CN118546193A - Oxidizing agent for oxidizing phosphite triester and application thereof - Google Patents
Oxidizing agent for oxidizing phosphite triester and application thereof Download PDFInfo
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- CN118546193A CN118546193A CN202410212527.4A CN202410212527A CN118546193A CN 118546193 A CN118546193 A CN 118546193A CN 202410212527 A CN202410212527 A CN 202410212527A CN 118546193 A CN118546193 A CN 118546193A
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- 239000007800 oxidant agent Substances 0.000 title claims abstract description 56
- 230000001590 oxidative effect Effects 0.000 title claims abstract description 55
- -1 phosphite triester Chemical class 0.000 title claims description 23
- WYURNTSHIVDZCO-UHFFFAOYSA-N Tetrahydrofuran Chemical compound C1CCOC1 WYURNTSHIVDZCO-UHFFFAOYSA-N 0.000 claims abstract description 56
- ZMXDDKWLCZADIW-UHFFFAOYSA-N N,N-Dimethylformamide Chemical compound CN(C)C=O ZMXDDKWLCZADIW-UHFFFAOYSA-N 0.000 claims abstract description 48
- ZCYVEMRRCGMTRW-UHFFFAOYSA-N 7553-56-2 Chemical compound [I] ZCYVEMRRCGMTRW-UHFFFAOYSA-N 0.000 claims abstract description 35
- 229910052740 iodine Inorganic materials 0.000 claims abstract description 35
- 239000011630 iodine Substances 0.000 claims abstract description 35
- 150000007530 organic bases Chemical class 0.000 claims abstract description 23
- OJMIONKXNSYLSR-UHFFFAOYSA-N phosphorous acid Chemical compound OP(O)O OJMIONKXNSYLSR-UHFFFAOYSA-N 0.000 claims abstract description 18
- 150000005691 triesters Chemical class 0.000 claims abstract description 18
- XLYOFNOQVPJJNP-UHFFFAOYSA-N water Substances O XLYOFNOQVPJJNP-UHFFFAOYSA-N 0.000 claims abstract description 16
- 239000002904 solvent Substances 0.000 claims abstract description 12
- 108020004707 nucleic acids Proteins 0.000 claims abstract description 11
- 102000039446 nucleic acids Human genes 0.000 claims abstract description 11
- 150000007523 nucleic acids Chemical class 0.000 claims abstract description 11
- 108091034117 Oligonucleotide Proteins 0.000 claims description 50
- 238000000034 method Methods 0.000 claims description 35
- ZMANZCXQSJIPKH-UHFFFAOYSA-N Triethylamine Chemical compound CCN(CC)CC ZMANZCXQSJIPKH-UHFFFAOYSA-N 0.000 claims description 34
- 239000000243 solution Substances 0.000 claims description 32
- JUJWROOIHBZHMG-UHFFFAOYSA-N Pyridine Chemical compound C1=CC=NC=C1 JUJWROOIHBZHMG-UHFFFAOYSA-N 0.000 claims description 22
- 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 description 18
- UMJSCPRVCHMLSP-UHFFFAOYSA-N pyridine Natural products COC1=CC=CN=C1 UMJSCPRVCHMLSP-UHFFFAOYSA-N 0.000 claims description 11
- 239000011259 mixed solution Substances 0.000 claims description 9
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- 238000002360 preparation method Methods 0.000 claims description 7
- GQHTUMJGOHRCHB-UHFFFAOYSA-N 2,3,4,6,7,8,9,10-octahydropyrimido[1,2-a]azepine Chemical compound C1CCCCN2CCCN=C21 GQHTUMJGOHRCHB-UHFFFAOYSA-N 0.000 claims description 6
- JGFZNNIVVJXRND-UHFFFAOYSA-N N,N-Diisopropylethylamine (DIPEA) Chemical compound CCN(C(C)C)C(C)C JGFZNNIVVJXRND-UHFFFAOYSA-N 0.000 claims description 6
- WGYKZJWCGVVSQN-UHFFFAOYSA-N propylamine Chemical compound CCCN WGYKZJWCGVVSQN-UHFFFAOYSA-N 0.000 claims description 6
- 230000002194 synthesizing effect Effects 0.000 claims description 6
- MCTWTZJPVLRJOU-UHFFFAOYSA-N 1-methyl-1H-imidazole Chemical compound CN1C=CN=C1 MCTWTZJPVLRJOU-UHFFFAOYSA-N 0.000 claims description 4
- 239000000523 sample Substances 0.000 claims description 4
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- YBRBMKDOPFTVDT-UHFFFAOYSA-N tert-butylamine Chemical compound CC(C)(C)N YBRBMKDOPFTVDT-UHFFFAOYSA-N 0.000 claims description 3
- YLQBMQCUIZJEEH-UHFFFAOYSA-N tetrahydrofuran Natural products C=1C=COC=1 YLQBMQCUIZJEEH-UHFFFAOYSA-N 0.000 abstract description 27
- 238000003786 synthesis reaction Methods 0.000 abstract description 23
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- 125000003729 nucleotide group Chemical group 0.000 description 16
- 239000002245 particle Substances 0.000 description 12
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- 230000003647 oxidation Effects 0.000 description 6
- 238000007254 oxidation reaction Methods 0.000 description 6
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- 229910019142 PO4 Inorganic materials 0.000 description 3
- VYPSYNLAJGMNEJ-UHFFFAOYSA-N Silicium dioxide Chemical compound O=[Si]=O VYPSYNLAJGMNEJ-UHFFFAOYSA-N 0.000 description 3
- 239000002253 acid Substances 0.000 description 3
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- 239000012071 phase Substances 0.000 description 3
- 239000010452 phosphate Substances 0.000 description 3
- 125000002467 phosphate group Chemical group [H]OP(=O)(O[H])O[*] 0.000 description 3
- 239000000047 product Substances 0.000 description 3
- 108091032973 (ribonucleotides)n+m Proteins 0.000 description 2
- KDCGOANMDULRCW-UHFFFAOYSA-N 7H-purine Chemical compound N1=CNC2=NC=NC2=C1 KDCGOANMDULRCW-UHFFFAOYSA-N 0.000 description 2
- ISAKRJDGNUQOIC-UHFFFAOYSA-N Uracil Chemical compound O=C1C=CNC(=O)N1 ISAKRJDGNUQOIC-UHFFFAOYSA-N 0.000 description 2
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- 238000002425 crystallisation Methods 0.000 description 2
- 230000008025 crystallization Effects 0.000 description 2
- OPTASPLRGRRNAP-UHFFFAOYSA-N cytosine Chemical compound NC=1C=CNC(=O)N=1 OPTASPLRGRRNAP-UHFFFAOYSA-N 0.000 description 2
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- QGZKDVFQNNGYKY-UHFFFAOYSA-N Ammonia Chemical compound N QGZKDVFQNNGYKY-UHFFFAOYSA-N 0.000 description 1
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- 230000004543 DNA replication Effects 0.000 description 1
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- 101001121408 Homo sapiens L-amino-acid oxidase Proteins 0.000 description 1
- 239000005909 Kieselgur Substances 0.000 description 1
- 102100026388 L-amino-acid oxidase Human genes 0.000 description 1
- 239000004952 Polyamide Substances 0.000 description 1
- 239000004793 Polystyrene Substances 0.000 description 1
