CN114574497B - A nucleic acid aptamer for recognizing extracellular vesicles of ovarian cancer drug-resistant patients and its application - Google Patents
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Abstract
Description
技术领域technical field
本发明涉及生物技术领域,具体涉及一种识别卵巢癌耐药病人细胞外囊泡的核酸适体及其应用。The invention relates to the field of biotechnology, in particular to a nucleic acid aptamer for recognizing extracellular vesicles of ovarian cancer drug-resistant patients and its application.
背景技术Background technique
卵巢癌是女性常见三大恶性肿瘤之一,也是当今世界上最致命的恶性妇科肿瘤。目前临床上主要治疗卵巢癌的手段是手术和化疗,其中顺铂、紫杉醇是临床治疗卵巢癌常用的化疗药物。卵巢癌由于早期缺乏典型症状,且卵巢解剖位置较深,确诊时多已为晚期;加之大部分患者对化疗都会出现不同程度的耐药反应,导致卵巢癌患者长期生存率很低。Ovarian cancer is one of the three most common malignant tumors in women, and it is also the most deadly malignant gynecological tumor in the world. At present, the main clinical treatment methods for ovarian cancer are surgery and chemotherapy, among which cisplatin and paclitaxel are commonly used chemotherapy drugs for the clinical treatment of ovarian cancer. Ovarian cancer lacks typical symptoms in the early stage, and the anatomical position of the ovary is deep, so it is mostly advanced when diagnosed. In addition, most patients will have varying degrees of drug resistance to chemotherapy, resulting in a very low long-term survival rate for ovarian cancer patients.
核酸适体是能够紧密结合特定靶标分子的单链DNA或RNA分子。这些寡核酸链是通过体外指数富集的配体系统进化(SELEX)获得的。核酸适体又称为“化学抗体”,与蛋白质结合时,适体具有许多优势,包括免疫原性低,合成成本低,批次差异小,以及化学修饰简便等优点。Cell-SELEX是指以活细胞为靶标,进行适配体的筛选的一种SELEX技术。Cell-SELEX技术提供了鉴定针对已知生物标志物的适配体和细胞膜表面上的新生物标志物的机会。在Cell-SELEX中,靶分子具有其自身的天然构象,这使得用于治疗和诊断应用的适配体开发更容易。它还减轻了处理靶分子构象的复杂性,并增加了找到有效适配体的可能性。Aptamers are single-stranded DNA or RNA molecules capable of tightly binding to a specific target molecule. These oligonucleotide strands were obtained by phylogenetic evolution of ligands with exponential enrichment in vitro (SELEX). Nucleic acid aptamers, also known as "chemical antibodies", have many advantages when combined with proteins, including low immunogenicity, low synthesis cost, small batch variation, and easy chemical modification. Cell-SELEX refers to a SELEX technology that targets living cells to screen aptamers. Cell-SELEX technology offers the opportunity to identify aptamers against known biomarkers and new biomarkers on the cell membrane surface. In Cell-SELEX, the target molecule has its own native conformation, which facilitates the development of aptamers for therapeutic and diagnostic applications. It also reduces the complexity of dealing with target molecule conformations and increases the likelihood of finding effective aptamers.
目前针对核酸适体的研究逐渐增加,中国专利CN111944819A公开了一种快速筛选的卵巢癌核酸适体及其在制备检测卵巢癌制剂中的应用,其公开的核酸适体相较于传统的抗体,具有识别的靶标范围广且特异性强,亲和力强,毒性和免疫原性低的特点,但并不能用于检测卵巢癌病人是否出现耐药性。部分研究针对癌症耐药性的核酸适体,例如中国专利CN109337909A公开了一种检测肝癌耐药细胞株的核酸适体及其应用,但针对鉴别卵巢癌耐药性的核酸适体鲜有研究。At present, the research on nucleic acid aptamers is gradually increasing. Chinese patent CN111944819A discloses a nucleic acid aptamer for rapid screening of ovarian cancer and its application in the preparation of preparations for detecting ovarian cancer. Compared with traditional antibodies, the disclosed nucleic acid aptamer is more It has the characteristics of a wide range of recognized targets, strong specificity, strong affinity, low toxicity and low immunogenicity, but it cannot be used to detect drug resistance in ovarian cancer patients. Some studies have been conducted on nucleic acid aptamers for cancer drug resistance. For example, Chinese patent CN109337909A discloses a nucleic acid aptamer for detecting drug resistance of liver cancer cell lines and its application. However, there are few studies on nucleic acid aptamers for identifying drug resistance in ovarian cancer.
发明内容SUMMARY OF THE INVENTION
本发明提供一种具有较好的亲和力、低免疫原性、分子量小、能够体外化学合成、序列稳定、便于保存、方便标记、易于修饰的核酸适体,可用于区分卵巢癌耐药病人和化疗敏感病人血清中提取的细胞外囊泡。The invention provides a nucleic acid aptamer with good affinity, low immunogenicity, small molecular weight, in vitro chemical synthesis, stable sequence, convenient storage, convenient labeling and easy modification, which can be used for distinguishing ovarian cancer drug-resistant patients from chemotherapy Extracellular vesicles extracted from sensitive patient serum.
为达到上述发明目的,采用如下技术方案。In order to achieve the above purpose of the invention, the following technical solutions are adopted.
