117 results about "Internal transcribed spacer" patented technology

The current invention relates to the field of detection and identification of clinically important fungi. More particularely, the present invention relates to species specific probes originating from the Internal Transcribed Spacer (ITS) region of rDNA for the detection of fungal species such as Candida albicans, Candida parapsilosis, Candida tropicalis, Candida kefyr, Candida krusei, Candida glabrata, Candida dubliniensis, Aspergillus flavus, Aspergillus versicolor, Aspergillus nidulans, Aspergillus fumigatus, Cyptococcus neoformans and Pneumocystis carinii in clinical samples, and methods using said probes.

Unique DNA sequences are provided which are useful in identifying different pathogenic fungi, such as those which infect grape plants. These unique DNA sequences can be used to provide oligonucleotide primers in PCR based analysis for the identification of fungal pathogens. The DNA sequences of the present invention include the internal transcribed spacer (ITS) of the ribosomal RNA gene regions of particular fungal pathogens, as well as oligonucleotide primers which are derived from these regions which are capable of identifying the particular pathogen.

The present invention relates to a method of typing a microbiome for having a desirable or undesirable signature, comprising analyzing the composition of the population of microorganisms in said microbiome based on taxonomic variation in the DNA sequence of the microbial 16S-23S rRNA internal transcribed spacer (ITS) regions in the genomic DNA of said microorganisms, wherein the sequences of conserved DNA regions comprised in the 16S and 23S rRNA sequences flanking said ITS region in the genome of said microorganisms comprise primer binding sites for amplification of said ITS regions.

The invention relates to a method for identifying medicinal plants by utilizing nucleotide sequences, in particular to an application of a nucleotide sequence of an rDNA (recombinant deoxyribonucleic acid) ITS (internal transcribed spacer)-D3 region in establishment of a DNA (deoxyribonucleic acid) bar code identification system for medicinal plants. The application comprises the following steps of: firstly, detecting the nucleotide sequences of the ITS-D3 regions of medicinal plants, and establishing a DNA bar code database; then, detecting the nucleotide sequence of the ITS-D3 region of a sample to be identified; constructing a clustering tree by the detected nucleotide sequence and the nucleotide sequences of the ITS-D3 regions in the DNA bar code database; determining the medicinal plant having the closest genetic relationship with the sample to be identified in the DNA bar code database according to the clustering tree, and comparing the difference between the nucleotide sequences of the ITS-D3 regions of the medicinal plant and the sample to be identified; and then, by taking the name of the species of the medicinal plant having the closest genetic relationship with the sample to be identified in the database as a reference and combining information such as morphological characteristics and the like, determining the name of the species of the sample to be identified. In the invention, the DNA bar codes have the characteristics of good primer universality, accurate sequence comparison and strong species distinguishing capability.

Soybean rust occurs in many countries throughout Asia, Australia, Africa, and South America. The causal agents of soybean rust are two closely related fungi, Phakopsora pachyrhizi and P. meibomiae, which are differentiated based upon morphological characteristics of the telia. Determination of the nucleotide sequence of the internal transcribed spacer (ITS) region revealed greater than 99%/95% nucleotide sequence similarity among isolates of either P. pachyrhizi or P. meibomiae, but only 80% sequence similarity between the two species. Utilizing differences within the ITS region, four sets of PCR primers were designed specifically for P. pachyrhizi, and two sets of PCR primers were made specific to P. meibomiae. Classical and real-time fluorescent PCR assays were developed to identify and differentiate between P. pachyrhizi and P. meibomiae.

The emergence of opportunistic and antifungal resistant strains has given rise to an urgent need for a rapid and accurate method for the detection of fungal pathogens. In this application, we demonstrate the detection of medically important fungal pathogens at the species level. The present method, which is based on a nucleotide hybridization assay, consists of a combination of different sets of fluorescent beads covalently bound to species specific capture probes. Upon hybridization, the beads bearing the target amplicons are classified by their spectral addresses with a 635 nm laser. Quantitation of the hybridized biotinylated amplicon is based on the fluorescent detection with a 532 nm laser. Using this technology we designed and tested various multiplex formats, the performance of forty eight species specific and group specific capture probes designed from sequence analysis in the D1/D2 region of ribosomal DNA, internal transcribed spacer regions (ITS), and intergenic spacer region (IGS). Species-specific biotinylated amplicons (>600 bp) were generated with three sets of primers to yield fragments from the three regions. The developed assay was specific and relatively fast, as it discriminated species differing by one nucleotide and required less than 50 min following amplification to process a 96 well plate with the capability to detect up to 100 species per well. The sensitivity of the assay allowed the detection as low as 10² genome molecules in PCR reactions and 10⁷ to 10⁸ molecules of biotinylated amplification product. This technology provided a rapid means of detection of Trichosporon species and had the flexibility to identify species in a multiplex format by combining different sets of beads. The assay can be expanded to include all known pathogenic fungal species.

