WO1997041253A1 - Procede de depistage de micro-organismes dans des melanges par amplification modulaire par reaction en chaine de la polymerase - Google Patents
Procede de depistage de micro-organismes dans des melanges par amplification modulaire par reaction en chaine de la polymerase Download PDFInfo
- Publication number
- WO1997041253A1 WO1997041253A1 PCT/EP1997/002179 EP9702179W WO9741253A1 WO 1997041253 A1 WO1997041253 A1 WO 1997041253A1 EP 9702179 W EP9702179 W EP 9702179W WO 9741253 A1 WO9741253 A1 WO 9741253A1
- Authority
- WO
- WIPO (PCT)
- Prior art keywords
- hybridization
- hybridization probe
- amplification
- detection
- probes
- Prior art date
Links
- 238000000034 method Methods 0.000 title claims abstract description 47
- 244000005700 microbiome Species 0.000 title claims abstract description 38
- 239000000203 mixture Substances 0.000 title abstract description 13
- 239000000523 sample Substances 0.000 claims abstract description 85
- 238000001514 detection method Methods 0.000 claims abstract description 33
- 230000003321 amplification Effects 0.000 claims abstract description 28
- 238000003199 nucleic acid amplification method Methods 0.000 claims abstract description 28
- 150000007523 nucleic acids Chemical class 0.000 claims abstract description 16
- 230000002068 genetic effect Effects 0.000 claims abstract description 4
- 238000009396 hybridization Methods 0.000 claims description 72
- 238000006243 chemical reaction Methods 0.000 claims description 17
- 239000007858 starting material Substances 0.000 claims description 11
- 108091036078 conserved sequence Proteins 0.000 claims description 10
- 239000007790 solid phase Substances 0.000 claims description 9
- 108020001027 Ribosomal DNA Proteins 0.000 claims description 5
- 230000008878 coupling Effects 0.000 claims description 5
- 238000010168 coupling process Methods 0.000 claims description 5
- 238000005859 coupling reaction Methods 0.000 claims description 5
- 229910052739 hydrogen Inorganic materials 0.000 claims description 3
- 230000035945 sensitivity Effects 0.000 claims description 3
- 239000003153 chemical reaction reagent Substances 0.000 claims description 2
- 239000001257 hydrogen Substances 0.000 claims description 2
- 238000000338 in vitro Methods 0.000 claims description 2
- 108020004707 nucleic acids Proteins 0.000 abstract description 11
- 102000039446 nucleic acids Human genes 0.000 abstract description 11
- 244000052616 bacterial pathogen Species 0.000 abstract description 4
- 230000004069 differentiation Effects 0.000 abstract description 3
- 238000001823 molecular biology technique Methods 0.000 abstract 1
- 238000011896 sensitive detection Methods 0.000 abstract 1
- 238000003752 polymerase chain reaction Methods 0.000 description 10
- 238000004458 analytical method Methods 0.000 description 9
- 230000000692 anti-sense effect Effects 0.000 description 9
- 239000002773 nucleotide Substances 0.000 description 9
- 125000003729 nucleotide group Chemical group 0.000 description 9
- 239000000243 solution Substances 0.000 description 8
- 241000894006 Bacteria Species 0.000 description 6
- HEMHJVSKTPXQMS-UHFFFAOYSA-M Sodium hydroxide Chemical compound [OH-].[Na+] HEMHJVSKTPXQMS-UHFFFAOYSA-M 0.000 description 6
- 108091034117 Oligonucleotide Proteins 0.000 description 5
- 238000005406 washing Methods 0.000 description 5
- 108020004465 16S ribosomal RNA Proteins 0.000 description 4
- 238000012408 PCR amplification Methods 0.000 description 4
- 229920001213 Polysorbate 20 Polymers 0.000 description 4
- 230000001580 bacterial effect Effects 0.000 description 4
- 239000000256 polyoxyethylene sorbitan monolaurate Substances 0.000 description 4
- 235000010486 polyoxyethylene sorbitan monolaurate Nutrition 0.000 description 4
