53 results about "Single-base extension" patented technology

The invention discloses a method for rapidly detecting common candida of urinary tract infection based on a nucleic acid mass spectrometry technology. The method comprises the following steps: extracting total nucleic acid from a urine sample of a patient; amplifying the extracted total nucleic acid by adopting a PCR (Polymerase Chain Reaction) technology to obtain an amplification product containing a target sequence; analyzing a characteristic peak map of the amplification product containing the target sequence by using a single-base extension primer and a matrix-assisted laser desorption / ionization time flight mass spectrometry technology; and determining whether specific candida exists in the sample according to the characteristic peak map. According to the invention, a set of detection system suitable for common candida is obtained through sequence screening and optimization of the amplification primers and the single-base extension primers, five common candida of UTI are detected based on the system, and a nucleic acid mass spectrometry technology is combined, so that the result can be clearly distinguished, a complex traditional detection means is avoided, and the detection efficiency is improved.

This invention discloses primer compositions, detection products, and applications for detecting 17 pathogens, relating to the field of biotechnology. A primer composition for detecting 17 pathogens includes 17 pairs of amplification primers and 17 extension probes, as shown in SEQ ID NO: 1-51, respectively. This invention also provides detection products comprising the above primer compositions and their application in simultaneously detecting 17 pathogens for non-disease diagnostic purposes. The beneficial effects of this invention are that it designs 17 primer sets to simultaneously amplify DNA fragments containing specific target sequences of 17 pathogens in multiplex PCR, and performs single-base extension of these products using highly efficient single-base primers. Simultaneous detection and identification of 17 pathogens can be achieved using MALDI-TOF MS mass spectrometry, with accurate and highly specific detection results.

The invention discloses a joint detection kit for genetic risk genes and medication genes of Alzheimer's disease and a multivariable risk assessment model. The kit comprises a detection reagent for detecting 25 mutation sites of 15 genes, wherein the 25 mutation sites of the 15 genes comprise 17 mutation sites of 10 risk genes and 10 mutation sites of 6 medication genes. Amplification primer pairs and single-base extension primers of each site are designed for 25 mutation sites of 15 genes, multiple PCR amplification and single-base extension reactions are carried out, and the genotype of each site of a product is analyzed by using matrix-assisted laser desorption ionization time-of-flight mass spectrometry. A multivariable risk assessment model for the Alzheimer's disease is constructed by taking a genetic risk score GRS, age, gender and plasma p-tau217 concentration of a risk gene mutation site as markers, one-stop detection of'early screening and medication guidance 'can be realized in combination with a medication gene detection result, and the application prospect and demand are broad.

This invention discloses a method and application for detecting TA repetitive sequence polymorphisms in the UGT1A1 gene based on nucleic acid mass spectrometry, belonging to the field of biotechnology. The method uses primer sets with sequences as shown in SEQ ID NO. 1-24, 26-36, and 38, where SEQ ID NO. 1-24 are amplification primer sequences for each mutation site, and the remaining primers are single-base extension primers. This invention enables multiplex detection of irinotecan-related gene polymorphic sites based on a nucleic acid mass spectrometry platform, achieving the detection of 12 polymorphic sites in one well, with low detection cost and small sample volume. Furthermore, nucleic acid mass spectrometry technology has advantages such as ease of operation, high sensitivity, high specificity, and high accuracy, while also overcoming the shortcomings of insufficient throughput in qPCR and high cost in sequencing technology.

The invention discloses a method for high-throughput detection of target DNA in adeno-associated viruses. The method provided by the invention comprises the following steps: A1) digesting the shell of a recombinant adeno-associated virus to be detected by using protease to obtain a treated recombinant adeno-associated virus sample; the method comprises the following steps: designing and synthesizing single-base extension primers according to target DNA to be detected, and forming a single-base extension primer group by aiming at the single-base extension primers of all the target DNA to be detected; a2) extending the treated recombinant adeno-associated virus sample under the action of the single-base extension primer group to obtain a single-base extension product; and A3) MALDI-TOF nucleic acid mass spectrometry detection: determining whether the recombinant adeno-associated virus contains target DNA to be detected according to the size of a single base extension product.According to the method for high-throughput identification of the adeno-associated virus insertion gene, the process is extremely simplified, the detection efficiency is greatly improved, the cost is remarkably reduced, the high-throughput capacity is outstanding, and the industrialization requirement is met.