- CZPWVGJYEJSRLH-UHFFFAOYSA-N Pyrimidine Chemical compound C1=CN=CN=C1 CZPWVGJYEJSRLH-UHFFFAOYSA-N 0.000 description 1
- 101100012902 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) FIG2 gene Proteins 0.000 description 1
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Classifications
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- C—CHEMISTRY; METALLURGY
- C07—ORGANIC CHEMISTRY
- C07H—SUGARS; DERIVATIVES THEREOF; NUCLEOSIDES; NUCLEOTIDES; NUCLEIC ACIDS
- C07H21/00—Compounds containing two or more mononucleotide units having separate phosphate or polyphosphate groups linked by saccharide radicals of nucleoside groups, e.g. nucleic acids
-
- C—CHEMISTRY; METALLURGY
- C07—ORGANIC CHEMISTRY
- C07H—SUGARS; DERIVATIVES THEREOF; NUCLEOSIDES; NUCLEOTIDES; NUCLEIC ACIDS
- C07H1/00—Processes for the preparation of sugar derivatives
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- Chemical & Material Sciences (AREA)
- Organic Chemistry (AREA)
- Health & Medical Sciences (AREA)
- Life Sciences & Earth Sciences (AREA)
- Biochemistry (AREA)
- Molecular Biology (AREA)
- Engineering & Computer Science (AREA)
- Biotechnology (AREA)
- General Health & Medical Sciences (AREA)
- Genetics & Genomics (AREA)
- Saccharide Compounds (AREA)
Abstract
本发明大体涉及核酸的化学合成技术领域,具体而言,涉及一种用于氧化亚磷酸三酯的氧化剂及其应用。该用于氧化亚磷酸三酯的氧化剂为碘溶液,溶剂中包含体积比为(7~9):(0.8~1.2):(0.8~1.2)的四氢呋喃(THF)、N,N‑二甲基甲酰胺(DMF)和水;且所述氧化剂中还含有(1~3)mL/L的pKa为9~14的有机碱。
The present invention generally relates to the technical field of chemical synthesis of nucleic acids, and specifically, to an oxidant for oxidizing triester phosphite and its application. The oxidant for oxidizing triester phosphite is an iodine solution, and the solvent contains tetrahydrofuran (THF), N,N-dimethylformamide (DMF) and water in a volume ratio of (7-9): (0.8-1.2): (0.8-1.2); and the oxidant also contains (1-3) mL/L of an organic base with a pKa of 9-14.
Description
相关申请的交叉引用CROSS-REFERENCE TO RELATED APPLICATIONS
本申请要求2023年02月27日提交的申请号为202310171405.0的中国专利申请的优先权,其全部内容通过引入并入本文。This application claims priority to Chinese patent application No. 202310171405.0 filed on February 27, 2023, the entire contents of which are incorporated herein by reference.
技术领域Technical Field
本发明大体涉及核酸的化学合成技术领域,具体而言,涉及一种用于氧化亚磷酸三酯的氧化剂及其应用。The present invention generally relates to the technical field of chemical synthesis of nucleic acids, and in particular to an oxidant for oxidizing phosphite triester and application thereof.
背景技术Background Art
引物(Primers)是一种寡核苷酸组成的短的、单链DNA或RNA分子,在生物体中作为DNA复制的起始点。自上世纪五十年代提出核酸的一般结构并推动DNA的化学合成研究开始,通过化学法合成的大规模且廉价的寡核苷酸得到了广泛的应用。包括聚合酶链式反应(PCR)、探针、克隆和DNA测序的接头等,极大的促进了合成生物学、蛋白质工程、基因组工程、代谢工程等生命科学领域的研究发展。然而,与生物体内特有的引物聚合酶(Primase酶)能够在温和的条件下从核苷酸的5’→3’端合成方式不同的是,化学合成法的复杂环境常伴随着许多不需要的副产物。因而,开发出一种稳定且高效的合成寡核苷酸链引物策略一直是当前研究领域的热点。Primers are short, single-stranded DNA or RNA molecules composed of oligonucleotides, which serve as the starting point of DNA replication in organisms. Since the general structure of nucleic acids was proposed in the 1950s and the chemical synthesis of DNA was promoted, large-scale and inexpensive oligonucleotides synthesized by chemical methods have been widely used. Including polymerase chain reaction (PCR), probes, cloning and DNA sequencing adapters, etc., it has greatly promoted the research and development of life sciences such as synthetic biology, protein engineering, genome engineering, and metabolic engineering. However, unlike the unique primer polymerase in organisms that can synthesize from the 5'→3' end of nucleotides under mild conditions, the complex environment of chemical synthesis is often accompanied by many unwanted by-products. Therefore, developing a stable and efficient strategy for synthesizing oligonucleotide chains has always been a hot topic in the current research field.
固相亚磷酸三酯法因其偶联快速且高效、起始反应物稳定等特点成为了自二十世纪八十年代以来商业合成寡核苷酸领域的首选途径。其通常包含四步循环合成路径,首先通过酸将连接在固相载体柱(CPG)上的核苷酸的二甲氧基三苯甲基(DMT)脱离(deblock);随后,将目标亚磷酰胺保护的单体与四氮唑混合,得到3’被活化的核苷-亚磷酸酯活化中间体,与游离的5’端羟基(5’-OH)发生缩合反应(coupling);此后,通过马来酸酐和N-甲基咪唑与羟基发生的乙酰化反应将未参与反应的5’-OH封端盖帽(capping),阻止其参与后续反应;最后,用碘溶液将不稳定的三价亚磷酸三酯氧化成稳定的五价磷酸三酯。经此四步,一个目标碱基被接枝在固相载体上,之后依次重复上述循环,直至目标碱基按顺序合成完毕。其中,碱基的缩合效率可以通过deblock过程中DMT阳离子的脱除颜色进行判断。目前,由于化学合成效率无法达到100%的自身限制,基于亚磷酰胺化学的方法合成的寡核苷酸的长度一般限制在200个核苷酸以内,理论上不能超过300个核苷酸。对于长DNA的合成,需要DNA组装将短寡核苷酸组装成长DNA。由此可见,固相亚磷酸三酯法四步循环中每一步骤的高效反应是制约商业化寡核苷酸链质量的决定性因素。The solid phase triester phosphite method has become the preferred route in the field of commercial oligonucleotide synthesis since the 1980s due to its fast and efficient coupling and stable starting reactants. It usually includes a four-step cyclic synthesis pathway. First, the dimethoxytrityl (DMT) of the nucleotide connected to the solid phase support column (CPG) is deblocked by acid; then, the target phosphoramidite-protected monomer is mixed with tetrazole to obtain a 3' activated nucleoside-phosphite activated intermediate, which undergoes a condensation reaction with the free 5' terminal hydroxyl (5'-OH); thereafter, the 5'-OH that does not participate in the reaction is capped by acetylation reaction of maleic anhydride and N-methylimidazole with the hydroxyl group to prevent it from participating in subsequent reactions; finally, the unstable trivalent triester phosphite is oxidized to a stable pentavalent triester phosphite with an iodine solution. After these four steps, a target base is grafted on the solid phase support, and then the above cycle is repeated in sequence until the target base is synthesized in sequence. Among them, the condensation efficiency of the base can be judged by the removal color of the DMT cation during the deblocking process. At present, due to the inherent limitation that the chemical synthesis efficiency cannot reach 100%, the length of oligonucleotides synthesized based on phosphoramidite chemistry is generally limited to 200 nucleotides, and theoretically cannot exceed 300 nucleotides. For the synthesis of long DNA, DNA assembly is required to assemble short oligonucleotides into long DNA. It can be seen that the efficient reaction of each step in the four-step cycle of the solid phase triester phosphite method is the decisive factor restricting the quality of commercial oligonucleotide chains.