一种识别卵巢癌耐药病人细胞外囊泡的核酸适体,包括如下序列中的至少一种:A nucleic acid aptamer for recognizing extracellular vesicles of ovarian cancer drug-resistant patients, comprising at least one of the following sequences:
(1)如SEQIDNO.1所示的序列;(1) The sequence shown in SEQIDNO.1;
(2)SEQIDNO.1所示序列的互补序列;(2) The complementary sequence of the sequence shown in SEQ ID NO.1;
(3)由上述(1)或(2)中序列转录得到的RNA序列。(3) RNA sequences transcribed from the sequences in (1) or (2) above.
本发明还提供了一种筛选上述核酸适体的方法,为使用Cell-SELEX筛选。The present invention also provides a method for screening the above-mentioned nucleic acid aptamers, which is screening using Cell-SELEX.
优选地,使用Cell-SELEX筛选包括如下步骤:Preferably, screening using Cell-SELEX comprises the steps of:
(1)核酸文库和引物的设计;(1) Design of nucleic acid library and primers;
(2)正筛;(2) Positive sieve;
(3)文库的扩增;(3) Amplification of the library;
(4)ssDNA文库的制备;(4) Preparation of ssDNA library;
(5)反筛;(5) Reverse screening;
(6)正筛;(6) Positive sieve;
(7)核酸适体循环筛选;(7) Nucleic acid aptamer circulating screening;
(8)检测。(8) Detection.
更优选地,步骤(1)所设计的核酸文库为:More preferably, the nucleic acid library designed in step (1) is:
SEQIDNO.2:5’-AAGGAGCAGCGTGGAGGATA(N)45TTAGGGTGTGTCGTCGTGGT-3’。SEQ ID NO. 2: 5'-AAGGAGCAGCGTGGAGGATA(N) 45TTAGGGTGTGTCGTCGTGGT -3'.
更优选地,步骤(1)所设计的引物为:More preferably, the primers designed in step (1) are:
上游引物:SEQIDNO.3:5’-异硫氰酸荧光素-AAGGAGCAGCGTGGAGGATA-3’;Upstream primer: SEQ ID NO. 3: 5'-fluorescein isothiocyanate-AAGGAGCAGCGTGGAGGATA-3';
下游引物:SEQIDNO.4:5’-生物素-ACCACGACGACACACCCTAA-3’。Downstream primer: SEQ ID NO. 4: 5'-Biotin-ACCACGACGACACACCCTAA-3'.
更优选地,步骤(2)的具体步骤包括:More preferably, the specific steps of step (2) include:
将核酸文库与靶细胞株进行孵育,孵育完成后加热变性分离即得第一轮筛选的核酸文库。The nucleic acid library is incubated with the target cell line, and after the incubation is completed, the nucleic acid library of the first round of screening is obtained by heat denaturation and separation.
更优选地,步骤(3)的具体步骤包括:More preferably, the specific steps of step (3) include:
将步骤(2)中筛选所得的核酸文库使用步骤(1)中设计的引物进行PCR扩增。The nucleic acid library obtained by screening in step (2) is subjected to PCR amplification using the primers designed in step (1).
更优选地,步骤(4)的具体步骤包括:More preferably, the specific steps of step (4) include:
用链霉亲和素葡聚糖微球分离生物素标记步骤(3)中的PCR扩增产物;然后利用氢氧化钠使双链DNA变性解链,收集异硫氰酸荧光素标记的DNA单链文库;最后脱盐柱对单链DNA进行脱盐。Use streptavidin dextran microspheres to separate the biotin-labeled PCR amplification product in step (3); then use sodium hydroxide to denature and melt the double-stranded DNA, and collect the fluorescein isothiocyanate-labeled DNA single. Strand library; final desalting column desalts single-stranded DNA.
更优选地,步骤(5)的具体步骤包括:More preferably, the specific steps of step (5) include:
将步骤(4)所得到的DNA单链文库与对照细胞孵育,然后收集细胞孵育后的上清,即排除掉非特异性结合的核酸序列。The DNA single-stranded library obtained in step (4) is incubated with the control cells, and then the supernatant after the incubation of the cells is collected, that is, the non-specifically bound nucleic acid sequences are excluded.
更优选地,步骤(6)的具体步骤包括:More preferably, the specific steps of step (6) include:
将步骤(5)中所制上清液与靶细胞孵育,洗脱保留结合靶细胞的核酸序列,即得第二次筛选的核酸文库。The supernatant prepared in step (5) is incubated with the target cells, and the nucleic acid sequences bound to the target cells are eluted and retained to obtain the nucleic acid library for the second screening.
更优选地,步骤(7)的具体步骤包括:More preferably, the specific steps of step (7) include:
以步骤(6)所得的核酸文库取代步骤(2)所得到的扩增产物,并重复步骤(4)-(6)的筛选过程,直到筛选得到与靶细胞细胞株结合能力强的核酸文库。The amplification product obtained in step (2) is replaced with the nucleic acid library obtained in step (6), and the screening process of steps (4)-(6) is repeated until a nucleic acid library with strong binding ability to the target cell line is obtained by screening.
更优选地,步骤(7)共进行10-20轮筛选。More preferably, a total of 10-20 rounds of screening are performed in step (7).
更进一步优选地,步骤(7)共进行15轮筛选。More preferably, step (7) carries out a total of 15 rounds of screening.
更优选地,步骤(8)的具体步骤包括:More preferably, the specific steps of step (8) include:
将多轮筛选获得的富集核酸文库,利用流式细胞术检测与靶细胞株和对照细胞株的结合选择性。The enriched nucleic acid library obtained from multiple rounds of screening was used to detect the binding selectivity of the target cell line and the control cell line by flow cytometry.