The present disclosure relates to the field of sequencing, and in particular to, a single-molecule sequencing method. The present disclosure provides the single-molecule sequencing method, comprising the following steps: (i) providing a solid carrier comprising a plurality of sites, each of the sites having a nucleic acid template-primer complex immobilized thereon; (ii) binding four types of nucleotides or analogs thereof carrying different optically detectable labels to the nucleic acid template-primer complex by a polymerization reaction to achieve single-base extension and obtain an extension product; (iii) exciting the optically detectable label to generate an optical signal, and imaging the extension product to obtain an image; (iv) removing the optically detectable label on the extension product; (v) (iii) replacing the nucleic acid template-primer complex with the extension product from which the optically detectable label is cleaved, and repeating (ii) to (iv) above one or more times to determine a template nucleic acid sequence. The single-molecule sequencing method provided by the present disclosure is beneficial to reducing the error rate, improving the sequencing quality, and shortening the sequencing time.

The present invention belongs to the field of forensic genetics, specifically a forensic composite amplification kit for detecting 50 SNP sites on chromosome X based on MALDI-TOF MS platform. The main technical methods of the present invention are single base extension technology (SBE-PCR) and matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF MS) technology, which uses X-SNP genetic markers to identify the gender and identity of individuals of unknown origin, and also has good effects in complex kinship identification. The kit includes 50 pairs of primer mixtures for composite amplification, and simultaneously amplifies 50 SNP sites on chromosome X, so that 50 X-SNPs can be detected at one time more conveniently, and the identity of unknown individuals can be identified.

The invention discloses a primer probe composition, a kit and a method for detecting various cattle and sheep fever and respiratory tract pathogens based on nucleic acid mass spectrometry, and relates to the technical field of microbiological detection, a multiple PCR primer composition and a single-base extension probe group are innovatively designed, conservative stable regions in various pathogen genomes can be targeted, and the detection sensitivity is high. Single-tube multi-target synchronous amplification is realized, and further extension amplification is carried out, so that an extension product suitable for MALDI-TOF MS detection is obtained. The method realizes multi-target, high-sensitivity and automatic synchronous detection of fever pathogens of cattle and sheep, provides a basis for rapid detection of nucleic acids of multiple pathogens, and has a good application prospect in quarantine and prevention and control.

This invention provides a method for detecting the TLR10rs11096957 genotype and its application in assessing transplanted liver function. The method includes the following steps: extracting genomic DNA from whole blood of liver transplant patients, adjusting the concentration, and performing PCR amplification; treating the amplified PCR product with SAP and then performing a single-base extension reaction; purifying the single-base extension reaction product, detecting it using time-of-flight mass spectrometry, and performing genotyping. This invention discovers that TLR10rs11096957 can be used to predict the function of transplanted livers in liver transplant patients, thereby guiding clinical treatment to improve transplant survival rates. Therefore, the method for detecting the TLR10rs11096957 genotype provided by this invention can improve the sensitivity of predicting transplanted liver function in liver transplant patients, providing a strategy for preparing corresponding predictive or assessment products, and has significant social and economic benefits.

This invention discloses a semen-specific mRNA-cSNP primer composition, kit, and method based on SNaPshot technology, belonging to the field of molecular identification technology. The primer composition provided by this invention includes amplification primers with nucleotide sequences as shown in SEQ ID NO. 1-34 and single-base extension primers as shown in SEQ ID NO. 35-52. This invention further provides a method for identifying human semen samples, including extracting sample mRNA, reverse transcription to obtain cDNA, performing an amplification reaction using amplification primers, and then performing a single-base extension reaction using single-base extension primers. Experimental results show that the identification method of this invention has advantages such as high specificity, high sensitivity, and good reproducibility, and can accurately identify individual semen donors, which is of great significance for achieving accurate semen-related criminal investigations and forensic identification.