目前已有多种途径用于改进固相亚磷酸三酯法合成效率,主要集中在缩合步骤中四氮唑活化剂的替换以提升缩合效率;然而,常见氧化步骤中所采用的碘/四氢呋喃/吡啶/水(I2/THF/吡啶/H2O)试剂配方在实际生产过程中的缺陷却少有人提及。Currently, there are many approaches to improve the efficiency of solid phase triester phosphite synthesis, mainly focusing on replacing the tetrazole activator in the condensation step to improve the condensation efficiency; however, few people have mentioned the defects of the iodine/tetrahydrofuran/pyridine/water ( I2 /THF/pyridine/ H2O ) reagent formula used in the common oxidation step in the actual production process.
发明内容Summary of the invention
在本发明的一个方面,涉及一种用于氧化亚磷酸三酯的氧化剂,其为碘溶液,溶剂中包含体积比为(7~9):(0.8~1.2):(0.8~1.2)的四氢呋喃(THF)、N,N-二甲基甲酰胺(DMF)和水;In one aspect of the present invention, it relates to an oxidant for oxidizing triester phosphite, which is an iodine solution, wherein the solvent comprises tetrahydrofuran (THF), N,N-dimethylformamide (DMF) and water in a volume ratio of (7-9):(0.8-1.2):(0.8-1.2);
且所述氧化剂中还含有(1~3)mL/L的pKa为9~14的有机碱。The oxidant also contains (1-3) mL/L of an organic base with a pKa of 9-14.
在一些实施方式中,所述溶剂中THF、DMF和水的体积比为(7.5~8.5):(0.9~1.1):(0.9~1.1);优选地,所述体积比为8:1:1。在一些实施方式中,所述碘溶液中碘的浓度为0.015M~0.03M。In some embodiments, the volume ratio of THF, DMF and water in the solvent is (7.5-8.5):(0.9-1.1):(0.9-1.1); preferably, the volume ratio is 8:1:1. In some embodiments, the concentration of iodine in the iodine solution is 0.015M-0.03M.
在一些实施方式中,所述有机碱选自三乙胺、叔丁胺、正丙胺、N,N-二异丙基乙基胺、N-甲基咪唑和1,8-二氮杂二环[5.4.0]十一碳-7-烯中的一种或多种;优选地,所述有机碱为三乙胺。In some embodiments, the organic base is selected from one or more of triethylamine, tert-butylamine, n-propylamine, N,N-diisopropylethylamine, N-methylimidazole and 1,8-diazabicyclo[5.4.0]undec-7-ene; preferably, the organic base is triethylamine.
在一些实施方式中,所述氧化剂不含有吡啶。In some embodiments, the oxidizing agent does not contain pyridine.
本案的另一方面涉及用于固相亚磷酸三酯法合成寡核苷酸的试剂盒,其含有如上所述的氧化剂。Another aspect of the present invention relates to a kit for synthesizing oligonucleotides using the solid phase phosphite triester method, which contains the oxidizing agent as described above.
本案的再一方面涉及如上所述的氧化剂的制备方法,包括:Another aspect of the present invention relates to a method for preparing the oxidant as described above, comprising:
a)将碘单质加入到THF、DMF和水的混合溶液中并混匀;a) adding iodine to a mixed solution of THF, DMF and water and mixing;
b)将有机碱与a)所得溶液混合。b) mixing an organic base with the solution obtained in a).
在一些实施方式中,所述氧化剂的制备在避光条件下进行。In some embodiments, the preparation of the oxidant is carried out under light-protecting conditions.
本案的再一方面涉及寡核苷酸的合成方法,包括以下步骤:在氧化剂的存在下,将具有亚磷酸三酯键的中间体氧化成五价磷酸三酯中间体;Another aspect of the present invention relates to a method for synthesizing an oligonucleotide, comprising the following steps: oxidizing an intermediate having a phosphite triester bond into a pentavalent phosphotriester intermediate in the presence of an oxidizing agent;
其中所述氧化剂为碘溶液,溶剂中包含体积比为(7~9):(0.8~1.2):(0.8~1.2)的THF、DMF和水,且所述氧化剂中还含有(1~3)mL/L的pKa为9~14的有机碱。The oxidant is an iodine solution, the solvent comprises THF, DMF and water in a volume ratio of (7-9):(0.8-1.2):(0.8-1.2), and the oxidant also contains (1-3) mL/L of an organic base with a pKa of 9-14.
本案的再一方面涉及如上所述的氧化剂,或如上所述的试剂盒在固相亚磷酸三酯法合成寡核苷酸中的应用。Another aspect of the present invention relates to the use of the above-mentioned oxidizing agent or the above-mentioned kit in the synthesis of oligonucleotides by solid phase triester phosphite method.
在一些实施方式中,所述寡核苷酸选自引物、探针、siRNA、miRNA、mRNA、sgRNA、核酸适配体或反义核酸。In some embodiments, the oligonucleotide is selected from a primer, a probe, a siRNA, a miRNA, an mRNA, a sgRNA, a nucleic acid aptamer or an antisense nucleic acid.
本发明所提供的氧化剂,有效避免了传统I2/THF/吡啶/H2O氧化剂配方的碘消耗和结晶生成等缺陷,并用于实现高效将亚磷酸三酯中间体氧化成五价磷酸三酯中间体。The oxidant provided by the present invention effectively avoids the defects of the traditional I 2 /THF/pyridine/H 2 O oxidant formula, such as iodine consumption and crystal formation, and is used to achieve efficient oxidation of phosphite triester intermediates into pentavalent phosphate triester intermediates.