更进一步优选地,上述靶细胞株为卵巢癌耐紫杉醇细胞株A2780/PTX。More preferably, the above-mentioned target cell line is ovarian cancer paclitaxel-resistant cell line A2780/PTX.
更进一步优选地,上述对照细胞株为紫杉醇敏感细胞株A2780。More preferably, the above-mentioned control cell line is a paclitaxel-sensitive cell line A2780.
本发明利用Cell-SELEX技术,以卵巢癌耐紫杉醇细胞株A2780/PTX为靶标细胞,以紫杉醇敏感细胞株A2780为对照细胞,进行细胞差异筛选,从而得到获得特异性识别靶标细胞的核酸适体。所得核酸适体具有较强的亲和力与特异性并且分子量小、易于修饰和保存。The invention utilizes Cell-SELEX technology, takes the ovarian cancer taxol-resistant cell line A2780/PTX as the target cell, and uses the taxol-sensitive cell line A2780 as the control cell to perform cell differential screening, thereby obtaining a nucleic acid aptamer that specifically recognizes the target cell. The obtained nucleic acid aptamer has strong affinity and specificity, small molecular weight, easy modification and storage.
本发明还提供一种识别卵巢癌耐药病人细胞外囊泡的核酸适体,其特征在于,所述核酸适体包括与(1)中序列具有60%以上同源性的DNA序列。The present invention also provides a nucleic acid aptamer for recognizing extracellular vesicles of ovarian cancer drug-resistant patients, characterized in that, the nucleic acid aptamer comprises a DNA sequence with more than 60% homology with the sequence in (1).
本发明还提供一种识别卵巢癌耐药病人细胞外囊泡的核酸适体,其特征在于,所述核酸适体包括对上述的核酸适体进行修饰得到的序列,修饰包括以下修饰方法的至少一种:The present invention also provides a nucleic acid aptamer for recognizing extracellular vesicles of ovarian cancer drug-resistant patients, characterized in that the nucleic acid aptamer comprises a sequence obtained by modifying the above-mentioned nucleic acid aptamer, and the modification includes at least one of the following modification methods A sort of:
(1)磷酸化;(1) phosphorylation;
(2)甲基化;(2) methylation;
(3)氨基化;(3) Amination;
(4)巯基化;(4) Sulfhydrylation;
(5)同位素化;(5) Isotope;
(6)用硫取代氧;(6) Replace oxygen with sulfur;
(7)用硒取代氧。(7) Replace oxygen with selenium.
本发明还提供一种识别卵巢癌耐药病人细胞外囊泡的核酸适体,核酸适体包括对上述的核酸适体进行改造得到的序列。The present invention also provides a nucleic acid aptamer for recognizing extracellular vesicles of ovarian cancer drug-resistant patients, and the nucleic acid aptamer includes a sequence obtained by modifying the above-mentioned nucleic acid aptamer.
优选地,改造包括以下改造方法的至少一种:Preferably, the transformation comprises at least one of the following transformation methods:
(1)在核酸适体上连接荧光标记物;(1) Connect a fluorescent label to the nucleic acid aptamer;
(2)在核酸适体上连接放射性物质;(2) Connect radioactive substances to nucleic acid aptamers;
(3)在核酸适体上连接治疗性物质;(3) Linking therapeutic substances to nucleic acid aptamers;
(4)在核酸适体上连接生物素;(4) Connect biotin to the nucleic acid aptamer;
(5)在核酸适体上连接地高辛;(5) Connect digoxigenin to the nucleic acid aptamer;
(6)在核酸适体上连接纳米发光材料;(6) Connect the nano-luminescent material to the nucleic acid aptamer;
(7)在核酸适体上连接小肽;(7) Linking small peptides to nucleic acid aptamers;
(8)在核酸适体上连接siRNA。(8) Connect siRNA to the nucleic acid aptamer.
本发明还提供一种识别卵巢癌耐药病人细胞外囊泡的核酸适体的衍生物,衍生物包括以下至少一种:The present invention also provides a derivative of a nucleic acid aptamer for recognizing extracellular vesicles of ovarian cancer drug-resistant patients, the derivative includes at least one of the following:
(1)由上述的核酸适体骨架衍生出的硫代磷酸酯骨架序列;(1) The phosphorothioate backbone sequence derived from the above-mentioned nucleic acid aptamer backbone;
(2)由上述的核酸适体改造成的肽核酸序列。(2) A peptide nucleic acid sequence transformed from the above-mentioned nucleic acid aptamer.
本发明公开了上述的核酸适体在结合卵巢癌耐药病人血清外泌体中的用途。The invention discloses the use of the above-mentioned nucleic acid aptamer in binding the serum exosomes of ovarian cancer drug-resistant patients.
本发明公开了上所述的核酸适体或核酸适体的衍生物在制备抗肿瘤药物中的用途。The present invention discloses the use of the nucleic acid aptamer or the derivative of the nucleic acid aptamer in the preparation of antitumor drugs.
本发明公开了上述的核酸适体或核酸适体的衍生物在制备卵巢癌耐药细胞株和/或卵巢癌耐药病人血清外泌体检测试剂盒和/或卵巢癌耐药病人血清外泌体检测探针中的用途。The invention discloses that the nucleic acid aptamer or the derivative of the nucleic acid aptamer is used in the preparation of ovarian cancer drug resistance cell lines and/or ovarian cancer drug resistance patient serum exosome detection kits and/or ovarian cancer drug resistance patient serum exosomes Use in body detection probes.
