CN111455057A - Kit, device and method for lung cancer diagnosis - Google Patents
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Abstract
Description
技术领域technical field
本发明涉及医学诊断领域,具体涉及一种用于早期肺癌的诊断试剂盒、装置及方法。The invention relates to the field of medical diagnosis, in particular to a diagnostic kit, device and method for early stage lung cancer.
背景技术Background technique
肺癌是我国乃至全球主要癌种之一。根据2018年最新全球癌症统计数据,肺癌在所有癌种中发病率及致死率均居于首位。而根据2019年中国肿瘤登记数据,中国2015年新增390.2万癌症病例,癌症的死亡病例约为233.8万,其中肺癌是中国癌症死亡的主要原因。因此,为提升我国肺癌诊疗行为,改善肺癌患者预后,早期诊断成为肺癌诊治的重要问题。Lung cancer is one of the major cancers in my country and even in the world. According to the latest global cancer statistics in 2018, lung cancer ranks first in morbidity and mortality among all cancer types. According to the 2019 China Cancer Registry data, there were 3.902 million new cancer cases in China in 2015, and about 2.338 million cancer deaths, among which lung cancer is the main cause of cancer death in China. Therefore, in order to improve the behavior of lung cancer diagnosis and treatment in my country and improve the prognosis of lung cancer patients, early diagnosis has become an important issue in the diagnosis and treatment of lung cancer.
随着低剂量螺旋CT的应用,越来越多的影像学表现为肺结节(肺间质内<3cm的单一病变、而且无相关的肺不张或淋巴结病)被发现。然而并非所有的肺结节都是恶性,肺结节良恶性鉴别一直以来是胸外科临床诊疗的难点。目前也有采用血浆循环肿瘤细胞、循环肿瘤游离DNA等的无创检测手段,但其在早期肺癌诊断中检测的灵敏度并不高;因此,亟待开发一种高灵敏度的无创肺癌早期检测的方法。With the use of low-dose helical CT, an increasing number of radiographic findings of pulmonary nodules (single lesions <3 cm in the interstitium without associated atelectasis or lymphadenopathy) have been identified. However, not all pulmonary nodules are malignant, and the identification of benign and malignant pulmonary nodules has always been a difficult point in the clinical diagnosis and treatment of thoracic surgery. At present, there are also non-invasive detection methods using plasma circulating tumor cells, circulating tumor cell-free DNA, etc., but their detection sensitivity in the diagnosis of early lung cancer is not high. Therefore, it is urgent to develop a high-sensitivity non-invasive early detection method for lung cancer.
发明内容SUMMARY OF THE INVENTION
本发明的提供了一种基于外泌体的无创的早期肺癌诊断的试剂、装置和方法。The present invention provides a reagent, device and method for non-invasive early lung cancer diagnosis based on exosomes.
本发明一方面提供一种用于肺癌诊断的试剂盒,包括检测外泌体长RNA标志物和miRNA标志物组合的引物和探针,所述长RNA标志物包括ARPC5、MBOAT2、IL1B中的一种或多种,所述miRNA标志物包括miR-450b-5p、miR-let-7f、miR-3615、miR-885-5p、miR-106b-3p、miR-30e-5p、miR-4746-5p、miR-125a-5p中的一种或多种。One aspect of the present invention provides a kit for lung cancer diagnosis, comprising primers and probes for detecting a combination of exosomal long RNA markers and miRNA markers, the long RNA markers including one of ARPC5, MBOAT2, and IL1B One or more, the miRNA markers include miR-450b-5p, miR-let-7f, miR-3615, miR-885-5p, miR-106b-3p, miR-30e-5p, miR-4746-5p , one or more of miR-125a-5p.
优选,所述标志物为miR-450b-5p、let-7f-2-3p和ARPC5三者的组合。Preferably, the marker is a combination of miR-450b-5p, let-7f-2-3p and ARPC5.
优选,所述标志物为miR-106b-3P、miR-30e-5p和MBOAT2三者的组合。Preferably, the marker is a combination of miR-106b-3P, miR-30e-5p and MBOAT2.
优选,所述标志物为miR-106b-3P、miR-30e-5p、miR-3615、miR-885-5p和ARPC5五者的组合。Preferably, the marker is a combination of five of miR-106b-3P, miR-30e-5p, miR-3615, miR-885-5p and ARPC5.
优选,所述标志物为miR-106b-3P、miR-125a-5p、miR-3615、miR-450b-5p和IL1B五者的组合。。Preferably, the marker is a combination of miR-106b-3P, miR-125a-5p, miR-3615, miR-450b-5p and IL1B. .
优选,外泌体来源包括血液、唾液及痰液的一种或多种。Preferably, the source of exosomes includes one or more of blood, saliva and sputum.
