WO2012122732A1 - Control/standard for nucleic acid detection of enveloped rna virus and applications thereof - Google Patents
Control/standard for nucleic acid detection of enveloped rna virus and applications thereof Download PDFInfo
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- WO2012122732A1 WO2012122732A1 PCT/CN2011/073858 CN2011073858W WO2012122732A1 WO 2012122732 A1 WO2012122732 A1 WO 2012122732A1 CN 2011073858 W CN2011073858 W CN 2011073858W WO 2012122732 A1 WO2012122732 A1 WO 2012122732A1
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- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/70—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving virus or bacteriophage
- C12Q1/701—Specific hybridization probes
- C12Q1/706—Specific hybridization probes for hepatitis
- C12Q1/707—Specific hybridization probes for hepatitis non-A, non-B Hepatitis, excluding hepatitis D
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- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/70—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving virus or bacteriophage
- C12Q1/701—Specific hybridization probes
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- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/70—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving virus or bacteriophage
- C12Q1/701—Specific hybridization probes
- C12Q1/702—Specific hybridization probes for retroviruses
- C12Q1/703—Viruses associated with AIDS
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- C12Q2600/00—Oligonucleotides characterized by their use
- C12Q2600/166—Oligonucleotides used as internal standards, controls or normalisation probes
Definitions
- the invention belongs to the field of biotechnological inventions.
- the invention particularly relates to an enveloped RA virus nucleic acid detection reference/standard, which is mainly co-transformed by a vector carrying an exogenous sequence of interest and a vector containing an MLV gag-pol element, including or not including a viral membrane protein.
- Produced by a cell line produced by reference is a pseudovirus with enveloped RA virus, mimics the phospholipid bilayer on the surface of the virus or further mimics the surface activity of the viral membrane protein, and has a specific enveloped RA virus structure. And physicochemical characteristics, no replication, no contagious.
- the coated RA virus nucleic acid detection reference product/standard product is packaged from eukaryotic cells by recombinant virus technology, and the reference product/standard sample particle can carry the exogenous purpose RA sequence through the genetic manipulation technology, and the reference product/standard product has The same viral envelope protein and similar viral structural characteristics and topological characteristics as the target virus can truly reflect the influence of various physicochemical environmental factors on the target virus. Background technique
- Nucleic acid detection technology mainly including polymerase chain reaction (PCR) and nucleic acid hybridization technology, plays a huge role in the diagnosis of viruses because of its sensitivity, specificity, ease of operation, rapidity, high efficiency and high throughput. Become the first-line method of infectious disease detection. Nucleic acid detection technology is an effective diagnostic technique for early viral infection by qualitatively quantifying viral nucleic acids. For chronic viral infections, nucleic acid detection quantitative viral nucleic acid is the main method for evaluating viral replication and antiviral therapeutic effects.
- PCR polymerase chain reaction
- RT reverse transcription step
- RT-PCR Reactive reaction technique
- RT-PCR detection of RNA viruses mainly include: 1. Sample collection and storage; 2. Sample processing to extract nucleic acids; 3. Reverse transcription of R A into cDNA; 4. Amplification of cDNA template; 5. Detection and amplification.
- Each of the steps described above affects the final test results.
- there are various physicochemical environmental factors which may be caused by unsatisfactory sampling, residues of chemical reagents such as phenols, salts and ethanol in nucleic acid eluents during nucleic acid extraction, and may also originate from The intrinsic factors of the sample itself, such as heme, leukocyte DNA, heparin, bile and antibodies.
- the RA virus is further divided into non-enveloped RA virus and enveloped RA virus, but currently there are only two reference products for RA virus detection: (1) naked RA, (2) virus-like particles.
- the naked RA reference product is mainly derived from in vitro transcription, and the detection target is inserted into a plasmid carrying an in vitro transcriptase promoter, and a fragment synthesized by an in vitro transcriptase is provided with a detection target.
- RNA then DNase is used to remove the DNA template from the RNA. But RNA itself is unstable and easy to be in the environment.
- the R A enzyme is digested and degraded and cannot be stored for a long time, is inconvenient to transport, and cannot be compared with the R A in the virus.
- the most representative of the virus particle type reference product is "Armored RNA", which was developed by Ambion in 1996.
- Armored RNA uses the MS2 phage vector to insert the detection target into the MS2 phage packaging plasmid, and transforms the packaging plasmid into E. coli culture. The lysed bacteria are then purified by extraction with an organic solvent to obtain MS2 phage bearing the detection target.
- “Armored RNA” is easy to manufacture, simple to extract and purify, stable at room temperature or 4 °C for long-term storage, and has no infectivity.
- RA is protected by phage capsid protein.
- phage virus particle is a kind.
- Viral pathogens that are harmful to human life and health in encapsulated RA viruses including human acquired immunodeficiency virus (HIV), hepatitis C virus (HCV), influenza virus, severe acute respiratory syndrome coronavirus (SARS-CoV), etc. , are viral pathogens that require early diagnosis, early detection, timely treatment and detection of therapeutic effects.
- the naked RA reference material or the capsid virus is used after sample collection.
- Phage as an internal reference can not accurately reflect the changes of the sample in the process of processing and detection, to achieve the function of the internal reference product, simulate the coated RA virus sample, and it is difficult to identify the false negative result caused by the environmental and chemical factors. Therefore, the ideal reference product should have the biophysical structural characteristics consistent with the biological characteristics of the test object. Only the development of a nucleic acid detection reference product having the same biological characteristics as the coated R A virus can truly monitor the pathogen.
- a pseudovirus generally refers to a nanoparticle having a structure or functional unit that resembles a corresponding virus, and loses replication function after manipulation by a human gene, thereby losing viral toxicity.
- the pseudovirus can simulate the enveloped virus well, reflecting the biophysical and topological characteristics of the enveloped virus, and thus can simulate the enveloped virus to withstand various samples in the sample. Environmental and chemical factors and the impact of these factors on enveloped viruses. From the perspective of virus detection and diagnosis, the pseudovirus is developed into a reference product/standard for the detection of enveloped RA virus nucleic acid, compared to the use of naked nucleic acid. Or non-enveloped capsid virus phage, more able to reflect the enveloped virus and its real situation in the sample.
- the virus-like packaging technology currently mainly uses the gag-pol protein of retrovirus such as human immunodeficiency virus (HIV) and murine leukocyte virus (MLV), which can recognize the gene containing the sequence by recognizing and binding to a specific sequence.
- HIV human immunodeficiency virus
- MMV murine leukocyte virus
- the fragment is packaged in the inside of the protein particle, and the endoplasmic reticulum membrane expressing the viral membrane protein is packaged into particles, which are secreted outside the cell through the endoplasmic reticulum, Golgi apparatus and the like to form an artificial pseudovirus.
- Artificial pseudo-like viruses were engineered based on viral recombination technology and gene manipulation, and reference products/standards for detection of enveloped R A virus nucleic acids were developed.
- the viral biological structure of the coated RA virus nucleic acid detection reference product/standard is only a lipid bilayer coating, and the internal is a non-dense structure of the Gag protein binding nucleic acid, and the biological structure of the virus is consistent with the biological characteristics of the detection object. Biophysiological structural characteristics and topological characteristics.
- nucleic acid detection including polymerase chain reaction PCR and nucleic acid hybridization
- the ideal reference should also meet the process of simulating the target virus by nucleic acid detection technology, including the same specificity and sensitivity, and the target virus. Synchronization is detected to maximize the simulation of the target viral nucleic acid detection process.
- the invention develops a coated RA virus nucleic acid detection reference product/standard product, and uses the HCV virus nucleic acid diagnosis as an example to illustrate the application of the coated RA virus nucleic acid detection reference product/standard product, and achieves the following purposes:
- the biological characteristics and topological characteristics of the virus with the same biological characteristics of the test object can truly reflect the influence of various physicochemical environmental factors on the target virus;
- the reference product/standard nucleic acid is RA, and the target containing the target RNA virus detection is included.
- the sequence or unique artificial target sequence has the same specificity and sensitivity as the target virus detection, and is detected synchronously to maximize the simulation of the target viral nucleic acid detection process;
- the coated RA virus nucleic acid detection reference/standard can be used for nucleic acid detection technology. , including polymerase chain reaction (PCR) and nucleic acid hybridization techniques. Summary of the invention
- the present invention relates to an enveloped RA virus nucleic acid detection reference product/standard, which is co-transfected with a plasmid of a viral membrane protein by a vector containing a MLV gag-pol element and a reference vector carrying an exogenous target sequence.
- a pseudovirus with enveloped RA virus Produced as a cell line, it is a pseudovirus with enveloped RA virus. It can simulate the biological and topological characteristics and physicochemical characteristics of the specific enveloped RA virus. It has no replication ability and no infectiousness.
- the coated RA virus nucleic acid detection reference product/standard product is packaged from the eukaryotic cell by recombinant virus technology, and the reference product particle can carry the exogenous target RA sequence through the genetic manipulation technology, and the exogenous target RA sequence is carried through the genetic operation.
- Technology can be inserted or replaced.
- the nucleic acid detection process of the target virus can be simulated to the maximum extent, and the reference product/standard particle carries the exogenous purpose RA inside.
- the sequence may include PCR-pair or pairs of detection primers for the target virus, one or more detection probes for the target virus or probes not related to the target virus, and the length of the reference/standard detection target and the target virus detection target.
- the nucleotide component, and the dissolution temperature must be the same; the target specificity can also be detected by hybridization with the nucleic acid molecule either alone or simultaneously A target sequence that is consistent with sensitivity.
- the internal RA sequence carried therein contains one or more segments of the entire detectable segment of the detection target or the target viral gene consistent with the detection of the target virus.
- the coated RNA virus nucleic acid detection reference product is used as an internal reference product, the target RA sequence carried therein contains a quantitative PCR detection probe irrelevant to the target virus or a nucleic acid molecule containing hybridization detection target specificity and sensitivity but with the target virus Unrelated target sequences.
- Coated RA virus nucleic acid detection reference/standard can be used in enveloped RA viruses, including but not limited to: human acquired immunodeficiency virus (HIV), hepatitis C virus (HCV), influenza virus, severe acute respiration Syndrome Coronavirus (SARS-CoV).
- HAV human acquired immunodeficiency virus
- HCV hepatitis C virus
- influenza virus severe acute respiration Syndrome Coronavirus
- SARS-CoV severe acute respiration Syndrome Coronavirus
- the upstream untranslated sequence of the retrovirus and the recognition sequence R-U5-PSI and the downstream non-translated sequence U3-R were separately cloned from the murine leukemia virus MLV, and a polyclonal cleavage site was added to the two cis elements.
- the exogenous gene of interest can be inserted or replaced and contained within the enveloped RA virus nucleic acid detection reference to establish a target vector.
- the reference insert/standard target vector pTAR provides a polyclonal insertion site MCS that can insert a target sequence of a plurality of viruses, and the target sequence can be a detection target sequence of a target virus or a chimeric sequence of a plurality of detection targets, or Multiple target viruses detect the chimeric sequence of the target.
- Example 2 Designing the detection target sequence of hepatitis C virus (HCV) and the chimeric sequence of the detection target sequence of human acquired immunodeficiency virus (HIV) by sequence alignment analysis, in the reference target vector pTAR polyclonal cleavage site
- HCV hepatitis C virus
- HIV human acquired immunodeficiency virus
- the point MCS inserts the HCV and HIV internal reference target sequences for PCR detection to have the same specificity and sensitivity as HCV detection or HIV detection, and is simultaneously detected to maximize the HCV or HIV nucleic acid detection process.
- the primer sequence contained in the target sequence of the internal reference is identical to the primer for detecting the virus
- the probe sequence contained in the target sequence of the internal reference is the same as the length of the probe sequence for detecting the viral nucleic acid.
- the base components are the same, the dissolution temperature is the same, but the specific sequence is different, and the detection report signal is different.
- the internal reference containing HCV and HIV chimeric targets was named p
- the pTAR-HCV/HIV internal reference target plasmid, MLV gag-pol element plasmid was co-transfected into the reference production cell line 293T, and the HCV membrane protein granules or non-transfected membrane protein granules were transfected, and the surface was packaged with or without virus.
- the HCV membrane protein HCV/HIV internal reference is named IC-HCV/HIV-1, and the surface does not carry the viral membrane protein.
- the HCV/HIV reference product of the cell phospholipid bilayer is named IC-HCV/HIV- O o has an enveloped RNA virus nucleic acid detection internal reference, which mimics the phospholipid bilayer on the surface of the virus or further mimics the viral membrane protein surface activity.
- Encapsulated RA virus nucleic acid test After the reference product is mixed with the virus sample, it can reflect the biophysiological degradation process of the target virus due to the same reason when it is in the same physicochemical environment as the target virus, thereby reflecting the reliability of the final nucleic acid detection result of the target virus.
- the target sequence of the HCV/HIV internal reference product has the same specificity and sensitivity. Specifically, the primer sequence contained in the target sequence of the internal reference product is identical to the primer for detecting the virus, and the target sequence contained in the internal reference product is included.
- the probe sequence has the same length as the probe sequence for detecting the viral nucleic acid, the base components are the same, and the dissolution temperature is the same, but the specific sequence is different.
- the theoretical and actual detection are consistent with each other.
- the internal reference product and the viral nucleic acid compete.
- the amount of the internal reference product may cause a deviation of the target virus detection signal, or the internal reference product may not reach the purpose of the internal reference. Therefore, it is necessary to rationally use the HCV virus nucleic acid reference product within a certain range.
- Example 4 show that the internal reference product titer of 10 4 or less does not affect the detection of the positive reference product, that is, it does not affect the detection of the virus sample, and when the internal reference product titer is above 10 3 , the positive reference product is not dropped.
- the degree of influence is greatly deviated, that is, the internal reference product is not biased due to the content of the virus sample, so 10 4 is the optimum titer of the internal reference product.
- the HCV/HIV internal reference product is a membrane-like pseudovirus, and its viral membrane protein theoretically has the same tolerance characteristics as the true virus. After mixing with the virus sample, it can reflect the target virus when it is in the same physicochemical environment as the target virus. Biophysiological degradation process caused by the same cause.
- Example 5 The correlation between the detection change of the internal reference nucleic acid and the detection change of the HCV viral nucleic acid in the HCV positive serum and under various conditions of the HCV envelope was evaluated in the HCV envelope, and the HCV envelope was reflected.
- the RA virus nucleic acid detection reference is related to the tolerance of HCV virus.
- HCV virus nucleic acid detection inside reference products reflects the biophysical degradation process of HCV virus caused by various reasons, and evaluates the detection of HCV virus nucleic acid by detecting the detection efficiency and detection value of a certain amount of internal reference products.
- the reliability of the process; on the other hand, the HCV internal reference and virus have very close detection sensitivity, and the internal reference of the known titer can be used to relatively quantify the target virus.
- the HCV virus nucleic acid detection standard has the same detection target and detection signal as the virus, and can be used as a HCV virus nucleic acid detection standard for drawing a standard curve in the nucleic acid detection process.
- the HCV virus nucleic acid detection positive reference product is a pseudo-RA virus
- its nucleic acid is RA.
- the HCV virus nucleic acid detection positive reference nucleic acid is consistent with the sample nucleic acid property, and is simultaneously reversed during the detection process. Recording, consistent in reverse transcription efficiency, is therefore more informative in applications such as quantification or comparison, and more reflective of the effects of human or systematic errors in the detection process.
- DRAWINGS 1/8 Target vector pTAR map
- the internal reference product titer of 10 4 or less does not affect the detection of the positive reference product, that is, it does not affect the detection of the virus sample, and when the internal reference product titer is above 10 3 , it is not affected by the titer of the positive reference product. A large deviation occurs, that is, the internal reference product is not biased due to the virus sample content, so 10 4 is the optimum titer of the internal reference product.
- the reference target vector is based on the reverse transcription mechanism of retrovirus, and the upstream non-translated sequence of the retrovirus and the recognition sequence R-U5-PSI and the downstream non-translated sequence U3-R are separately cloned from the murine leukemia virus MLV, and Polyclonal cleavage site MCS was added to the two cis-elements, and spliced to the pCMV vector by Inflision technique, designated as pTAR, and the pTAR structure map is shown in Fig. 1. Design two pairs of R-U5-PSI and U3-R primers according to Inflision technical requirements:
- U3-Rf 5'-GTCGCGAGGCCTGTCGACAATGAAAGACCCCACCAAATTG-3 '
- the nucleic acid of murine leukemia virus MLV was extracted using QIAGEN's QIAamp Ultraseus virus kit.