本发明的有益效果为:本发明通过细胞筛选得到的核酸适体具有较强的亲和力与特异性、较低的免疫原性、能够体外化学合成、成本低、分子量小、可以对核酸适体的不同部位进行修饰和取代、序列稳定、易于保存。本发明适体对卵巢癌耐药病人的细胞外囊泡有很好的识别性,能高效结合卵巢癌耐药病人血清细胞外囊泡。利用本发明的核酸适体能更便捷高效的进行人卵巢癌耐药细胞的表征及卵巢癌耐药病人的是检测,为今后耐药靶点的寻找与克服卵巢癌耐药提供有效的分子工具。The beneficial effects of the present invention are: the nucleic acid aptamer obtained by the cell screening of the present invention has strong affinity and specificity, low immunogenicity, can be chemically synthesized in vitro, low cost, small molecular weight, and can be used for nucleic acid aptamers. Modifications and substitutions are made in different parts, the sequence is stable, and it is easy to preserve. The aptamer of the invention has good recognition ability for the extracellular vesicles of the ovarian cancer drug-resistant patients, and can efficiently bind the serum extracellular vesicles of the ovarian cancer drug-resistant patients. Using the nucleic acid aptamer of the invention can more conveniently and efficiently carry out the characterization of human ovarian cancer drug-resistant cells and the detection of ovarian cancer drug-resistant patients, and provide an effective molecular tool for future drug resistance target search and overcoming ovarian cancer drug resistance.
附图说明Description of drawings
图1为细胞筛选过程中核酸适体文库的流式细胞检测结果;Fig. 1 is the flow cytometric detection result of nucleic acid aptamer library in the process of cell screening;
图2为候选核酸适体与靶细胞和非靶细胞结合情况;Figure 2 shows the binding of candidate nucleic acid aptamers to target cells and non-target cells;
图3为核酸适体ZH-A2与靶细胞和非靶细胞结合的激光共聚焦结果;Fig. 3 is the laser confocal result of nucleic acid aptamer ZH-A2 binding to target cells and non-target cells;
图4为核酸适体ZH-A2对耐药细胞A2780/PTX和A2780/DDP的Kd值;Figure 4 shows the Kd values of nucleic acid aptamer ZH-A2 on drug-resistant cells A2780/PTX and A2780/DDP;
图5为耐药细胞A2780/PTX,A2780/DDP和非耐药细胞A2780,IOSE-80培养上清中提取的细胞外囊泡的粒径测定结果;Figure 5 shows the particle size determination results of extracellular vesicles extracted from the culture supernatants of drug-resistant cells A2780/PTX, A2780/DDP and non-drug-resistant cells A2780 and IOSE-80;
图6为耐药细胞A2780/PTX,A2780/DDP和非耐药细胞A2780,IOSE-80培养上清中提取的细胞外囊泡的电镜观察结果;Figure 6 shows the electron microscope observation results of extracellular vesicles extracted from the culture supernatants of drug-resistant cells A2780/PTX, A2780/DDP and non-drug-resistant cells A2780 and IOSE-80;
图7为耐药细胞A2780/PTX,A2780/DDP和非耐药细胞A2780,IOSE-80培养上清中提取的细胞外囊泡的western blot表征结果;Figure 7 shows the western blot characterization results of extracellular vesicles extracted from the culture supernatants of drug-resistant cells A2780/PTX, A2780/DDP and non-drug-resistant cells A2780 and IOSE-80;
图8为核酸适体ZH-A2与耐药细胞A2780/PTX,A2780/DDP和非耐药细胞A2780,IOSE-80的细胞外囊泡的结合情况;Figure 8 shows the binding of nucleic acid aptamer ZH-A2 to extracellular vesicles of drug-resistant cells A2780/PTX, A2780/DDP and non-drug-resistant cells A2780 and IOSE-80;
图9为核酸适体ZH-A2与耐药细胞A2780/PTX,A2780/DDP和非耐药细胞A2780,IOSE-80的细胞外囊泡的结合情况的荧光统计;Figure 9 shows the fluorescence statistics of the binding of nucleic acid aptamer ZH-A2 to extracellular vesicles of drug-resistant cells A2780/PTX, A2780/DDP and non-drug-resistant cells A2780 and IOSE-80;
图10为核酸适体ZH-A2与耐药病人血清及化疗敏感病人血清细胞外囊泡的结合差异表征;其中,A为核酸适体ZH-A2与耐药病人血清及化疗敏感病人血清细胞外囊泡的结合差异表征实验操作流程图;B为核酸适体ZH-A2与耐药病人血清及化疗敏感病人血清细胞外囊泡的结合差异表征结果。Figure 10 shows the characterization of the difference in the binding of nucleic acid aptamer ZH-A2 to extracellular vesicles in the serum of drug-resistant patients and the serum of chemotherapy-sensitive patients; among which, A is the extracellular vesicles of the nucleic acid aptamer ZH-A2 and the serum of drug-resistant patients and the serum of chemotherapy-sensitive patients The flow chart of the experimental operation of the vesicle binding differential characterization; B is the binding differential characterization result of the nucleic acid aptamer ZH-A2 with the serum of the drug-resistant patients and the serum of the chemotherapy-sensitive patients.