- 108090000623 proteins and genes Proteins 0.000 description 4
- XLYOFNOQVPJJNP-UHFFFAOYSA-N water Substances O XLYOFNOQVPJJNP-UHFFFAOYSA-N 0.000 description 4
- 108020004414 DNA Proteins 0.000 description 3
- 241000588722 Escherichia Species 0.000 description 3
- 102000003992 Peroxidases Human genes 0.000 description 3
- 241000607142 Salmonella Species 0.000 description 3
- FAPWRFPIFSIZLT-UHFFFAOYSA-M Sodium chloride Chemical compound [Na+].[Cl-] FAPWRFPIFSIZLT-UHFFFAOYSA-M 0.000 description 3
- JLCPHMBAVCMARE-UHFFFAOYSA-N [3-[[3-[[3-[[3-[[3-[[3-[[3-[[3-[[3-[[3-[[3-[[5-(2-amino-6-oxo-1H-purin-9-yl)-3-[[3-[[3-[[3-[[3-[[3-[[5-(2-amino-6-oxo-1H-purin-9-yl)-3-[[5-(2-amino-6-oxo-1H-purin-9-yl)-3-hydroxyoxolan-2-yl]methoxy-hydroxyphosphoryl]oxyoxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(5-methyl-2,4-dioxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxyoxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(5-methyl-2,4-dioxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(5-methyl-2,4-dioxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(5-methyl-2,4-dioxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methyl [5-(6-aminopurin-9-yl)-2-(hydroxymethyl)oxolan-3-yl] hydrogen phosphate Polymers Cc1cn(C2CC(OP(O)(=O)OCC3OC(CC3OP(O)(=O)OCC3OC(CC3O)n3cnc4c3nc(N)[nH]c4=O)n3cnc4c3nc(N)[nH]c4=O)C(COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3CO)n3cnc4c(N)ncnc34)n3ccc(N)nc3=O)n3cnc4c(N)ncnc34)n3ccc(N)nc3=O)n3ccc(N)nc3=O)n3ccc(N)nc3=O)n3cnc4c(N)ncnc34)n3cnc4c(N)ncnc34)n3cc(C)c(=O)[nH]c3=O)n3cc(C)c(=O)[nH]c3=O)n3ccc(N)nc3=O)n3cc(C)c(=O)[nH]c3=O)n3cnc4c3nc(N)[nH]c4=O)n3cnc4c(N)ncnc34)n3cnc4c(N)ncnc34)n3cnc4c(N)ncnc34)n3cnc4c(N)ncnc34)O2)c(=O)[nH]c1=O JLCPHMBAVCMARE-UHFFFAOYSA-N 0.000 description 3
- KRKNYBCHXYNGOX-UHFFFAOYSA-N citric acid Chemical compound OC(=O)CC(O)(C(O)=O)CC(O)=O KRKNYBCHXYNGOX-UHFFFAOYSA-N 0.000 description 3
- 108040007629 peroxidase activity proteins Proteins 0.000 description 3
- 238000012360 testing method Methods 0.000 description 3
- FWMNVWWHGCHHJJ-SKKKGAJSSA-N 4-amino-1-[(2r)-6-amino-2-[[(2r)-2-[[(2r)-2-[[(2r)-2-amino-3-phenylpropanoyl]amino]-3-phenylpropanoyl]amino]-4-methylpentanoyl]amino]hexanoyl]piperidine-4-carboxylic acid Chemical compound C([C@H](C(=O)N[C@H](CC(C)C)C(=O)N[C@H](CCCCN)C(=O)N1CCC(N)(CC1)C(O)=O)NC(=O)[C@H](N)CC=1C=CC=CC=1)C1=CC=CC=C1 FWMNVWWHGCHHJJ-SKKKGAJSSA-N 0.000 description 2
- 108091093088 Amplicon Proteins 0.000 description 2
- 238000002965 ELISA Methods 0.000 description 2
- 241000588724 Escherichia coli Species 0.000 description 2
- 241000191940 Staphylococcus Species 0.000 description 2
- 108010090804 Streptavidin Proteins 0.000 description 2
- 238000012512 characterization method Methods 0.000 description 2
- 235000014113 dietary fatty acids Nutrition 0.000 description 2
- 238000011156 evaluation Methods 0.000 description 2
- 239000000194 fatty acid Substances 0.000 description 2
- 229930195729 fatty acid Natural products 0.000 description 2
- 150000004665 fatty acids Chemical class 0.000 description 2
- 238000011534 incubation Methods 0.000 description 2
- 238000002360 preparation method Methods 0.000 description 2
- 239000011541 reaction mixture Substances 0.000 description 2
- 239000011780 sodium chloride Substances 0.000 description 2
- 241000894007 species Species 0.000 description 2
- 230000009897 systematic effect Effects 0.000 description 2
- MCTWTZJPVLRJOU-UHFFFAOYSA-N 1-methyl-1H-imidazole Chemical compound CN1C=CN=C1 MCTWTZJPVLRJOU-UHFFFAOYSA-N 0.000 description 1
- QKNYBSVHEMOAJP-UHFFFAOYSA-N 2-amino-2-(hydroxymethyl)propane-1,3-diol;hydron;chloride Chemical compound Cl.OCC(N)(CO)CO QKNYBSVHEMOAJP-UHFFFAOYSA-N 0.000 description 1
- ISCMYZGMRHODRP-UHFFFAOYSA-N 3-(iminomethylideneamino)-n,n-dimethylpropan-1-amine Chemical compound CN(C)CCCN=C=N ISCMYZGMRHODRP-UHFFFAOYSA-N 0.000 description 1