- Reverse transcription of extracted virus RA using Invitrogen Reverse Transcription Kit (Super Script II), specific method: Take 1.5ml centrifuge tube, add deionized water 5ul, random primer (lOuM) luK sample RA 5ul, dNTP mix ( 10mM Lul, incubate at 65 °C for 5 minutes, place on ice, force B 5 X First-strand Buffer 4ul, 0.1M, DTT 2uK RNaseOUT lul, incubate for 2 minutes at 25 °C, add SuperscriptTM II RT lul, 25 °C Incubate for 10 minutes, incubate at 42 °C for 50 minutes, incubate at 70 °C for 15 minutes, and take 2 ul of reverse transcript for PCR amplification.
- PCR reaction system lOxHigh Fidelity PCR Buffer 5 ul; lOmM dNTP mixture lul; 50 mM MgS0 4 2 ul; Primer lOuM Forward/Reward lul; Platinum Taq High Fidelity 0.5 ul (2.5 unit); water 37.5 ul; The total reaction volume is 50 ul.
- Reaction conditions 94 ° C for 2 minutes; 94 . C 30 seconds, 65 V 40 seconds, 72 °C 1 minute, 30 cycles; 72 °C 3 minutes.
- PCR products of the pCMV vector, R-U5-PSI and U3-R were linearized with Sac I and subjected to 1% agarose electrophoresis (TBE electrophoresis buffer: Tris 108 g, Na2EDTA*2H20 7.44 g, boric acid 55 g) , dilute to a volume of 1 L of deionized water; cut off the target fragment and the carrier into a weighed 1.5 ml EP tube and purify with QIAEX II Gel Extraction Kit: Add 3 volumes of Buffer QX1 (100 mg plus 300 ul QX1). Force B 30ul Buffer QIAEX II Then 50 ° C water bath for 10 minutes, during which the vortex oscillates every two minutes.
- TBE electrophoresis buffer Tris 108 g, Na2EDTA*2H20 7.44 g, boric acid 55 g
- the linearized pCMV vector and the R-U5-PSI fragment have 15 to 25 bases, and the R-U5-PSI fragment and the U3-R fragment also have 15 to 25 bases.
- the U3-R fragment and The linearized pCMV vector also has a 15 to 25 base overlap, and the Infusion technique allows it to be spliced according to the coincident portion.
- Clonetech's Inflision kit was used as follows: 5 In-Fusion buffer 2ul, Enzyme lul, linearized CMV vector, R-U5-PSI fragment, U3-R fragment, water, total volume 10ul. The amount of the carrier and each fragment is such that the molar ratio thereof is 2:1.
- the Infusion mixture was treated at 37 °C for 15 minutes, at 50 °C for 15 minutes, 40 ul of TE buffer was added to make up 50 ul, and 2.5 ul was converted to DH5a.
- the transformed DH5ct was placed in ice for 30 minutes, heated at 42 ° C for 45 seconds, and then placed in ice for 1 minute.
- LB medium was added, and cultured at 37 ° C for 60 minutes with shaking.
- LOOul was coated with ampicillin-containing L-agar plate medium, and cultured at 37 ° C for 16 hours to form a single colony. The single colony was cultured for 8 hours in ampicillin-containing LB medium, and the culture solution was cultured for 8 hours with QIAprep Spin Miniprep.
- Kit small plasmid Pour the bacterial solution into the labeled 1.5ml centrifuge tube, 13000rpm, 4 ° C, 3 minutes, centrifuge to remove the supernatant; force B 250ul Buffer Pl, mix, force B 250ul Buffer P2, quickly Gently invert 4-6 times; add 350ul Buffer N3, invert 4-6 times to mix, white floc is precipitated, 13000rpm, 4°C, 10 minutes; Put QIAprep spin column in 1.5ml EP tube (collect Waste liquid) Then transfer the supernatant into the QIAprep spin column, 8000 rpm 4 ° C for 1 minute; discard the waste liquid, add 750 ul Buffer PE, 13000 rpm, 4 ° C, 1 minute, discard the waste liquid, 13000 rpm, 4 ° C, After centrifugation for 1 minute, the QIAprep spin column was transferred to a new 1.5 ml centrifuge tube, and 30 ul of Buffer EB was added vertically to the membrane.
- the detection target sequence of hepatitis C virus (HCV) and the detection target sequence of human acquired immunodeficiency virus (HIV) were designed by sequence alignment analysis, and the target sequences of the two viruses were spliced into a chimeric sequence in the chimeric sequence.
- the target sequence is not limited to the above two viruses.
- the reference target vector pTAR polyclonal cleavage site MCS was inserted into the HIV and HCV internal reference target sequence for PCR detection, and was named as the probe sequence of the upstream and downstream, including the primer sequence.
- HCV-F 5 '-AGTAGYGTTGGGTYGCGAAAG-3 '
- HCV-R 5 '-GAGACCTCCCGGGGCACTC-3 '
- HCV-IC Probe HEX-ACACCATACGTACCAGCGTAG-ECLIPSE
- HIV-F 5 '-CAGGTCTTCCCGACGATGAC-3 '
- HIV-R 5 '-ACTTGACTGGCGACGTAATCC-3 '
- HIV-IC Probe 5'- HEX-TGAACTTCCCGCCGCCGTTGTTGT-ECLIPSE-3'
- the gene synthesizes the target sequence of the above primer probe and will be installed on the TA clone for the next genetic manipulation.
- the target TA clones obtained by the synthesis were digested with EcoRI/Sal l, respectively, and the vector was digested with the corresponding enzyme, and ligated to the reference target vector pTAR using T4 ligase.
- the specific operation is as follows: The TA clone of the synthetic target sequence and the reference target vector pTAR were digested with the above restriction endonuclease, and the digestion system was: 10xNEBuffer3 10ul, restriction endonuclease Each enzyme was 5 ul, BSA lul, plasmid DNA 5 ug, double distilled water to make up 100 ul, and incubated at 37 ° C for 2 hours.
- the mixture was shaken for 30 seconds by adding 20 ul of TE buffer, placed for 5 minutes, centrifuged at 13,000 rpm for 30 seconds, and the supernatant was transferred to a 1.5 ml centrifuge tube to measure the concentration.
- the target gene fragment and the pTAR vector gene fragment were ligated in a 3:1 molar ratio with T4 ligase (Invirtogen), and the ligation system: 5X Ligase Reaction Buffer 4ul, pTAR vector 30finol, target gene fragment 90fmol, T4 DNA Ligase 0.1 U, deionized water was added to 20 ul, and the mixture was allowed to stand at room temperature for 1 hour. 2ul was converted to DH5a, placed in ice for 30 minutes, heated at 42 °C for 45 seconds, and then placed in ice for 1 minute. LB medium was added, and the mixture was incubated at 37 ° C for 60 minutes with shaking.
- T4 ligase Invirtogen
- LOOul was applied to an L-agar plate medium containing ampicillin, and cultured at 37 ° C for 16 hours to form a single colony, and the single colony was cultured for 8 hours in an ampicillin-containing LB medium.
- the bacterial culture solution was cultured for 8 hours.
- the plasmid was extracted with QIAprep Spin Miniprep Kit: The bacterial solution was poured into a labeled 1.5 ml centrifuge tube, centrifuged at 13,000 rpm, 4 ° C for 3 minutes, and the supernatant was discarded by centrifugation; 250 ul Buffer PI was added.
- the pTAR-HCV/HIV-IC internal reference target plasmid and the MLV gag-pol element plasmid were co-transfected into the reference production cell line 293T, and the HCV membrane protein granules or non-transfected membrane protein granules were transfected, and packaged with or without An HCV/HIV reference product carrying a viral surface membrane protein.
- the surface carrying HCV membrane protein HCV/HIV internal reference product named IC-HCV/HIV-1 the surface does not carry viral membrane protein, only the HCV/HIV reference material of the cell phospholipid bilayer is named IC-HCV/HIV- 0.
- the reference product production cell line 293T the surface of the packaging carries the HCV membrane protein HCV/HIV internal reference, named IC-HCV/HIV-1; and in the case of transfection without the addition of HCV membrane protein particles, only pTAR-HCV/HIV - IC internal reference target plasmid, MLV gag-pol element plasmid, two plasmids co-transfected reference production cell line 293T, packaging surface does not carry viral membrane protein, only cell phospholipid bilayer
- the HCV/HIV internal reference was named IC-HCV/HIV-0.
- the pTAR-HCV/HIV internal reference target plasmid, the MLV gag-pol element plasmid (O.lug/ul), each 8 ul, and the HCV membrane protein granule (O.lug/ul) 3 ul were mixed;
- pTAR- The HCV/HIV internal reference target plasmid and the MLV gag-pol element plasmid (O.lug/ul) were mixed 8 ul each, and then mixed with DMEM 80 ul, mixed with 20 ul of transfection reagent, and allowed to stand at room temperature for 5 to 10 minutes.
- 293T cells were washed twice with 0.01M PBS, digested with 0.25% Trypsin EDTA, and mixed with complete medium, dispersed, counted, 1.5 million cells per well of 6-well plate, 1.5 ml of final volume per well, to be transfected into plasmid
- a 6-well plate was added and patted to mix the plasmid complex in the cell suspension. Incubate for 6 hours at 37 ° C in a 5% C02 carbon dioxide incubator, aspirate the transfection mixture, gently wash the cells 3 times with PBS, and add the complete medium for further 72 hours. The supernatant was collected, filtered through a 0.45 um PVDF membrane, and stored at 4 ° C, containing the supernatant of the HCV/HIV reference.
- HCV/HIV reference nucleic acid was extracted using QIAGEN's QIAamp Ultraseus virus kit. The extraction procedure is described in Example 1.
- HCV-F HIV-R primer RT-PCR amplification of HCV/HIV reference nucleic acid, using One step devisr-iptTM RT-PCR Kit (TaKaRa) RT-PCR reaction system: 2xOne Step RT-PCR Buffer III 10ul , TaKaRa Ex TaqTM HS ( 5 U/ul) 0.5ul, PrimeS- criptTM RT Enzyme Mix II 0.5uK upstream primer final concentration 200nM, downstream primer final concentration 200nM, sample nucleic acid 2ul, no RA enzyme deionized water to make up 20ul.
- RT-PCR reaction conditions reverse transcription 42 ° C 5 minutes reverse transcriptase thermal variability inactivation 94 ° C 10 s; 95 ° C denaturation 5 s, 60 ° C annealing extension 30 s, a total of 30 cycles.
- the RT-PCR product was verified by electrophoresis for fragment size, see Figure 3.
- Example 3 Detection sensitivity of the internal reference product and HCV virus of R A virus nucleic acid in HCV envelope
- HCV-F 5 '-AGTAGYGTTGGGTYGCGAAAG-3 '
- HCV-R 5 '-GAGACCTCCCGGGGCACTC-3 '
- HCV-PC probe 5'- FAM-AAGCACCCTATCAGGCAGTAC-ECLIPSE-3'
- the gene synthesizes the target sequence of the above primer probe and will be mounted on a TA clone for the next genetic manipulation, which contains a primer probe for detecting the HCV virus.
- the sequence of HCV-PC was inserted into the vector pTAR to obtain the HCV-positive reference target vector pTAR-HCV-PC.
- Detection sensitivity of RAV nucleic acid detection internal reference product and HCV detection positive reference product of HCV envelope In order to maximize the simulation of target virus nucleic acid amplification process, detection of enveloped RA virus nucleic acid detection internal reference product The length of the needle is identical to the target virus detection probe, and the ratio of the four nucleotide residues of the detection probe is identical to the target virus detection probe, and the detection temperature (Tm value) of the detection probe is consistent with the target virus detection probe.
- Tm value detection temperature
- Nucleic acids were extracted using QIAGEN's QIAamp Ultrasens virus kit, and the extraction procedure is described in Example 1.
- the theoretical and actual detection are consistent with each other.
- the internal reference product and the viral nucleic acid compete for the reaction system.
- the various components, the internal reference product will cause the deviation of the target virus detection signal, or the internal reference product is insufficient to achieve the purpose of internal reference. Therefore, it is necessary to rationally use the HCV virus nucleic acid reference product within a certain range.
- HCV internal reference products and HCV positive reference products were used to simulate HCV virus, which were diluted 10 times and quantified as 10 5 , 10 4 , 10 3 , 10 2 , 10 five titers, and the internal reference products were positive. Five titer samples of the reference product were mixed to obtain 25 mixed samples and five reference positive reference products without mixed internal reference products as controls.
- the nucleic acid is extracted as described in Example 1, and the nucleic acid sample is subjected to real-time fluorescence quantitative detection using HCV-F, HCV-R primer, HCV-PC probe and HCV-IC probe, and the fluorescent quantitative PCR is set to FAM and HEX fluorescence detection, using One step primescriptTM RT-PCR Kit (TaKaRa) RT-PCR reaction system: 2 x One Step RT-PCR Buffer ⁇ lOuK TaKaRa Ex TaqTM HS (5 U/ul) 0.5ul, PrimeScriptTM RT Enzyme Mix II 0.5ul upstream primer 200nM, downstream primer final concentration 200nM, HCV-PC probe and HCV-IC probe 2.5nM sample nucleic acid 2ul, RNase-free deionized water to make up 20ul.
- TaKaRa One step primescriptTM RT-PCR Kit
- HS 2 x One Step RT-PCR Buffer ⁇ lOuK TaKaRa Ex TaqTM
- the HCV/HIV reference product is a membrane-like pseudovirus, which is a reference product for the detection of enveloped RA virus nucleic acid.
- the viral membrane protein has the same tolerance characteristics as the true virus in combination with the virus sample, and the target virus. When in the same physicochemical environment, it can reflect the biophysical degradation process of the target virus caused by the same reason.
- the HCV/HIV internal reference product established in Example 2 is a reference reagent for RA virus nucleic acid detection of HCV envelope, and contains an internal reference target of HCV/HIV. Therefore, the RAV nucleic acid detection internal reference designed by the present scheme is HCV envelope.
- the correlation between the detection change of the internal reference nucleic acid and the detection change of the HCV viral nucleic acid in the HCV positive serum and under various conditions reflects the tolerance of the RAV nucleic acid detection reference product of the HCV envelope to the HCV virus.
- the quantitative detection of the RAV nucleic acid detection reference of the HCV envelope was adjusted to a starting amount of 1.1 million copies/ml, and was adjusted and mixed with the HCV positive serum quantified by the viral load in a serum volume of 1 ml, and the serum ratio was greater than 90%, wherein The viral nucleic acid was approximately 1.6 million copies/ml (quantitative to the plasmid standard curve).
- the samples were mixed to prepare 40 parts, respectively a first group of: 10 parts by placing the room temperature environment; Second group: 4 Q C is placed 10 parts of the environment; third group: -40 Q C is placed 10 parts of the environment; -40 fourth group 10 parts placed in the Q C environment but repeatedly frozen and thawed.
- the starting time point is 0, and then the detection time points are 6 hours, 24 hours (first day), 2nd day, 3rd day, 7th day, 14th day, 21st day, 28th day, 42nd Day, day 56.
- One sample was taken from each experiment, and the fourth group of samples was completely frozen and thawed each time.
- the presence of nucleases or other unknown factors in the sample may cause degradation of the virus and its nucleic acid in the sample, resulting in a change in the amount of detection. The lower the temperature, the more favorable the sample is to preserve, see Figure 6.
- Nucleic Acid Extraction Procedure HCV/HIV reference nucleic acid was extracted using QIAGEN's QIAamp Ultraseus virus kit.
- the extraction procedure is described in Example 1. Simultaneous detection of viral nucleic acids and internal reference products are performed on the extracted nucleic acids.
- the viral nucleic acid detection is the same as the primer used for the internal reference detection, the probe is different and the fluorescent signal carried by the probe is different.
- Fluorescence quantitative RT-PCR was set up for FAM and HEX fluorescence detection, HCV-F, HCV-R primers were used to reverse transcribe and amplify sample nucleic acid, using One step primescriptTM RT-PCR Kit (TaKaRa) RT-PCR reaction system : 2xOne Step RT-PCR Buffer III 10ul, TaKaRa Ex TaqTM HS ( 5 U/ul) 0.5ul, PrimeScriptTM RT Enzyme Mix II 0.5uK Rox Correction Dye 0.4ul, Virus Detection Probe 2.5nM 2ul, Internal Reference Detection Probe 2.5nM 2ul, the upstream primer has a final concentration of 200nM, the downstream primer has a final concentration of 200nM, the sample nucleic acid is 2ul, and the RA enzyme deionized water is used to make up 20ul.
- HCV virus nucleic acid detection in internal reference products reflects the biophysical degradation process of HCV virus caused by various reasons, and evaluates the detection process of HCV virus nucleic acid by detecting the detection efficiency and detection value of a certain amount of internal reference products. reliability.