具体实施方式Detailed ways
这里将详细地对示例性实施例进行说明,以下示例性实施例中所描述的实施方式并不代表与本公开相一致的所有实施方式。相反,它们仅是与本公开的一些方面相一致的方法的例子。Exemplary embodiments will be described in detail herein, and the implementations described in the following exemplary embodiments are not intended to represent all implementations consistent with the present disclosure. Rather, they are merely examples of approaches consistent with some aspects of the present disclosure.
下述实施例中的实验方法,如无特殊说明,均为常规方法,或按照制造厂商所建议的条件。下述实施例中所用的材料、试剂等,如无特殊说明,均可从商业途径得到。以下实施例和试验例所使用的细胞来自武汉中科院细胞库。The experimental methods in the following examples, unless otherwise specified, are conventional methods, or according to the conditions suggested by the manufacturer. The materials, reagents, etc. used in the following examples can be obtained from commercial sources unless otherwise specified. The cells used in the following examples and test examples were obtained from the Wuhan Chinese Academy of Sciences Cell Bank.
实施例1Example 1
Cell-SELEX筛选过程Cell-SELEX screening process
(1)核酸文库和引物的设计:(1) Design of nucleic acid library and primers:
随机核酸文库:Random nucleic acid library:
5’-AAGGAGCAGCGTGGAGGATA(N)45TTAGGGTGTGTCGTCGTGGT-3’;5'-AAGGAGCAGCGTGGAGGATA(N)45TTAGGGTGTGTCGTCGTGGT-3';
上游引物:5’-异硫氰酸荧光素-AAGGAGCAGCGTGGAGGATA-3’;Upstream primer: 5'-fluorescein isothiocyanate-AAGGAGCAGCGTGGAGGATA-3';
下游引物:5’-生物素-ACCACGACGACACACCCTAA-3’;Downstream primer: 5'-biotin-ACCACGACGACACACCCTAA-3';
(2)正筛:(2) Positive sieve:
①文库的处理:①Library processing:
将上述的随机核酸文库放入10000rpm转速的离心机中,离心10min,用DPBS溶解充分,95℃恒温变性5min,迅速放入冰中10min。The above random nucleic acid library was placed in a centrifuge at 10,000 rpm, centrifuged for 10 min, fully dissolved in DPBS, denatured at 95°C for 5 min, and quickly placed in ice for 10 min.
②孵育:②Incubate:
将处理好的随机文库与已经培养和预处理好的卵巢癌耐紫杉醇细胞株A2780/PTX在37℃孵育60min。The treated random library was incubated with the cultured and pretreated ovarian cancer paclitaxel-resistant cell line A2780/PTX at 37°C for 60 min.
③分离:③Separation:
孵育完成后移除孵育培养皿中溶液,用洗涤缓冲液(PBS,含0.45%的葡萄糖,5mM氯化镁)洗涤孵育培养皿中的细胞;用600μL预冷的无菌水刮取孵育培养皿中细胞,置于1.5ml离心管,95℃加热变性10min,5500rpm每秒离心后取上清,即为A2780/PTX细胞的第一轮筛选的核酸文库。After the incubation, remove the solution in the incubation dish, wash the cells in the incubation dish with washing buffer (PBS, containing 0.45% glucose, 5mM magnesium chloride); scrape the cells in the incubation dish with 600 μL of pre-cooled sterile water , placed in a 1.5ml centrifuge tube, heated at 95°C for denaturation for 10min, centrifuged at 5500rpm per second, and the supernatant was taken, which was the nucleic acid library for the first round of screening of A2780/PTX cells.
(3)文库的扩增:(3) Amplification of the library:
取步骤(2)中筛选所得的核酸文库进行预扩增,Take the nucleic acid library screened in step (2) for pre-amplification,
上游引物:5’-异硫氰酸荧光素-AAGGAGCAGCGTGGAGGATA-3’;Upstream primer: 5'-fluorescein isothiocyanate-AAGGAGCAGCGTGGAGGATA-3';
下游引物:5’-生物素-ACCACGACGACACACCCTAA-3’;Downstream primer: 5'-biotin-ACCACGACGACACACCCTAA-3';
扩增体系为:灭菌水65μL,2.5mM MgCl2 4μL,10×Buffer 10μL,0.2 mM dNTPs 6μL,0.4 μM上游引物2μL,0.4 μM,下游引物2μL,1U Taq酶0.5μL,模板10μL;The amplification system was: 65 μL of sterile water, 4 μL of 2.5 mM MgCl 2 , 10 μL of 10×Buffer, 6 μL of 0.2 mM dNTPs, 2 μL of 0.4 μM upstream primer, 0.4 μM, 2 μL of downstream primer, 0.5 μL of 1U Taq enzyme, and 10 μL of template;
扩增条件为:95℃,3min;95℃,30s;58℃,30s,72℃,30s,经8轮循环,72℃,5min;Amplification conditions were: 95°C, 3 min; 95°C, 30s; 58°C, 30s, 72°C, 30s, after 8 cycles, 72°C, 5min;
以扩增产物为模板进行扩增,Amplification is performed using the amplification product as a template,
所使用引物与扩增体系与预扩增相同,扩增条件为:95℃,3min;95℃,30s;58℃,30s,72 ℃,30s,经20轮循环,72℃,5min。The primers and amplification system used were the same as the pre-amplification, and the amplification conditions were: 95°C, 3 min; 95°C, 30s; 58°C, 30s, 72°C, 30s, after 20 cycles, 72°C, 5min.