优选,所述引物和探针包括:Preferably, the primers and probes include:
用于检测内参ACTB的引物和探针:所述RNA的上游引物如序列号1所示的核苷酸序列,下游引物如序列号2所示的核苷酸序列,探针如序列号3所示的核苷酸序列;Primers and probes for detecting internal reference ACTB: the upstream primer of the RNA is shown in nucleotide sequence of SEQ ID NO: 1, the downstream primer is shown in nucleotide sequence of SEQ ID NO: 2, and the probe is shown in SEQ ID NO: 3. the nucleotide sequence shown;
用于检测ARPC5的引物和探针:所述RNA的上游引物如序列号4所示的核苷酸序列,下游引物如序列号5所示的核苷酸序列,探针如序列号6所示的核苷酸序列;Primers and probes for detecting ARPC5: the upstream primer of the RNA is shown in the nucleotide sequence shown in SEQ ID NO: 4, the downstream primer is shown in the nucleotide sequence shown in SEQ ID NO: 5, and the probe is shown in SEQ ID NO: 6 nucleotide sequence;
用于检测IL1B的引物和探针:所述RNA的上游引物如序列号7所示的核苷酸序列,下游引物如序列号8所示的核苷酸序列,探针如序列号9所示的核苷酸序列;Primers and probes for detecting IL1B: the upstream primer of the RNA is shown in the nucleotide sequence shown in SEQ ID NO: 7, the downstream primer is shown in the nucleotide sequence shown in SEQ ID NO: 8, and the probe is shown in SEQ ID NO: 9 nucleotide sequence;
用于检测MBOAT2的引物和探针:所述RNA的上游引物如序列号10所示的核苷酸序列,下游引物如序列号11所示的核苷酸序列,探针如序列号12所示的核苷酸序列;Primers and probes for detecting MBOAT2: the upstream primer of the RNA is shown in the nucleotide sequence shown in SEQ ID NO: 10, the downstream primer is shown in the nucleotide sequence shown in SEQ ID NO: 11, and the probe is shown in SEQ ID NO: 12 nucleotide sequence;
用于检测let-7f-2的逆转录引物、PCR引物和探针:所述的逆转录引物如序列号13所示的核苷酸序列,PCR上游引物如序列号14所示的核苷酸序列,下游引物如序列号41所示的核苷酸序列,探针如序列号15所示的核苷酸序列;Reverse transcription primers, PCR primers and probes for the detection of let-7f-2: the reverse transcription primers are shown in the nucleotide sequence shown in SEQ ID NO: 13, and the PCR upstream primers are shown in the nucleotide sequence shown in SEQ ID NO: 14 Sequence, the downstream primer is the nucleotide sequence shown in SEQ ID NO: 41, and the probe is the nucleotide sequence shown in SEQ ID NO: 15;
用于检测miR-106b-3p的逆转录引物、PCR引物和探针:所述的逆转录引物如序列号16所示的核苷酸序列,PCR上游引物如序列号17所示的核苷酸序列,下游引物如序列号41所示的核苷酸序列,探针如序列号18所示的核苷酸序列;Reverse transcription primers, PCR primers and probes for detecting miR-106b-3p: the reverse transcription primers are shown in the nucleotide sequence shown in SEQ ID NO: 16, and the PCR upstream primers are shown in the nucleotide sequence shown in SEQ ID NO: 17 Sequence, the downstream primer is the nucleotide sequence shown in SEQ ID NO: 41, and the probe is the nucleotide sequence shown in SEQ ID NO: 18;
用于检测miR-125a-5p的逆转录引物、PCR引物和探针:所述的逆转录引物如序列号19所示的核苷酸序列,PCR上游引物如序列号20所示的核苷酸序列,下游引物如序列号41所示的核苷酸序列,探针如序列号21所示的核苷酸序列;Reverse transcription primers, PCR primers and probes for detecting miR-125a-5p: the reverse transcription primers are shown in the nucleotide sequence shown in SEQ ID NO: 19, and the PCR upstream primers are shown in the nucleotide sequence shown in SEQ ID NO: 20 Sequence, the downstream primer is the nucleotide sequence shown in SEQ ID NO: 41, and the probe is the nucleotide sequence shown in SEQ ID NO: 21;
用于检测miR-30e-5p的逆转录引物、PCR引物和探针:所述的逆转录引物如序列号22所示的核苷酸序列,PCR上游引物如序列号23所示的核苷酸序列,下游引物如序列号41所示的核苷酸序列,探针如序列号24所示的核苷酸序列;Reverse transcription primers, PCR primers and probes for detecting miR-30e-5p: the reverse transcription primers are shown in the nucleotide sequence shown in SEQ ID NO: 22, and the PCR upstream primers are shown in the nucleotide sequence shown in SEQ ID NO: 23 sequence, the downstream primer is the nucleotide sequence shown in SEQ ID NO: 41, and the probe is the nucleotide sequence shown in SEQ ID NO: 24;
用于检测miR-3615的逆转录引物、PCR引物和探针:所述的逆转录引物如序列号25所示的核苷酸序列,PCR上游引物如序列号26所示的核苷酸序列,下游引物如序列号41所示的核苷酸序列,探针如序列号27所示的核苷酸序列;Reverse transcription primers, PCR primers and probes for detecting miR-3615: the reverse transcription primers are shown in the nucleotide sequence shown in SEQ ID NO: 25, and the PCR upstream primers are shown in the nucleotide sequence shown in SEQ ID NO: 26, The downstream primer is the nucleotide sequence shown in SEQ ID NO: 41, and the probe is the nucleotide sequence shown in SEQ ID NO: 27;
用于检测miR-450b-5p的逆转录引物、PCR引物和探针:所述的逆转录引物如序列号28所示的核苷酸序列,PCR上游引物如序列号29所示的核苷酸序列,下游引物如序列号41所示的核苷酸序列,探针如序列号30所示的核苷酸序列;Reverse transcription primers, PCR primers and probes for detecting miR-450b-5p: the reverse transcription primers are shown in the nucleotide sequence shown in SEQ ID NO: 28, and the PCR upstream primers are shown in the nucleotide sequence shown in SEQ ID NO: 29 Sequence, the downstream primer is the nucleotide sequence shown in SEQ ID NO: 41, and the probe is the nucleotide sequence shown in SEQ ID NO: 30;
用于检测miR-4746-5p的逆转录引物、PCR引物和探针:所述的逆转录引物如序列号31所示的核苷酸序列,PCR上游引物如序列号32所示的核苷酸序列,下游引物如序列号41所示的核苷酸序列,探针如序列号33所示的核苷酸序列;Reverse transcription primers, PCR primers and probes for detecting miR-4746-5p: the reverse transcription primers are shown in the nucleotide sequence shown in SEQ ID NO: 31, and the PCR upstream primers are shown in the nucleotide sequence shown in SEQ ID NO: 32 Sequence, the downstream primer is the nucleotide sequence shown in SEQ ID NO: 41, and the probe is the nucleotide sequence shown in SEQ ID NO: 33;
用于检测miR-885-5p的逆转录引物、PCR引物和探针:所述的逆转录引物如序列号34所示的核苷酸序列,PCR上游引物如序列号35所示的核苷酸序列,下游引物如序列号41所示的核苷酸序列,探针如序列号36所示的核苷酸序列;Reverse transcription primers, PCR primers and probes for detecting miR-885-5p: the reverse transcription primers are shown in the nucleotide sequence shown in SEQ ID NO: 34, and the PCR upstream primers are shown in the nucleotide sequence shown in SEQ ID NO: 35 Sequence, the downstream primer is the nucleotide sequence shown in SEQ ID NO: 41, and the probe is the nucleotide sequence shown in SEQ ID NO: 36;
用于检测内参U6的逆转录引物、PCR引物和探针:所述U6的逆转录引物如序列号39所示的核苷酸序列,PCR上游引物如序列号37所示的核苷酸序列,下游引物如序列号38所示的核苷酸序列,探针如序列号40所示的核苷酸序列。Reverse transcription primers, PCR primers and probes for detecting internal reference U6: the reverse transcription primers of the U6 are shown in the nucleotide sequence shown in SEQ ID NO: 39, and the PCR upstream primers are shown in the nucleotide sequence shown in SEQ ID NO: 37, The downstream primer is the nucleotide sequence shown in SEQ ID NO: 38, and the probe is the nucleotide sequence shown in SEQ ID NO: 40.