- a HCV viral nucleic acid detection internal reference having a quantitative amount of about 110,000 copies/ml was mixed with 14 HCV serum samples, and the nucleic acid extraction process and the RT-PCR detection process were simultaneously carried out in Example 5.
- the HCV viral nucleic acid reference is stable in multiple serum samples and can be used as a basis for relative quantification, see Figure 7.
- the internal reference and the virus have very close detection sensitivities, and the internal reference of the known titer can be used to relatively quantify the target virus.
- the specific method is as follows: 10 4 copy number of HCV virus nucleic acid detection internal reference product and three titer HCV in vitro transcription RA mixed, HCV in vitro transcription RA copy number by spectrophotometric detection and theoretical calculation is 4.8 X 10 4 , 4.8 X 10 3 , 4.8 X 10 2 , by calculating the relative quantitative RA copy number of the HCV virus nucleic acid reference and the HCV RA detection Ct value, the experimental relative quantitative HCV RA copy number is in agreement with the theoretical calculation value, the result See Table 1.
- RT-PCR reaction conditions reverse transcription 42 ° C 5 minutes reverse transcriptase thermal denaturation inactivation 94 ° C 10s; 95 ° C denaturation 5s, 60 ° C annealing extension 60s, a total of 40 cycles.
- the results showed that the reliability of HCV virus nucleic acid detection reference HCV virus nucleic acid detection process can also be applied to HCV viral load detection.
- HCV virus nucleic acid detection positive reference / standard application in HCV virus nucleic acid detection.
- the HCV virus nucleic acid detection positive reference product/standard product is a reference product with the same detection target and detection signal as the virus, and can be used as a HCV virus nucleic acid detection standard for drawing a standard curve in the nucleic acid detection process. Since the HCV virus nucleic acid detection positive reference is a pseudo-RA virus, its nucleic acid is RA, compared with the past plasmid as a standard curve. HCV virus nucleic acid detection positive reference nucleic acid is consistent with the nature of the sample nucleic acid. Simultaneous reverse transcription during the detection process is consistent in reverse transcription efficiency. Therefore, it is more useful in quantitative or comparative applications, and more reflective of the detection process. Or systemic error effects.
- HCV virus nucleic acid detection positive reference nucleic acid was extracted, the nucleic acid was serially diluted 10 times to prepare a standard curve, and HCV virus detection primers and probes were used, and One step primescriptTM RT-PCR Kit (TaKaRa) RT-PCR reaction was used.
- RT-PCR reaction conditions reverse transcription 42 ° C 5 minutes reverse transcriptase thermal denaturation inactivation 94 ° C 10s; 95 ° C denaturation 5s, 60 ° C annealing extension 60s, a total of 40 cycles. See Figure 8.
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Abstract
Description
有包膜 RNA病毒核酸检测参照品 /标准品及其应用 技术领域 Envelope RNA virus nucleic acid detection reference / standard and its application
本发明属于生物技术发明领域。 本发明具体涉及一种有包膜 R A病毒核酸检测参照品 / 标准品, 主要通过由携带外源目的序列的载体与含 MLV gag-pol元件的载体, 包括或不包括 病毒膜蛋白的质粒共转染参照品生产细胞株制作而成,是有包膜 R A病毒的拟似病毒,模拟 了病毒表面的磷脂双分子层或者更进一步地模拟了病毒膜蛋白表面活性, 具有具体有包膜 R A病毒结构及理化学特性特点, 无复制能力, 无传染性。 有包膜 R A病毒核酸检测参照 品 /标准品通过重组病毒技术从真核细胞中包装出来,可通过基因操作技术让参照品 /标准品颗 粒内部携带外源目的 R A序列, 参照品 /标准品具有与目标病毒同样的病毒包膜蛋白和相近 的病毒结构特性以及拓扑学特性, 能真实反应各种理化学环境因素对目标病毒的影响。 背景技术 The invention belongs to the field of biotechnological inventions. The invention particularly relates to an enveloped RA virus nucleic acid detection reference/standard, which is mainly co-transformed by a vector carrying an exogenous sequence of interest and a vector containing an MLV gag-pol element, including or not including a viral membrane protein. Produced by a cell line produced by reference, is a pseudovirus with enveloped RA virus, mimics the phospholipid bilayer on the surface of the virus or further mimics the surface activity of the viral membrane protein, and has a specific enveloped RA virus structure. And physicochemical characteristics, no replication, no contagious. The coated RA virus nucleic acid detection reference product/standard product is packaged from eukaryotic cells by recombinant virus technology, and the reference product/standard sample particle can carry the exogenous purpose RA sequence through the genetic manipulation technology, and the reference product/standard product has The same viral envelope protein and similar viral structural characteristics and topological characteristics as the target virus can truly reflect the influence of various physicochemical environmental factors on the target virus. Background technique
核酸检测技术, 主要包括聚合酶链式反应技术(PCR)和核酸分子杂交技术, 因其灵敏、 特异、 操作简便、 快速、 高效高通量等在病毒的诊断方面发挥了巨大的作用, 并逐步成为传 染病检测的一线方法。 核酸检测技术通过对病毒核酸的定性定量对病毒进行诊断, 是早期病 毒感染的有效诊断技术, 而对于慢性病毒感染, 核酸检测定量病毒核酸是评价病毒复制情况 以及抗病毒治疗效果的主要方法。针对 R A病毒的检测诊断,在聚合酶链式反应技术的基础 上, 增加了逆转录步骤(RT), 把病毒 RNA通过逆转录酶转录为 cDNA, 再进行扩增,即是逆 转录聚合酶链式反应技术 (RT-PCR)。 Nucleic acid detection technology, mainly including polymerase chain reaction (PCR) and nucleic acid hybridization technology, plays a huge role in the diagnosis of viruses because of its sensitivity, specificity, ease of operation, rapidity, high efficiency and high throughput. Become the first-line method of infectious disease detection. Nucleic acid detection technology is an effective diagnostic technique for early viral infection by qualitatively quantifying viral nucleic acids. For chronic viral infections, nucleic acid detection quantitative viral nucleic acid is the main method for evaluating viral replication and antiviral therapeutic effects. For the detection and diagnosis of RA virus, based on the polymerase chain reaction technology, the reverse transcription step (RT) is added, and the viral RNA is transcribed into cDNA by reverse transcriptase, and then amplified, which is the reverse transcription polymerase chain. Reactive reaction technique (RT-PCR).
RT-PCR检测诊断 RNA病毒的步骤主要有: 1、 样品采集储存; 2、 样品处理提取核酸; 3、 R A逆转录为 cDNA; 4、 cDNA模板扩增; 5、 检测扩增。 上面所述的每一个步骤都会 影响最后的检测结果。 在这些过程中, 存在各种理化学环境因素, 这些环境因素可能来源于 采样不合格, 核酸抽提时化学试剂酚类、 盐和乙醇等在核酸洗脱液中的残留等造成, 也可以 起源于样本本身的内在因素造成, 如血红素、 白细胞 DNA、 肝素、 胆汁和抗体等。 另外, 保 存、运输环境中 R A酶和温度等引起的目标病毒核酸自身降解也不容忽视。 因此, 为了反映 核酸检测结果的可靠性和排除各种理化学环境因素引起的假阴性结果, 在样品中设置参照品 (包括内参照品和阳性参照品) 是核酸定性定量检测中不可缺少的部分。 RT-PCR detection of RNA viruses mainly include: 1. Sample collection and storage; 2. Sample processing to extract nucleic acids; 3. Reverse transcription of R A into cDNA; 4. Amplification of cDNA template; 5. Detection and amplification. Each of the steps described above affects the final test results. In these processes, there are various physicochemical environmental factors, which may be caused by unsatisfactory sampling, residues of chemical reagents such as phenols, salts and ethanol in nucleic acid eluents during nucleic acid extraction, and may also originate from The intrinsic factors of the sample itself, such as heme, leukocyte DNA, heparin, bile and antibodies. In addition, the degradation of the target viral nucleic acid caused by R A enzyme and temperature in the storage and transportation environment cannot be ignored. Therefore, in order to reflect the reliability of nucleic acid detection results and to eliminate false negative results caused by various physicochemical environmental factors, setting reference products (including internal reference products and positive reference products) in samples is an indispensable part of qualitative and quantitative detection of nucleic acids.
R A病毒中又分为无包膜 R A病毒和有包膜 R A病毒, 但是目前针对于 R A病毒检 测的参照品只有两种: (1 ) 裸露 R A, (2) 病毒样颗粒。 裸露 R A参照品主要来自体外转 录, 将检测靶标插入带有体外转录酶启动子的质粒, 用体外转录酶合成的一段带有检测靶标 RNA, 然后用 DNA酶去除 RNA中的 DNA模板。 但是 RNA本身不稳定, 容易被环境中的The RA virus is further divided into non-enveloped RA virus and enveloped RA virus, but currently there are only two reference products for RA virus detection: (1) naked RA, (2) virus-like particles. The naked RA reference product is mainly derived from in vitro transcription, and the detection target is inserted into a plasmid carrying an in vitro transcriptase promoter, and a fragment synthesized by an in vitro transcriptase is provided with a detection target. RNA, then DNase is used to remove the DNA template from the RNA. But RNA itself is unstable and easy to be in the environment.
R A酶消化降解而不能够长期保存, 不便于运输, 更不能与病毒内的 R A相提并论。 病毒 颗粒型参照品最具代表性的就是" Armored RNA", 1996 年由 Ambion 公司开发, "Armored RNA"是利用 MS2噬菌体载体将检测靶标插入 MS2噬菌体包装质粒,将包装质粒转化至大肠 杆菌培养, 然后裂解细菌通过有机溶剂抽提纯化得到带有检测靶标的 MS2噬菌体。 "Armored RNA" 具有制作容易, 提取纯化简单, 常温或 4°C能长期稳定保存, 无感染性等特点, 其中 R A由噬菌体衣壳蛋白保护, 从病毒生物结构上看, 噬菌体病毒颗粒是一种正二十面体的致 密结构, 因而能够抵抗核酸酶以及各种理化学环境因素, 是作为标准品或阳性参照品的选择。 The R A enzyme is digested and degraded and cannot be stored for a long time, is inconvenient to transport, and cannot be compared with the R A in the virus. The most representative of the virus particle type reference product is "Armored RNA", which was developed by Ambion in 1996. "Armored RNA" uses the MS2 phage vector to insert the detection target into the MS2 phage packaging plasmid, and transforms the packaging plasmid into E. coli culture. The lysed bacteria are then purified by extraction with an organic solvent to obtain MS2 phage bearing the detection target. "Armored RNA" is easy to manufacture, simple to extract and purify, stable at room temperature or 4 °C for long-term storage, and has no infectivity. RA is protected by phage capsid protein. From the biological structure of virus, phage virus particle is a kind. The dense structure of the icosahedron, which is resistant to nucleases and various physicochemical environmental factors, is a choice as a standard or a positive reference.
然而, 针对不同种类的病毒病原体, 其生物生理结构特性的差异造成了对外界的抵抗能 力差异。 特别是对于有包膜 R A病毒, 由于包膜病毒其包膜为脂质双分子层, 其 R A既不 是裸露在外,也没有衣壳蛋白的坚固保护,在拓扑学上不可能被裸露 R A或衣壳病毒噬菌体 模拟, 因而简单地使用裸露 R A或衣壳病毒噬菌体作为有包膜 R A病毒检测中的参照品是 不合适的。 However, for different types of viral pathogens, differences in their biophysiological structural properties result in differences in resistance to the outside world. Especially for the enveloped RA virus, because the enveloped virus is enveloped by a lipid bilayer, its RA is neither exposed nor protected by capsid protein, and it is topologically impossible to be exposed to RA or clothing. Shell virus phage mimics, and thus it is not appropriate to simply use naked RA or capsid virus phage as a reference in the detection of enveloped RA virus.
有包膜 R A病毒中严重危害人类生命健康的病毒病原体,包括人类获得性免疫缺陷病毒 (HIV), 丙型肝炎病毒(HCV), 流感病毒, 严重急性呼吸综合症冠状病毒(SARS-CoV)等, 都是临床上需要早期诊断, 早期发现, 及时治疗和检测治疗效果的病毒病原体。 为了确保对 于这些有包膜 R A病毒的检测诊断的可信性, 并且在考虑有包膜 R A病毒的病毒结构生物 学特性和病毒拓扑学特性,样品采集后使用裸露 R A参照品或使用衣壳病毒噬菌体作为内参 照品都不能准确反映样品在处理检测等过程中的变化, 实现内参照品的功能, 模拟有包膜 R A病毒样品, 对因理化学环境因素造成的假阴性结果很难进行鉴别。 因而理想的参照品应 具有跟检测对象生物学特性一致的生物生理结构特性,只有开发与目标有包膜 R A病毒具有 相同生物学特性的核酸检测参照品才能真正对病原体检测全方位监测。 Viral pathogens that are harmful to human life and health in encapsulated RA viruses, including human acquired immunodeficiency virus (HIV), hepatitis C virus (HCV), influenza virus, severe acute respiratory syndrome coronavirus (SARS-CoV), etc. , are viral pathogens that require early diagnosis, early detection, timely treatment and detection of therapeutic effects. In order to ensure the credibility of the detection and diagnosis of these enveloped RA viruses, and considering the viral structural biological characteristics and viral topology characteristics of the enveloped RA virus, the naked RA reference material or the capsid virus is used after sample collection. Phage as an internal reference can not accurately reflect the changes of the sample in the process of processing and detection, to achieve the function of the internal reference product, simulate the coated RA virus sample, and it is difficult to identify the false negative result caused by the environmental and chemical factors. Therefore, the ideal reference product should have the biophysical structural characteristics consistent with the biological characteristics of the test object. Only the development of a nucleic acid detection reference product having the same biological characteristics as the coated R A virus can truly monitor the pathogen.
病毒的研究近年来得到了巨大的发展, 如禽流感病毒反向基因重组技术, 2003年法国科 学家作成了具有感染力及靶器官识别能力的 HCV拟似病毒,这些技术不仅标志着人类病毒生 物工程技术进入了"艺术"时代, 更重要的是人们可以用之来评价中和抗体, 寻找特殊的抗原 表位(epitope), 筛选可能的受体, 找出可能的疫苗株, 创立具有靶向性的药物载体和诊断技 术等等。 拟似病毒一般指具有拟似相应病毒结构或功能单位的纳米颗粒, 经人类基因操作后 失去复制功能从而失去了病毒毒性。 对于拟似病毒的种种应用, 可见拟似病毒能良好地模拟 有包膜病毒, 反映有包膜病毒的病毒结构生物生理特性和拓扑学特点, 因而能模拟有包膜病 毒在样品中经受各种理化学环境因素以及这些因素对有包膜病毒的影响。 从病毒的检测诊断 角度看, 将拟似病毒开发成有包膜 R A病毒核酸检测的参照品 /标准品, 较之使用裸露核酸 或无包膜的衣壳病毒噬菌体, 更能反映有包膜病毒及其在样品中的真实情况。 The research of viruses has been greatly developed in recent years, such as the reverse genetic recombination technology of avian influenza virus. In 2003, French scientists made HCV pseudoviruses with infectious and target organ recognition capabilities. These technologies not only mark human viral bioengineering technology. Into the "art" era, more importantly, people can use it to evaluate neutralizing antibodies, look for specific epitopes, screen for possible receptors, identify possible vaccine strains, and create targeted Drug carriers and diagnostic techniques, and the like. A pseudovirus generally refers to a nanoparticle having a structure or functional unit that resembles a corresponding virus, and loses replication function after manipulation by a human gene, thereby losing viral toxicity. For various applications of pseudoviruses, it can be seen that the pseudovirus can simulate the enveloped virus well, reflecting the biophysical and topological characteristics of the enveloped virus, and thus can simulate the enveloped virus to withstand various samples in the sample. Environmental and chemical factors and the impact of these factors on enveloped viruses. From the perspective of virus detection and diagnosis, the pseudovirus is developed into a reference product/standard for the detection of enveloped RA virus nucleic acid, compared to the use of naked nucleic acid. Or non-enveloped capsid virus phage, more able to reflect the enveloped virus and its real situation in the sample.