附图说明BRIEF DESCRIPTION OF THE DRAWINGS
为了更清楚地说明本发明具体实施方式或现有技术中的技术方案,下面将对具体实施方式或现有技术描述中所需要使用的附图作简单地介绍,显而易见地,下面描述中的附图是本发明的一些实施方式,对于本领域普通技术人员来讲,在不付出创造性劳动的前提下,还可以根据这些附图获得其他的附图。In order to more clearly illustrate the specific implementation methods of the present invention or the technical solutions in the prior art, the drawings required for use in the specific implementation methods or the description of the prior art will be briefly introduced below. Obviously, the drawings described below are some implementation methods of the present invention. For ordinary technicians in this field, other drawings can be obtained based on these drawings without paying creative work.
图1为寡核苷酸在实施例1合成条件下所得LC-MS质谱图;FIG1 is an LC-MS mass spectrum of the oligonucleotide obtained under the synthesis conditions of Example 1;
图2为寡核苷酸在实施例2合成条件下所得LC-MS质谱图;FIG2 is an LC-MS mass spectrum of the oligonucleotide obtained under the synthesis conditions of Example 2;
图3为寡核苷酸在实施例3合成条件下所得LC-MS质谱图;FIG3 is an LC-MS mass spectrum of the oligonucleotide obtained under the synthesis conditions of Example 3;
图4为寡核苷酸在对比例合成条件下所得LC-MS质谱图。FIG. 4 is an LC-MS mass spectrum of oligonucleotides obtained under comparative example synthesis conditions.
具体实施方式DETAILED DESCRIPTION
现将详细地提供本发明实施方式的参考,其一个或多个实例描述于下文。提供每一实例作为解释而非限制本发明。实际上,对本领域技术人员而言,显而易见的是,可以对本发明进行多种修改和变化而不背离本发明的范围或精神。例如,作为一个实施方式的部分而说明或描述的特征可以用于另一实施方式中,来产生更进一步的实施方式。References to embodiments of the present invention will now be provided in detail, one or more examples of which are described below. Each example is provided as an explanation rather than a limitation of the present invention. In fact, it will be apparent to those skilled in the art that various modifications and variations may be made to the present invention without departing from the scope or spirit of the present invention. For example, a feature illustrated or described as part of one embodiment may be used in another embodiment to produce a further embodiment.
除非另有说明,用于披露本发明的所有术语(包括技术和科学术语)的意义与本发明所属领域普通技术人员所通常理解的相同。通过进一步的指导,随后的定义用于更好地理解本发明的教导。本文中在本发明的说明书中所使用的术语只是为了描述具体的实施例的目的,不是旨在于限制本发明。Unless otherwise indicated, the meaning of all terms (including technical and scientific terms) used to disclose the present invention is the same as that commonly understood by those of ordinary skill in the art to which the present invention belongs. By way of further guidance, the following definitions are used to better understand the teachings of the present invention. The terms used herein in the specification of the present invention are only for the purpose of describing specific embodiments and are not intended to limit the present invention.
本发明中所使用的术语“含有”、“包含”和“包括”是同义词,其是包容性或开放式的,不排除额外的、未被引述的成员、元素或方法步骤。As used herein, the terms "comprising", "including" and "comprising" are synonymous and are inclusive or open-ended and do not exclude additional, unrecited members, elements or method steps.
本发明中用端点表示的数值范围包括该范围内所包含的所有数值及分数,以及所引述的端点。Numerical ranges expressed as endpoints herein include all numbers and fractions subsumed within the range, as well as the recited endpoints.
本发明中涉及浓度数值,其含义包括在一定范围内的波动。比如,可以在相应的精度范围内波动。比如2%,可以允许±0.1%范围内波动。对于数值较大或无需过于精细控制的数值,还允许其含义包括更大波动。比如100mM,可以允许±1%、±2%、±5%等范围内的波动。涉及分子量,允许其含义包括±10%的波动。The present invention relates to concentration values, and its meaning includes fluctuations within a certain range. For example, it can fluctuate within the corresponding accuracy range. For example, 2%, it can allow fluctuations within ±0.1%. For values that are large or do not require too fine control, it is also allowed to include greater fluctuations. For example, 100mM, it can allow fluctuations within the range of ±1%, ±2%, ±5%, etc. Involving molecular weight, it is allowed to include fluctuations of ±10%.
本发明中,涉及“多个”、“多种”等描述,如无特别限定,指在数量上指大于等于2。In the present invention, descriptions such as "plurality" and "multiple" refer to quantities greater than or equal to 2 unless otherwise specified.
本发明中,以开放式描述的技术特征中,包括所列举特征组成的封闭式技术方案,也包括包含所列举特征的开放式技术方案。In the present invention, the technical features described in an open manner include closed technical solutions composed of the listed features, and also include open technical solutions containing the listed features.
本发明中,“寡核苷酸”是指核苷连接2个或2个以上的核苷酸而得的化合物。应予说明,“寡核苷酸”中还包括:磷酸基的氧原子替换为硫原子的硫代磷酸酯型的寡核苷酸、磷酸基的-O-替换为-NH-的寡核苷酸、磷酸基中的羟基(-OH)置换为-OY(式中,Y表示有机基团)的寡核苷酸。本发明中的寡核苷酸的核苷的数目无特别限定,通过固相合成的寡核苷酸越长则出现问题的概率越大。因此优选的寡核苷酸长度不超过150个碱基,例如140、130、120、110、100、90、80、70、60、50、40、30、20、10个碱基,较优的不超过80个碱基,较好是3~50,更好是5~30。。In the present invention, "oligonucleotide" refers to a compound obtained by connecting two or more nucleotides to a nucleoside. It should be noted that "oligonucleotide" also includes: a phosphorothioate-type oligonucleotide in which the oxygen atom of the phosphate group is replaced by a sulfur atom, an oligonucleotide in which -O- of the phosphate group is replaced by -NH-, and an oligonucleotide in which the hydroxyl group (-OH) in the phosphate group is replaced by -OY (where Y represents an organic group). The number of nucleosides in the oligonucleotide in the present invention is not particularly limited, and the longer the oligonucleotide synthesized by solid phase, the greater the probability of problems. Therefore, the preferred oligonucleotide length does not exceed 150 bases, such as 140, 130, 120, 110, 100, 90, 80, 70, 60, 50, 40, 30, 20, 10 bases, preferably no more than 80 bases, preferably 3 to 50, and more preferably 5 to 30. .