本发明另一方面提供一种用于肺癌诊断的装置,包括检测外泌体长RNA标志物和miRNA标志物组合的引物和探针,所述长RNA标志物包括ARPC5、MBOAT2、IL1B中的一种或多种,所述miRNA标志物包括miR-450b-5p、miR-let-7f、miR-3615、miR-885-5p、miR-106b-3p、miR-30e-5p、miR-4746-5p、miR-125a-5p中的一种或多种。Another aspect of the present invention provides a device for lung cancer diagnosis, comprising primers and probes for detecting a combination of exosomal long RNA markers and miRNA markers, the long RNA markers including one of ARPC5, MBOAT2, and IL1B One or more, the miRNA markers include miR-450b-5p, miR-let-7f, miR-3615, miR-885-5p, miR-106b-3p, miR-30e-5p, miR-4746-5p , one or more of miR-125a-5p.
本发明另一方面提供一种用于肺癌诊断的方法,包括检测外泌体长RNA标志物和miRNA标志物组合的特异性,所述长RNA标志物包括ARPC5、MBOAT2、IL1B中的一种或多种,所述miRNA标志物包括miR-450b-5p、miR-let-7f、miR-3615、miR-885-5p、miR-106b-3p、miR-30e-5p、miR-4746-5p、miR-125a-5p中的一种或多种。Another aspect of the present invention provides a method for lung cancer diagnosis, comprising detecting the specificity of a combination of exosomal long RNA markers and miRNA markers, the long RNA markers comprising one of ARPC5, MBOAT2, IL1B or Various, the miRNA markers include miR-450b-5p, miR-let-7f, miR-3615, miR-885-5p, miR-106b-3p, miR-30e-5p, miR-4746-5p, miR One or more of -125a-5p.
本发明提供了一种基于外泌体的无创的早期肺癌诊断的方法,在早期肺癌中具有高灵敏度及高特异性,为肺癌的早期诊断提供了重要价值。对我国肺癌的防治有很大的帮助。更进一步,其中灵敏度最高的组合可达到100%的灵敏度,特异性最高的组合可以实现96.67%的特异性,具有较好的性能。The invention provides a non-invasive early lung cancer diagnosis method based on exosomes, which has high sensitivity and high specificity in early lung cancer, and provides important value for the early diagnosis of lung cancer. It is of great help to the prevention and treatment of lung cancer in my country. Further, the combination with the highest sensitivity can achieve 100% sensitivity, and the combination with the highest specificity can achieve 96.67% specificity, which has better performance.
附图说明Description of drawings
图1是miR-450b-5p+let-7f-2-3p+ARPC5组合检测肺癌的ROC曲线。Figure 1 is the ROC curve of the combination of miR-450b-5p+let-7f-2-3p+ARPC5 to detect lung cancer.
图2是miR-106b-3P+miR-30e-5p+MBOAT2组合检测肺癌的ROC曲线。Figure 2 is the ROC curve of the combination of miR-106b-3P+miR-30e-5p+MBOAT2 for detecting lung cancer.
图3是miR-106b-3P+miR-30e-5p+miR-450b-5p+miR-885-5p+ARPC5组合检测肺癌的ROC曲线。Figure 3 is the ROC curve of the combination of miR-106b-3P+miR-30e-5p+miR-450b-5p+miR-885-5p+ARPC5 to detect lung cancer.
图4是miR-106b-3P+miR-30e-5p+miR-4746-5p+miR-885-5p+ARPC5组合检测肺癌的ROC曲线。Figure 4 is the ROC curve of the combination of miR-106b-3P+miR-30e-5p+miR-4746-5p+miR-885-5p+ARPC5 to detect lung cancer.
图5是miR-106b-3P+miR-30e-5p+miR-3615+miR-885-5p+ARPC5组合检测肺癌的ROC曲线。Figure 5 is the ROC curve of the combination of miR-106b-3P+miR-30e-5p+miR-3615+miR-885-5p+ARPC5 for detecting lung cancer.
图6是miR-106b-3P+miR-125a-5p+miR-3615+miR-450b-5p+IL1B组合检测肺癌的ROC曲线。Figure 6 is the ROC curve of the combination of miR-106b-3P+miR-125a-5p+miR-3615+miR-450b-5p+IL1B to detect lung cancer.
具体实施方式Detailed ways
细胞外囊泡(Extracellular Vesicles,EVs;以下囊泡均代表细胞外囊泡)是指从细胞膜上脱落或由细胞分泌的具有双层膜结构的囊泡状小体,直径从30-1000nm不等,胞外囊泡主要由微囊泡(MicroVesicles,MVs)和外泌体(exosomes)组成,微囊泡是细胞激活或损伤后从细胞膜脱落的小囊泡。由于细胞外囊泡独特的生物学特征,其在疾病诊断中有着重要的意义,特别是其中的外泌体。Extracellular vesicles (Extracellular Vesicles, EVs; the following vesicles all represent extracellular vesicles) refers to vesicle-like bodies with a double-membrane structure shed from the cell membrane or secreted by cells, ranging in diameter from 30-1000nm , Extracellular vesicles are mainly composed of microvesicles (MicroVesicles, MVs) and exosomes (exosomes), microvesicles are small vesicles shed from the cell membrane after cell activation or injury. Due to the unique biological characteristics of extracellular vesicles, they are of great significance in the diagnosis of diseases, especially the exosomes in them.
