LUMINEX-MPMA和NGS技術(shù)在中樞神經(jīng)系統(tǒng)感染性疾病診斷中的應(yīng)用研究
[Abstract]:The infectious diseases of the central nervous system have the characteristics of rapid progress, high death rate and the like. The types of pathogens that lead to the infection of the central nervous system are more than 100, including viruses, bacteria, fungi, parasites, and the like. But the current pathogen detection method (such as microscopic examination, culture, ELISA detection, biochemistry, PCR detection, etc.) has the advantages of low positive rate, long diagnosis period and no requirement of high-flux detection of the pathogen. Due to the lack of high flux and high positive rate of the diagnosis,60% to 85% of the patients have no clear etiological diagnosis[1], and the patient is treated with an empirical type, which not only leads to the abuse of the antibiotics and the drug resistance of the microorganisms, but also brings a heavy economic burden to the patients. Therefore, in order to effectively reduce the adverse effect of the disease, the method of high specificity, high-throughput and rapid detection of the pathogen causing the disease is urgently needed. Luminex (TM-200) and NGS (NGS) technology were used in this study to establish a Luminex TM-200 platform and an exploratory study on the screening of 18 pathogens. The first part is based on the aim of high-throughput detection of 18 pathogen methods based on the Luminex TM-200 platform: a nucleic acid detection platform with high flux and strong specificity can be established through the Luminox TM-200 platform, and the common pathogens of the 18 central nervous systems can be detected at the same time. Methods: An MPMA-PCR system based on Luminex TM-200 as a platform was established. The system applied the three strategies of Luminex magnetic bead microarray labeling, multiplex PCR and temperature transfer amplification, and can simultaneously amplify 18 pathogens (hsv-1, hsv-2, vzv, cmv, eb, mev, muv, jcv, jv, echo, ev71, ca16, hev, c. neoforman, m. tubulosis, s. pneumonia, T. gondii, a. canonensis). First, a plasmid was constructed for the specific gene sequence of 18 pathogens and used as the standard, and the mpma-pcr system was established on the basis of the standard product detection and the result of the sequencing of the pcr product was used as the gold standard to verify the specificity of the mpma-pcr system. The minimum detectable concentration of the mpma-pcr system was detected by the test of the standard product diluted in comparison to the dilution. Then,177 cerebrospinal fluid samples (including 138 cerebrospinal fluid samples of suspected viral encephalitis (membrane),19 cerebrospinal fluid samples detected by the commercial kit and 20 non-brain (membrane) inflammatory cerebrospinal fluid samples) were collected and tested using the mpma-pcr system. The feasibility, specificity and sensitivity of the system were evaluated by sequencing. Results: (1) The establishment of the mpma-pcr system: the detection of the standard quality particles confirmed that the mpma-pcr system can be used for simultaneous detection of 18 pathogen-specific genes. The results of the mpma-pcr system were consistent with the results of the sequencing validation, and the specificity was 100%. The detection limit of the detection limit of 95% of the primers of the mma-pcr primers was analyzed by using the probit model, and the detection limit of the 95% of the primers for the vzv, b and muv was 103 copy/ action. The minimum detection limit of the remaining 14 pairs of primers was higher than 100 copy/ reaction. (2) The detection of clinical samples: The positive rate of pathogenic nucleic acid in 177 patients with cerebrospinal fluid sample was 23.16% (41/177) by using the mpma-pcr system. The detection rate of hsov-1 virus was 7.9% (14/177), the detection rate of hsov-2 virus was 6.21% (11/177), the detection rate of eb virus and Esmovirus was 2.25% (4/177),2 cases of cytomegalovirus and herpes zoster virus, and ca16, 1 case of ev71 and ev68. Negative control sample, no pathogen detected. The results of the detection of the mpma-pcr system and the results of the sequencing verification reached 95.48%. Conclusion: A high-flux and high-specificity mpma-pcr system based on luminextm-200 is established, which can detect the pathogens of 18 central nervous systems at the same time. The results of the detection of the mma-pcr system and the sequencing verification reached 100%. By means of the detection of cerebrospinal fluid in the patients with viral encephalitis (membrane), the detection rate of the mma-pcr system can reach 23.16%, and the specificity can reach 100%. In view of the low detection rate, we mainly consider two reasons, first, the cause of similar viral meningitis symptoms may exceed the target detection range of the mpma-pcr system. Second, cases of suspected brain (membrane) inflammation may cause the symptoms to be not typical due to the small number of pathogenic agents, and the nucleic acid content is lower than the lowest detection concentration detected by the mpma-pcr. For the above reasons, the mpma-pcr system is not ideal for sensitivity. However, the results show that the system has a higher specificity than the gold standard. The first part of the experiment shows that the MPMA-PCR system has a high specificity, but the sensitivity is lacking. There are still some of the cerebrospinal fluid sample pathogen information that is not clear, and in order to further clarify the pathogen information for these samples, we have an exploratory application of the second-generation sequencing platform (NGS) with a higher sensitivity, with a view to finding other pathogens that may lead to the central nervous system infection. Methods: The cerebrospinal fluid samples (for unknown source group) and 12 cases of the cerebrospinal fluid sample of cryptococcal meningitis were collected as positive control by the first part of the experiment. An exploratory study of 33 unknown pathogen samples was performed using NGS technique, and the NGS positive results were verified by qPCR. Results:12 cases of cryptococcal meningitis were detected by NGS and the sequence of cryptococcus was found in 83.33% (10/12) samples. The positive rate of qPCR was 33.33% (4/12); in 21 unknown pathogen samples, 28.57% (5/21) of the highly probable pathogenic bacteria included:1 of Klebsiella,1 in Streptococcus pneumoniae,1 in non-dairy streptococcus,1 in Mycobacterium tuberculosis and 1 in Pseudomonas; A sample of 14.28% (3/21) was confirmed by qPCR (including 1 Klebsiella,1 Streptococcus pneumoniae,1 non-Streptococcus). The success rate of NGS in this CSF sample was only 72% (24/33). Conclusion: Cryptococcus neoformans were found in 83.33% of samples for cryptococcus positive control samples, but only 33.33% of the samples were detected by qPCR. The results showed that the sensitivity of the second generation sequencing technique was higher than that of qPCR. The results of NGS test according to the positive control sample show that the NGS technique is feasible and highly sensitive to the detection of the pathogen nucleic acid in the cerebrospinal fluid. The unknown pathogen group was detected by the NGS technique, and 28.57% of the samples were able to detect highly suspected pathogen sequences. The positive rate was 14.28% by qPCR, and the other pathogen nucleic acid was detected in 21 unknown pathogen samples, which indicated that the NGS technique was complementary to the sensitivity of the MPMA-PCR system. However, at present,72% of the construction success rate is relatively low, and the success of the building will directly affect the sensitivity of the NGS technology. However, at present, the NGS platform has no mature library establishment method for cerebrospinal fluid specimen detection, so it is necessary to study and explore the problem of how to solve the problem of low pathogen nucleic acid load.
【學(xué)位授予單位】:第四軍醫(yī)大學(xué)
【學(xué)位級(jí)別】:博士
【學(xué)位授予年份】:2016
【分類號(hào)】:R741
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