The invention belongs to the technical field of crop disease diagnosis and control, and in particular relates to a molecular detection method and application of plasmopara viticola. According to the molecular detection method, a group of looped-mediated isothermal amplification (LAMP) primers are self-designed through bioinformatic analysis according to the internal transcribed spacer (ITS) sequence information of a variety of disclosed peronosporales fungi and other common plant pathogenic fungi; and the existence of the deoxyribonucleic acid (DNA) of a plasmopara viticola genome at the level of 33fg/mu l can be rapidly detected from the plasmopara viticola samples of different varieties in different grape growing regions within only 55 minutes by combining a rapid extraction technology for the genome of the plasmopara viticola and adopting a one-step LAMP reaction. The rapid molecular detection method has high specificity, sensitivity and detection accuracy, and wide application range, and can be popularized and applied in various places as a rapid detection technology for the plasmopara viticola.

The invention belongs to the field of molecular markers and discloses a PCR-RFLP method for rapidly identifying radix tetrastigme and various counterfeits and adulterants of the radix tetrastigme. The method comprises the following steps: 1, extracting the NDA of the medicinal material (namely the radix tetrastigme); 2, carrying out PCR amplification by forward and reverse primers of internal transcribed spacer ITS2 sequences of a pair of amplified ribosomal DNAs; 3, digesting the PCR product by restriction enzyme NCO I; 4, carrying out agarose gel electrophoresis analysis. After the enzyme digestion of amplified products of the DNA of the radix tetrastigme, two DNA fragments with sizes about 335 bp and 200 bp are generated, and the various counterfeits and adulterants are not identified by the NCO I enzyme. By utilizing the differences between the DNA sequences of radix tetrastigme and the counterfeits and adulterants of the radix tetrastigme, a quick, convenient and reliable PCR-RFLP identification method is established and used for identifying whether counterfeits and adulterants are mixed in the radix tetrastigme or not, so that the technical problem that the truth and false cannot be identified by sensory or physical and chemical analysis methods is solved, and the medication safety of the radix tetrastigme is ensured.

The invention relates to nucleotide special to an Internal transcribed spacer (ITS for short) of a 16S rRNA-23S rRNA gene in Proteus mirabilis, in particular to oligonucleotide special to the ITS in the Proteus mirabilis and application thereof. The invention also provides a PCR detection reagent taking an oligonucleotide pair as a primer and a detection method thereof. The detection method utilizes the PCR reagent to detect the Proteus mirabilis in human body and the environment, is simple, convenient and quick, has good specificity and high sensitivity, can be used in the fields of supervision and detection of food and clinical samples, detection of pathogen in the food, microbial classification and epidemiological investigation and so on, and has deep social benefit and large economic benefit.

The invention relates to the field of biotechnology and provides a multiple PCR detection primer group, a kit and a detection method for fungus producing aflatoxin. According to the invention, through combined utilization of a fungus universal molecular marker sequence (internal transcribed spacer, ITS) and three key genes, comprising an aflatoxin production regulating gene (aflR), a sterigmatocystin-o-methoxy transferase gene (omt-1), and versicolorin A dehydrogenase gene (ver-1), in the biochemically synthetic process of the aflatoxin, the multiple PCR detection primer group, the kit and the detection method have the technical effects of wide coverage range, strong specificity and high sensitivity during the detection of the fungus producing aflatoxin. The primer group, the kit and the detection method are short in detection time, are simple in operation and are low in device requirement, can save large amount of manpower, materials and costs, are suitable for quick detection and are easy to promote in practical production.