外泌体是一种由细胞内多泡体与细胞膜融合后分泌到细胞外环境中粒径介于30~150nm的膜性小囊泡,是细胞间信息传递的重要媒介,在抗原呈递、细胞凋亡、炎症反应、肿瘤发生发展及转移过程中发挥了重要作用。其在体液中分布广泛,包括血液、唾液、尿液、乳汁和胸腹水等;包含DNA、RNA及蛋白质等多种内含物,可以作为肿瘤等多种疾病的无创诊断标志物。而miRNA则是外泌体中含量最为丰富的核酸组分,因而外泌体miRNA具备作为肺癌早期诊断的潜力。Exosomes are small membranous vesicles with a diameter of 30-150 nm that are secreted into the extracellular environment after fusion of intracellular multivesicular bodies with cell membranes. It plays an important role in apoptosis, inflammatory response, tumor development and metastasis. It is widely distributed in body fluids, including blood, saliva, urine, breast milk, pleural and ascites, etc. It contains various inclusions such as DNA, RNA and protein, and can be used as a non-invasive diagnostic marker for various diseases such as tumors. miRNAs are the most abundant nucleic acid components in exosomes, so exosomal miRNAs have the potential for early diagnosis of lung cancer.
本发明提供的试剂盒、装置和方法,以通过实验研究发现在患有早期肺癌患者的外泌体中呈现显著差异表达的长RNA与miRNA的组合作为诊断早期肺癌的标志物。The kit, device and method provided by the present invention use the combination of long RNA and miRNA, which are found to be significantly differentially expressed in exosomes of patients with early-stage lung cancer through experimental research, as a marker for diagnosing early-stage lung cancer.
在实施方案中,诊断肺癌的标志物组合至少包含一种长RNA及一种miRNA。其中长RNA包括:ARPC5、MBOAT2、IL1B。MiRNA包括:miR-450b-5p、miR-let-7f、miR-3615、miR-885-5p、miR-106b-3p、miR-30e-5p、miR-4746-5p、miR-125a-5p。In an embodiment, the combination of markers for diagnosing lung cancer comprises at least one long RNA and one miRNA. The long RNAs include: ARPC5, MBOAT2, and IL1B. MiRNAs include: miR-450b-5p, miR-let-7f, miR-3615, miR-885-5p, miR-106b-3p, miR-30e-5p, miR-4746-5p, miR-125a-5p.
在一些优选的实施方案中,其中较优的组合是:miR-450b-5p+let-7f-2-3p+ARPC5、miR-106b-3P+miR-30e-5p+MBOAT2、miR-106b-3P+miR-30e-5p+miR-450b-5p+miR-885-5p+ARPC5miR-106b-3P+miR-30e-5p+miR-4746-5p+miR-885-5p+ARPC5、miR-106b-3P+miR-30e-5p+miR-3615+miR-885-5p+ARPC5和miR-106b-3P+miR-125a-5p+miR-3615+miR-450b-5p+IL1B。上述组合可为肺癌的早期诊断提供更好的依据,预示疾病风险。In some preferred embodiments, the preferred combination is: miR-450b-5p+let-7f-2-3p+ARPC5, miR-106b-3P+miR-30e-5p+MBOAT2, miR-106b-3P +miR-30e-5p+miR-450b-5p+miR-885-5p+ARPC5miR-106b-3P+miR-30e-5p+miR-4746-5p+miR-885-5p+ARPC5、miR-106b-3P +miR-30e-5p+miR-3615+miR-885-5p+ARPC5 and miR-106b-3P+miR-125a-5p+miR-3615+miR-450b-5p+IL1B. The above combination can provide a better basis for the early diagnosis of lung cancer and predict the risk of the disease.
另外,本发明的用于肺癌诊断的试剂盒包括检测上述外泌体长RNA标志物的引物和探针。检测外泌体标志物的引物和探针包括:In addition, the kit for lung cancer diagnosis of the present invention includes primers and probes for detecting the above-mentioned exosomal long RNA markers. Primers and probes for detection of exosomal markers include:
用于检测内参ACTB的引物和探针:所述RNA的上游引物具体如序列号1所示的核苷酸序列,下游引物具体如序列号2所示的核苷酸序列,探针具体如序列号3所示的核苷酸序列;Primers and probes for detecting the internal reference ACTB: the upstream primer of the RNA is specifically the nucleotide sequence shown in SEQ ID NO: 1, the downstream primer is specifically the nucleotide sequence shown in SEQ ID NO: 2, and the probe is specifically the nucleotide sequence shown in SEQ ID NO: 2 The nucleotide sequence shown in No. 3;
用于检测ARPC5的引物和探针:所述RNA的上游引物具体如序列号4所示的核苷酸序列,下游引物具体如序列号5所示的核苷酸序列,探针具体如序列号6所示的核苷酸序列;Primers and probes for detecting ARPC5: the upstream primer of the RNA is specifically the nucleotide sequence shown in SEQ ID NO: 4, the downstream primer is specifically the nucleotide sequence shown in SEQ ID NO: 5, and the probe is specifically the nucleotide sequence shown in SEQ ID NO: 4 The nucleotide sequence shown in 6;
用于检测IL1B的引物和探针:所述RNA的上游引物具体如序列号7所示的核苷酸序列,下游引物具体如序列号8所示的核苷酸序列,探针具体如序列号9所示的核苷酸序列;Primers and probes for detecting IL1B: the upstream primer of the RNA is specifically the nucleotide sequence shown in SEQ ID NO: 7, the downstream primer is specifically the nucleotide sequence shown in SEQ ID NO: 8, and the probe is specifically the nucleotide sequence shown in SEQ ID NO: 8 The nucleotide sequence shown in 9;
用于检测MBOAT2的引物和探针:所述RNA的上游引物具体如序列号10所示的核苷酸序列,下游引物具体如序列号11所示的核苷酸序列,探针具体如序列号12所示的核苷酸序列;Primers and probes for detecting MBOAT2: the upstream primer of the RNA is specifically the nucleotide sequence shown in SEQ ID NO: 10, the downstream primer is specifically the nucleotide sequence shown in SEQ ID NO: 11, and the probe is specifically the nucleotide sequence shown in SEQ ID NO: 11 The nucleotide sequence shown in 12;
用于检测let-7f-2的逆转录引物、PCR引物和探针:所述的逆转录引物具体如序列号13所示的核苷酸序列,PCR上游引物具体如序列号14所示的核苷酸序列,下游引物具体如序列号41所示的核苷酸序列,探针具体如序列号15所示的核苷酸序列;Reverse transcription primers, PCR primers and probes for the detection of let-7f-2: the reverse transcription primers are specifically shown in the nucleotide sequence shown in SEQ ID NO: 13, and the PCR upstream primers are specifically shown in the nucleotide sequence shown in SEQ ID NO: 14. The nucleotide sequence, the downstream primer is specifically the nucleotide sequence shown in SEQ ID NO: 41, and the probe is specifically the nucleotide sequence shown in SEQ ID NO: 15;