拟似病毒的包装技术, 目前主要利用人类免疫缺陷病毒 (HIV), 鼠白细胞病毒 (MLV) 等逆转录病毒的 gag-pol蛋白,该蛋白能通过识别并结合特定的序列捕获含有该序列的基因片 段, 并将该基因片段包装在蛋白颗粒的内部, 同时将表达病毒膜蛋白的内质网膜包装成颗粒, 通过内质网, 高尔基体等途径分泌到细胞外, 形成人工拟似病毒。 基于病毒重组技术和基因 操作对人工拟似病毒进行改造,把拟似病毒开发有包膜 R A病毒核酸检测的参照品 /标准品。 有包膜 R A病毒核酸检测参照品 /标准品的病毒生物结构仅为脂质双分子层包裹,内部为 Gag 蛋白结合核酸的非致密结构, 其病毒生物学结构上具有跟检测对象生物学特性一致的生物生 理结构特性以及拓扑学特点。 而在核酸检测中 (包括聚合酶链式反应技术 PCR和核酸分子杂 交技术), 理想的参照品还应满足模拟目标病毒被核酸检测技术检测的过程, 包括同样的特异 性和灵敏度, 与目标病毒同步被检测, 以达到最大限度模拟目标病毒核酸检测过程。 The virus-like packaging technology currently mainly uses the gag-pol protein of retrovirus such as human immunodeficiency virus (HIV) and murine leukocyte virus (MLV), which can recognize the gene containing the sequence by recognizing and binding to a specific sequence. The fragment is packaged in the inside of the protein particle, and the endoplasmic reticulum membrane expressing the viral membrane protein is packaged into particles, which are secreted outside the cell through the endoplasmic reticulum, Golgi apparatus and the like to form an artificial pseudovirus. Artificial pseudo-like viruses were engineered based on viral recombination technology and gene manipulation, and reference products/standards for detection of enveloped R A virus nucleic acids were developed. The viral biological structure of the coated RA virus nucleic acid detection reference product/standard is only a lipid bilayer coating, and the internal is a non-dense structure of the Gag protein binding nucleic acid, and the biological structure of the virus is consistent with the biological characteristics of the detection object. Biophysiological structural characteristics and topological characteristics. In nucleic acid detection (including polymerase chain reaction PCR and nucleic acid hybridization), the ideal reference should also meet the process of simulating the target virus by nucleic acid detection technology, including the same specificity and sensitivity, and the target virus. Synchronization is detected to maximize the simulation of the target viral nucleic acid detection process.
本发明开发了一种有包膜 R A病毒核酸检测参照品 /标准品,并以 HCV病毒核酸诊断为 例说明该有包膜 R A病毒核酸检测参照品 /标准品的应用, 达到以下目的: 具有跟检测对象 生物学特性一致的病毒结构生物学特性和拓扑学特性, 能真实反应各种理化学环境因素对目 标病毒的影响; 参照品 /标准品核酸为 R A, 包含目标有包膜 RNA病毒检测的靶标序列或独 特人工靶标序列, 与目标病毒检测具有相同的特异性和灵敏度, 同步被检测, 最大限度模拟 目标病毒核酸检测过程; 有包膜 R A病毒核酸检测参照品 /标准品可使用于核酸检测技术, 包括聚合酶链式反应技术 (PCR) 和核酸分子杂交技术。 发明内容 The invention develops a coated RA virus nucleic acid detection reference product/standard product, and uses the HCV virus nucleic acid diagnosis as an example to illustrate the application of the coated RA virus nucleic acid detection reference product/standard product, and achieves the following purposes: The biological characteristics and topological characteristics of the virus with the same biological characteristics of the test object can truly reflect the influence of various physicochemical environmental factors on the target virus; the reference product/standard nucleic acid is RA, and the target containing the target RNA virus detection is included. The sequence or unique artificial target sequence has the same specificity and sensitivity as the target virus detection, and is detected synchronously to maximize the simulation of the target viral nucleic acid detection process; the coated RA virus nucleic acid detection reference/standard can be used for nucleic acid detection technology. , including polymerase chain reaction (PCR) and nucleic acid hybridization techniques. Summary of the invention
本发明涉及一种有包膜 R A病毒核酸检测参照品 /标准品, 通过由携带外源目的序列的 参照品靶标载体, 含 MLV gag-pol元件的载体与病毒膜蛋白的质粒共转染参照品生产细胞株 制作而成, 是有包膜 R A病毒的拟似病毒, 能模拟具体有包膜 R A病毒结构生物学特性和 拓扑学特性以及理化学特性特点, 无复制能力, 无传染性。有包膜 R A病毒核酸检测参照品 /标准品通过重组病毒技术从真核细胞中包装出来, 可通过基因操作技术让参照品颗粒内部携 带外源目的 R A序列, 携带外源目的 R A序列通过基因操作技术可插入或替换。 The present invention relates to an enveloped RA virus nucleic acid detection reference product/standard, which is co-transfected with a plasmid of a viral membrane protein by a vector containing a MLV gag-pol element and a reference vector carrying an exogenous target sequence. Produced as a cell line, it is a pseudovirus with enveloped RA virus. It can simulate the biological and topological characteristics and physicochemical characteristics of the specific enveloped RA virus. It has no replication ability and no infectiousness. The coated RA virus nucleic acid detection reference product/standard product is packaged from the eukaryotic cell by recombinant virus technology, and the reference product particle can carry the exogenous target RA sequence through the genetic manipulation technology, and the exogenous target RA sequence is carried through the genetic operation. Technology can be inserted or replaced.
为了使有包膜 R A病毒核酸检测参照品 /标准品的检测与目标病毒具有相同的特异性和 灵敏度, 能够最大限度模拟目标病毒的核酸检测过程, 参照品 /标准品颗粒内部携带外源目的 R A序列可包括针对目标病毒的 PCR—对或多对检测引物, 一条或多条针对目标病毒的检 测探针或与目标病毒无关的探针, 参照品 /标准品检测靶标与目标病毒检测靶标的长度, 核苷 酸成分, 以及溶解温度必须三者一致; 也可单独或同时包括与核酸分子杂交检测靶标特异性 和灵敏度一致的靶标序列。有包膜 R A病毒核酸检测参照品作为阳性参照品时,其内部携带 的目的 R A序列包含与目标病毒检测一致的检测靶标或目标病毒基因的整个可检测区段的 一段或多段。 有包膜 RNA病毒核酸检测参照品作为内参照品时, 其内部携带的目的 R A序 列包含与目标病毒无关的定量 PCR检测探针或者包含核酸分子杂交检测靶标特异性和灵敏度 一致的但与目标病毒无关的靶标序列。 In order to make the detection of the coated RA virus nucleic acid detection reference/standard have the same specificity and sensitivity as the target virus, the nucleic acid detection process of the target virus can be simulated to the maximum extent, and the reference product/standard particle carries the exogenous purpose RA inside. The sequence may include PCR-pair or pairs of detection primers for the target virus, one or more detection probes for the target virus or probes not related to the target virus, and the length of the reference/standard detection target and the target virus detection target. , the nucleotide component, and the dissolution temperature must be the same; the target specificity can also be detected by hybridization with the nucleic acid molecule either alone or simultaneously A target sequence that is consistent with sensitivity. When the enveloped RA virus nucleic acid detection reference is used as a positive reference, the internal RA sequence carried therein contains one or more segments of the entire detectable segment of the detection target or the target viral gene consistent with the detection of the target virus. When the coated RNA virus nucleic acid detection reference product is used as an internal reference product, the target RA sequence carried therein contains a quantitative PCR detection probe irrelevant to the target virus or a nucleic acid molecule containing hybridization detection target specificity and sensitivity but with the target virus Unrelated target sequences.
有包膜 R A病毒核酸检测参照品 /标准品可应用在有包膜 R A病毒, 包括但不限于: 人 类获得性免疫缺陷病毒 (HIV), 丙型肝炎病毒 (HCV), 流感病毒, 严重急性呼吸综合症冠 状病毒 (SARS-CoV)。 发明详述 Coated RA virus nucleic acid detection reference/standard can be used in enveloped RA viruses, including but not limited to: human acquired immunodeficiency virus (HIV), hepatitis C virus (HCV), influenza virus, severe acute respiration Syndrome Coronavirus (SARS-CoV). Detailed description of the invention
1. 将逆转录病毒上游非翻译序列以及识别序列 R-U5-PSI和下游非翻译序列 U3-R从鼠 白血病病毒 MLV分别克隆出来, 并在这两个顺式元件中加入多克隆酶切位点 MCS, 利用 Infusion技术进行拼接连接到 pCMV载体上, 命名为 pTAR, 见实施例 1使该载体质粒可方 便插入或替换外源目标序列, 可插入或替换外源目的序列的最大长度至少为 3000bp, 可插 入或替换外源目的基因包含在有包膜 R A病毒核酸检测参照品内部, 建立靶标载体。 1. The upstream untranslated sequence of the retrovirus and the recognition sequence R-U5-PSI and the downstream non-translated sequence U3-R were separately cloned from the murine leukemia virus MLV, and a polyclonal cleavage site was added to the two cis elements. Point MCS, splicing and ligating to pCMV vector by Infusion technology, named pTAR, see Example 1 to facilitate insertion or replacement of the foreign vector sequence of the vector plasmid, and the maximum length of the inserted or substituted exogenous target sequence is at least 3000 bp. The exogenous gene of interest can be inserted or replaced and contained within the enveloped RA virus nucleic acid detection reference to establish a target vector.
2. 参照品 /标准品靶标载体 pTAR提供的多克隆插入位点 MCS可插入多种病毒的靶标序 列, 靶标序列可以是一个目标病毒的一段检测靶标序列或多段检测靶标的嵌合序列, 或是多 个目标病毒检测靶标的嵌合序列。实施例 2通过序列比对分析设计丙型肝炎病毒(HCV)的 检测靶标序列和人类获得性免疫缺陷病毒 (HIV) 的检测靶标序列的嵌合序列, 在参照品靶 标载体 pTAR多克隆酶切位点 MCS插入针对 PCR检测的 HCV和 HIV内参照品靶标序列, 使其与 HCV检测或 HIV检测具有相同的特异性和灵敏度,同步被检测,最大限度模拟 HCV 或 HIV核酸检测过程。 具有相同的特异性和灵敏度, 具体表现为, 内参照品靶标序列中含 有的引物序列与检测病毒的引物一致,内参照品靶标序列中含有的探针序列与检测病毒核酸 的探针序列长度相同, 碱基成分相同, 溶解温度相同, 但是具体序列不同, 检测报告信号不 同。 含有 HCV和 HIV嵌合靶标的内参照品命名为 pTAR-HCV/HIV。 2. The reference insert/standard target vector pTAR provides a polyclonal insertion site MCS that can insert a target sequence of a plurality of viruses, and the target sequence can be a detection target sequence of a target virus or a chimeric sequence of a plurality of detection targets, or Multiple target viruses detect the chimeric sequence of the target. Example 2 Designing the detection target sequence of hepatitis C virus (HCV) and the chimeric sequence of the detection target sequence of human acquired immunodeficiency virus (HIV) by sequence alignment analysis, in the reference target vector pTAR polyclonal cleavage site The point MCS inserts the HCV and HIV internal reference target sequences for PCR detection to have the same specificity and sensitivity as HCV detection or HIV detection, and is simultaneously detected to maximize the HCV or HIV nucleic acid detection process. With the same specificity and sensitivity, the primer sequence contained in the target sequence of the internal reference is identical to the primer for detecting the virus, and the probe sequence contained in the target sequence of the internal reference is the same as the length of the probe sequence for detecting the viral nucleic acid. The base components are the same, the dissolution temperature is the same, but the specific sequence is different, and the detection report signal is different. The internal reference containing HCV and HIV chimeric targets was named pTAR-HCV/HIV.
pTAR-HCV/HIV 内参照品靶标质粒, MLV gag-pol 元件质粒共转染参照品生产细胞株 293T, 同时转染 HCV膜蛋白质粒或不转染膜蛋白质粒, 包装出携带或不携带病毒表面膜蛋 白的 HCV/HIV内参照品。 表面携带 HCV膜蛋白 HCV/HIV内参照品命名为 IC-HCV/HIV-1, 表面不携带病毒膜蛋白, 仅为细胞磷脂双分子层的 HCV/HIV 内参照品命名为 IC-HCV/HIV-O o 有包膜 RNA病毒核酸检测内参照品, 在于模拟了病毒表面的磷脂双分子层 或者更进一步地模拟了病毒膜蛋白表面活性。 经过确切定性定量的有包膜 R A病毒核酸检 测参照品与病毒样品混合后,在与目标病毒处于同一理化学环境时能反映目标病毒因同样原 因引起的生物生理降解过程, 从而反映目标病毒的最终核酸检测结果的可靠性。 The pTAR-HCV/HIV internal reference target plasmid, MLV gag-pol element plasmid was co-transfected into the reference production cell line 293T, and the HCV membrane protein granules or non-transfected membrane protein granules were transfected, and the surface was packaged with or without virus. HCV/HIV internal reference for membrane proteins. The HCV membrane protein HCV/HIV internal reference is named IC-HCV/HIV-1, and the surface does not carry the viral membrane protein. The HCV/HIV reference product of the cell phospholipid bilayer is named IC-HCV/HIV- O o has an enveloped RNA virus nucleic acid detection internal reference, which mimics the phospholipid bilayer on the surface of the virus or further mimics the viral membrane protein surface activity. Encapsulated RA virus nucleic acid test After the reference product is mixed with the virus sample, it can reflect the biophysiological degradation process of the target virus due to the same reason when it is in the same physicochemical environment as the target virus, thereby reflecting the reliability of the final nucleic acid detection result of the target virus.
3. HCV/HIV 内参照品的靶标序列, 理论上具有相同的特异性和灵敏度, 具体设计为内 参照品靶标序列中含有的引物序列与检测病毒的引物一致,内参照品靶标序列中含有的探针 序列与检测病毒核酸的探针序列长度相同, 碱基成分相同, 溶解温度相同, 但是具体序列不 同。通过具体的 HCV阳性参照品与 HCV内参照品的靶标序列 RT-PCR扩增检测, 比较内参 照品和阳性参照品中检测靶标的扩增效率, 验证理论设计与实践实验基本一致, 验证内参照 品设计的合理性和可行性。 3. The target sequence of the HCV/HIV internal reference product has the same specificity and sensitivity. Specifically, the primer sequence contained in the target sequence of the internal reference product is identical to the primer for detecting the virus, and the target sequence contained in the internal reference product is included. The probe sequence has the same length as the probe sequence for detecting the viral nucleic acid, the base components are the same, and the dissolution temperature is the same, but the specific sequence is different. Through the specific HCV-positive reference product and the target sequence of HCV internal reference product RT-PCR amplification test, the amplification efficiency of the detection target in the internal reference product and the positive reference product is compared, and the verification theory design is basically consistent with the practice experiment, and the internal reference is verified. The rationality and feasibility of the product design.
4. 在 HCV的核酸检测中, 除了 HCV病毒核酸检测内参照品与 HCV病毒样品的检测靶 标灵敏度在理论上和实际检测上相互一致, 在 PCR扩增过程中, 由于内参照品和病毒核酸 竞争反应体系的各种成分, 内参照品过量会引起目标病毒检测信号的偏差, 或者内参照品不 足则不能达到内参照的目的, 因此需要在一定的范围内合理使用 HCV病毒核酸内参照品。 实施例 4结果显示内参品滴度在 104或以下不影响阳性参照品的检测, 即是不影响病毒样品 的检测, 而内参照品滴度在 103以上时, 不会因为阳性参照品滴度的影响而发生较大偏离, 即不会因为病毒样品含量而对内参照品定量造成偏差,因此 104是内参照品的最适使用滴度。 4. In the nucleic acid detection of HCV, in addition to the detection target sensitivity of the HCV virus nucleic acid detection internal reference product and the HCV virus sample, the theoretical and actual detection are consistent with each other. In the PCR amplification process, the internal reference product and the viral nucleic acid compete. In the various components of the reaction system, the amount of the internal reference product may cause a deviation of the target virus detection signal, or the internal reference product may not reach the purpose of the internal reference. Therefore, it is necessary to rationally use the HCV virus nucleic acid reference product within a certain range. The results of Example 4 show that the internal reference product titer of 10 4 or less does not affect the detection of the positive reference product, that is, it does not affect the detection of the virus sample, and when the internal reference product titer is above 10 3 , the positive reference product is not dropped. The degree of influence is greatly deviated, that is, the internal reference product is not biased due to the content of the virus sample, so 10 4 is the optimum titer of the internal reference product.