The invention belongs to the technical field of biological detection and particularly discloses a primer and a detection kit for detecting seven types of chicken eimeria tenella. The primer is obtained by designing IGS (Intergenic Spacer) and ITS (Internal Transcribed Spacer) specific sequences of the seven types of eimeria tenella, namely eimeria tenella, eimeria necatrix, eimeria maxima, eimeria acervulina, mild eimeria tenella, eimeria praecox and eimeria brunette. A fluorescence quantitative PCR (Polymerase Chain Reaction) kit prepared by the seven pairs of primers can be used for accurately, objectively and quantitatively detecting the seven types of chicken eimeria tenella; the detection kit has very high specificity and sensitivity.

The invention discloses a nucleotide sequence used for identifying and differentiating species and varieties of Taxus chinensis. The sequence is originated from an internal transcribed spacer (ITS1) sequence of ribosome DNA (rDNA) of a proto-variety of Taxus wallichiana, and can be used for contrast and identification of the species and varieties of Chinese yew; and through analysis of the genetic characteristics of the germplasm resource of Taxus chinensis at a DNA level, effective molecular marks are provided for differentiation of the species and varieties of Taxus chinensis, and a good base is laid for identification, differentiation and screening of excellent germplasm of the species and varieties of Taxus chinensis. Meanwhile, the invention provides a method for identifying the species of Taxus chinensis by using the nucleotide sequence. The method is simple and practical to operate and can realize convenient, rapid, objective and accurate differentiation of different species and varieties of Taxus chinensis.

The invention provides a method for identifying lycium ruthenicum based on a DNA bar code. The DNA bar code gene sequences for identifying the lycium ruthenicum include LRITS2 (the second internal transcribed spacer) and LRpsbA-trnH (a non-coding region between the chloroplast genes psbA and trnH). The DNA bar code sequences LRITS2/ LRpsbA-trnH for identifying lycium ruthenicum can be used simultaneously or optionally. The method can efficiently and accurately identify the lycium ruthenicum raw materials, prevents similar confusion products or counterfeit products, simultaneously can be used for identifying fruit powder, fruit fragments and the like, and has important application value and great social benefit for guaranteeing food safety and consumer rights and interests.

The invention relates to a method for rapidly identifying a coelomactra antiquate colony by an rDNA ITS2 (recombinant Deoxyribose Nucleic Acid Internal Transcribed Spacer) sequence tag. The method comprises the steps of (1), collecting a coelomactra antiquate individual, and extracting DNA; (2), synthesizing an ITS2 sequence tag primer of the rDNA; (3), carrying out PCR (Polymerase Chain Reaction) amplification of the ITS2 sequence on a coelomactra antiquate colony sample; (4), purifying PCR products; and (5), carrying out sequencing and sequence alignment on the purified PCR products to obtain a specific locus, and judging the type of the sample. The method is stable in result, high in repeatability and simple in operation, and is of great importance in genetic resource conservation and scientific utilization of shellfish.

The invention provides a new combination of two pairs of universal amplification primers for plant parasitic nematode ribosome ITS (internal transcribed spacer) and an application method thereof for PCR (polymerase chain reaction) amplification. The key innovation point of the method is that after the new primer combination is applied to the PCR amplification of the plant parasitic nematode ITS, the plant nematode type which can be amplified by the new PCR amplification system has broader spectrum, the amplification efficiency and success rate are remarkably improved, and the problems of the ITS amplification in the plant nematode identification before are effectively solved. The PCR amplification product amplified by the method provided by the invention meets the needs of the molecular detection technologies such as nematode DNA (deoxyribonucleic acid) barcode identification and RFLP (restricted fragment length polymorphism) enzyme digestion identification, and can be popularized to the quarantine identification of the port and agriculture/forestry departments in China.

The invention discloses an ITS (internal transcribed spacer) sequence of dalbergia odorifera and a method for identifying the dalbergia odorifera by the ITS sequence. The ITS sequence of the dalbergia odorifera is characterized in that a nucleotide sequence is shown in SEQ ID NO:1. The method comprises the following steps of using primers ITS4 and ITS5 to perform PCR (polymerase chain reaction) proliferation on DNA (deoxyribonucleic acid) of a to-be-tested wood sample, so as to obtain ITS sequences; matching and comparing the two ITS sequences, and checking basic group information of ten sites, so as to judge whether the to-be-tested wood sample is the dalbergia odorifera or not. The method has the advantages that the dalbergia odorifera can be simply, quickly and efficiently subjected to molecular identification at the molecular biological level; the cost is low, the operation is simple, and the identification accuracy is high.