The present invention relates to the field of pathogenic microorganism detection, and in particular to a MALDI-TOF mass spectrometry detection method for bovine nodular skin disease virus, goat pox virus and sheep pox virus, and a primer combination used in the method. The present invention combines multiplex PCR amplification technology, a dual-gene target strategy, a single base extension reaction, and the high-precision analysis capability of MALDI-TOF MS to provide an efficient method for simultaneously performing multi-target accurate detection of three sheep pox viruses. The present invention adopts 2 pairs of specific amplification primers to target and amplify target gene fragments, and is supplemented by 2 extension primers for subsequent single base extension reactions, and then accurately measures the molecular weight difference generated by a single base in the extension product on MALDI-TOF MS. It can be achieved in a single-tube reaction system that not only efficiently identifies whether there are three sheep pox viruses in the sample, but also can further subdivide and clearly report whether the specific infection is one, several or all of the three viruses, thereby greatly improving the comprehensiveness, specificity and accuracy of the detection.

The invention discloses a terminal transferase mutant, a recombinant protein, a nucleic acid molecule and an oligonucleotide single base extension method, and relates to the technical field of oligonucleotide synthesis. The terminal transferase mutant has at least 80% of identity with an amino acid sequence as shown in SEQ ID NO: 1, and has amino acid mutation at at least one of the following positions: R323, W427 and R438. Compared with wild-type terminal transferase, the terminal transferase mutant has the advantages that after amino acid in a catalytic structural domain of the terminal transferase mutant is changed, the catalytic capability of the terminal transferase mutant on nucleoside triphosphate with a 3 '-O-blocking group can be remarkably improved, so that the nucleoside triphosphate with the 3'-O-blocking group is efficiently coupled to a single-stranded oligonucleotide chain. On the basis, the invention further develops an oligonucleotide single base extension method. The method has the technical advantages that the humidity does not need to be controlled, the usage amount of chemical reagents is small, the product purity is high, and few chemical synthesis byproducts are generated.

The invention discloses a primer group for detecting hereditary hearing loss gene locus polymorphism, a kit and a detection method thereof. The primer group comprises a multiple PCR amplification primer and a UEP primer used for a single base extension reaction, multiple PCR amplification is firstly carried out, SAP purification is then carried out, the extension reaction is then carried out, nucleic acid mass spectrometry detection is carried out on an extension product, and related genotype information is obtained. The method has the advantages of high accuracy, high flux, low cost and short period, 96 samples or 384 samples can be detected in one batch, only 8-10 hours are needed, the time is short, and the price is low. 27 hereditary deafness gene variation sites can be detected, 9 genes are involved, the coverage range is wider, and the misdiagnosis risk caused by incomplete detection sites is reduced. The method has high accuracy, sensitivity and repeatability, and the detection result has important guidance and research value for auxiliary diagnosis and treatment of hereditary hearing loss.

Provided are a method and a means for improving a single base extension reaction method using capillary electrophoresis. Specifically, the present invention relates to a method for detecting presence of a target nucleic acid in a sample and / or determining a base of the target nucleic acid, the method including: preparing a sample containing or suspected of containing a target nucleic acid; preparing a primer 200 containing a double-strand nucleic acid tag 204 with an interstrand crosslink 203 and a primer nucleic acid 205 which specifically binds to the target nucleic acid; performing a single base extension reaction with the primer using the target nucleic acid as a template; and subjecting the resulting reactant to capillary electrophoresis for analysis.

The invention discloses a composition for detecting spinal muscular atrophy typing based on nucleic acid mass spectrometry and application of the composition. The invention relates to the field of gene detection, and provides a composition for detecting spinal muscular atrophy typing based on nucleic acid mass spectrometry, which comprises a target gene primer pair, a reference gene primer pair and an IIS type restriction enzyme. The composition can be used for detecting spinal muscular atrophy typing based on nucleic acid mass spectrometry, and the traditional technical method of nucleic acid mass spectrometry is improved, so that nucleic acid mass spectrometry detection does not need the steps of SAP treatment and single base extension reaction, the reaction time is shortened, the result is accurate and reliable, the steps are simple, and the cost is greatly reduced. The invention is of great significance to preparation of screening products suitable for large-scale screening of spinal muscular atrophy.