- YRNWIFYIFSBPAU-UHFFFAOYSA-N 4-[4-(dimethylamino)phenyl]-n,n-dimethylaniline Chemical compound C1=CC(N(C)C)=CC=C1C1=CC=C(N(C)C)C=C1 YRNWIFYIFSBPAU-UHFFFAOYSA-N 0.000 description 1
- 244000063299 Bacillus subtilis Species 0.000 description 1
- 235000014469 Bacillus subtilis Nutrition 0.000 description 1
- KRKNYBCHXYNGOX-UHFFFAOYSA-K Citrate Chemical compound [O-]C(=O)CC(O)(CC([O-])=O)C([O-])=O KRKNYBCHXYNGOX-UHFFFAOYSA-K 0.000 description 1
- 238000007399 DNA isolation Methods 0.000 description 1
- IAZDPXIOMUYVGZ-UHFFFAOYSA-N Dimethylsulphoxide Chemical compound CS(C)=O IAZDPXIOMUYVGZ-UHFFFAOYSA-N 0.000 description 1
- 102000004190 Enzymes Human genes 0.000 description 1
- 108090000790 Enzymes Proteins 0.000 description 1
- 238000003794 Gram staining Methods 0.000 description 1
- 239000001888 Peptone Substances 0.000 description 1
- 108010080698 Peptones Proteins 0.000 description 1
- 241000293869 Salmonella enterica subsp. enterica serovar Typhimurium Species 0.000 description 1
- 241000191967 Staphylococcus aureus Species 0.000 description 1
- 238000013459 approach Methods 0.000 description 1
- 238000003556 assay Methods 0.000 description 1
- 238000010170 biological method Methods 0.000 description 1
- 210000004027 cell Anatomy 0.000 description 1
- 238000013375 chromatographic separation Methods 0.000 description 1
- 230000037029 cross reaction Effects 0.000 description 1
- 239000008367 deionised water Substances 0.000 description 1
- 229910021641 deionized water Inorganic materials 0.000 description 1
- 238000010790 dilution Methods 0.000 description 1
- 239000012895 dilution Substances 0.000 description 1
- 238000002474 experimental method Methods 0.000 description 1
- 238000005194 fractionation Methods 0.000 description 1
- 238000012215 gene cloning Methods 0.000 description 1
- 229940094991 herring sperm dna Drugs 0.000 description 1
- 238000002955 isolation Methods 0.000 description 1
- 239000000463 material Substances 0.000 description 1
- 230000002503 metabolic effect Effects 0.000 description 1
- 230000000813 microbial effect Effects 0.000 description 1
- 235000015097 nutrients Nutrition 0.000 description 1
- 235000019319 peptone Nutrition 0.000 description 1
- 102000054765 polymorphisms of proteins Human genes 0.000 description 1
- 239000000843 powder Substances 0.000 description 1
- 238000004321 preservation Methods 0.000 description 1
- 239000011535 reaction buffer Substances 0.000 description 1
- 210000003705 ribosome Anatomy 0.000 description 1
- 238000000926 separation method Methods 0.000 description 1
- 235000020183 skimmed milk Nutrition 0.000 description 1
- 238000011895 specific detection Methods 0.000 description 1
- 239000000126 substance Substances 0.000 description 1
- 239000000758 substrate Substances 0.000 description 1
- 239000000725 suspension Substances 0.000 description 1
Classifications
-
- 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
- C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
- C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
- C12Q1/6888—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms
- C12Q1/689—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms for bacteria
-
- 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
- C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
- C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
- C12Q1/6888—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms
Definitions
- the invention relates to a method for the detection of one or more microorganisms in a sample which contains a large number of different microorganisms by means of molecular biological techniques, such as amplification reactions, and a compilation of components for carrying out the method.