5. HCV/HIV 内参照品为有膜拟似病毒, 其病毒膜蛋白在理论上具有与真病毒一样的耐 受特点与病毒样品混合后,在与目标病毒处于同一理化学环境时能反映目标病毒因同样原因 引起的生物生理降解过程。实施例 5评价了 HCV包膜的 R A病毒核酸检测内参照品在 HCV 阳性血清中以及各种条件下, 内参照品核酸的检测变化与 HCV病毒核酸的检测变化的相关 性, 反映 HCV包膜的 R A病毒核酸检测参照品与 HCV病毒的耐受相关性。 5. The HCV/HIV internal reference product is a membrane-like pseudovirus, and its viral membrane protein theoretically has the same tolerance characteristics as the true virus. After mixing with the virus sample, it can reflect the target virus when it is in the same physicochemical environment as the target virus. Biophysiological degradation process caused by the same cause. Example 5 The correlation between the detection change of the internal reference nucleic acid and the detection change of the HCV viral nucleic acid in the HCV positive serum and under various conditions of the HCV envelope was evaluated in the HCV envelope, and the HCV envelope was reflected. The RA virus nucleic acid detection reference is related to the tolerance of HCV virus.
6. HCV病毒核酸检测内参照品的作用,一方面反映 HCV病毒因各种原因引起的生物生 理降解过程, 通过对一定量的内参照品的检出效率和检出值, 评价 HCV病毒核酸检测过程 的可靠性; 另一方面, HCV 内参照品和病毒具有非常接近的检测灵敏度, 已知滴度的内参 照品可用于对目标病毒进行相对定量。 而 HCV病毒核酸检测标准品, 与病毒具有相同的检 测靶标和检测信号, 可作为 HCV病毒核酸检测标准品, 用于在核酸检测过程中绘制标准曲 线。 由于将 HCV病毒核酸检测阳性参照品是拟似 R A病毒, 其核酸为 R A, 与过去质粒 作为标准曲线相比, HCV病毒核酸检测阳性参照品核酸与样品核酸性质一致, 在检测过程 中同时进行逆转录, 在逆转录效率上一致, 因此在定量或者比较等应用中更具有参考意义, 更能反映检测过程中人为的或系统的误差影响。 附图说明 1/8: 靶标载体 pTAR图谱 6. The role of HCV virus nucleic acid detection inside reference products, on the one hand, reflects the biophysical degradation process of HCV virus caused by various reasons, and evaluates the detection of HCV virus nucleic acid by detecting the detection efficiency and detection value of a certain amount of internal reference products. The reliability of the process; on the other hand, the HCV internal reference and virus have very close detection sensitivity, and the internal reference of the known titer can be used to relatively quantify the target virus. The HCV virus nucleic acid detection standard has the same detection target and detection signal as the virus, and can be used as a HCV virus nucleic acid detection standard for drawing a standard curve in the nucleic acid detection process. Since the HCV virus nucleic acid detection positive reference product is a pseudo-RA virus, its nucleic acid is RA. Compared with the past plasmid as a standard curve, the HCV virus nucleic acid detection positive reference nucleic acid is consistent with the sample nucleic acid property, and is simultaneously reversed during the detection process. Recording, consistent in reverse transcription efficiency, is therefore more informative in applications such as quantification or comparison, and more reflective of the effects of human or systematic errors in the detection process. DRAWINGS 1/8: Target vector pTAR map
2/8: HCV/HIV检测靶标构建图谱 2/8: HCV/HIV detection target construction map
3/8: HCV/HIV检测靶标构建鉴定图 3/8: HCV/HIV detection target construction identification map
4/8: HCV-PC与 HCV-IC扩增效率比较, HCV内参照品与 HCV阳性参照品的检出 Ct与稀释 度的负对数呈良好的线性关系, 相近的斜率反映了相近的检测灵敏度,通过计算扩增效率 4/8: Compared with the amplification efficiency of HCV-PC and HCV-IC, there is a good linear relationship between the detected Ct of HCV reference and HCV positive reference and the negative logarithm of dilution. The similar slope reflects the similar detection. Sensitivity, by calculating amplification efficiency
=10(1/斜率) -1, HCV内参照品与 HCV阳性参照品的扩增效率分别为 1.07与 1.01 =10 (1/slope) -1, the amplification efficiencies of the HCV internal reference and the HCV positive reference are 1.07 and 1.01, respectively.
5/8: HCV病毒核酸检测内参照品与 HCV阳性参照品共检测中的探索使用量及其检出值。 内 参照品滴度在 104或以下不影响阳性参照品的检测, 即是不影响病毒样品的检测, 而内参照 品滴度在 103以上时, 不会因为阳性参照品滴度的影响而发生较大偏离, 即不会因为病毒样 品含量而对内参照品定量造成偏差, 因此 104是内参照品的最适使用滴度。 5/8: Exploratory usage and detection values in the total detection of HCV virus nucleic acid detection internal reference products and HCV positive reference products. The internal reference product titer of 10 4 or less does not affect the detection of the positive reference product, that is, it does not affect the detection of the virus sample, and when the internal reference product titer is above 10 3 , it is not affected by the titer of the positive reference product. A large deviation occurs, that is, the internal reference product is not biased due to the virus sample content, so 10 4 is the optimum titer of the internal reference product.
6/8: HCV包膜的 R A病毒核酸检测内参照品在 HCV阳性血清中以及各种条件下, 内参照 品核酸的检测变化与 HCV病毒核酸的检测变化的相关性。在常温环境中由于样品中可能存在 核酸酶或其他未知因素导致样品中病毒及其核酸降解, 从而造成检测量的变化。 温度越低, 越有利于样品保存。 6/8: Correlation between the change in the detection of the internal reference nucleic acid and the detection of the HCV viral nucleic acid in the HCV-positive serum and under various conditions of the HCV envelope. In a normal temperature environment, the presence of nucleases or other unknown factors in the sample may cause degradation of the virus and its nucleic acid in the sample, resulting in a change in the amount of detection. The lower the temperature, the better the sample is preserved.
7/8: HCV病毒核酸内参照品在多个血清样品中检出量稳定。 7/8: The amount of HCV viral nucleic acid reference was stable in multiple serum samples.
8/8: HCV病毒核酸检测阳性参照品 /标准品用于在核酸检测过程中绘制标准曲线。 具体实施方式 8/8: HCV virus nucleic acid detection positive reference / standard used to draw a standard curve during nucleic acid detection. Detailed ways
以下实施例对本发明的作了详细说明, 但并不意味着限制本发明的内容。 实施例 1参照品靶标载体的构建 The following examples are illustrative of the invention, but are not intended to limit the scope of the invention. Example 1 Construction of reference target vector
参照品靶标载体是基于逆转录病毒的逆转录机制, 将逆转录病毒上游非翻译序列以及识 别序列 R-U5-PSI和下游非翻译序列 U3-R从鼠白血病病毒 MLV分别克隆出来, 并在这两个 顺式元件中加入多克隆酶切位点 MCS, 利用 Inflision技术进行拼接连接到 pCMV载体上, 命 名为 pTAR, pTAR结构图谱见附图 1。根据 Inflision技术要求设计 R-U5-PSI和 U3-R两对引 物: The reference target vector is based on the reverse transcription mechanism of retrovirus, and the upstream non-translated sequence of the retrovirus and the recognition sequence R-U5-PSI and the downstream non-translated sequence U3-R are separately cloned from the murine leukemia virus MLV, and Polyclonal cleavage site MCS was added to the two cis-elements, and spliced to the pCMV vector by Inflision technique, designated as pTAR, and the pTAR structure map is shown in Fig. 1. Design two pairs of R-U5-PSI and U3-R primers according to Inflision technical requirements:
TCCAACCCCCAAAACACTATGATTT-3 ' TCCAACCCCCAAAACACTATGATTT-3 '
U3-R-f: 5'-GTCGCGAGGCCTGTCGACAATGAAAGACCCCACCAAATTG-3 ' 使用 QIAGEN公司 QIAamp Ultraseus virus 试剂盒对鼠白血病病毒 MLV的核酸进行提取。 具体方法: 取 1ml病毒样品至 2ml EP管并平衡温度至 15 °C -25 °C, 加 800ul Buffer AC, 加 5.6ulcarrier RNA到 EP管盖子里, 然后漩涡振荡 10s混匀; 室温培育 10分钟, 3200rpm离心 3分钟, 弃去全部上清; 加 300ul Buffer AR ( 60°C预热) 加 20ul蛋白酶 K, 漩涡振荡使沉淀 全部溶解; 40°C水浴 10分钟期间漩涡振荡一次 5秒钟, 将其全部移入 QIAamp Spin Column 6000rpm离心 1分钟弃去废液; 力 B 500ul Buffer AWl 7500rpm离心 1分钟弃去废液, 力 B 500ul Buffer AW2 15000rpm离心 3分钟弃去废液,力 B 30ul Buffer AVE 7500rpm离心 1分钟, 收集含 R A洗脱液, -20°C保存。 U3-Rf: 5'-GTCGCGAGGCCTGTCGACAATGAAAGACCCCACCAAATTG-3 ' The nucleic acid of murine leukemia virus MLV was extracted using QIAGEN's QIAamp Ultraseus virus kit. Specific method: Take 1ml virus sample to 2ml EP tube and balance the temperature to 15 °C -25 °C, add 800ul Buffer AC, add 5.6ul carrier RNA to the lid of EP tube, then vortex for 10s to mix; incubate for 10 minutes at room temperature, Centrifuge at 3200 rpm for 3 minutes, discard all supernatants; add 300 ul Buffer AR (60 °C preheat) plus 20 ul of proteinase K, vortex to completely dissolve the precipitate; vortex for 5 seconds during a 10 °C water bath for 10 minutes, All were transferred to QIAamp Spin Column 6000 rpm for 1 minute to discard the waste liquid; force B 500ul Buffer AWl 7500 rpm centrifuge for 1 minute to discard the waste liquid, force B 500ul Buffer AW2 15000 rpm centrifuge for 3 minutes to discard the waste liquid, force B 30ul Buffer AVE 7500rpm centrifuge 1 In minutes, collect the RA-containing eluate and store at -20 °C.
用 Invitrogen逆转录试剂盒(Super Script II )对抽提的病毒 R A进行逆转录, 具体方法: 取 1.5ml 离心管, 加去离子水 5ul、随机引物(lOuM) luK样品 R A 5ul、 dNTP mix ( 10mM) lul, 65 °C 孵育 5分钟后置于冰上, 力 B 5 X First-strand Buffer 4ul、 0.1M、 DTT 2uK RNaseOUT lul, 25 °C孵育 2分钟, 加 Superscript™ II RT lul, 25 °C孵育 10分钟, 42°C孵育 50分钟, 70 °C孵育 15分钟, 取 2ul逆转录产物进行 PCR扩增。 分别使用 R-U5-PSI和 U3-R两对引物, 得到 R-U5-PSI和 U3-R两个片段。 PCR反应体系: lOxHigh Fidelity PCR Buffer 5ul; lOmM dNTP mixture lul; 50mM MgS04 2ul; Primer lOuM Forward/Reward lul; Platinum Taq High Fidelity 0.5ul (2.5 unit); 水 37.5ul; 逆转录产物 2ul。 总反应体积 50ul。 反应条件: 94°C 2分钟; 94 。C 30秒, 65 V 40秒, 72 °C 1分钟, 30个循环; 72 °C 3分钟。 Reverse transcription of extracted virus RA using Invitrogen Reverse Transcription Kit (Super Script II), specific method: Take 1.5ml centrifuge tube, add deionized water 5ul, random primer (lOuM) luK sample RA 5ul, dNTP mix ( 10mM Lul, incubate at 65 °C for 5 minutes, place on ice, force B 5 X First-strand Buffer 4ul, 0.1M, DTT 2uK RNaseOUT lul, incubate for 2 minutes at 25 °C, add SuperscriptTM II RT lul, 25 °C Incubate for 10 minutes, incubate at 42 °C for 50 minutes, incubate at 70 °C for 15 minutes, and take 2 ul of reverse transcript for PCR amplification. Two pairs of R-U5-PSI and U3-R primers were used to obtain two fragments of R-U5-PSI and U3-R. PCR reaction system: lOxHigh Fidelity PCR Buffer 5 ul; lOmM dNTP mixture lul; 50 mM MgS0 4 2 ul; Primer lOuM Forward/Reward lul; Platinum Taq High Fidelity 0.5 ul (2.5 unit); water 37.5 ul; The total reaction volume is 50 ul. Reaction conditions: 94 ° C for 2 minutes; 94 . C 30 seconds, 65 V 40 seconds, 72 °C 1 minute, 30 cycles; 72 °C 3 minutes.
用 Sac I线性化 pCMV载体, R-U5-PSI和 U3-R两个片段的 PCR产物, 分别进行 1%琼 脂糖电泳 (TBE电泳缓冲液: Tris 108克、 Na2EDTA*2H20 7.44克、 硼酸 55克, 去离子水定 容至 1L ) ; 切下回收目标片断和载体至以称重的 1.5ml EP管中, 用 QIAEX II Gel Extraction Kit纯化: 加入 3倍体积的 Buffer QX1 ( lOOmg加 300ul QX1 )。 力 B 30ul Buffer QIAEX II 然 后 50°C水浴 10分钟,期间每两分钟漩涡振荡一次。 13000rpm离心 30秒, 弃去上清, 加 500ul QIAEX I 洗一次, 加 Buffer PE 500ul洗两次弃去上清, 空气干燥 15分钟直至沉淀变白。 加 入 20ulTE漩涡振荡 30秒培育 5分钟, 13000rpm, 离心 30秒将上清移入 1.5mlEP管, 测量浓 度。 The PCR products of the pCMV vector, R-U5-PSI and U3-R were linearized with Sac I and subjected to 1% agarose electrophoresis (TBE electrophoresis buffer: Tris 108 g, Na2EDTA*2H20 7.44 g, boric acid 55 g) , dilute to a volume of 1 L of deionized water; cut off the target fragment and the carrier into a weighed 1.5 ml EP tube and purify with QIAEX II Gel Extraction Kit: Add 3 volumes of Buffer QX1 (100 mg plus 300 ul QX1). Force B 30ul Buffer QIAEX II Then 50 ° C water bath for 10 minutes, during which the vortex oscillates every two minutes. Centrifuge at 13000 rpm for 30 seconds, discard the supernatant, add 500 ul of QIAEX I once, wash twice with Buffer PE 500 ul, discard the supernatant, and air dry for 15 minutes until the precipitate turns white. Incubate with 20 ul TE vortex for 30 minutes, incubate for 5 minutes at 13,000 rpm, centrifuge for 30 seconds, transfer the supernatant to a 1.5 ml EP tube, and measure the concentration.