The invention provides a primer probe group, a kit and a detection method for detecting diarrhea pathogens of children based on multiple PCR (Polymerase Chain Reaction) combined with time-of-flight mass spectrometry. The primer probe group comprises specific primers and probes aiming at 10 diarrhea pathogens (5 bacteria and 5 viruses) and a human-derived reference gene. Specific primers and probes are designed in a pathogen gene conserved region, targeted detection is achieved, and specificity is high; 10 diarrhea-causing pathogens and a human-derived reference gene in an excrement sample can be simultaneously detected in the same PCR reaction system and the single-base extension system, the sensitivity and the accuracy are high, and the detection flux is improved by combining a full-automatic chip spotting instrument; the cost is low, the detection period is short, and reliable technical support is provided for diagnosis and treatment, epidemic situation monitoring and infection control of children with infectious diarrhea.

The invention discloses a pseudomonas aeruginosa drug resistance gene detection primer group based on multiple PCR-time-of-flight mass spectrometry, a kit and a use method of the kit. The pseudomonas aeruginosa drug-resistant gene comprises armA, rmtB, rmtC, mexA, blaVIM, blaNDM, blaIMP, blaKPC, blaOXA and blaGES, and the pseudomonas aeruginosa drug-resistant gene is a drug-resistant gene of pseudomonas aeruginosa. The detection primer group comprises upstream and downstream amplification primers of each gene and a single-base extension primer; the nucleotide sequences of upstream and downstream amplification primers of each gene are respectively as shown in SEQ ID NO.1-NO.20; nucleotide sequences of single base extension primers of all the genes are shown as SEQ ID NO. 21 to NO. 30 respectively. By adopting the kit comprising the primer group, whether pseudomonas aeruginosa infection exists or not can be known within 40 minutes, and if the pseudomonas aeruginosa infection exists, the drug resistance condition of the pseudomonas aeruginosa can be known. The detection method has high sensitivity and specificity in the detection process, the sample detection accuracy rate can reach 92-97%, and the method can be used for rapid, accurate, high-sensitivity and high-throughput detection of the pseudomonas aeruginosa antibiotic-resistant strains and is beneficial to application and popularization in laboratories of hospitals and grass-roots departments.

The present disclosure provides a kit and its application, the kit comprising two sets of amplification primer groups, single base extension primers and processing reagents; the amplification primer groups are used for amplifying Mycobacterium tuberculosis flora identification sites and anti-tuberculosis drug pharmacogenetic polymorphism sites; each pair of primers corresponds to the upstream and downstream regions of a SNP site; the processing reagents include PCR reaction mixture, PCR enzyme mixture, SAP reaction mixture, SAP enzyme mixture, extension reaction mixture and extension enzyme mixture. By designing specific amplification primer groups and single base extension primers, the system and reagents are optimized, and the sensitivity is high. The kit combined with matrix-assisted laser desorption ionization time-of-flight mass spectrometry can complete the detection of all sites, and the detection cost is low and the efficiency is high.

The present invention relates to a method, a reagent, and a kit each for detecting a gene by a single nucleotide extension reaction. Specifically, the present invention relates to a method, a reagent, and a kit for detecting a gene while reducing noise coming from a template nucleic acid, wherein the template nucleic acid is treated with an enzyme having a terminal transfer activity to form a 3'-terminal-protruding terminal structure in the template nucleic acid before a single nucleotide extension reaction is performed.

The invention discloses a seminal fluid specificity mRNA-cSNP primer composition based on an SNaPshot technology, a kit and a method, and belongs to the technical field of molecular identification. The primer composition provided by the invention comprises an amplification primer of which the nucleotide sequence is as shown in SEQ ID NO. 1 to 34 and a single-base extension primer of which the nucleotide sequence is as shown in SEQ ID NO. 35 to 52. The invention further provides a method for identifying the human semen sample. The method comprises the following steps: extracting mRNA of the sample, carrying out reverse transcription, obtaining cDNA, carrying out amplification reaction by using the amplification primer, and carrying out single-base extension reaction by using the single-base extension primer. Experimental results show that the identification method disclosed by the invention has the advantages of strong specificity, high sensitivity, good repeatability and the like, can be used for accurately identifying individual semen donors, and has important significance for realizing accurate semen-related criminal investigation and judicial expertise.