The invention relates to a strain of Penicillium citrinum LJ318 capable of degrading chlortetracycline and belongs to the technical field of microorganisms. The strain is preserved in China General Microbiological Culture Collection Center (CGMCC) in March 3rd, 2012, and the preservation number of the strain is CGMCC No.5850. An rDNA-ITS (Ribosomal DNA internal transcribed spacer) gene sequence of the chlortetracycline degrading strain LJ318 consists of 544 basic groups. The strain is wide in chlortetracycline-tolerating range and has relatively good degradation effects on the residual chlortetracycline in both liquid and solid wastes.

The invention relates to the field of biotechnology and provides a single PCR detection primer pair group aiming to a fungus producing aflatoxin, a detection method, and an application thereof in detection on the fungus producing aflatoxin. In the invention, the single PCR detection primer pair group is composed of primer pairs that aim to a fungus universal molecular marker sequence (internal transcribed spacer, ITS) and three key genes, comprising an aflatoxin production regulating gene (aflR), a sterigmatocystin-o-methoxy transferase gene (omt-1), and versicolorin A dehydrogenase gene (ver-1), in the biochemically synthetic process of the aflatoxin. Through the primer pair group, technical effects of wide coverage range, strong specificity and high sensitivity during the detection of the fungus producing aflatoxin are achieved. The primer pair group is short in detection time, is simple in operation and is low in device requirement, can save large amount of manpower, materials and costs, is suitable for quick detection and is easy to promote in practical production.

The invention discloses an ITS-RFLP method for rapidly identifying main cotton pathogenic fungus, which mainly comprises the following steps: 1) extracting cotton main pathogenic fungus mycelia genome DNA, which comprises Verticillium dahliae, Verticillium alboatrum, Rhizoctonia solani, Fusarium moniliforme, Trichothecium roseum and Fusarium oxysporum; 2) amplifying ribosome internal transcribed spacer (ITC) using PCR: carrying out rapid amplification using general primer ITS4 and ITS5 of fungi ITS; 3) carrying out enzyme digestion reaction using restriction enzymes and identifying band spectrums: carrying out single digestion reaction of ITS products of cotton main pathogenic fungus randomly using restriction enzymes HhaI, HaeIII, TaqI and Sau3A whose recognition sites are four basic groups, and comparing ITS-RFLP band spectrum correlation tables and standard electronic maps, thereby rapidly identifying classes of pathogens. Compared with traditional time-consuming and labor-consuming morphological and physiological identification as well as ITS clone sequencing identification method of pathogen with high cost, the invention has the advantages of rapid, accuracy and economy, and simultaneous identifications of a plurality of pathogenic fungus.

The invention relates to the field of biotechnology and particularly discloses an LAMP (loop-mediated isothermal amplification) primer group for quickly detecting sporisorium scitamineum, a kit and a detection method thereof. In the invention, a primer group F3/B3 and FIP/BIP is designed according to the ribosome gene internal transcribed spacer (ITS) sequence of sporisorium scitamineum, the sporisorium scitamineum is detected by the primer group or a kit containing the primer group through LAMP and the detection has the advantages of low cost, easy operation, simplicity, high speed, visual detection result, judgment with naked eyes, high sensitivity, high specificity and the like; and the LAMP primer group, the kit and the detection method disclosed by the invention are applicable to the sugarcane introduction quarantine in the basic-level departments, quality detection on detoxified seedlings, field early detection of culmicolous smut and the like, and has extensive and practical application value.

The invention discloses a method for quickly distinguishing octodonta nipae from brontispa longissima through a PCR (Polymerase Chain Reaction) detection technology. The method comprises the following steps: enabling specific primers of COI (Cytochrome Oxidase Subunit I) and ITS (Internal Transcribed Spacer) gene segments of the octodonta nipae to be subjected to PCR reaction with DNA (Deoxyribose Nucleic Acid) templates of the octodonta nipae and the brontispa longissima, placing reaction products on an electrophoresis apparatus, and performing agarose gel electrophoresis, thus distinguishing the octodonta nipae from the brontispa longissima through electrophoretic bands. The method is simple, quick and high in accuracy, and plays a significant role in intensive study of the octodonta nipae and the brontispa longissima.