本发明中,术语“核酸”或“核苷酸”指的是一种直链化合物(寡核苷酸),其中核苷酸经由磷酸二酯键连接,并且被认为包括DNA,RNA等。所述核酸可以为单链或双链。因为它允许利用核酸合成仪的有效合成,核酸优选是单链的。在本说明书中“核酸不仅包括含有嘌呤碱基例如腺嘌呤(A)、鸟嘌呤(G)等等和嘧啶碱基例如胸腺嘧啶(T)、胞嘧啶(C)、尿嘧啶(U)等等的寡核苷酸,而且还包括含有其它经修饰的杂环碱基的经修饰的寡核苷酸。In the present invention, the term "nucleic acid" or "nucleotide" refers to a linear compound (oligonucleotide) in which nucleotides are linked via phosphodiester bonds, and is considered to include DNA, RNA, etc. The nucleic acid may be single-stranded or double-stranded. Because it allows efficient synthesis using a nucleic acid synthesizer, the nucleic acid is preferably single-stranded. In this specification, "nucleic acid" includes not only oligonucleotides containing purine bases such as adenine (A), guanine (G), etc. and pyrimidine bases such as thymine (T), cytosine (C), uracil (U), etc., but also modified oligonucleotides containing other modified heterocyclic bases.
本发明中,术语“氧化亚磷酸三酯”是指在固相亚磷酸三酯法中将不稳定的三价亚磷酸三酯氧化成稳定的五价磷酸三酯的过程。In the present invention, the term "oxidation of phosphite triester" refers to a process of oxidizing unstable trivalent phosphite triester into stable pentavalent phosphate triester in a solid phase phosphite triester process.
本发明涉及一种用于氧化亚磷酸三酯的氧化剂,其为碘溶液,溶剂中包含体积比为(7~9):(0.8~1.2):(0.8~1.2)的THF、DMF和水;The invention relates to an oxidant for oxidizing triester phosphite, which is an iodine solution, wherein the solvent comprises THF, DMF and water in a volume ratio of (7-9):(0.8-1.2):(0.8-1.2);
且所述氧化剂中还含有(1~3)mL/L的pKa为9~14的有机碱。The oxidant also contains (1-3) mL/L of an organic base with a pKa of 9-14.
该产品具有长久保存的稳定性、选择性氧化性能,合成的寡核苷酸纯度更高。This product has long-term stability and selective oxidation properties, and the synthesized oligonucleotides are of higher purity.
在一些实施方式中,所述溶剂中THF、DMF和水的体积比为(7.5~8.5):(0.9~1.1):(0.9~1.1)。In some embodiments, the volume ratio of THF, DMF and water in the solvent is (7.5-8.5):(0.9-1.1):(0.9-1.1).
在一些实施方式中,所述溶剂中THF、DMF和水的体积比为(7.7~8.3):(0.95~1.05):(0.95~1.05)。In some embodiments, the volume ratio of THF, DMF and water in the solvent is (7.7-8.3):(0.95-1.05):(0.95-1.05).
在一些实施方式中,所述溶剂中THF、DMF和水的体积比为8:1:1。In some embodiments, the volume ratio of THF, DMF and water in the solvent is 8:1:1.
在一些实施方式中,所述碘溶液中碘的浓度为0.015M~0.03M,例如0.02M、0.025M。In some embodiments, the concentration of iodine in the iodine solution is 0.015M to 0.03M, for example, 0.02M, 0.025M.
有机碱通常为液体形态,其含量为(1~3)mL/L,例如1.3mL/L、1.5mL/L、1.8mL/L、2mL/L、2.3mL/L、2.5mL/L、2.8mL/L。有机碱的pKa为9~14,例如9.5、10、10.5、11、11.5、12、12.5、13、13.5。The organic base is usually in liquid form, and its content is (1-3) mL/L, such as 1.3 mL/L, 1.5 mL/L, 1.8 mL/L, 2 mL/L, 2.3 mL/L, 2.5 mL/L, 2.8 mL/L. The pKa of the organic base is 9-14, such as 9.5, 10, 10.5, 11, 11.5, 12, 12.5, 13, 13.5.
一般情况下,有机碱都含有氮原子,例如胺类化合物和含氮杂环化合物。在一些实施方式中,所述有机碱选自三乙胺、叔丁胺、正丙胺、N,N-二异丙基乙基胺、N-甲基咪唑和1,8-二氮杂二环[5.4.0]十一碳-7-烯中的一种或多种。在优选的实施方式中,有机碱为三乙胺。In general, organic bases contain nitrogen atoms, such as amine compounds and nitrogen-containing heterocyclic compounds. In some embodiments, the organic base is selected from one or more of triethylamine, tert-butylamine, n-propylamine, N,N-diisopropylethylamine, N-methylimidazole and 1,8-diazabicyclo[5.4.0]undec-7-ene. In a preferred embodiment, the organic base is triethylamine.
在一些实施方式中,所述的氧化剂不含有吡啶。In some embodiments, the oxidizing agent does not contain pyridine.
本发明所提供的氧化剂可避免引入有害试剂吡啶,在实际合成过程中无明显结晶和针孔堵塞且所得产品质量与传统氧化剂无明显差别。The oxidant provided by the present invention can avoid the introduction of harmful reagent pyridine, has no obvious crystallization and pinhole blockage in the actual synthesis process, and has no obvious difference in quality between the obtained product and the traditional oxidant.
本发明还涉及用于通过亚磷酸三酯法固相合成寡核苷酸的试剂盒,其含有如上所述的氧化剂。The present invention also relates to a kit for solid phase synthesis of oligonucleotides by the phosphite triester method, which contains the oxidizing agent as described above.
试剂盒中还可含有固相亚磷酸三酯法中常见的其他组分,诸如清洗液、缓冲液、对游离羟基进行封闭的封闭试剂、硫化剂、酸等组分,以及任选的用于承装各成分的容器,实验说明书等。The kit may also contain other components commonly used in the solid phase triester phosphite method, such as cleaning solution, buffer, blocking reagent for blocking free hydroxyl groups, sulfiding agent, acid and other components, as well as optional containers for holding the components, experimental instructions and the like.
根据本发明的再一方面,还涉及如上所述的氧化剂的制备方法,包括:According to another aspect of the present invention, it also relates to a method for preparing the oxidant as described above, comprising:
a)将碘加入到THF、DMF和水的混合溶液中并混匀;a) adding iodine to a mixed solution of THF, DMF and water and mixing;
b)将有机碱与a)所得溶液混合。b) mixing an organic base with the solution obtained in a).
首先制备稳定的I2/THF/DMF/H2O的碘混合溶液,随后根据溶液体积添加对应比例的有机碱TEA,制备出氧化剂,该氧化剂具有比传统碘液配方更高的I2浓度。Firstly, a stable iodine mixed solution of I 2 /THF/DMF/H 2 O is prepared, and then an organic base TEA is added in a corresponding proportion according to the volume of the solution to prepare an oxidant having a higher I 2 concentration than a traditional iodine solution formula.
在一些实施方式中,所述的制备方法在避光条件下进行。In some embodiments, the preparation method is carried out under light-proof conditions.