The invention discloses a nucleic acid composition for detecting an isoniazide drug gene based on a nucleic acid mass spectrometry technology, a kit and application thereof, and relates to the technical field of gene detection. The nucleic acid composition disclosed by the invention comprises a multiple amplification nucleotide composition and an extension nucleotide composition, wherein the multiple amplification nucleotide composition is used for carrying out multiple PCR (Polymerase Chain Reaction) amplification on sites of rs1801280, rs1799930, rs1799931, rs1799929, rs1041983 and rs1801279 of an isoniazide drug gene NAT2, and the extension nucleotide composition is used for carrying out a single base extension reaction. By using the nucleotide composition and the kit provided by the invention, the genotype of the 6-site of the isoniazide drug gene NAT2 can be detected by adopting a nucleic acid mass spectrometry technology, and the nucleotide composition and the kit have the characteristics of high sensitivity, good specificity, short detection period and low detection cost. The invention provides a more reliable and low-cost detection kit for detecting related genes of isoniazide medication, and a detection result provides a basis for accurate medication of isoniazide.

The invention relates to a kit for detecting heart potassium ion channel coding gene idiopathic ventricular fibrillation risk gene SNP (Single Nucleotide Polymorphism) loci, which comprises 38 pairs of specific multiplex PCR (Polymerase Chain Reaction) primer pairs with 41 required SNP loci, 41 SNP single-base extension primers, and necessary PCR reaction liquid, SNaPshot reaction liquid, shrimp alkaline phosphatase and exonuclease I. The kit is used for detecting heart potassium ion channel coding gene idiopathic ventricular fibrillation risk gene SNP loci. According to the kit, the multiple PCR technology, the SNaPshot micro-sequencing technology and the capillary electrophoresis technology are combined to screen the risk gene SNP sites related to the idiopathic ventricular fibrillation on the heart potassium ion channel coding genes, the SNP related to the idiopathic ventricular fibrillation on 41 potassium ion channel genes can be detected only through one experiment, a clear conclusion can be obtained, and result interpretation is simple and objective.

This application relates to the fields of biomedicine and molecular diagnostics, specifically disclosing a method and kit for simultaneously detecting four genes. The method includes the following steps: extracting genomic DNA from the sample to be tested; using the extracted genomic DNA as a template, performing multiplex PCR amplification using a specific amplification primer set to obtain amplification products; digesting the amplification products, using the digested products as template, performing a single-base extension reaction using a specific single-base extension primer set to obtain extension products; desalting and purifying the extension products, and then detecting them using a nucleic acid mass spectrometer; analyzing and determining the genotyping results of the four genes based on the nucleic acid mass spectrometry detection results. This application achieves rapid detection of four genes at low cost and with simple operation.

The invention discloses a primer composition for detecting 17 pathogens, a detection product and application, and relates to the technical field of biology. The primer composition for detecting the 17 pathogens comprises 17 pairs of amplification primers and 17 extension probes, and the amplification primers and the extension probes are respectively as shown in SEQ ID NO: 1-51; the invention further provides a detection product comprising the primer composition and application of the detection product to simultaneous detection of 17 pathogens with the purpose of non-disease diagnosis. The kit has the beneficial effects that 17 primer groups are designed, DNA fragment products containing specific target sequences of 17 pathogens are amplified simultaneously in multiple PCR, the products are subjected to single-base extension through efficient single-base primers, the 17 pathogens can be detected and identified simultaneously through MALDI-TOF MS mass spectrometry, the detection result is accurate, and the specificity is good.