(4)ssDNA文库的制备:(4) Preparation of ssDNA library:
用链霉亲和素葡聚糖微球的变性柱分离生物素标记步骤(3)中的PCR扩增产物;然后利用0.2M氢氧化钠使双链DNA变性解链,收集异硫氰酸荧光素标记的DNA单链文库;最后脱盐柱对单链DNA进行脱盐。Use a denaturing column of streptavidin dextran microspheres to separate the biotin-labeled PCR amplification products in step (3); then use 0.2M sodium hydroxide to denature and melt the double-stranded DNA, and collect the isothiocyanate fluorescence The single-stranded DNA library labeled with phospholipids; the final desalting column desalts the single-stranded DNA.
(5)反筛:(5) Reverse sieve:
将步骤(4)所得到的DNA单链文库与对照细胞A2780孵育,然后收集细胞孵育后的上清,即排除掉非特异性结合的核酸序列。The DNA single-stranded library obtained in step (4) was incubated with the control cell A2780, and then the supernatant after the cell incubation was collected, that is, the non-specifically bound nucleic acid sequences were excluded.
(6)正筛:(6) Positive sieve:
将步骤(5)中所制上清液与靶细胞孵育,洗脱保留结合靶细胞的核酸序列,即为第二次筛选的核酸文库。The supernatant prepared in step (5) is incubated with the target cells, and the nucleic acid sequences bound to the target cells are eluted and retained, which is the nucleic acid library of the second screening.
(7)核酸适体循环筛选:(7) Nucleic acid aptamer circulating screening:
以步骤(6)所得的核酸文库取代步骤(2)所得到的扩增产物,并重复步骤(4)-(6)的筛选过程,直到筛选得到与靶细胞A2780/PTX细胞株结合能力强的核酸文库。Replace the amplification product obtained in step (2) with the nucleic acid library obtained in step (6), and repeat the screening process of steps (4)-(6), until screening obtains a product with strong binding ability to the target cell A2780/PTX cell line. nucleic acid library.
(8)检测:(8) Detection:
将多轮筛选获得的富集核酸文库,利用流式细胞术检测与A2780/PTX、A2780细胞株的结合选择性,为避免冗余,仅展示第12、14、15轮筛选的检测结果,如图1所示;The enriched nucleic acid library obtained from multiple rounds of screening is used to detect the binding selectivity of A2780/PTX and A2780 cell lines by flow cytometry. To avoid redundancy, only the detection results of the 12th, 14th, and 15th rounds of screening are displayed, such as As shown in Figure 1;
由图1可知,每轮筛选得到的核酸文库与未经筛选的对照文库(Library)相比均有偏移;在与A2780/PTX细胞株亲和检测中,随着筛选轮数的增加,偏移值逐渐增加,说明每轮筛选中与A2780/PTX细胞株亲和能力逐渐增加。It can be seen from Figure 1 that the nucleic acid library obtained in each round of screening is biased compared with the unscreened control library (Library). The shift value gradually increased, indicating that the affinity with the A2780/PTX cell line gradually increased in each round of screening.
实施例2Example 2
最优核酸适体的确定Determination of optimal nucleic acid aptamers
依据实施例1中筛选出的核酸文库,通过计算机分析和比对挑选出6条候选核酸序列,分别命名为ZH-A2、ZH-A4、ZH-A6、ZH-A9、ZH-A10、ZH-A11并确定最优核酸适体。According to the nucleic acid library screened in Example 1, 6 candidate nucleic acid sequences were selected through computer analysis and comparison, and were named ZH-A2, ZH-A4, ZH-A6, ZH-A9, ZH-A10, ZH- A11 and determine the optimal nucleic acid aptamer.
具体步骤:Specific steps:
(1)流式考察(1) Streaming inspection
用0.2% EDTA将贴壁状态的A2780/PTX细胞从培养皿上消化下来,将细胞收集到离心管中,并用DPBS离心洗涤两次;然后将终浓度为250nM、FITC标记的候选链以及随机文库分别加入到结合缓冲液(D-PBS,含0.45%的葡萄糖,5mM氯化镁,100mg/L tRNA,1g/L BSA)浸泡的A2780/PTX细胞中;然后放置于37℃摇床孵育45min;孵育完成之后并用洗涤缓冲液(PBS,含0.45%的葡萄糖,5mM氯化镁)离心洗涤两次,最后通过流式细胞仪进行荧光检测;Adherent state A2780/PTX cells were digested from culture dishes with 0.2% EDTA, cells were collected into centrifuge tubes, and washed twice with DPBS; were added to A2780/PTX cells soaked in binding buffer (D-PBS, containing 0.45% glucose, 5mM magnesium chloride, 100mg/L tRNA, 1g/L BSA); then placed in a shaker at 37°C and incubated for 45min; the incubation was completed After that, it was centrifuged and washed twice with washing buffer (PBS, containing 0.45% glucose, 5mM magnesium chloride), and finally the fluorescence was detected by flow cytometry;
用相同方法检测候选序列与细胞株A2780、HO-8910、OVCAR3、Caov3、IOSE-80的结合情况。The same method was used to detect the binding of candidate sequences to cell lines A2780, HO-8910, OVCAR3, Caov3 and IOSE-80.