本发明还涉及一种寡核苷酸的合成方法,包括以下步骤:在氧化剂的存在下,将具有亚磷酸三酯键的中间体氧化成五价磷酸三酯中间体;The present invention also relates to a method for synthesizing an oligonucleotide, comprising the following steps: oxidizing an intermediate having a phosphite triester bond into a pentavalent phosphotriester intermediate in the presence of an oxidant;
其中所述氧化剂为碘溶液,溶剂中包含体积比为(7~9):(0.8~1.2):(0.8~1.2)的THF、DMF和水,且所述氧化剂中还含有(1~3)mL/L的pKa为9~14的有机碱。The oxidant is an iodine solution, the solvent comprises THF, DMF and water in a volume ratio of (7-9):(0.8-1.2):(0.8-1.2), and the oxidant also contains (1-3) mL/L of an organic base with a pKa of 9-14.
本发明还涉及如上所述的氧化剂,或如上所述的试剂盒在亚磷酸三酯法固相合成寡核苷酸中的应用。The present invention also relates to the use of the above-mentioned oxidizing agent or the above-mentioned kit in the solid phase synthesis of oligonucleotides by the phosphite triester method.
亚磷酸三酯固相合成法是公知的,本发明的改进之处在于针对将不稳定的三价亚磷酸三酯氧化成稳定的五价磷酸三酯的过程进行的,因而容易理解,对除此之外流程或者对三价亚磷酸三酯氧化不产生实质性影响的相关变形方案并不会排除于上述“亚磷酸三酯固相合成法”的内容之外。The solid phase synthesis method of triester phosphite is well known. The improvement of the present invention lies in the process of oxidizing unstable trivalent triester phosphite into stable pentavalent triester phosphite. Therefore, it is easy to understand that related variations other than this process or which have no substantial effect on the oxidation of triester trivalent phosphite are not excluded from the content of the above-mentioned "solid phase synthesis method of triester phosphite".
作为示例,“亚磷酸三酯固相合成法”的典型过程可以包括:As an example, a typical process of "phosphite triester solid phase synthesis" may include:
1)提供核苷单体、核苷酸或寡核苷酸(a),其5’位羟基被取代的或未取代的二甲氧基三苯甲基基团(DMT)保护,且至少一个核苷单体、核苷酸或寡核苷酸结合于固相载体;1) providing a nucleoside monomer, nucleotide or oligonucleotide (a), wherein the 5'-hydroxyl group is protected by a substituted or unsubstituted dimethoxytrityl group (DMT), and at least one nucleoside monomer, nucleotide or oligonucleotide is bound to a solid support;
在酸的作用下除去取代的或未取代的三苯甲基基团得到游离羟基,并清洗所述固相载体;removing the substituted or unsubstituted trityl group under the action of acid to obtain free hydroxyl groups, and washing the solid phase support;
2)将核苷单体、核苷酸或寡核苷酸(b)与步骤1)反应后的核苷单体、核苷酸或寡核苷酸(a)进行缩合,得到亚磷酸三酯;2) condensing the nucleoside monomer, nucleotide or oligonucleotide (b) with the nucleoside monomer, nucleotide or oligonucleotide (a) after the reaction in step 1) to obtain a phosphite triester;
其中核苷单体、核苷酸或寡核苷酸(b)的3’位具有亚磷酰胺基团并预先被酸性活化剂所活化;wherein the 3' position of the nucleoside monomer, nucleotide or oligonucleotide (b) has a phosphoramidite group and is pre-activated by an acidic activating agent;
3)使用氧化剂,或氧化剂+硫化剂将所述亚磷酸三酯转化为磷酸三酯或硫代磷酸三酯。3) using an oxidant, or an oxidant + a sulfiding agent to convert the phosphite triester into a phosphate triester or a thiophosphate triester.
步骤1)~3)可经历多次循环以逐次延长寡聚化合物,并在寡聚化合物达到期望长度后还包括步骤4):将所得的寡聚化合物从固相切离,将其保护基全部除去;并任选地对其进行纯化。从固相切离和纯化的方法可使用该领域中公知的方法进行,对纯化方法而言,较为优选的为脱盐法、BioRP/OPC纯化、HPLC或PAGE纯化。Steps 1) to 3) may be repeated multiple times to extend the oligomeric compound successively, and after the oligomeric compound reaches the desired length, the oligomeric compound may further include step 4): excising the obtained oligomeric compound from the solid phase, removing all its protecting groups, and optionally purifying it. The methods for excising from the solid phase and purifying may be performed using methods known in the art, and the preferred purification methods are desalting, BioRP/OPC purification, HPLC or PAGE purification.
本发明中对固相亚磷酸三酯法中所采用的固相不做特别限定,其优选是多孔颗粒,进一步优选是具有有助于核酸合成的官能团的多孔颗粒。“有助于核酸合成的官能团”是指官能团,其能够成为核酸合成的起点和能够被添加接头。特别地,氨基、羟基等等可以被提及。上述多孔固相载体的形状不受特别限定,可以是任何形状的平板、颗粒、纤维等等。因为合成反应容器的充填效率可以被增强,反应容器不容易破坏,因而优选具有颗粒形状的多孔合成聚合物。说明书中的术语“颗粒”不意味着精确球状的,而是意味着具有任何恒定的形状(例如大致球状例如椭圆球状的、多边形式的、圆柱形、无定形形式等等)。虽然多孔合成聚合物颗粒的一个颗粒的尺寸(体积)不受特别限定,当通过激光衍射(散射类型)测量多孔颗粒时得到的平均粒度小于1微米时,当将其包装在柱中时会出现不方便,在使用时反压力变成过高或者溶液输送速度下降。另一方面,当平均粒度大于1000微米时,载体颗粒之间的空隙变大,在具有预定体积的柱中有效包装载体颗粒变得困难。因此,优选1~1000微米,更优选5~500微米,进一步优选10~200微米。The solid phase used in the solid phase triester phosphite method is not particularly limited in the present invention, and it is preferably porous particles, and further preferably porous particles with functional groups that contribute to nucleic acid synthesis. "Functional groups that contribute to nucleic acid synthesis" refers to functional groups that can become the starting point of nucleic acid synthesis and can be added with joints. In particular, amino, hydroxyl, etc. can be mentioned. The shape of the above-mentioned porous solid phase carrier is not particularly limited, and can be a flat plate, particle, fiber, etc. in any shape. Because the filling efficiency of the synthesis reaction vessel can be enhanced, the reaction vessel is not easy to destroy, and thus preferably has a porous synthetic polymer in particle shape. The term "particle" in the specification does not mean precise spherical, but means having any constant shape (for example, roughly spherical, such as elliptical spherical, polygonal, cylindrical, amorphous form, etc.). Although the size (volume) of a particle of porous synthetic polymer particles is not particularly limited, when the average particle size obtained when measuring porous particles by laser diffraction (scattering type) is less than 1 micron, it will be inconvenient when it is packaged in a column, and the back pressure becomes too high or the solution delivery speed decreases when used. On the other hand, when the average particle size is greater than 1000 μm, the spaces between the carrier particles become larger, and it becomes difficult to effectively pack the carrier particles in a column having a predetermined volume. Therefore, it is preferably 1 to 1000 μm, more preferably 5 to 500 μm, and further preferably 10 to 200 μm.