用于检测miR-106b-3p的逆转录引物、PCR引物和探针:所述的逆转录引物具体如序列号16所示的核苷酸序列,PCR上游引物具体如序列号17所示的核苷酸序列,下游引物具体如序列号41所示的核苷酸序列,探针具体如序列号18所示的核苷酸序列;Reverse transcription primers, PCR primers and probes for detecting miR-106b-3p: the reverse transcription primers are specifically shown in the nucleotide sequence shown in SEQ ID NO: 16, and the PCR upstream primers are specifically shown in the nucleotide sequence shown in SEQ ID NO: 17. The nucleotide sequence, the downstream primer is specifically the nucleotide sequence shown in SEQ ID NO: 41, and the probe is specifically the nucleotide sequence shown in SEQ ID NO: 18;
用于检测miR-125a-5p的逆转录引物、PCR引物和探针:所述的逆转录引物具体如序列号19所示的核苷酸序列,PCR上游引物具体如序列号20所示的核苷酸序列,下游引物具体如序列号41所示的核苷酸序列,探针具体如序列号21所示的核苷酸序列;Reverse transcription primers, PCR primers and probes for detecting miR-125a-5p: the reverse transcription primers are specifically shown in the nucleotide sequence shown in SEQ ID NO: 19, and the PCR upstream primers are specifically shown in the nucleotide sequence shown in SEQ ID NO: 20. The nucleotide sequence, the downstream primer is specifically the nucleotide sequence shown in SEQ ID NO: 41, and the probe is specifically the nucleotide sequence shown in SEQ ID NO: 21;
用于检测miR-30e-5p的逆转录引物、PCR引物和探针:所述的逆转录引物具体如序列号22所示的核苷酸序列,PCR上游引物具体如序列号23所示的核苷酸序列,下游引物具体如序列号41所示的核苷酸序列,探针具体如序列号24所示的核苷酸序列;Reverse transcription primers, PCR primers and probes for detecting miR-30e-5p: the reverse transcription primers are specifically shown in the nucleotide sequence shown in SEQ ID NO: 22, and the PCR upstream primers are specifically shown in the nucleotide sequence shown in SEQ ID NO: 23. The nucleotide sequence, the downstream primer is specifically the nucleotide sequence shown in SEQ ID NO: 41, and the probe is specifically the nucleotide sequence shown in SEQ ID NO: 24;
用于检测miR-3615的逆转录引物、PCR引物和探针:所述的逆转录引物具体如序列号25所示的核苷酸序列,PCR上游引物具体如序列号26所示的核苷酸序列,下游引物具体如序列号41所示的核苷酸序列,探针具体如序列号27所示的核苷酸序列;Reverse transcription primers, PCR primers and probes for detecting miR-3615: the reverse transcription primers are specifically the nucleotide sequence shown in SEQ ID NO: 25, and the PCR upstream primers are specifically the nucleotide sequence shown in SEQ ID NO: 26 Sequence, the downstream primer is specifically the nucleotide sequence shown in SEQ ID NO: 41, and the probe is specifically the nucleotide sequence shown in SEQ ID NO: 27;
用于检测miR-450b-5p的逆转录引物、PCR引物和探针:所述的逆转录引物具体如序列号28所示的核苷酸序列,PCR上游引物具体如序列号29所示的核苷酸序列,下游引物具体如序列号41所示的核苷酸序列,探针具体如序列号30所示的核苷酸序列;Reverse transcription primers, PCR primers and probes for detecting miR-450b-5p: the reverse transcription primers are specifically shown in the nucleotide sequence shown in SEQ ID NO: 28, and the PCR upstream primers are specifically shown in the nucleotide sequence shown in SEQ ID NO: 29. The nucleotide sequence, the downstream primer is specifically the nucleotide sequence shown in SEQ ID NO: 41, and the probe is specifically the nucleotide sequence shown in SEQ ID NO: 30;
用于检测miR-4746-5p的逆转录引物、PCR引物和探针:所述的逆转录引物具体如序列号31所示的核苷酸序列,PCR上游引物具体如序列号32所示的核苷酸序列,下游引物具体如序列号41所示的核苷酸序列,探针具体如序列号33所示的核苷酸序列;Reverse transcription primers, PCR primers and probes for detecting miR-4746-5p: the reverse transcription primers are specifically shown in the nucleotide sequence shown in SEQ ID NO: 31, and the PCR upstream primers are specifically shown in the nucleotide sequence shown in SEQ ID NO: 32. The nucleotide sequence, the downstream primer is specifically the nucleotide sequence shown in SEQ ID NO: 41, and the probe is specifically the nucleotide sequence shown in SEQ ID NO: 33;
用于检测miR-885-5p的逆转录引物、PCR引物和探针:所述的逆转录引物具体如序列号34所示的核苷酸序列,PCR上游引物具体如序列号35所示的核苷酸序列,下游引物具体如序列号41所示的核苷酸序列,探针具体如序列号36所示的核苷酸序列;Reverse transcription primers, PCR primers and probes for detecting miR-885-5p: the reverse transcription primers are specifically shown in the nucleotide sequence shown in SEQ ID NO: 34, and the PCR upstream primers are specifically shown in the nucleotide sequence shown in SEQ ID NO: 35. The nucleotide sequence, the downstream primer is specifically the nucleotide sequence shown in SEQ ID NO: 41, and the probe is specifically the nucleotide sequence shown in SEQ ID NO: 36;
用于检测内参U6的逆转录引物、PCR引物和探针:所述U6的逆转录引物具体如序列号39所示的核苷酸序列,PCR上游引物具体如序列号37所示的核苷酸序列,下游引物具体如序列号38所示的核苷酸序列,探针具体如序列号40所示的核苷酸序列。引物和探针的核苷酸序列如表1所示。The reverse transcription primers, PCR primers and probes used to detect the internal reference U6: the reverse transcription primer of the U6 is specifically the nucleotide sequence shown in SEQ ID NO: 39, and the PCR upstream primer is specifically the nucleotide sequence shown in SEQ ID NO: 37 The sequence, the downstream primer is specifically the nucleotide sequence shown in SEQ ID NO: 38, and the probe is specifically the nucleotide sequence shown in SEQ ID NO: 40. The nucleotide sequences of primers and probes are shown in Table 1.