根据 Infusion技术原理, 线性化 pCMV载体与 R-U5-PSI片段有 15〜25个碱基重合, R-U5-PSI片段与 U3-R片段也有 15〜25个碱基重合, U3-R片段与线性化 pCMV载体也有 15〜25 个碱基重合, Infusion技术能使其根据重合部分定向拼接。 使用 Clonetech公司的 Inflision试 剂盒, 具体操作如下: 5 In-Fusion buffer 2ul, Enzyme lul, 线性化 CMV载体, R-U5-PSI 片段, U3-R片段, 水, 总体积 10ul。 载体与各片段的用量满足其摩尔比 2: 1。 Infusion混合液 37 °C 处理 15分钟, 50°C处理 15分钟,加入 40ul TE缓冲液,补足 50ul,取 2.5ul转化至 DH5a。 经转化的 DH5ct冰中放置 30分钟, 42°C加热 45秒钟后, 再冰中放置 1分钟。 加入 LB培养 基, 37°C振荡培养 60分钟。 取 lOOul涂含有氨苄青霉素的 L-琼脂平板培养基, 37°C培养 16 小时, 形成单菌落, 挑单菌落至含氨苄青霉素 LB培养基培养 8小时, 将培养 8小时的菌液 用 QIAprep Spin Miniprep Kit小提质粒:将菌液倒入标记好的 1.5ml离心管中, 13000rpm, 4°C, 3分钟, 离心弃去上清; 力 B 250ul Buffer Pl, 混匀, 力 B 250ul Buffer P2, 迅速轻轻颠倒 4-6次; 加入 350ul Buffer N3, 颠倒 4-6次混匀, 有白色絮状物析出, 13000rpm, 4°C, 10分钟; 把 QIAprep spin column放于 1.5ml EP管中(收集废液)然后将上清移入 QIAprep spin column中, 8000rpm 4°C 1分钟; 弃去废液, 加 750ul Buffer PE, 13000rpm, 4°C, 1分钟, 弃去废液, 13000rpm, 4°C, 1分钟离心, 将 QIAprep spin column移入新的 1.5ml离心管中, 竖直加 30ul Buffer EB于膜上, 放置 1分钟后, 4°C, 13000rpm, lmin离心获得液体单克隆的质粒。 测序 鉴定正确。 见附图 1。 实施例 2 pTAR的应用与 HCV/HIV内参照品的建立 According to the Infusion technology principle, the linearized pCMV vector and the R-U5-PSI fragment have 15 to 25 bases, and the R-U5-PSI fragment and the U3-R fragment also have 15 to 25 bases. The U3-R fragment and The linearized pCMV vector also has a 15 to 25 base overlap, and the Infusion technique allows it to be spliced according to the coincident portion. Clonetech's Inflision kit was used as follows: 5 In-Fusion buffer 2ul, Enzyme lul, linearized CMV vector, R-U5-PSI fragment, U3-R fragment, water, total volume 10ul. The amount of the carrier and each fragment is such that the molar ratio thereof is 2:1. The Infusion mixture was treated at 37 °C for 15 minutes, at 50 °C for 15 minutes, 40 ul of TE buffer was added to make up 50 ul, and 2.5 ul was converted to DH5a. The transformed DH5ct was placed in ice for 30 minutes, heated at 42 ° C for 45 seconds, and then placed in ice for 1 minute. LB medium was added, and cultured at 37 ° C for 60 minutes with shaking. LOOul was coated with ampicillin-containing L-agar plate medium, and cultured at 37 ° C for 16 hours to form a single colony. The single colony was cultured for 8 hours in ampicillin-containing LB medium, and the culture solution was cultured for 8 hours with QIAprep Spin Miniprep. Kit small plasmid: Pour the bacterial solution into the labeled 1.5ml centrifuge tube, 13000rpm, 4 ° C, 3 minutes, centrifuge to remove the supernatant; force B 250ul Buffer Pl, mix, force B 250ul Buffer P2, quickly Gently invert 4-6 times; add 350ul Buffer N3, invert 4-6 times to mix, white floc is precipitated, 13000rpm, 4°C, 10 minutes; Put QIAprep spin column in 1.5ml EP tube (collect Waste liquid) Then transfer the supernatant into the QIAprep spin column, 8000 rpm 4 ° C for 1 minute; discard the waste liquid, add 750 ul Buffer PE, 13000 rpm, 4 ° C, 1 minute, discard the waste liquid, 13000 rpm, 4 ° C, After centrifugation for 1 minute, the QIAprep spin column was transferred to a new 1.5 ml centrifuge tube, and 30 ul of Buffer EB was added vertically to the membrane. After standing for 1 minute, the liquid monoclonal plasmid was obtained by centrifugation at 4 ° C, 13000 rpm, 1 min. Sequencing was identified correctly. See Figure 1. Example 2 Application of pTAR and establishment of HCV/HIV reference products
通过序列比对分析设计丙型肝炎病毒 (HCV) 的检测靶标序列和人类获得性免疫缺陷病 毒 (HIV) 的检测靶标序列,并将两种病毒的靶标序列拼接为嵌合序列, 嵌合序列中的靶标序 列不限于以上两种病毒。 在参照品靶标载体 pTAR多克隆酶切位点 MCS插入针对 PCR检测 的 HIV和 HCV内参照品靶标序列, 命名为其中包括引物序列的上游和下游, 内参照品的探 针序列。 The detection target sequence of hepatitis C virus (HCV) and the detection target sequence of human acquired immunodeficiency virus (HIV) were designed by sequence alignment analysis, and the target sequences of the two viruses were spliced into a chimeric sequence in the chimeric sequence. The target sequence is not limited to the above two viruses. The reference target vector pTAR polyclonal cleavage site MCS was inserted into the HIV and HCV internal reference target sequence for PCR detection, and was named as the probe sequence of the upstream and downstream, including the primer sequence.
HCV内参照品靶标序列 HCV-IC HCV internal reference target sequence HCV-IC
HCV-F: 5 '-AGTAGYGTTGGGTYGCGAAAG-3 ' HCV-F: 5 '-AGTAGYGTTGGGTYGCGAAAG-3 '
HCV-R: 5 '-GAGACCTCCCGGGGCACTC-3 ' HCV-R: 5 '-GAGACCTCCCGGGGCACTC-3 '
HCV-IC 探针: HEX-ACACCATACGTACCAGCGTAG-ECLIPSE HCV-IC Probe: HEX-ACACCATACGTACCAGCGTAG-ECLIPSE
HIV内参照品靶标序列 HIV-IC HIV reference product target sequence HIV-IC
HIV-F: 5 '-CAGGTCTTCCCGACGATGAC-3 ' HIV-F: 5 '-CAGGTCTTCCCGACGATGAC-3 '
HIV-R: 5 '-ACTTGACTGGCGACGTAATCC-3 ' HIV-R: 5 '-ACTTGACTGGCGACGTAATCC-3 '
HIV-IC 探针: 5'- HEX-TGAACTTCCCGCCGCCGTTGTTGT-ECLIPSE-3' HIV-IC Probe: 5'- HEX-TGAACTTCCCGCCGCCGTTGTTGT-ECLIPSE-3'
基因合成上述引物探针的靶标序列, 并将安装在 TA克隆上进行下一步基因操作。 The gene synthesizes the target sequence of the above primer probe and will be installed on the TA clone for the next genetic manipulation.
1 . pTAR的应用: pTAR-HCV/HIV-IC的构建 1. Application of pTAR: Construction of pTAR-HCV/HIV-IC
将合成得到的在靶标 TA克隆分别用 EcoRI /Sal l酶切, 同时用对应的酶酶切载体, 使用 T4连接酶将其连接到参照品靶标载体 pTAR。 具体操作如下: 用上述限制性内切酶消化合成 靶标序列的 TA克隆和参照品靶标载体 pTAR, 酶切体系为: 10xNEBuffer3 10ul、 限制性内切 酶各 5ul、 BSA lul、质粒 DNA 5ug、双蒸水补足 100ul, 37°C温育 2小时。 1%琼脂糖电泳(TBE 电泳缓冲液: Tris 108克、 Na2EDTA*2H20 7.44克、 硼酸 55克, 去离子水定容至 1L); 切下 回收目标片断和载体至以称重的 1.5ml EP管中,用 QIAEX II Gel Extraction Kit纯化:加入 3 倍体积的 Buffer QXl ( lOOmg加 300ul QXl )。 力 B 30ul Buffer QIAEX II 然后 50°C水浴 10分 钟,期间每两分钟漩涡振荡一次。 13000rpm离心 1分钟,弃去上清,加 500ul QIAEX I 洗一次, 加 Buffer PE 500ul洗两次弃去上清, 空气干燥 15min直至沉淀变白。 加入 20ul TE缓冲液漩 涡振荡 30秒, 放置 5分钟, 13000rpm, 离心 30秒将上清移入 1.5ml 离心管, 测量浓度。 经 过计算,将靶标基因片段与 pTAR载体基因片段按 3: 1摩尔数比例用 T4连接酶(Invirtogen公 司) 分别进行定向连接, 连接体系: 5X Ligase Reaction Buffer 4ul、 pTAR载体 30finol、 靶标 基因片段 90fmol、 T4 DNA Ligase 0.1U、 去离子水补足至 20ul, 混匀后室温静止 1小时。 取 2ul转化至 DH5a, 冰中放置 30分钟, 42°C加热 45秒钟后, 再冰中放置 1分钟。 加入 LB培 养基, 37°C摇晃培养 60分钟。 取 lOOul涂布含有氨苄青霉素的 L-琼脂平板培养基, 37°C培养 16小时, 形成单菌落, 挑单菌落至含氨苄青霉素 LB培养基培养 8小时。 将培养 8小时的菌 液用 QIAprep Spin Miniprep Kit小提质粒: 将菌液倒入标记好的 1.5ml离心管中, 13000rpm, 4°C, 3分钟, 离心弃去上清;加 250ul Buffer PI, 混匀 (不留块状沉淀), 加 250ul Buffer P2, 迅速轻轻颠倒 4-6次;加入 350ul Buffer N3,颠倒 4-6次混匀,有白色絮状物析出, 13000rpm, 4°C, 10分钟; 把 QIAprep spin column放于一 1.5ml EP管中 (收集废液) 然后将上清移入 QIAprep spin column中, 8000rpm 4°C 离心 1分钟,弃去废液;力 B 750ul Buffer PE, 13000rpm, 4°C, 离心 1分钟, 弃去废液; 13000rpm, 4°C, 离心 1分钟, 将 QIAprep spin column移入新 的 1.5ml离心管中, 竖直加 30ul Buffer EB于膜上, 放置 1分钟后, 4°C, 13000rpm, 离心 1 分钟获得液体单克隆的质粒。 pTAR-HCV/HIV-IC测序鉴定正确。 见附图 2 The target TA clones obtained by the synthesis were digested with EcoRI/Sal l, respectively, and the vector was digested with the corresponding enzyme, and ligated to the reference target vector pTAR using T4 ligase. The specific operation is as follows: The TA clone of the synthetic target sequence and the reference target vector pTAR were digested with the above restriction endonuclease, and the digestion system was: 10xNEBuffer3 10ul, restriction endonuclease Each enzyme was 5 ul, BSA lul, plasmid DNA 5 ug, double distilled water to make up 100 ul, and incubated at 37 ° C for 2 hours. 1% agarose electrophoresis (TBE electrophoresis buffer: Tris 108 g, Na2EDTA*2H20 7.44 g, boric acid 55 g, deionized water to 1 L); cut off the target fragment and carrier to a weighed 1.5 ml EP tube Purification with QIAEX II Gel Extraction Kit: Add 3 volumes of Buffer QXl (100 mg plus 300ul QXl). Force B 30ul Buffer QIAEX II Then water bath at 50 ° C for 10 minutes, during which the vortex oscillates every two minutes. Centrifuge at 13000 rpm for 1 minute, discard the supernatant, add 500 ul of QIAEX I once, wash twice with Buffer PE 500 ul, discard the supernatant, and air dry for 15 min until the precipitate turns white. The mixture was shaken for 30 seconds by adding 20 ul of TE buffer, placed for 5 minutes, centrifuged at 13,000 rpm for 30 seconds, and the supernatant was transferred to a 1.5 ml centrifuge tube to measure the concentration. After calculation, the target gene fragment and the pTAR vector gene fragment were ligated in a 3:1 molar ratio with T4 ligase (Invirtogen), and the ligation system: 5X Ligase Reaction Buffer 4ul, pTAR vector 30finol, target gene fragment 90fmol, T4 DNA Ligase 0.1 U, deionized water was added to 20 ul, and the mixture was allowed to stand at room temperature for 1 hour. 2ul was converted to DH5a, placed in ice for 30 minutes, heated at 42 °C for 45 seconds, and then placed in ice for 1 minute. LB medium was added, and the mixture was incubated at 37 ° C for 60 minutes with shaking. LOOul was applied to an L-agar plate medium containing ampicillin, and cultured at 37 ° C for 16 hours to form a single colony, and the single colony was cultured for 8 hours in an ampicillin-containing LB medium. The bacterial culture solution was cultured for 8 hours. The plasmid was extracted with QIAprep Spin Miniprep Kit: The bacterial solution was poured into a labeled 1.5 ml centrifuge tube, centrifuged at 13,000 rpm, 4 ° C for 3 minutes, and the supernatant was discarded by centrifugation; 250 ul Buffer PI was added. Mix well (without blocky precipitation), add 250ul Buffer P2, quickly invert 4-6 times; add 350ul Buffer N3, invert 4-6 times to mix, white floc is precipitated, 13000rpm, 4°C, 10 minutes; place the QIAprep spin column in a 1.5ml EP tube (collect the waste) and then transfer the supernatant to the QIAprep spin column, centrifuge at 8000rpm for 4 minutes at 4°C, discard the waste; force B 750ul Buffer PE, 13000rpm , centrifuge at 1 °C for 1 minute, discard the waste solution; centrifuge at 13000 rpm, 4 °C for 1 minute, transfer the QIAprep spin column into a new 1.5 ml centrifuge tube, add 30 ul of Buffer EB vertically to the membrane, and place for 1 minute. Thereafter, a liquid monoclonal plasmid was obtained by centrifugation at 13,000 rpm for 1 minute. The pTAR-HCV/HIV-IC sequencing was correctly identified. See Figure 2
2. HCV/HIV内参照品的建立 2. Establishment of HCV/HIV reference products
将 pTAR-HCV/HIV-IC内参照品靶标质粒, MLV gag-pol元件质粒共转染参照品生产细胞 株 293T, 同时转染 HCV膜蛋白质粒或不转染膜蛋白质粒, 包装出携带或不携带病毒表面膜 蛋白的 HCV/HIV内参照品。表面携带 HCV膜蛋白 HCV/HIV内参照品命名为 IC-HCV/HIV-1, 表面不携带病毒膜蛋白,仅为细胞磷脂双分子层的 HCV/HIV内参照品命名为 IC-HCV/HIV-0。 具体操作如下: pTAR-HCV/HIV-IC内参照品靶标质粒, MLV gag-pol元件质粒, HCV膜蛋白 质粒用紫外分光光度计测浓度后, 都调整到 0.1ug/ul, 三质粒共转染参照品生产细胞株 293T, 包装表面携带 HCV膜蛋白 HCV/HIV内参照品, 命名为 IC-HCV/HIV-1 ; 同时在不添加 HCV 膜蛋白质粒转染的情况下,仅 pTAR-HCV/HIV-IC内参照品靶标质粒, MLV gag-pol元件质粒, 两质粒共转染参照品生产细胞株 293T, 包装表面不携带病毒膜蛋白, 仅为细胞磷脂双分子层 的 HCV/HIV 内参照品, 命名为 IC-HCV/HIV-0。 使用 PolyFect Transfection Kit , 取 pTAR-HCV/HIV内参照品靶标质粒、 MLV gag-pol元件质粒 (O.lug/ul) 各 8ul、 HCV膜蛋白 质粒 (O.lug/ul) 3ul 混合; 取 pTAR-HCV/HIV 内参照品靶标质粒、 MLV gag-pol 元件质粒 ( O.lug/ul)各 8ul混合,分别加 DMEM 80ul充分混匀,加转染试剂 20ul 混匀,室温静止 5〜10 分钟。 293T细胞用 0.01M PBS洗两遍, 0.25%Trypsin EDTA消化后,加完全培养基吹打分散, 计数, 6孔板每孔种 150万个细胞补足每孔培养基终体积 1.5ml, 待转染质粒用 600ul完全培 养基稀释后加入 6孔板, 轻拍, 使质粒复合体在细胞悬液中充分混匀。 37°C 5% C02二氧化 碳培养箱培养 6小时, 吸去转染混合液, PBS轻轻洗细胞 3遍, 加入完全培养基继续培养 72 小时。 收集上清, 用 0.45umPVDF膜过滤, 4°C保存, 即含有 HCV/HIV内参照品上清。 The pTAR-HCV/HIV-IC internal reference target plasmid and the MLV gag-pol element plasmid were co-transfected into the reference production cell line 293T, and the HCV membrane protein granules or non-transfected membrane protein granules were transfected, and packaged with or without An HCV/HIV reference product carrying a viral surface membrane protein. The surface carrying HCV membrane protein HCV/HIV internal reference product named IC-HCV/HIV-1, the surface does not carry viral membrane protein, only the HCV/HIV reference material of the cell phospholipid bilayer is named IC-HCV/HIV- 0. The specific operations are as follows: pTAR-HCV/HIV-IC internal reference target plasmid, MLV gag-pol element plasmid, HCV membrane protein particles were adjusted to 0.1 ug/ul by UV spectrophotometer, and the three plasmids were co-transfected. The reference product production cell line 293T, the surface of the packaging carries the HCV membrane protein HCV/HIV internal reference, named IC-HCV/HIV-1; and in the case of transfection without the addition of HCV membrane protein particles, only pTAR-HCV/HIV - IC internal reference target plasmid, MLV gag-pol element plasmid, two plasmids co-transfected reference production cell line 293T, packaging surface does not carry viral membrane protein, only cell phospholipid bilayer The HCV/HIV internal reference was named IC-HCV/HIV-0. Using the PolyFect Transfection Kit, the pTAR-HCV/HIV internal reference target plasmid, the MLV gag-pol element plasmid (O.lug/ul), each 8 ul, and the HCV membrane protein granule (O.lug/ul) 3 ul were mixed; pTAR- The HCV/HIV internal reference target plasmid and the MLV gag-pol element plasmid (O.lug/ul) were mixed 8 ul each, and then mixed with DMEM 80 ul, mixed with 20 ul of transfection reagent, and allowed to stand at room temperature for 5 to 10 minutes. 293T cells were washed twice with 0.01M PBS, digested with 0.25% Trypsin EDTA, and mixed with complete medium, dispersed, counted, 1.5 million cells per well of 6-well plate, 1.5 ml of final volume per well, to be transfected into plasmid After dilution with 600 ul of complete medium, a 6-well plate was added and patted to mix the plasmid complex in the cell suspension. Incubate for 6 hours at 37 ° C in a 5% C02 carbon dioxide incubator, aspirate the transfection mixture, gently wash the cells 3 times with PBS, and add the complete medium for further 72 hours. The supernatant was collected, filtered through a 0.45 um PVDF membrane, and stored at 4 ° C, containing the supernatant of the HCV/HIV reference.