可列举例的固相载体如聚苯乙烯支持体、包封有硅藻土的聚二甲基丙烯酰胺、二氧化硅或微孔性玻璃等刚性功能化支持体;固相的树脂基质可由两亲性的聚苯乙烯-PEG树脂或PEG-聚酰胺或PEG-聚酯树脂构成;作为固相载体,还包括例如Wang-PEG树脂或Rink-酰胺PEG树脂。最常用的固相载体为可控微孔玻璃珠(CPG,controlled pore glass),CPG的孔径根据所合成的寡核苷酸的长度而定,一般合成链长小于60mer时,选择孔径500埃CPG;链长大于60mer时,使用1000埃CPG。使用CPG的偶联效率高达98%-99.9%,可以满足合成长达175mer的寡核苷酸的条件。CPG通过连接化合物(linker)与初始核苷酸的羟基共价结合,核苷酸的5'-OH用DMT保护。在一些实施方式中,CPG是未被修饰的裸CPG,其表面具有羟基,羟基通过共价键合连接一段寡核苷酸/一个或几个核苷酸。Examples of solid phase carriers include rigid functional supports such as polystyrene supports, polydimethylacrylamide encapsulated with diatomaceous earth, silica or microporous glass; the solid phase resin matrix can be composed of amphiphilic polystyrene-PEG resin or PEG-polyamide or PEG-polyester resin; as solid phase carriers, Wang-PEG resin or Rink-amide PEG resin are also included. The most commonly used solid phase carrier is controlled pore glass beads (CPG). The pore size of CPG depends on the length of the synthesized oligonucleotide. Generally, when the synthetic chain length is less than 60mer, a pore size of 500 angstroms CPG is selected; when the chain length is greater than 60mer, 1000 angstroms CPG is used. The coupling efficiency of CPG is as high as 98%-99.9%, which can meet the conditions for synthesizing oligonucleotides up to 175mer. CPG is covalently bonded to the hydroxyl group of the initial nucleotide through a linker, and the 5'-OH of the nucleotide is protected with DMT. In some embodiments, the CPG is an unmodified naked CPG having hydroxyl groups on its surface, which are covalently linked to an oligonucleotide/one or several nucleotides.
在一些实施方式中,所述寡核苷酸选自引物、探针、siRNA、miRNA、mRNA、sgRNA、核酸适配体或反义核酸。In some embodiments, the oligonucleotide is selected from a primer, a probe, a siRNA, a miRNA, an mRNA, a sgRNA, a nucleic acid aptamer or an antisense nucleic acid.
下面将结合实施例对本发明的实施方案进行详细描述。应理解,这些实施例仅用于说明本发明而不用于限制本发明的范围。下列实施例中未注明具体条件的实验方法,优先参考本发明中给出的指引,还可以按照本领域的实验手册或常规条件,还可以参考本领域已知的其它实验方法,或者按照制造厂商所建议的条件。The embodiments of the present invention will be described in detail below in conjunction with examples. It should be understood that these examples are only used to illustrate the present invention and are not intended to limit the scope of the present invention. The experimental methods for which specific conditions are not specified in the following examples are preferably referred to the guidance provided in the present invention, and can also be based on the experimental manual or normal conditions in this area, and can also be based on other experimental methods known in the art, or according to the conditions recommended by the manufacturer.
下述的具体实施例中,涉及原料组分的量度参数,如无特别说明,可能存在称量精度范围内的细微偏差。涉及温度和时间参数,允许仪器测试精度或操作精度导致的可接受的偏差。In the following specific embodiments, the measured parameters of raw material components may have slight deviations within the range of weighing accuracy unless otherwise specified. For temperature and time parameters, acceptable deviations caused by instrument test accuracy or operation accuracy are allowed.
实施例1Example 1
新配方I2/THF/DMF/H2O碘混合液和含有有机碱TEA的氧化剂的制备Preparation of a new formula of I 2 /THF/DMF/H 2 O iodine mixture and an oxidant containing organic base TEA
(1)首先,分别量取100mL DMF和100mL H2O加入到放有800mL THF的棕色玻璃瓶中,充分混合均匀;(1) First, 100 mL of DMF and 100 mL of H 2 O were added to a brown glass bottle containing 800 mL of THF and mixed thoroughly;
(2)将称量好的I2单质加入到步骤(1)配置好的溶液中混合均匀,得到0.03M的碘混合液;(2) adding the weighed I2 element to the solution prepared in step (1) and mixing evenly to obtain a 0.03 M iodine mixed solution;
(3)最后,移液器吸取1mL TEA溶液加入到步骤(2)配置好的碘溶液,充分混合均匀得到新型氧化剂。(3) Finally, 1 mL of TEA solution was pipetted into the iodine solution prepared in step (2) and mixed thoroughly to obtain a new oxidant.
实施例2Example 2
新配方I2/THF/DMF/H2O碘混合液和含有有机碱TEA的氧化剂的制备Preparation of a new formula of I 2 /THF/DMF/H 2 O iodine mixture and an oxidant containing organic base TEA
(1)首先,分别量取100mL DMF和100mL H2O加入到放有800mL THF的棕色玻璃瓶中,充分混合均匀;(1) First, 100 mL of DMF and 100 mL of H 2 O were added to a brown glass bottle containing 800 mL of THF and mixed thoroughly;
(2)将称量好的I2单质加入到步骤(1)配置好的溶液中混合均匀,得到0.03M的碘混合液;(2) adding the weighed I2 element to the solution prepared in step (1) and mixing evenly to obtain a 0.03 M iodine mixed solution;
(3)最后,移液器吸取2mL TEA溶液加入到步骤(2)配置好的碘溶液,充分混合均匀得到新型氧化剂。(3) Finally, 2 mL of TEA solution was pipetted into the iodine solution prepared in step (2), and the mixture was thoroughly mixed to obtain a novel oxidant.
实施例3Example 3
新配方I2/THF/DMF/H2O碘混合液和含有有机碱TEA的氧化剂的制备Preparation of a new formula of I 2 /THF/DMF/H 2 O iodine mixture and an oxidant containing organic base TEA
(1)首先,分别量取100mL DMF和100mL H2O加入到放有800mL THF的棕色玻璃瓶中,充分混合均匀;(1) First, 100 mL of DMF and 100 mL of H 2 O were added to a brown glass bottle containing 800 mL of THF and mixed thoroughly;
(2)将称量好的I2单质加入到步骤(1)配置好的溶液中混合均匀,得到0.03M的碘混合液;(2) adding the weighed I2 element to the solution prepared in step (1) and mixing evenly to obtain a 0.03 M iodine mixed solution;
(3)最后,移液器吸取3mL TEA溶液加入到步骤(2)配置好的碘溶液,充分混合均匀得到新型氧化剂。(3) Finally, 3 mL of TEA solution was pipetted into the iodine solution prepared in step (2) and mixed thoroughly to obtain a new oxidant.