表1Table 1
进一步地,外泌体来源包括血液、唾液及痰液的一种或多种。Further, the source of exosomes includes one or more of blood, saliva and sputum.
本发明的试剂盒、装置和方法适用个体可以为肺癌高危的人群、正常个体及肺癌术后的患者。The kits, devices and methods of the present invention are suitable for individuals with high risk of lung cancer, normal individuals and patients after lung cancer surgery.
下面结合实施案例对本发明的技术方案进行完整清晰的描述,所描述的实施例是本发明一部分实施例,而不是全部的实例。基于本发明的实施例,本领域普通技术人员在没有做出创造性劳动前提下所获得的其他实施例,都属于本发明保护的范围。The technical solutions of the present invention will be described in a complete and clear manner below with reference to examples of implementations. The described embodiments are part of the embodiments of the present invention, rather than all examples. Based on the embodiments of the present invention, other embodiments obtained by persons of ordinary skill in the art without creative efforts shall fall within the protection scope of the present invention.
为了筛选到与结肺癌诊断相关的外泌体标志物,早期肺癌患者50例和对照各72例,取血液不少于10ml并分离血浆,用于经典超速离心方法分离血浆中的外泌体并提取RNA,得到的RNA分别进行RNA建库测序。得到的数据进行生物信息学的分析,比较早期肺癌患者及对照中差异表达的RNA。这些来自外泌体的RNA层面标志物可以用于肺癌早期诊断。In order to screen the exosome markers related to the diagnosis of lung cancer, 50 patients with early-stage lung cancer and 72 controls were collected, and the blood was not less than 10ml, and the plasma was separated. RNA was extracted, and the obtained RNAs were respectively subjected to RNA library construction and sequencing. The obtained data were subjected to bioinformatics analysis to compare differentially expressed RNAs in early-stage lung cancer patients and controls. These exosome-derived RNA-level markers can be used for early diagnosis of lung cancer.
进一步的针对其中RNA标志物进应用分析,其方法所述如下:(1)采集待检测个体的体液样本(包括血液、痰液和唾液);(2)分离体液中的外泌体;(3)利用两步法检测目标RNA表达水平;(4)使用内参基因对检测目标RNA的表达水平进行归一化;(5)将归一化后的基因表达水平代入判定模型得到输出值;(6)根据模型的输出值及判定阈值对待测个体是否为肺癌。For further application analysis of RNA markers, the method is described as follows: (1) collecting body fluid samples (including blood, sputum and saliva) of the individual to be tested; (2) separating exosomes in body fluids; (3) ) using a two-step method to detect the expression level of the target RNA; (4) using the internal reference gene to normalize the expression level of the detected target RNA; (5) substituting the normalized gene expression level into the judgment model to obtain the output value; (6) ) according to the output value of the model and the judgment threshold whether the individual to be tested is lung cancer.
试剂盒包括检测外泌体长RNA标志物的PCR引物、探针、标准品及PCR的两步法检测体系。The kit includes PCR primers, probes, standards and a two-step PCR detection system for detecting exosomal long RNA markers.
本发明包括选用内参β-Actin(ACTB)进行长RNA的定量,以U6为内参进行miRNA定量。其中选用参照时目标RNA的定量根据检测Ct值使用定量公式2ΔΔCt计算标志物的表达水平。得到目标RNA表达水平后,使用ROC特征曲线和AUC来评估单个RNA或联合多个RNA检测肺癌的准确度。The present invention includes selecting internal reference β-Actin (ACTB) to quantify long RNA, and using U6 as internal reference to perform miRNA quantification. The quantification of the target RNA when the reference is selected is based on the detected Ct value using the quantitative formula 2ΔΔCt to calculate the expression level of the marker. After obtaining the target RNA expression level, the ROC characteristic curve and AUC were used to evaluate the accuracy of single RNA or combined multiple RNAs to detect lung cancer.
实施例1基于高通量测序筛选与早期肺癌相关的外泌体mRNA及LncRNA标志物Example 1 Screening of exosomal mRNA and LncRNA markers related to early lung cancer based on high-throughput sequencing
为了筛选到与早期肺癌诊断相关的外泌体标志物,早期肺癌诊断患者72和对照各50例,取血液不少于10ml并分离血浆,用于经典超速离心方法分离血浆中的外泌体并采用qiagen miRNeasy mini kit提取RNA,得到的RNA进行微量去核糖体链特异性RNA建库测序及small RNA建库测序。得到的数据进行生物信息学的分析,比较早期肺癌患者及对照中差异表达的长RNA及miRNA,得到显著差异的长RNA如miRNA下表2所示。这些来自外泌体的RNA层面标志物可以用于肺癌早期诊断。In order to screen exosome markers related to the diagnosis of early-stage lung cancer, 72 patients with early-stage lung cancer diagnosis and 50 controls were collected, and the blood was not less than 10ml and the plasma was separated. RNA was extracted by qiagen miRNeasy mini kit, and the obtained RNA was subjected to micro-deribosome strand-specific RNA library construction and sequencing and small RNA library construction and sequencing. The obtained data were analyzed by bioinformatics, and the differentially expressed long RNAs and miRNAs in the early stage lung cancer patients and controls were compared, and the significantly different long RNAs were obtained as shown in Table 2 below. These exosome-derived RNA-level markers can be used for early diagnosis of lung cancer.