- the method according to the invention is referred to as a modular polymerase chain reaction (PCR).
- Another disadvantage of known identification systems is that a large number of microorganisms remain undetected when examining complex samples because their culture requirements are unknown.
- primers for diagnostic tasks are designed in order to directly detect organisms of interest to be able to.
- sequence information obtained in this way primers for diagnostic tasks are designed in order to directly detect organisms of interest to be able to.
- a molecular biological method for genome analysis is known as HLA typing. After amplification of the locus in question, the allelic state is characterized by hybridization with probes of selected specificity.
- the technical problem on which the invention is based is to provide a method which permits a reliable determination of any microorganisms present in a sample, even if these are present in a mixture with various types of microorganisms.
- the method should also be simple and inexpensive to carry out.
- the HLA typing differs from the inventive method z. B. in that the former relates to eukaryotic gene sequences and the analysis of the gene sequence of an individual organism.
- the method according to the invention is suitable for the detection of one or more microorganisms in a sample which contains a large number of different microorganisms. Molecular biological techniques such as amplification reactions are used.
- At least one hybridization probe (A) which is able to display conserved nucleic acid sequences in the microorganism (s) of interest and at least one hybridization probe (B) which is able to display the less conserved nucleic acid sequences in the microorganism (s) of interest in is able to be added to the sample with the proviso that at least one hybridization probe of type (A) and type (B) must be present per microorganism of interest and the sample is in a state capable of hybridization.
- the resulting hybridization pattern identifies the microorganism (s) of interest.
- the method according to the invention is advantageous due to its modular structure.
- a general PCR reaction which is identical for large groups of microorganisms, is linked to a subsequent detection by using taxon-specific sequences within the amplified DNA.
- hybridization probes that correspond to microbial nucleic acid sequences of different degrees of conservation, the detection and identification of microorganisms that are in a mixed sample is made possible without a separation for the identification e.g. B. through single colony passages is necessary.
- a combination of general germ determination based on highly conserved sequence sections and individually definable specification by less conserved sequence sections is carried out.
- parts of the genetic information are preferably amplified in vitro using the hybridization probes as starter molecules (for example by PCR).
- the hybridization probe (s) A are preferably used as starters for the amplification and the hybridization probe (s) B for detection.
- the hybridization probe (s) B is also possible to use the hybridization probe (s) B as a starter for the amplification and the hybridization probe (s) A for the detection, the hybridization probe (s) A and B as a starter for the amplification and the hybridization probe (s) B for the detection or to use the hybridization probe (s) A and B as starter for the amplification and the hybridization probe (s) A for detection.
- the advantage of this embodiment is that the desired combination of amplification and detection with the hybridization probes of narrower and broader specificity is achieved in this way.
- Part of the method is advantageously carried out on a solid phase by binding part of the hybridization probes, the coupling of the corresponding hybridization probe (s) to the solid phase taking place after the amplification or that the coupling of the corresponding hybridization probe (s) to the solid phase before amplification and the amplification takes place at least partially on the solid phase.
- the less conserved sequence (s), which corresponds to the hybridization probe (s) B are located between the conserved sequence regions, which correspond to the hybridization probe (s) (n) A corresponds (correspond) or the conserved sequence (s) corresponding to the hybridization probe (s) A is or are located between the less conserved sequence regions that the (the ) Hybridization probe (s) B corresponds (correspond). This is advantageous because an additional selection of the sequence-correct amplification is achieved.