The application provides a method for detecting 19 Neisseria gonorrhoeae drug resistance site mutations. The method uses multiplex PCR-mass spectrometry to detect 19 Neisseria gonorrhoeae drug resistance site mutations. The detection method comprises the following steps: 1) designing primers for different drug resistance sites; 2) multiplex PCR amplification reaction; 3) shrimp alkaline phosphatase treatment; 4) single base extension reaction; 5) resin desalting purification; and 6) mass spectrometry detection.

The application discloses a terminal transferase mutant, a recombinant protein, a nucleic acid molecule and a method for single-base extension of oligonucleotide, and relates to the technical field of oligonucleotide synthesis. The terminal transferase mutant has at least 80% identity with the amino acid sequence shown in SEQ ID NO:1, and has amino acid mutations in at least one of the following positions: R323, W427 and R438. Compared with a wild-type terminal transferase, the catalytic domain amino acid of the terminal transferase mutant is changed, and the catalytic capacity for a 3'-O-closed group triphosphate nucleoside is significantly improved, so that the 3'-O-closed group triphosphate nucleoside is efficiently coupled to a single-stranded oligonucleotide chain. On this basis, the application also develops a method for single-base extension of oligonucleotide. The method has technical advantages such as no need to control humidity, less use of chemical reagents, higher product purity, less chemical synthesis byproducts and the like.

The present disclosure provides methods, devices and systems for detecting a presence of a nucleic acid molecule having a nucleic acid sequence. Detection of cyclic single base extension can be used to detect a nucleic acid molecule hybridized to a probe and detect a presence of a nucleic acid. The methods disclosed herein can detect a nucleic acid molecule present in a nucleic acid sample at low concentrations and in the presence of background nucleic acids having high sequence similarity.

The invention belongs to the technical field of gene detection, discloses a kit for detecting thrombophiliosis related gene loci through an MALDI-TOF mass spectrum platform, and provides a group of multiple PCR amplification primers and single base extension primers for detecting the thrombophiliosis related gene loci through the MALDI-TOF mass spectrum platform and application of the multiple PCR amplification primers and the single base extension primers in the kit. The detected object comprises the genotypes of seven gene loci related to thrombophilia. The established detection kit has both flexibility and expandability, is simple to operate, high in throughput, automatic, high in throughput and low in cost, can effectively screen the problems of thrombophiliosis susceptibility and the like caused by genetic polymorphism in advance, and can help doctors to adjust a medication scheme so as to obtain an efficient, safe and economic optimal treatment effect.

The invention discloses a primer group and a kit for detecting SMN1 exon polymorphism as well as a method and application for detecting SMN1 exon polymorphism. The primer group comprises a multiple PCR amplification primer and a UEP primer used for a single base extension reaction, multiple PCR amplification is firstly carried out, SAP purification is then carried out, the extension reaction is then carried out, nucleic acid mass spectrometry detection is carried out on an extension product, and related genotype information is obtained. The method has the advantages of high accuracy, high flux, low cost and short period, 96 samples or 384 samples can be detected in one batch, only 8-10 hours are needed, the time is short, and the price is low. According to the invention, SMN1EXON7 and SMN1EXON8 can be synchronously detected, the sensitivity is high, a detection result can be obtained by only needing a trace amount of genome DNA, and the detection result has certain significance for realizing auxiliary diagnosis of SMA patients and carrier screening.

The invention discloses a primer group and a kit for detecting APOE gene locus polymorphism as well as a method and application for detecting the APOE gene locus polymorphism. The primer group comprises a multiple PCR amplification primer and a UEP primer used for a single base extension reaction, multiple PCR amplification is firstly carried out, SAP purification is then carried out, the extension reaction is then carried out, nucleic acid mass spectrometry detection is carried out on an extension product, and related genotype information is obtained. The method has the advantages of high accuracy, high flux, low cost and short period, 96 samples or 384 samples can be detected in one batch, only 8-10 hours are needed, the time is short, and the price is low. The kit can detect two gene loci related to APOE genotyping, the sensitivity is high, a detection result can be obtained only through a trace amount of genome DNA, and the detection result can guide health management, assist clinicians in evaluating the disease and progress risks of AD and related dementia and clinically select proper drugs, so that the purpose of precise medical treatment is achieved.