表2Table 2
实施例2基于荧光定量PCR平台miRNA检测体系Example 2 miRNA detection system based on fluorescence quantitative PCR platform
1、miRNA逆转录反应体系1. miRNA reverse transcription reaction system
miRNA反转录试剂、酶和oligdT从TAKARA采购,标准品从上海英潍捷基合成,特异性反转的引物由苏州泓迅合成。采用20ul的反转录体系,如下表3所示。miRNA reverse transcription reagents, enzymes and oligdT were purchased from TAKARA, the standards were synthesized from Shanghai Yingweijieji, and the specific reverse primers were synthesized by Suzhou Hongxun. A 20ul reverse transcription system was used, as shown in Table 3 below.
表3table 3
2、PCR反应体系2. PCR reaction system
PCR反应混合液从TAKARA采购,上游引物、探针即通用下游引物由苏州泓迅合成、荧光定量PCR仪为ABI 7500。PCR反应体系,如下表4所示:The PCR reaction mixture was purchased from TAKARA. The upstream primers and probes, that is, the universal downstream primers, were synthesized by Suzhou Hongxun, and the fluorescence quantitative PCR instrument was ABI 7500. The PCR reaction system is shown in Table 4 below:
表4Table 4
PCR程序为95℃10min,(95℃15s;55℃30s)15个循环不采集荧光,(95℃15s;55℃30s)35个循环采集荧光。The PCR program was 95°C for 10 min, (95°C for 15s; 55°C for 30s) for 15 cycles without collecting fluorescence, and (95°C for 15s; 55°C for 30s) for 35 cycles to collect fluorescence.
实施例3基于荧光定量PCR平台mRNA及LncRNA检测体系Example 3 mRNA and LncRNA detection system based on fluorescence quantitative PCR platform
1、mRNA及LncRNA反转录1. mRNA and LncRNA reverse transcription
采用takara公司的PrimeScriptTM RT reagent Kit(Perfect Real Time)和Premix Ex TaqTM(Probe qPCR)试剂盒进行反转录和qPCR检测。Reverse transcription and qPCR detection were performed using takara's PrimeScript ™ RT reagent Kit (Perfect Real Time) and Premix Ex Taq ™ (Probe qPCR) kit.
按下列组份配制反转录反应体系(反应液配制在冰上进行),然后放入PCR仪进行反应,反应条件为37℃60min,85℃5s,12℃∞,反转录结束后加入50ul DEPC-H2O稀释,取3ul作为模板,进行PCR反应。反转录反应体系如下表5所示。Prepare a reverse transcription reaction system according to the following components (the reaction solution is prepared on ice), and then put it into the PCR machine for the reaction. The reaction conditions are 37 °C for 60 min, 85 °C for 5 s, 12 °C ∞, and add 50ul after reverse transcription. Dilute with DEPC-H 2 O, take 3ul as template, and carry out PCR reaction. The reverse transcription reaction system is shown in Table 5 below.
表5table 5
2、mRNA及LncRNA qPCR2. mRNA and LncRNA qPCR
按下列组分配制qPCR反应体系(反应液配制在冰上进行),设置无模板对照作为阴性对照。然后放入实时荧光PCR仪(ABI7500)按如下反应条件进行扩增检测。qPCR反应体系如下表6所示,qPCR反应条件如下表7所示。The qPCR reaction system was prepared according to the following components (the reaction solution was prepared on ice), and the no-template control was set as a negative control. Then put it into a real-time fluorescent PCR instrument (ABI7500) for amplification detection according to the following reaction conditions. The qPCR reaction system is shown in Table 6 below, and the qPCR reaction conditions are shown in Table 7 below.
表6Table 6
表7Table 7
实施例4单标志物肺癌早期诊断检测效果评估Example 4 Evaluation of the effect of single-marker early diagnosis and detection of lung cancer
1、样本采集1. Sample collection
收集经医院确诊的早期(I期和II期)肺结节肺癌患者,良性肺结节病人、健康人等对照样本的血液10ml,并分离成血浆。10ml of blood was collected from patients with early stage (I and II) lung nodule lung cancer diagnosed by the hospital, patients with benign lung nodules, healthy people and other control samples, and separated into plasma.
2、外泌体RNA提取2. Exosomal RNA extraction
采用超速离心或Echobiotech(北京恩泽康泰)的Exosupur进行血浆外泌体分离,分离后的外泌体用Qiagen miReasy mini kit试剂盒提取外泌体中的长RNA,并利用Agilent 2100检测RNA浓度和质量,记录RNA浓度。Plasma exosomes were isolated by ultracentrifugation or Exosupur from Echobiotech (Beijing Enzekangtai). The isolated exosomes were extracted with Qiagen miReasy mini kit to extract long RNA from exosomes, and Agilent 2100 was used to detect RNA concentration and quality. , and record the RNA concentration.
3、RNA两步法检测体系3. RNA two-step detection system
采用实施例1中基于PCR平台mRNA的两步法检测体系,对早期肺癌病人30例和30例对照样本(健康人和良性结节)的血浆外泌体mRNA和LncRNA进行检测,检测目标长RNA的Ct值,根据Ct值和相对定量公式计算相对表达量。Using the two-step detection system based on PCR platform mRNA in Example 1, the plasma exosomal mRNA and LncRNA of 30 early-stage lung cancer patients and 30 control samples (healthy and benign nodules) were detected, and the target long RNA was detected. The relative expression level was calculated according to the Ct value and relative quantitative formula.