- the amplification according to the invention can be carried out simultaneously with a plurality of starter pairs on a plurality of target sequences simultaneously. This offers the advantage of simultaneously amplifying those microorganisms in a reaction for which there are no sufficiently matching hybridization probes as starters.
- Ribosomal gene sequences have proven to be particularly suitable for use in the method according to the invention. Ribosomal gene sequences offer the advantage that they have highly conserved and less conserved sections in the preferred close neighborhood of interest here. Another advantage of using these gene sequences is that ribosomal genes exist in multiple copies per genome of microorganisms, resulting in a comparatively higher sensitivity of the assay according to the invention contributes.
- Figure 1 illustrates the relationships described above in a schematic representation.
- the AI and A2 probes hybridizing with highly conservative regions of a gene structure of rDNA hybridize with two different regions of a DNA structure of a prokaryote coding for 16S rRNA. These areas flank a region in which there are medium and low conserved areas, which in turn interact with the hybridization probes B1 and B2.
- the amplification results in a detectable amount of analyzable substance which, in the event of a positive reaction, enables families and / or types of microorganisms to be distinguished.
- the hybridization conditions can in each case be selected so stringently by temperature, ionic strength and other factors, in particular influencing the hydrogen bonding, that the specificity of the hybridization reaction (s) between the target sequence and the hybridization probes required for the statement of the method is ensured.
- the person skilled in the art can determine how to select and set the stringency in detail using means known to him (cf. U. Wobus, "Isolation, Fractionation and Hybridization of Nucleic Acids", Akademie-Verlag, Berlin, 1981, 229 pages).
- the hybridization probes are selected depending on the analytical task. Both general bacterial count determinations in combination with the detection of special species and the analysis and characterization of very complex samples are possible.
- reaction vessels which contain various hybridization probes, preferably bound to a solid phase, which are combined in a modular manner in such a way that a large number of samples or different analytical questions on one or a few samples are examined in parallel and simultaneously.
- a combination which contains components for carrying out the method according to the invention. These include, among other components, the hybridization probe (s) A and B.
- a kit contains at least one hybridization probe A and / or B coupled to a carrier, e.g. B. a reaction vessel. These reaction vessels can be used as modules for similar analysis problems.
- the combination according to the invention preferably also contains reagents for carrying out amplification reactions and / or components for the detection of amplificates.
- reagents for carrying out amplification reactions and / or components for the detection of amplificates include reaction buffer, dNTP mix, water, enzymes, method descriptions, instructions for use, warnings and the like.
- hybridization probes A with broadband specificity served for the amplification of all bacteria present in the test sample and corresponded to a highly conserved section of the ribosomal 16S rDNA according to Stackebrandt and Liesack (Handbook of New Bacterial Systematics, p 151-193, 1993):
- the hybridization probes B with narrower specificity served as detection probes.
- Escherichia coli AAC GUC GCA AGA CCA AAG Seq. ID # 3
- Bacillus subtilis GGT TGT TTG AAC CGC ATG GTT Seq. ID # 4
- the probes were biotinylated at the 5 'end for detection using an ELISA reader. As a result, a color change could be detected after adding a streptavidin-conjugated peroxidase (Soumet et al., BioTechniques 19: 792-796 (1995)).
- the germs were first grown in buffered peptone water and then the DNA of all organisms was isolated from this mixture sample using a DNA isolation kit.
- a primer (530r, see above) was covalently bound to the cavity of the CovaLink TM plate according to the instructions of the company Nunc.
- EDC 1-ethyl-3- (3-dimethylaminopropylcarbodiimide
- the wells were sucked dry and washed twice with 0.2 M NaOH, each with a 5-minute incubation.
- the mixture was then washed twice with hybridization solution (6x standard saline citrate [SSC], 5x Denhardt's solution, 100 ⁇ g / ml sheared and denatured herring sperm DNA).
- SSC standard saline citrate
- 5x Denhardt's solution 100 ⁇ g / ml sheared and denatured herring sperm DNA.
- the biotinylated hybridization probes were adjusted to a concentration of 0.1 nmol / L in hybridization solution and filled into the cavities in 100 ⁇ l aliquots.
- the hybridization reaction ran at 37 ° C for 3 h.
