 10 summary of Standard Curve results
As can be seen from the data in the table, the standard curve for ASO detection in mixed SD rat liver tissue homogenate supernatant according to the present invention is stable in the concentration range of 0.2 ng/mL-40 ng/mL, and the standard curve is shown in FIG. 4.
Table 11 summary of quality control sample precision and accuracy results
According to the table, the comparison method shows that the result value and the theoretical value of ASO are lower in CV%, RE% and TE%, and the accuracy and the sensitivity of ASO in liver tissue homogenate supernatant of a mixed SD rat are high, and the sensitivity can reach 0.200ng/mL.
The above-described embodiments are merely preferred embodiments of the present invention, and it should be noted that modifications or substitutions can be made by those skilled in the art without departing from the principles of the present invention, which should also be considered as the scope of the present invention.
Claims (10)
1. A probe and label combination, wherein the probe and label combination comprises a capture probe, a detection probe, and a label; the 3 'end of the capture probe is provided with modification which can be combined with a solid phase material, and the 5' end is combined with a detection probe; the detection probes are hybridizable to the oligonucleotides and have modifications that can be detected by the labels.
2. The probe and label combination of claim 1, wherein the capture probe has a biotin modification at the 3' end.
3. The probe and label combination of claim 1, wherein the detection probe comprises a downstream probe and an upstream probe, wherein the upstream probe is conjugated to the capture probe and hybridized to the oligonucleotide in conjunction with the downstream probe, and wherein the 3' end of the downstream probe has a non-biotin modification, such as digoxin modification, that can be detected by the label.
4. The probe and label combination of claim 3, wherein the label is an anti-digoxin antibody recognition and label bearing SULFO-TAG; and/or the oligonucleotide is an antisense oligonucleotide (ASO), e.g., from a serum or tissue sample.
5. A kit comprising the probe and label combination of any one of claims 1-4.
6. The kit of claim 5, further comprising one or more of a solid phase material, an anti-digoxin antibody, and a hybridization buffer;
preferably, the solid phase material is a streptavidin pre-coated solid phase material such as a 96-well plate, the anti-digoxin antibody is SULFO-TAG anti-digoxin antibody, and the hybridization buffer comprises 60mM Na 2HPO4, 1M NaCl, 5mM EDTA, and 0.02% Tween20; the percentages are by volume.
7. A method for detecting and quantifying an oligonucleotide, wherein the method uses the probe and label combination of any one of claims 1-4, or the kit of claim 5 or 6, for detection quantification, comprising:
(1) Coating the capture probes on a solid phase material; preferably, the solid phase material is a 96-well plate pre-coated with streptavidin;
(2) Hybridizing a sample to be detected with a detection probe to generate a hybridization mixture; the hybridization reaction is carried out, for example, in a PCR instrument, incubator, metal bath;
(3) Adding the hybridization mixture into the solid phase material coated with the capture probes for hybridization;
(4) Detecting the detection probe with a label; preferably, the detection probes comprise an upstream probe and a downstream probe; more preferably, the 3' end of the downstream probe is provided with digoxin modification, and the marker is an anti-digoxin antibody;
(5) Detecting and quantifying the electrochemical signal; preferably, the label carries SULFO-TAG, which can be luminescent and quantified by an electrochemical reaction.
8. The method of claim 7, wherein the reaction conditions for coating the capture probes are: incubating for 1 h+ -5 min at 25+ -1deg.C under shaking at 450rpm and in the dark; and/or the reaction conditions for hybridization of the detection probe and the sample to be detected are as follows: hybridization was performed at 90℃for 5min and at 35℃for 30min.
9. The method of claim 7, wherein the reaction conditions for the second hybridization are: at 37+/-1 ℃, standing and incubating for 1 h+/-5 min in dark; and/or, the reaction conditions for labeling digoxin on the downstream probe with SULFO-TAG anti-digoxin antibody are: incubating for 1 h+ -5 min at 25+ -1deg.C under shaking at 450rpm and in the dark; preferably, the 96-well plate is washed before coating, before the second hybridization, and after the second hybridization.
10. Use of a probe and label combination according to any one of claims 1-4 for the preparation of a diagnostic agent for detecting oligonucleotides; preferably, the oligonucleotide is an antisense oligonucleotide; and/or the oligonucleotides are from a blood or tissue sample, such as serum.
Publications (1)
Publication Number | Publication Date |
---|---|
CN118256595A true CN118256595A (en) | 2024-06-28 |
Family
ID=
Similar Documents
Publication | Publication Date | Title |
---|---|---|
Ding et al. | An enzyme-free surface plasmon resonance biosensing strategy for detection of DNA and small molecule based on nonlinear hybridization chain reaction | |
Díaz-Fernández et al. | Electrochemical aptasensors for cancer diagnosis in biological fluids–a review | |
Kong et al. | Single molecule based SNP detection using designed DNA carriers and solid-state nanopores | |
Zouari et al. | Competitive RNA-RNA hybridization-based integrated nanostructured-disposable electrode for highly sensitive determination of miRNAs in cancer cells | |
Park et al. | Development of direct competitive enzyme-linked aptamer assay for determination of dopamine in serum | |
Jirakova et al. | Multiplexed immunosensing platform coupled to hybridization chain reaction for electrochemical determination of microRNAs in clinical samples | |
CN101609090A (en) | A kind of employing acridinium ester labelled antigen or antibody analysis method | |
Wang et al. | Recent advances in the rapid detection of microRNA with lateral flow assays | |
JPWO2007032359A1 (en) | Target molecule detection method using aptamer-probe complex | |
CN101144814A (en) | Method for detecting, identifying and/ or quantifying compound using adapter type reagent | |
Zouari et al. | Ultrasensitive determination of microribonucleic acids in cancer cells with nanostructured-disposable electrodes using the viral protein p19 for recognition of ribonucleic acid/microribonucleic acid homoduplexes | |
EP3425064B1 (en) | Method and electronic device for determining the concentration of an analyte | |
JP5781603B2 (en) | Electrochemical detection method for binding reaction | |
EP0960213A4 (en) | A METHOD OF DETECTING PROTEIN BY IMMUNO-aRNA | |
Chai et al. | A novel electrochemiluminescence aptasensor for protein based on a sensitive N-(aminobutyl)-N-ethylisoluminol-functionalized gold nanoprobe | |
Zhai et al. | A DNAzyme-catalyzed label-free aptasensor based on multifunctional dendrimer-like DNA assembly for sensitive detection of carcinoembryonic antigen | |
WO2011051709A1 (en) | A proximity ligation assay involving generation of catalytic activity | |
CN111122847B (en) | Method for rapidly detecting aflatoxin B1 on site based on aptamer | |
Li et al. | Ultrasensitive densitometry detection of cytokines with nanoparticle-modified aptamers | |
CN101782570A (en) | Biomolecule competition analysis method and application thereof | |
Tang et al. | Silver nanocluster-lightened catalytic hairpin assembly for enzyme-free and label-free mRNA detection | |
CN118256595A (en) | Probe and marker combination and method for determining ASO by using same | |
CN109270144B (en) | Method for detecting 5-hydroxymethylcytosine based on non-labeled and non-immobilized electrochemical magnetic biosensor | |
Chen et al. | A novel liquid crystal aptasensor via DNA aptamer conformational change for on-site detection of cocaine in sewage | |
CN110468182A (en) | It is a kind of detect Platelet-derived growth factor BB homogeneous bioanalytical method and its application |
Legal Events
Date | Code | Title | Description |
---|---|---|---|
PB01 | Publication |