HCV/HIV内参照品的验证, 具体方法: 使用 QIAGEN公司 QIAamp Ultraseus virus试剂 盒提取 HCV/HIV内参照品核酸,提取步骤见实施例 1描述。使用 HCV-F, HIV-R引物 RT-PCR 扩增 HCV/HIV内参照品核酸,用 One step primescr-iptTM RT-PCR Kit ( TaKaRa公司) RT-PCR 反应体系: 2xOne Step RT-PCR Buffer III 10ul、 TaKaRa Ex TaqTM HS ( 5 U/ul) 0.5ul、 PrimeS- criptTM RT Enzyme Mix II 0.5uK 上游引物终浓度 200nM、 下游引物终浓度 200nM、 样品核 酸 2ul、 无 R A酶去离子水补足 20ul。 RT-PCR反应条件: 反转录 42°C 5分钟反转录酶热变 性失活 94°C 10s; 95 °C变性 5s, 60°C退火延伸 30s, 共 30个循环。 RT-PCR产物通过电泳验 证片段大小, 见附图 3。 实施例 3 HCV包膜的 R A病毒核酸检测内参照品与 HCV病毒的检测敏感性 Verification of HCV/HIV reference products, specific methods: The HCV/HIV reference nucleic acid was extracted using QIAGEN's QIAamp Ultraseus virus kit. The extraction procedure is described in Example 1. HCV-F, HIV-R primer RT-PCR amplification of HCV/HIV reference nucleic acid, using One step primescr-iptTM RT-PCR Kit (TaKaRa) RT-PCR reaction system: 2xOne Step RT-PCR Buffer III 10ul , TaKaRa Ex TaqTM HS ( 5 U/ul) 0.5ul, PrimeS- criptTM RT Enzyme Mix II 0.5uK upstream primer final concentration 200nM, downstream primer final concentration 200nM, sample nucleic acid 2ul, no RA enzyme deionized water to make up 20ul. RT-PCR reaction conditions: reverse transcription 42 ° C 5 minutes reverse transcriptase thermal variability inactivation 94 ° C 10 s; 95 ° C denaturation 5 s, 60 ° C annealing extension 30 s, a total of 30 cycles. The RT-PCR product was verified by electrophoresis for fragment size, see Figure 3. Example 3 Detection sensitivity of the internal reference product and HCV virus of R A virus nucleic acid in HCV envelope
1. HCV检测阳性参照品的建立 1. Establishment of HCV detection positive reference
HCV阳性参照品靶标序列 HCV-PC HCV positive reference target sequence HCV-PC
HCV-F: 5 '-AGTAGYGTTGGGTYGCGAAAG-3 ' HCV-F: 5 '-AGTAGYGTTGGGTYGCGAAAG-3 '
HCV-R: 5 '-GAGACCTCCCGGGGCACTC-3 ' HCV-R: 5 '-GAGACCTCCCGGGGCACTC-3 '
HCV-PC 探针: 5'- FAM-AAGCACCCTATCAGGCAGTAC-ECLIPSE-3' HCV-PC probe: 5'- FAM-AAGCACCCTATCAGGCAGTAC-ECLIPSE-3'
基因合成上述引物探针的靶标序列, 并将安装在 TA克隆上进行下一步基因操作, 该靶标 序列中包含用于检测 HCV病毒的引物探针。 The gene synthesizes the target sequence of the above primer probe and will be mounted on a TA clone for the next genetic manipulation, which contains a primer probe for detecting the HCV virus.
使用实施例 2中构建 pTAR-HCV/HIV-IC的方法, 将 HCV-PC的序列插入到载体 pTAR, 获得 HCV阳性参照品靶标载体 pTAR- HCV-PC。 Using the method of constructing pTAR-HCV/HIV-IC in Example 2, the sequence of HCV-PC was inserted into the vector pTAR to obtain the HCV-positive reference target vector pTAR-HCV-PC.
使用实施例 2中建立 HCV/HIV内参照品的方法建立 HCV阳性参照品。 An HCV-positive reference was established using the method of establishing an HCV/HIV reference in Example 2.
2. HCV包膜的 R A病毒核酸检测内参照品与 HCV检测阳性参照品的检测灵敏度比较 为了最大限度模拟目标病毒核酸扩增过程, 有包膜 R A病毒核酸检测内参照品的检测探 针的长度与目标病毒检测探针一致, 检测探针的四种核苷酸残基的比例与目标病毒检测探针 一致, 检测探针的溶解温度 (Tm值) 与目标病毒检测探针一致。 为了检验 HCV内参照品检 测靶标和 HCV病毒检测靶标的检测敏感性, 将 HCV内参照品与 HCV阳性参照品初始液等 体积混合, 然后 10倍系列稀释, 分别为 共 4个稀释度。 使用 QIAGEN公 司 QIAamp Ultrasens virus 试剂盒提取核酸,提取步骤见实施例 1描述。使用 HCV-F, HCV-R 引物, HCV-PC 探针和 HCV-IC 探针对核酸样品进行实时荧光定量检测, 荧光定量 PCR设置 为 FAM与 HEX两种荧光检测,用 One step primescriptTM RT-PCR Kit (TaKaRa公司) RT-PCR 反应体系: 2xOne Step RT-PCR Buffer III lOuK TaKaRa Ex TaqTM HS ( 5 U/ul) 0.5ul、 PrimeScriptTM RT Enzyme Mix II 0.5uK 上游引物终浓度 200nM、 下游引物终浓度 200nM、 HCV-PC 探针和 HCV-IC 探针 2.5nM样品核酸 2ul、 无 R A酶去离子水补足 20ul。 RT-PCR 反应条件:反转录 42°C 5分钟反转录酶热变性失活 94 °C 10s; 95°C变性 5s, 60°C退火延伸 30s, 共 40个循环。 根据 PCR定量结果 Ct值绘制标准曲线与稀释度作相关性分析, HCV内参照 品与 HCV阳性参照品的检出 Ct与稀释度的负对数呈良好的线性关系, 相近的斜率反映了相 近的检测灵敏度,通过计算扩增效率 =10(1/斜率) -1, HCV内参照品与 HCV阳性参照品的扩增 效率分别为 1.07与 1.01, 见附图 4。 实施例 4 HCV病毒核酸检测内参照品在 HCV检测中最适使用量 2. Detection sensitivity of RAV nucleic acid detection internal reference product and HCV detection positive reference product of HCV envelope In order to maximize the simulation of target virus nucleic acid amplification process, detection of enveloped RA virus nucleic acid detection internal reference product The length of the needle is identical to the target virus detection probe, and the ratio of the four nucleotide residues of the detection probe is identical to the target virus detection probe, and the detection temperature (Tm value) of the detection probe is consistent with the target virus detection probe. In order to test the detection sensitivity of the HCV reference product detection target and the HCV virus detection target, the HCV internal reference product and the HCV positive reference product initial solution are mixed in equal volume, and then 10-fold serial dilution, respectively A total of 4 dilutions. Nucleic acids were extracted using QIAGEN's QIAamp Ultrasens virus kit, and the extraction procedure is described in Example 1. Real-time fluorescence quantitative detection of nucleic acid samples using HCV-F, HCV-R primers, HCV-PC probes and HCV-IC probes, fluorescence quantitative PCR set to FAM and HEX fluorescence detection, using One step primescriptTM RT-PCR Kit (TaKaRa) RT-PCR reaction system: 2xOne Step RT-PCR Buffer III lOuK TaKaRa Ex TaqTM HS ( 5 U/ul) 0.5ul, PrimeScriptTM RT Enzyme Mix II 0.5uK upstream primer final concentration 200nM, downstream primer final concentration 200nM , HCV-PC probe and HCV-IC probe 2.5nM sample nucleic acid 2ul, no RA enzyme deionized water to make up 20ul. RT-PCR reaction conditions: reverse transcription 42 ° C 5 minutes reverse transcriptase thermal denaturation inactivation 94 ° C 10s; 95 ° C denaturation 5s, 60 ° C annealing extended 30s, a total of 40 cycles. Correlation analysis was carried out according to the Ct value of PCR quantitative results. The correlation between the detected Ct and the negative logarithm of the HCV positive reference and the HCV positive reference showed a good linear relationship. The similar slopes reflect similar The detection sensitivity was calculated by the amplification efficiency = 10 (1/slope) -1, and the amplification efficiencies of the HCV internal reference and the HCV positive reference were 1.07 and 1.01, respectively, as shown in Fig. 4. Example 4 HCV virus nucleic acid detection internal reference product is optimally used in HCV detection
在 HCV的核酸检测中, 除了 HCV病毒核酸检测内参照品与 HCV病毒样品的检测靶标灵 敏度在理论上和实际检测上相互一致, 在 PCR扩增过程中, 由于内参照品和病毒核酸竞争反 应体系的各种成分, 内参照品过量会引起目标病毒检测信号的偏差, 或者内参照品不足则不 能达到内参照的目的, 因此需要在一定的范围内合理使用 HCV病毒核酸内参照品。本方案中 使用 HCV 内参照品和 HCV 阳性参照品模拟 HCV病毒, 分别作 10倍系列稀释并定量为 105,104,103,102,10五个滴度, 将内参照品和阳性参照品的五个滴度样品分别混合得到 25个混 合样品以及未有混合内参照品的五个滴度的阳性参照品作为对照。 样品混合后, 按实施例 1 描述的方法提取核酸, 和使用 HCV-F, HCV-R引物, HCV-PC 探针和 HCV-IC 探针对核酸样 品进行实时荧光定量检测, 荧光定量 PCR设置为 FAM与 HEX两种荧光检测, 用 One step primescriptTM RT-PCR Kit (TaKaRa 公司) RT-PCR反应体系: 2 x One Step RT-PCR Buffer ΠΙ lOuK TaKaRa Ex TaqTM HS (5 U/ul) 0.5ul、 PrimeScriptTM RT Enzyme Mix II 0.5ul 上游引 物终浓度 200nM、 下游引物终浓度 200nM、 HCV-PC 探针和 HCV-IC 探针 2.5nM样品核酸 2ul、 无 RNA酶去离子水补足 20ul。 RT-PCR反应条件: 反转录 42°C 5分钟反转录酶热变性 失活 94°C 10s; 95°C变性 5s, 60°C退火延伸 30s, 共 40个循环。 结果显示内参品滴度在 104 或以下不影响阳性参照品的检测, 即是不影响病毒样品的检测, 而内参照品滴度在 103以上 时, 不会因为阳性参照品滴度的影响而发生较大偏离, 即不会因为病毒样品含量而对内参照 品定量造成偏差, 因此 104是内参照品的最适使用滴度, 见附图 5。 实施例 5 HCV包膜的 R A病毒核酸检测参照品与 HCV病毒的耐受相关性 In the nucleic acid detection of HCV, in addition to the detection target sensitivity of the HCV virus nucleic acid detection internal reference product and the HCV virus sample, the theoretical and actual detection are consistent with each other. In the PCR amplification process, the internal reference product and the viral nucleic acid compete for the reaction system. The various components, the internal reference product will cause the deviation of the target virus detection signal, or the internal reference product is insufficient to achieve the purpose of internal reference. Therefore, it is necessary to rationally use the HCV virus nucleic acid reference product within a certain range. In this protocol, HCV internal reference products and HCV positive reference products were used to simulate HCV virus, which were diluted 10 times and quantified as 10 5 , 10 4 , 10 3 , 10 2 , 10 five titers, and the internal reference products were positive. Five titer samples of the reference product were mixed to obtain 25 mixed samples and five reference positive reference products without mixed internal reference products as controls. After the sample is mixed, the nucleic acid is extracted as described in Example 1, and the nucleic acid sample is subjected to real-time fluorescence quantitative detection using HCV-F, HCV-R primer, HCV-PC probe and HCV-IC probe, and the fluorescent quantitative PCR is set to FAM and HEX fluorescence detection, using One step primescriptTM RT-PCR Kit (TaKaRa) RT-PCR reaction system: 2 x One Step RT-PCR Buffer ΠΙ lOuK TaKaRa Ex TaqTM HS (5 U/ul) 0.5ul, PrimeScriptTM RT Enzyme Mix II 0.5ul upstream primer 200nM, downstream primer final concentration 200nM, HCV-PC probe and HCV-IC probe 2.5nM sample nucleic acid 2ul, RNase-free deionized water to make up 20ul. RT-PCR reaction conditions: reverse transcription 42 ° C 5 minutes reverse transcriptase thermal denaturation inactivation 94 ° C 10s; 95 ° C denaturation 5s, 60 ° C annealing extended 30s, a total of 40 cycles. The results show that the internal reference product titer is 10 4 Or the following does not affect the detection of positive reference products, that is, does not affect the detection of virus samples, and when the internal reference product titer is above 10 3 , there will be no large deviation due to the influence of the positive reference product titer, that is, it will not Because of the virus sample content, there is a bias in the quantification of the internal reference, so 10 4 is the optimum titer of the internal reference, see Figure 5. Example 5 Correlation between RAV nucleic acid detection reference of HCV envelope and HCV virus tolerance
HCV/HIV内参照品为有膜拟似病毒, 是有包膜 R A病毒核酸检测参照品, 其病毒膜蛋 白在理论上具有与真病毒一样的耐受特点与病毒样品混合后, 在与目标病毒处于同一理化学 环境时能反映目标病毒因同样原因引起的生物生理降解过程。 在实施例 2 中所建立的 HCV/HIV内参照品是 HCV包膜的 R A病毒核酸检测参照品,含有 HCV/HIV的内参照靶标, 故本方案设计为 HCV包膜的 R A病毒核酸检测内参照品在 HCV阳性血清中以及各种条件 下, 内参照品核酸的检测变化与 HCV病毒核酸的检测变化的相关性, 反映 HCV包膜的 R A 病毒核酸检测参照品与 HCV病毒的耐受相关性。 The HCV/HIV reference product is a membrane-like pseudovirus, which is a reference product for the detection of enveloped RA virus nucleic acid. The viral membrane protein has the same tolerance characteristics as the true virus in combination with the virus sample, and the target virus. When in the same physicochemical environment, it can reflect the biophysical degradation process of the target virus caused by the same reason. The HCV/HIV internal reference product established in Example 2 is a reference reagent for RA virus nucleic acid detection of HCV envelope, and contains an internal reference target of HCV/HIV. Therefore, the RAV nucleic acid detection internal reference designed by the present scheme is HCV envelope. The correlation between the detection change of the internal reference nucleic acid and the detection change of the HCV viral nucleic acid in the HCV positive serum and under various conditions reflects the tolerance of the RAV nucleic acid detection reference product of the HCV envelope to the HCV virus.