流式细胞仪检测结果如图2所示,结果显示,在与A2780/PTX细胞株的亲和性测定结果中可知,ZH-A2的偏移量最高,说明在所有候选序列中,ZH-A2与A2780/PTX细胞株的亲和性最佳,而从与其他几种细胞株的亲和性测定结果中可知,ZH-A2几乎没有产生偏移,说明核酸适体ZH-A2只识别耐药细胞而不识别普通细胞株及卵巢上皮正常细胞,因此确定核酸适体ZH-A2为最优核酸适体。The results of flow cytometry are shown in Figure 2. The results show that in the affinity measurement results with the A2780/PTX cell line, ZH-A2 has the highest offset, indicating that among all candidate sequences, ZH-A2 The affinity with the A2780/PTX cell line is the best, and from the results of the affinity determination with several other cell lines, it can be seen that ZH-A2 has almost no deviation, indicating that the nucleic acid aptamer ZH-A2 only recognizes drug resistance The cells do not recognize common cell lines and normal ovarian epithelial cells, so the nucleic acid aptamer ZH-A2 is determined to be the optimal nucleic acid aptamer.
(2)激光共聚焦考察(2) Laser confocal inspection
用0.2% EDTA将贴壁状态的A2780/PTX细胞从培养皿上消化下来,将细胞收集到离心管中,并用DPBS离心洗涤两次;将终浓度为250nM、FITC标记的ZH-A2以及随机文库分别加入到结合缓冲液(D-PBS,含0.45% 的葡萄糖,5mM氯化镁,100mg/L tRNA,1g/L BSA)浸泡的A2780/PTX细胞中;然后放置于37℃摇床孵育45min;孵育完成之后并用洗涤缓冲液(PBS,含0.45%的葡萄糖,5mM氯化镁)离心洗涤两次,通过激光共聚焦进行荧光检测;用相同方法检测ZH-A2与细胞株A2780、HO-8910、OVCAR3、Caov3、IOSE-80的结合情况。The adherent A2780/PTX cells were digested from the culture dish with 0.2% EDTA, the cells were collected into centrifuge tubes, and washed twice with DPBS; the final concentration of 250nM, FITC-labeled ZH-A2 and random library were added to A2780/PTX cells soaked in binding buffer (D-PBS, containing 0.45% glucose, 5mM magnesium chloride, 100mg/L tRNA, 1g/L BSA); then placed in a shaker at 37°C and incubated for 45min; the incubation was completed After that, the cells were centrifuged and washed twice with washing buffer (PBS, containing 0.45% glucose, 5mM magnesium chloride), and fluorescence detection was performed by laser confocal; ZH-A2 and cell lines A2780, HO-8910, OVCAR3, Caov3, Combination of IOSE-80.
激光共聚焦检测结果如图3所示,结果显示,ZH-A2与A2780/PTX细胞亲和,荧光分布围绕细胞膜一圈;而其他细胞内部和外侧均未出现荧光,说明ZH-A2与其他受测细胞均不亲和,与流式考察结果一致。The results of laser confocal detection are shown in Figure 3. The results show that ZH-A2 has affinity with A2780/PTX cells, and the fluorescence distribution surrounds the cell membrane; while there is no fluorescence inside and outside other cells, indicating that ZH-A2 is closely related to other cells. The cells tested were all incompatible, which was consistent with the results of flow cytometry.
试验例1Test Example 1
核酸适体ZH-A2对卵巢癌耐药细胞株亲和力的测定Determination of the affinity of nucleic acid aptamer ZH-A2 to drug-resistant ovarian cancer cell lines
利用测定平衡解离常数Kd来表征核酸适体对靶标细胞的结合亲和力,具体操作步骤如下:The equilibrium dissociation constant Kd is used to characterize the binding affinity of nucleic acid aptamers to target cells. The specific operation steps are as follows:
(1)将卵巢癌耐药细胞(A2780/PTX,A2780/DDP,SKOV3/DDP)提前接种于细胞培养皿中,待细胞融合度达到90%左右,吸弃培养基,用DPBS洗涤细胞两次,并用0.2% EDTA将细胞从皿上消化下来;(1) The ovarian cancer drug-resistant cells (A2780/PTX, A2780/DDP, SKOV3/DDP) were inoculated in a cell culture dish in advance. When the cell confluence reached about 90%, the culture medium was aspirated and the cells were washed twice with DPBS. , and digested the cells from the dish with 0.2% EDTA;
(2)将细胞计数并分为8管,每管30万个细胞;(2) Count the cells and divide them into 8 tubes, each with 300,000 cells;
(3)核酸适体ZH-A2预处理:将DNA置于95℃金属浴变性5min,冰上放置10min;(3) Nucleic acid aptamer ZH-A2 pretreatment: DNA was denatured in a 95°C metal bath for 5min, and placed on ice for 10min;
(4)预处理好的核酸适体ZH-A2分为7管,每管在200μL体系下,终浓度分别为0,5,10,20,50,100,200,500nM;(4) The pretreated nucleic acid aptamer ZH-A2 is divided into 7 tubes, each tube has a final concentration of 0, 5, 10, 20, 50, 100, 200, and 500 nM in a 200 μL system;
(5)将核酸适体ZH-A2对应加入细胞管中,混匀,避光孵育30min,WB洗脱2次,上流式检测;(5) The nucleic acid aptamer ZH-A2 was added to the cell tube correspondingly, mixed well, incubated in the dark for 30 minutes, washed twice by WB, and detected by upflow;
(6)流式检测完成后,利用FlowJO软件计算每管的荧光强度,再利用Graphpad拟合结合亲和力曲线计算Kd值。(6) After the flow detection is completed, use FlowJO software to calculate the fluorescence intensity of each tube, and then use Graphpad to fit the binding affinity curve to calculate the Kd value.