4、外泌体RNA单标志物诊断早期肺癌性能评估4. Evaluation of the performance of exosomal RNA single marker in the diagnosis of early lung cancer
如下表所示,对早期肺癌病人30例和30例对照样本(健康人和良性病变)的血浆外泌体,检测目标基因的Ct值,其中长RNA以内参β-Actin为参照,miRNA以内参U6为参照;根据Ct值,得出RNA的相对表达水平。使用相对定量公式值,计算联合标志物相对表达量的倍数变化,进而得出RNA相对表达量。对检测结果采用R语言进行统计分析。单个标志物的性能评估如下表8,其中miR-450b-5p、miR-3615具有较好的灵敏度,let-7f-2-3p具有良好的特异性。As shown in the table below, the plasma exosomes of 30 early-stage lung cancer patients and 30 control samples (healthy people and benign lesions) were used to detect the Ct value of the target gene, in which the long RNA was used as the reference, β-Actin was used as the reference, and the miRNA was used as the reference. U6 is the reference; according to the Ct value, the relative expression level of RNA is obtained. Using the relative quantitative formula value, the fold change of the relative expression of the combined markers was calculated, and then the relative expression of RNA was obtained. Statistical analysis was performed using R language for the detection results. The performance evaluation of individual markers is shown in Table 8 below, in which miR-450b-5p and miR-3615 have good sensitivity, and let-7f-2-3p has good specificity.
表8Table 8
实施例5长RNA与miRNA组合肺癌早期诊断效果评估Example 5 Evaluation of early diagnosis effect of long RNA and miRNA combination in lung cancer
1、三标志物组合性能评估1. Performance evaluation of three-marker combination
按照实施例3中的方法计算每个长RNA的相对表达量,利用逻辑回归对三个标志物组合进行训练,得到的三标志物组合AUC在0.76以上的组合如下表9所示。其中miR-450b-5p+let-7f-2-3p+ARPC5组合性能最优,准确性均为76.67%,其AUC曲线分别如图1所示;miR-106b-3P+miR-30e-5p+MBOAT2具有较好的特异性(80%),其AUC曲线如下图1所示。The relative expression level of each long RNA was calculated according to the method in Example 3, and the three marker combinations were trained by logistic regression. Among them, the combination of miR-450b-5p+let-7f-2-3p+ARPC5 has the best performance, with an accuracy of 76.67%, and the AUC curves are shown in Figure 1; miR-106b-3P+miR-30e-5p+ MBOAT2 has good specificity (80%), and its AUC curve is shown in Figure 1 below.
表9Table 9
2、五标志物组合性能评估2. Performance evaluation of five-marker combination
按照实施例3中的方法计算每个长RNA的相对表达量,利用逻辑回归对五个标志物组合进行训练,得到的五标志物组合AUC在0.85以上的组合如下表10所示。其中miR-106b-3P+miR-30e-5p+miR-450b-5p+miR-885-5p+ARPC5和miR-106b-3P+miR-30e-5p+miR-4746-5p+miR-885-5p+ARPC5等两个组合具有良好的灵敏度,分别为93.33%和100%,其AUC曲线如图3、图4;miR-106b-3P+miR-30e-5p+miR-3615+miR-885-5p+ARPC5和miR-106b-3P+miR-125a-5p+miR-3615+miR-450b-5p+IL1B具有良好的特异性分别为90%和96.67%,其AUC曲线如图5、图6。The relative expression level of each long RNA was calculated according to the method in Example 3, and the five marker combinations were trained by logistic regression. Among them miR-106b-3P+miR-30e-5p+miR-450b-5p+miR-885-5p+ARPC5 and miR-106b-3P+miR-30e-5p+miR-4746-5p+miR-885-5p +ARPC5 and other two combinations have good sensitivity, which are 93.33% and 100%, respectively, and their AUC curves are shown in Figure 3 and Figure 4; miR-106b-3P+miR-30e-5p+miR-3615+miR-885-5p +ARPC5 and miR-106b-3P+miR-125a-5p+miR-3615+miR-450b-5p+IL1B had good specificities of 90% and 96.67%, respectively, and their AUC curves were shown in Figure 5 and Figure 6 .
表10Table 10
通过以上数据可以看出,本发明的基于外泌体的无创的早期肺癌诊断的方法,在早期肺癌中具有高灵敏度及高特异性,为肺癌的早期诊断提供了重要价值。对我国肺癌的防治有很大的帮助。其中灵敏度最高的组合可达到100%的灵敏度,特异性最高的组合可以实现96.67%的特异性,具有较好的性能。It can be seen from the above data that the exosome-based non-invasive early lung cancer diagnosis method of the present invention has high sensitivity and high specificity in early lung cancer, and provides important value for the early diagnosis of lung cancer. It is of great help to the prevention and treatment of lung cancer in my country. Among them, the combination with the highest sensitivity can achieve 100% sensitivity, and the combination with the highest specificity can achieve 96.67% specificity, which has better performance.
以上公开的本发明优选实施例只是用于帮助阐述本发明。优选实施例并没有详尽叙述所有的细节,也不限制该发明仅为所述的具体实施方式。显然,根据本说明书的内容,可作很多的修改和变化。本说明书选取并具体描述这些实施例,是为了更好地解释本发明的原理和实际应用,从而使所属技术领域技术人员能很好地理解和利用本发明。本发明仅受权利要求书及其全部范围和等效物的限制。The above-disclosed preferred embodiments of the present invention are provided only to help illustrate the present invention. The preferred embodiments do not exhaust all the details, nor do they limit the invention to only the described embodiments. Obviously, many modifications and variations are possible in light of the content of this specification. The present specification selects and specifically describes these embodiments in order to better explain the principles and practical applications of the present invention, so that those skilled in the art can well understand and utilize the present invention. The present invention is to be limited only by the claims and their full scope and equivalents.
序列表sequence listing
<110> 中国医学科学院肿瘤医院<110> Cancer Hospital, Chinese Academy of Medical Sciences
<120> 用于肺癌诊断的试剂盒、装置及方法<120> Kit, device and method for diagnosis of lung cancer
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| CN202111109658.2A CN113774138B (en) | 2020-03-30 | 2020-05-11 | Kit, device and method for diagnosis of lung cancer |
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| CN114231638B (en) | 2023-06-27 |
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| CN114214419B (en) | 2023-06-27 |
| CN113801936A (en) | 2021-12-17 |
| CN113774138A (en) | 2021-12-10 |
| CN114214420A (en) | 2022-03-22 |
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| CN114214421B (en) | 2023-06-23 |
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