将经过定量的 HCV包膜的 R A病毒核酸检测参照品调整至 1100000拷贝 /ml的起始量, 与经过病毒载量定量的 HCV阳性血清调整混合在 lml血清体积里, 血清比例大于 90%, 其 中病毒核酸约 1600000拷贝 /ml (相对于质粒标准曲线定量)。 该混合样品准备 40份, 分别是 第一组: 常温环境放置 10份; 第二组: 在 4QC环境放置 10份; 第三组: -40QC环境放置 10 份; 第四组 -40QC环境放置但反复冻融的 10份。 起始时间点为 0, 随后检测时间点分别为 6 小时, 24小时 (第一天), 第 2天, 第 3天, 第 7天, 第 14天, 第 21天, 第 28天, 第 42 天, 第 56天。 每次实验取出 1份, 第四组样品每次均全部冻融。 在常温环境中由于样品中可 能存在核酸酶或其他未知因素导致样品中病毒及其核酸降解, 从而造成检测量的变化。 温度 越低,越有利于样品保存,见附图 6。核酸提取过程:使用 QIAGEN公司 QIAamp Ultraseus virus 试剂盒提取 HCV/HIV内参照品核酸, 提取步骤见实施例 1描述。 对所提取核酸同时进行病 毒核酸检测和内参照品检测。 病毒核酸检测与内参照品检测使用的引物相同, 探针不同并且 探针所带的荧光信号不同。荧光定量 RT-PCR设置为 FAM与 HEX两种荧光检测,使用 HCV-F, HCV-R引物反转录和扩增样品核酸, 用 One step primescriptTM RT-PCR Kit ( TaKaRa 公司) RT-PCR反应体系: 2xOne Step RT-PCR Buffer III 10ul、 TaKaRa Ex TaqTM HS ( 5 U/ul) 0.5ul、 PrimeScriptTM RT Enzyme Mix II 0.5uK Rox校正染料 0.4ul、 病毒检测探针 2.5nM 2ul、 内参 照品检测探针 2.5nM 2ul、 上游引物终浓度 200nM、 下游引物终浓度 200nM、 样品核酸 2ul 、 无 R A酶去离子水补足 20ul。 RT-PCR反应条件: 反转录 42°C 5分钟反转录酶热变性失活 94°C 10s; 95 °C变性 5s, 60 °C退火延伸 60s, 共 40个循环。 实施例 6 HCV病毒核酸检测参照品在 HCV病毒核酸检测中的应用 The quantitative detection of the RAV nucleic acid detection reference of the HCV envelope was adjusted to a starting amount of 1.1 million copies/ml, and was adjusted and mixed with the HCV positive serum quantified by the viral load in a serum volume of 1 ml, and the serum ratio was greater than 90%, wherein The viral nucleic acid was approximately 1.6 million copies/ml (quantitative to the plasmid standard curve). The samples were mixed to prepare 40 parts, respectively a first group of: 10 parts by placing the room temperature environment; Second group: 4 Q C is placed 10 parts of the environment; third group: -40 Q C is placed 10 parts of the environment; -40 fourth group 10 parts placed in the Q C environment but repeatedly frozen and thawed. The starting time point is 0, and then the detection time points are 6 hours, 24 hours (first day), 2nd day, 3rd day, 7th day, 14th day, 21st day, 28th day, 42nd Day, day 56. One sample was taken from each experiment, and the fourth group of samples was completely frozen and thawed each time. In a normal temperature environment, the presence of nucleases or other unknown factors in the sample may cause degradation of the virus and its nucleic acid in the sample, resulting in a change in the amount of detection. The lower the temperature, the more favorable the sample is to preserve, see Figure 6. Nucleic Acid Extraction Procedure: HCV/HIV reference nucleic acid was extracted using QIAGEN's QIAamp Ultraseus virus kit. The extraction procedure is described in Example 1. Simultaneous detection of viral nucleic acids and internal reference products are performed on the extracted nucleic acids. The viral nucleic acid detection is the same as the primer used for the internal reference detection, the probe is different and the fluorescent signal carried by the probe is different. Fluorescence quantitative RT-PCR was set up for FAM and HEX fluorescence detection, HCV-F, HCV-R primers were used to reverse transcribe and amplify sample nucleic acid, using One step primescriptTM RT-PCR Kit (TaKaRa) RT-PCR reaction system : 2xOne Step RT-PCR Buffer III 10ul, TaKaRa Ex TaqTM HS ( 5 U/ul) 0.5ul, PrimeScriptTM RT Enzyme Mix II 0.5uK Rox Correction Dye 0.4ul, Virus Detection Probe 2.5nM 2ul, Internal Reference Detection Probe 2.5nM 2ul, the upstream primer has a final concentration of 200nM, the downstream primer has a final concentration of 200nM, the sample nucleic acid is 2ul, and the RA enzyme deionized water is used to make up 20ul. RT-PCR reaction conditions: reverse transcription 42 ° C 5 minutes reverse transcriptase thermal denaturation inactivation 94 ° C 10s; 95 °C denaturation 5s, 60 °C annealing extension 60s, a total of 40 cycles. Example 6 Application of HCV Virus Nucleic Acid Detection Reference in HCV Virus Nucleic Acid Detection
1 . HCV病毒核酸检测内参照品在 HCV病毒核酸检测中的应用 1. Application of HCV virus nucleic acid detection internal reference in HCV virus nucleic acid detection
HCV病毒核酸检测内参照品的作用, 一方面反映 HCV病毒因各种原因引起的生物生理 降解过程,通过对一定量的内参照品的检出效率和检出值,评价 HCV病毒核酸检测过程的可 靠性。将定量约 1100000拷贝 /ml的 HCV病毒核酸检测内参照品与 14个 HCV血清样品混合, 核酸提取过程与 RT-PCR检测过程同时实施例 5。 HCV病毒核酸内参照品在多个血清样品中 检出量稳定, 可作为相对定量的基础, 见附图 7。 The role of HCV virus nucleic acid detection in internal reference products, on the one hand, reflects the biophysical degradation process of HCV virus caused by various reasons, and evaluates the detection process of HCV virus nucleic acid by detecting the detection efficiency and detection value of a certain amount of internal reference products. reliability. A HCV viral nucleic acid detection internal reference having a quantitative amount of about 110,000 copies/ml was mixed with 14 HCV serum samples, and the nucleic acid extraction process and the RT-PCR detection process were simultaneously carried out in Example 5. The HCV viral nucleic acid reference is stable in multiple serum samples and can be used as a basis for relative quantification, see Figure 7.
另一方面内参照品和病毒具有非常接近的检测灵敏度, 已知滴度的内参照品可用于对目 标病毒进行相对定量。 具体方法如下: 将 104拷贝数的 HCV病毒核酸检测内参照品和三个滴 度 HCV体外转录 R A混合, HCV体外转录 R A的拷贝数通过分光光度检测和理论计算为 4.8 X 104, 4.8 X 103, 4.8 X 102, 通过对 HCV病毒核酸内参照品的检测和 HCV R A的检测 Ct值推算相对定量的 R A拷贝数, 实验相对定量推算的 HCV R A拷贝数与理论计算值相 符合, 结果见表一。具体方法: 实时荧光定量 RT-PCR同时检测样品中 HCV内参照品和 HCV 体外转录 R A, 荧光定量 RT-PCR设置为 FAM与 HEX两种荧光检测, 使用 HCV-F, HCV-R 引物反转录和扩增样品核酸, 用 One step primescriptTM RT-PCR Kit ( TaKaRa 公司) RT-PCR 反应体系: 2xOne Step RT-PCR Buffer III lOuK TaKaRa Ex TaqTM HS ( 5 U/ul ) 0.5ul、 PrimeScriptTM RT Enzyme Mix II 0.5uK Rox校正染料 0.4ul、 病毒检测探针 2.5nM 2ul、 内参 照品检测探针 2.5nM 2ul、 上游引物终浓度 200nM、 下游引物终浓度 200nM、 样品核酸 2ul 、 无 R A酶去离子水补足 20ul。 RT-PCR反应条件: 反转录 42°C 5分钟反转录酶热变性失活 94°C 10s; 95 °C变性 5s, 60°C退火延伸 60s, 共 40个循环。 结果表明, HCV病毒核酸检测参 照品 HCV病毒核酸检测过程的可靠性, 还可应用于 HCV病毒载量检测。 On the other hand, the internal reference and the virus have very close detection sensitivities, and the internal reference of the known titer can be used to relatively quantify the target virus. The specific method is as follows: 10 4 copy number of HCV virus nucleic acid detection internal reference product and three titer HCV in vitro transcription RA mixed, HCV in vitro transcription RA copy number by spectrophotometric detection and theoretical calculation is 4.8 X 10 4 , 4.8 X 10 3 , 4.8 X 10 2 , by calculating the relative quantitative RA copy number of the HCV virus nucleic acid reference and the HCV RA detection Ct value, the experimental relative quantitative HCV RA copy number is in agreement with the theoretical calculation value, the result See Table 1. Specific methods: Real-time quantitative RT-PCR simultaneous detection of HCV internal reference products and HCV in vitro transcription of RA, fluorescence quantitative RT-PCR set to FAM and HEX two fluorescence detection, using HCV-F, HCV-R primer reverse transcription And amplification of sample nucleic acids, using One step primescriptTM RT-PCR Kit (TaKaRa) RT-PCR reaction system: 2xOne Step RT-PCR Buffer III lOuK TaKaRa Ex TaqTM HS ( 5 U/ul ) 0.5ul, PrimeScriptTM RT Enzyme Mix II 0.5uK Rox calibration dye 0.4ul, virus detection probe 2.5nM 2ul, internal reference detection probe 2.5nM 2ul, upstream primer final concentration 200nM, downstream primer final concentration 200nM, sample nucleic acid 2ul, no RA enzyme deionized water to make up 20ul . RT-PCR reaction conditions: reverse transcription 42 ° C 5 minutes reverse transcriptase thermal denaturation inactivation 94 ° C 10s; 95 ° C denaturation 5s, 60 ° C annealing extension 60s, a total of 40 cycles. The results showed that the reliability of HCV virus nucleic acid detection reference HCV virus nucleic acid detection process can also be applied to HCV viral load detection.
RNA Ct值 理论 RNA拷贝数 IC Ct值 IC拷贝数 相对定量 RNA拷贝数 RNA Ct value theory RNA copy number IC Ct value IC copy number Relative quantification RNA copy number
25.005 4.80E+04 27.295 1.E+04 49424.17104 25.005 4.80E+04 27.295 1.E+04 49424.17104
29.055 4.80E+03 27.375 1.E+04 3096.770997 29.055 4.80E+03 27.375 1.E+04 3096.770997
34.185 4.80E+02 27.33 1.E+04 83.70034975 34.185 4.80E+02 27.33 1.E+04 83.70034975
2. HCV病毒核酸检测阳性参照品 /标准品在 HCV病毒核酸检测中的应用。 2. HCV virus nucleic acid detection positive reference / standard application in HCV virus nucleic acid detection.
HCV病毒核酸检测阳性参照品 /标准品, 是与病毒具有相同的检测靶标和检测信号的参 照品,可作为 HCV病毒核酸检测标准品,用于在核酸检测过程中绘制标准曲线。由于将 HCV 病毒核酸检测阳性参照品是拟似 R A病毒, 其核酸为 R A, 与过去质粒作为标准曲线相比, HCV病毒核酸检测阳性参照品核酸与样品核酸性质一致, 在检测过程中同时进行逆转录, 在 逆转录效率上一致, 因此在定量或者比较等应用中更具有参考意义, 更能反映检测过程中人 为的或系统的误差影响。 将已知量的 HCV病毒核酸检测阳性参照品提取核酸, 将核酸 10倍 系列稀释绘制标准曲线, 使用 HCV病毒检测引物和探针, 用 One step primescriptTM RT-PCR Kit ( TaKaRa公司) RT-PCR反应体系: 2xOne Step RT-PCR Buffer III lOuK TaKaRa Ex TaqTM HS ( 5 U/ul) 0.5ul、 PrimeScriptTM RT Enzyme Mix II 0.5uK Rox校正染料 0.4ul、 病毒检测探 针 2.5nM 2ul、 内参照品检测探针 2.5nM 2ul、 上游引物终浓度 200nM、 下游引物终浓度 200nM、 样品核酸 2ul、 无 R A酶去离子水补足 20ul。 RT-PCR反应条件: 反转录 42°C 5分 钟反转录酶热变性失活 94°C 10s; 95 °C变性 5s, 60°C退火延伸 60s, 共 40个循环。 见附图 8。 The HCV virus nucleic acid detection positive reference product/standard product is a reference product with the same detection target and detection signal as the virus, and can be used as a HCV virus nucleic acid detection standard for drawing a standard curve in the nucleic acid detection process. Since the HCV virus nucleic acid detection positive reference is a pseudo-RA virus, its nucleic acid is RA, compared with the past plasmid as a standard curve. HCV virus nucleic acid detection positive reference nucleic acid is consistent with the nature of the sample nucleic acid. Simultaneous reverse transcription during the detection process is consistent in reverse transcription efficiency. Therefore, it is more useful in quantitative or comparative applications, and more reflective of the detection process. Or systemic error effects. A known amount of HCV virus nucleic acid detection positive reference nucleic acid was extracted, the nucleic acid was serially diluted 10 times to prepare a standard curve, and HCV virus detection primers and probes were used, and One step primescriptTM RT-PCR Kit (TaKaRa) RT-PCR reaction was used. System: 2xOne Step RT-PCR Buffer III lOuK TaKaRa Ex TaqTM HS ( 5 U/ul) 0.5ul, PrimeScriptTM RT Enzyme Mix II 0.5uK Rox Correction Dye 0.4ul, Virus Detection Probe 2.5nM 2ul, Internal Reference Detection Probe 2.5nM 2ul, the upstream primer has a final concentration of 200nM, the downstream primer has a final concentration of 200nM, the sample nucleic acid is 2ul, and the RA enzyme deionized water is used to make up 20ul. RT-PCR reaction conditions: reverse transcription 42 ° C 5 minutes reverse transcriptase thermal denaturation inactivation 94 ° C 10s; 95 ° C denaturation 5s, 60 ° C annealing extension 60s, a total of 40 cycles. See Figure 8.
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| PCT/CN2011/073858 Ceased WO2012122732A1 (en) | 2011-03-17 | 2011-05-10 | Control/standard for nucleic acid detection of enveloped rna virus and applications thereof |
Country Status (2)
| Country | Link |
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| CN (1) | CN102199674A (en) |
| WO (1) | WO2012122732A1 (en) |
Cited By (1)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| WO2021214724A1 (en) * | 2020-04-23 | 2021-10-28 | University Of The Witwatersrand, Johannesburg | Diagnostic control compositions |
Families Citing this family (5)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| CN105132583B (en) * | 2015-07-17 | 2018-11-20 | 上海市临床检验中心 | It is a kind of using influenza virus as HCV detection of nucleic acids quality-control product of carrier and preparation method thereof |
| CN112094944B (en) * | 2020-08-13 | 2023-08-01 | 杭州丹威生物科技有限公司 | A kit for quantitatively detecting the copy number of novel coronavirus |
| WO2021180139A1 (en) * | 2020-03-10 | 2021-09-16 | 广州复能基因有限公司 | Dopable reference standard for use in detecting sample target from dna or rna organism |
| KR102283733B1 (en) * | 2020-12-22 | 2021-08-02 | 한국표준과학연구원 | SARS-CoV-2 packaged RNA reference material for COVID-19 virus diagnosis, preparation method and use thereof |
| WO2025007075A1 (en) * | 2023-06-29 | 2025-01-02 | Life Technologies Corporation | Molecules resistant to nuclease digestion |
Citations (3)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| CN1379821A (en) * | 1999-10-20 | 2002-11-13 | 久光制药株式会社 | Nucleic acid transporter containing polypeptide and recombinant virus vector |
| CN1418951A (en) * | 2001-05-23 | 2003-05-21 | 广州绿健生物技术有限公司 | Production for RNA virus and RNA virus based carrier granular composition and productive method thereof |
| CN101173252A (en) * | 2006-10-31 | 2008-05-07 | 杭州市疾病预防控制中心 | Armoured RNA and method for producing the same |
Family Cites Families (2)
| Publication number | Priority date | Publication date | Assignee | Title |
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| CN101372683B (en) * | 2008-08-19 | 2012-01-25 | 上海之江生物科技有限公司 | Artificial pseudovirus of human hepatitis C, and preparation and application thereof |
| CN101418286B (en) * | 2008-12-05 | 2011-06-15 | 上海之江生物科技有限公司 | Artificial pseudotype virus of human immunodeficiency virus I type as well as preparation and application thereof |
-
2011
- 2011-03-17 CN CN2011100636140A patent/CN102199674A/en active Pending
- 2011-05-10 WO PCT/CN2011/073858 patent/WO2012122732A1/en not_active Ceased
Patent Citations (3)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| CN1379821A (en) * | 1999-10-20 | 2002-11-13 | 久光制药株式会社 | Nucleic acid transporter containing polypeptide and recombinant virus vector |
| CN1418951A (en) * | 2001-05-23 | 2003-05-21 | 广州绿健生物技术有限公司 | Production for RNA virus and RNA virus based carrier granular composition and productive method thereof |
| CN101173252A (en) * | 2006-10-31 | 2008-05-07 | 杭州市疾病预防控制中心 | Armoured RNA and method for producing the same |
Cited By (4)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| WO2021214724A1 (en) * | 2020-04-23 | 2021-10-28 | University Of The Witwatersrand, Johannesburg | Diagnostic control compositions |
| JP2023515269A (en) * | 2020-04-23 | 2023-04-12 | ユニバーシティ・オブ・ジ・ウィトウォーターズランド・ヨハネスブルク | Diagnostic control composition |
| US11713491B2 (en) | 2020-04-23 | 2023-08-01 | University Of The Witwatersrand, Johannesburg | Diagnostic control compositions |
| JP7349763B2 (en) | 2020-04-23 | 2023-09-25 | ユニバーシティ・オブ・ジ・ウィトウォーターズランド・ヨハネスブルク | Diagnostic control composition |
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| Publication number | Publication date |
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| CN102199674A (en) | 2011-09-28 |
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