计算结果如图4所示,结果显示,ZH-A2对卵巢癌耐药细胞(A2780/PTX,A2780/DDP,SKOV3/DDP)的Kd值都在纳摩尔级别,说明ZH-A2对这些细胞有极好的亲和力。The calculation results are shown in Figure 4. The results show that the Kd values of ZH-A2 on ovarian cancer drug-resistant cells (A2780/PTX, A2780/DDP, SKOV3/DDP) are all in the nanomolar level, indicating that ZH-A2 has a certain effect on these cells. Excellent affinity.
试验例2Test Example 2
核酸适体ZH-A2对细胞外囊泡结合测定Binding assay of nucleic acid aptamer ZH-A2 to extracellular vesicles
(1)细胞外囊泡的提取及表征(1) Extraction and characterization of extracellular vesicles
分别取A2780/PTX、A2780/DDP、A2780、IOSE-80细胞在正常含血清的培养基中培养一定的时间后,细胞融合度约为60%-70%时,移去原有含血清的培养基,换成新鲜的无血清培养基,继续培养24-48h,细胞融合度达到80%-95%左右时收取上清。将上清液采用超离的方法提取外囊泡。并采用电镜,western blot,纳米流式进行细胞外囊泡的表征;表征结果如图5、6、7所示,图5为使用纳米流式测定细胞外囊泡粒径的结果,图6为电镜观察细胞外囊泡的结果,图7为western blot表征结果。由western blot表征结果可知,细胞外囊泡提取成功。Take A2780/PTX, A2780/DDP, A2780, and IOSE-80 cells and culture them in normal serum-containing medium for a certain period of time. When the cell confluence is about 60%-70%, remove the original serum-containing culture medium. The base was replaced with fresh serum-free medium, and the culture was continued for 24-48 h. The supernatant was collected when the cell confluence reached about 80%-95%. Outer vesicles were extracted from the supernatant by ultracentrifugation. Electron microscopy, western blot, and nano-flow were used to characterize extracellular vesicles; the characterization results are shown in Figures 5, 6, and 7. Figure 5 is the result of measuring the particle size of extracellular vesicles using nano-flow, and Figure 6 is The results of electron microscope observation of extracellular vesicles, Figure 7 shows the results of western blot characterization. The results of western blot characterization showed that extracellular vesicles were successfully extracted.
(2)结合测定(2) Binding assay
细胞外囊泡提取后用纳米流式检测其与核酸适体ZH-A2的结合情况,结果如图8、图9所示,由图8中的偏移量和图9中的荧光统计数据可知核酸适体ZH-A2与A2780/PTX细胞外囊泡和A2780/DDP细胞外囊泡的亲和性良好,对A2780细胞外囊泡亲和力差,对IOSE80细胞外囊泡几乎不具有亲和力,因此核酸适体ZH-A2特异性良好,可以有效区分耐药细胞和非耐药细胞的细胞外囊泡。After the extracellular vesicles were extracted, the binding to the nucleic acid aptamer ZH-A2 was detected by nanoflow. The results are shown in Figure 8 and Figure 9. It can be seen from the offset in Figure 8 and the fluorescence statistics in Figure 9 The nucleic acid aptamer ZH-A2 has good affinity with A2780/PTX extracellular vesicles and A2780/DDP extracellular vesicles, poor affinity for A2780 extracellular vesicles, and almost no affinity for IOSE80 extracellular vesicles, so the nucleic acid The aptamer ZH-A2 has good specificity and can effectively distinguish extracellular vesicles of drug-resistant cells and non-drug-resistant cells.
试验例3Test Example 3
病人血清中细胞外囊泡与ZH-A2的结合表征Characterization of the binding of extracellular vesicles to ZH-A2 in patient serum
为了进一步验证核酸适体在病人样本中的区分情况,分别收集了卵巢癌化疗耐药病人及化疗敏感病人的血清,并提取了病人血清中的细胞外囊泡,采用纳米流式进行检查,操作流程如图10A所示。In order to further verify the differentiation of nucleic acid aptamers in patient samples, the serum of ovarian cancer chemotherapy-resistant patients and chemotherapy-sensitive patients were collected, and the extracellular vesicles in the patient's serum were extracted and examined by nanoflow cytometry. The flow is shown in Figure 10A.
结果如图10B所示,说明核酸适体ZH-A2对耐药病人的细胞外囊泡有更强的结合能力,特异性良好。The results are shown in Figure 10B, indicating that the nucleic acid aptamer ZH-A2 has stronger binding ability to extracellular vesicles of drug-resistant patients, and has good specificity.
本发明的操作步骤中的常规操作为本领域技术人员所熟知,在此不进行赘述。Routine operations in the operation steps of the present invention are well known to those skilled in the art and will not be repeated here.
以上所述的实施例对本发明的技术方案进行了详细说明,应理解的是以上所述仅为本发明的具体实施例,并不用于限制本发明,凡在本发明的原则范围内所做的任何修改、补充或类似方式替代等,均应包含在本发明的保护范围之内。The above embodiments describe the technical solutions of the present invention in detail. It should be understood that the above are only specific embodiments of the present invention and are not intended to limit the present invention. Anything done within the scope of the principles of the present invention Any modifications, additions or substitutions in similar manners, etc., shall be included within the protection scope of the present invention.
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