对比例Comparative Example
市场通用配方I2/THF/吡啶/H2O碘混合液氧化剂的制备Preparation of I 2 /THF/pyridine/H 2 O iodine mixed solution oxidant with common market formula
(1)首先,分别量取200mL吡啶和100mL H2O加入到放有700mL THF的棕色玻璃瓶中,充分混合均匀;(1) First, weigh 200 mL of pyridine and 100 mL of H 2 O respectively and add them into a brown glass bottle containing 700 mL of THF and mix them thoroughly;
(2)将称量好的I2单质加入到步骤(1)配置好的溶液中混合均匀,得到0.03M的碘混合液,充分混合均匀得到氧化剂。(2) Add the weighed I2 element to the solution prepared in step (1) and mix well to obtain a 0.03 M iodine mixed solution, which is then fully mixed to obtain an oxidant.
实验例Experimental example
本发明具体实施方式中识别性能评价按照下述方法进行:利用Dr.Oligo 192高通量寡核苷酸合成仪进行寡核苷酸合成。以50nmol的固相CPG合成载体柱插入到96孔合成板中,导入目标寡核苷酸序列,详细合成步骤如表1所示。合成结束后的寡核苷酸载体柱置于气相锅中通过氨水气相氨解(90℃,60min)进行切割和脱保护,核苷酸裂解完毕后,使用乙腈清洗,以80μL TE缓冲液将寡核苷酸从合成载体上洗脱下来;取上一步的洗脱液按照表2分别进行LC-MS检测、使用酶标仪测定其OD260值,以及高效液相色谱(HPLC)纯化分析检测,根据纯度及MS图谱分析不同配比对寡核苷酸合成质量的影响。In the specific embodiment of the present invention, the recognition performance evaluation is carried out according to the following method: oligonucleotide synthesis is performed using a Dr.Oligo 192 high-throughput oligonucleotide synthesizer. A 50nmol solid phase CPG synthesis carrier column is inserted into a 96-well synthesis plate, and the target oligonucleotide sequence is introduced. The detailed synthesis steps are shown in Table 1. After the synthesis, the oligonucleotide carrier column is placed in a gas phase pot and cut and deprotected by ammonia gas phase aminolysis (90°C, 60min). After the nucleotide cleavage is completed, acetonitrile is used for washing, and the oligonucleotide is eluted from the synthesis carrier with 80μL TE buffer; the eluate from the previous step is taken according to Table 2 for LC-MS detection, OD 260 value is determined using an enzyme marker, and high performance liquid chromatography (HPLC) purification analysis detection, and the influence of different ratios on the quality of oligonucleotide synthesis is analyzed according to purity and MS spectrum.
表1固相合成仪上的DNA寡核苷酸合成循环表Table 1 DNA oligonucleotide synthesis cycle table on solid phase synthesizer
表2产物检测方法及合格标准判定表Table 2 Product testing methods and qualified standards
合成的寡核苷酸序列:GAAGGTGATGTTGAACACGASynthetic oligonucleotide sequence: GAAGGTGATGTTGAACACGA
在分别使用实验例1/2/3及对比例配制的氧化剂条件下,合成的寡核苷酸检测结果如下表3,所得LC-MS质谱图分别如图1-4所示;Under the conditions of using the oxidants prepared in Experimental Examples 1/2/3 and the Comparative Example, the detection results of the synthesized oligonucleotides are shown in Table 3 below, and the obtained LC-MS mass spectra are shown in Figures 1-4 respectively;
表3寡核苷酸合成序列检测结果表Table 3 Oligonucleotide synthesis sequence detection results
HPLC分析使用不同配比的氧化剂合成的寡核苷酸纯度及成本对比见下表4。The purity and cost comparison of oligonucleotides synthesized using different ratios of oxidants by HPLC analysis are shown in Table 4 below.
表4各实验例合成纯度及成本对比Table 4 Comparison of synthesis purity and cost of each experimental example
结论:in conclusion:
最佳实施例2(即1L的0.03M I2/THF/DMF/H2O加2ml TEA)的碘溶液作为氧化剂的合成结果显示除少量碱基出现脱嘌呤前杂峰外,在气相氨解条件下无其明显杂质生成,且其合成的寡核苷酸纯度最高达到87.05%;在成本方面,对比例传统配方成本为129.93元/L,而新配方仅为约88.17元/L。对比例所代表的传统技术具有碘的实际浓度降低、有害试剂吡啶的引入、实际固相合成过程中容易导致合成仪针孔结晶和残余试剂清洗不完全堵塞CPG孔道等问题。实验结果表明,本申请提供的新型氧化剂,比传统碘液氧化剂配方具有明显的优势,不仅具有长久保存的稳定性、选择性氧化性能,合成的寡核苷酸纯度更高,此外有效避免了引入有害试剂吡啶,大幅度降低生产成本。The synthesis results of the iodine solution of the best embodiment 2 (i.e., 1L of 0.03MI 2 /THF/DMF/H 2 O plus 2ml TEA) as the oxidant show that except for the presence of a small amount of base pre-depurination impurity peaks, no obvious impurities are generated under the gas phase aminolysis conditions, and the purity of the synthesized oligonucleotide reaches up to 87.05%; in terms of cost, the cost of the conventional formula of the comparative example is 129.93 yuan/L, while the new formula is only about 88.17 yuan/L. The conventional technology represented by the comparative example has the problems of reduced actual iodine concentration, introduction of harmful reagent pyridine, easy crystallization of synthesizer pinholes during actual solid phase synthesis, and incomplete clogging of CPG channels by residual reagent cleaning. The experimental results show that the new oxidant provided by the present application has obvious advantages over the traditional iodine solution oxidant formula, not only has long-term stability and selective oxidation performance, but also has a higher purity of synthesized oligonucleotides. In addition, it effectively avoids the introduction of harmful reagent pyridine, greatly reducing production costs.
以上所述实施例仅表达了本发明的几种实施方式,其描述较为具体和详细,但并不能因此而理解为对发明专利范围的限制。应当指出的是,对于本领域的普通技术人员来说,在不脱离本发明构思的前提下,还可以做出若干变形和改进,这些都属于本发明的保护范围。因此,本发明专利的保护范围应以所附权利要求为准,说明书及附图可以用于解释权利要求的内容。The above-mentioned embodiments only express several implementation methods of the present invention, and the description thereof is relatively specific and detailed, but it cannot be understood as limiting the scope of the invention patent. It should be pointed out that for ordinary technicians in this field, several variations and improvements can be made without departing from the concept of the present invention, which all belong to the protection scope of the present invention. Therefore, the protection scope of the patent of the present invention shall be based on the attached claims, and the description and drawings can be used to interpret the content of the claims.
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