- three washing steps were carried out at 37 ° C. The first time with 2x SSC, 0.1% Tween 20 for 20 minutes.
- the strepavidin-conjugated peroxidase was then added.
- the peroxidase (Sigma Chemica, St. Louis. MO, USA) was diluted 1: 1000 in SPO solution (100 mM Tris-HCl, pH 7.5, 50 mM NaCl, 0.05% Tween 20). 100 ul of this dilution was added to each well. The plate was incubated at 37 ° C for 30 minutes. It was then washed three times with SPO solution.
- TMB solution 1.5 mg / ml tetramethylbenzidine; Sigma Chemica
- 25 mM citric acid 50 mM NaH 2 PO 4 , 0.03% H 2 0 2 , 10% dimethyl sulfoxide [DMSO] were used as the substrate. , pH 5.0) dissolved and added. After 45 minutes at 37 ° C, the reaction was stopped with 25 ul 2M H 2 S0 4 and measured at 450 nm on an ELISA reader.
- the color changes to be observed in the individual cavities were the indicator for the presence in the test sample of the type of bacteria that corresponded to the added detection probe.
- Example 2 Water samples and suspensions of industrial skimmed milk powders are checked for the presence of Staphylococcus s ⁇ p., Salmonella ssp. and Escherichia ssp. examined.
- oligonucleotides with the following sequence were selected as hybridization probes A with broadband specificity:
- amplicons with a length of approximately 460 bp are obtained in the prokaryotes analyzed.
- the oligonucleotide 16SA2 was selected for coupling to the CovaLink TM plate and was used in the reaction mixture at a concentration of 0.06 ⁇ M, while the oligonucleotide 16SA1 was used in the reaction mixture at a concentration of 0.5 ⁇ M.
- the following oligonucleotides served as hybridization probes B with narrower specificity for the detection:
- Staphylococcus 5 - TGT GCA CAT CTT GAC GGT - 3 Seq. ID # 7 Salmonella: 5 - CTG GCA GGC TTG AGT CTT - 3 Seq. ID # 8 Escherichia: 5 - CTC ATT GAC GTT ACC CGC - 3 Seq. ID # 9
- Example 2 The experimental conditions were identical to those of Example 1, except for the hybridization and washing temperatures in the detection. Here, hybridization and washing were carried out at 52 ° C. For this purpose, the bacteria were added to the samples both individually and in a mixture in different concentrations and concentration ratios (10 3 or 10 fi germs / ml). Table 2 below summarizes the approaches and results in a semi-quantitative form.
Landscapes
- Chemical & Material Sciences (AREA)
- Life Sciences & Earth Sciences (AREA)
- Analytical Chemistry (AREA)
- Proteomics, Peptides & Aminoacids (AREA)
- Organic Chemistry (AREA)
- Zoology (AREA)
- Wood Science & Technology (AREA)
- Health & Medical Sciences (AREA)
- Engineering & Computer Science (AREA)
- Microbiology (AREA)
- Immunology (AREA)
- Molecular Biology (AREA)
- Biotechnology (AREA)
- Biophysics (AREA)
- Physics & Mathematics (AREA)
- Biochemistry (AREA)
- Bioinformatics & Cheminformatics (AREA)
- General Engineering & Computer Science (AREA)
- General Health & Medical Sciences (AREA)
- Genetics & Genomics (AREA)
- Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
Abstract
Priority Applications (1)
Application Number | Priority Date | Filing Date | Title |
---|---|---|---|
AU28884/97A AU2888497A (en) | 1996-04-26 | 1997-04-26 | Process for detecting micro-organisms in mixtures by modular pcr |
Applications Claiming Priority (2)
Application Number | Priority Date | Filing Date | Title |
---|---|---|---|
DE19616750.7 | 1996-04-26 | ||
DE19616750A DE19616750A1 (de) | 1996-04-26 | 1996-04-26 | Verfahren zum Nachweis von Mikroorganismen in Gemischen |
Publications (1)
Publication Number | Publication Date |
---|---|
WO1997041253A1 true WO1997041253A1 (fr) | 1997-11-06 |
Family
ID=7792556
Family Applications (1)
Application Number | Title | Priority Date | Filing Date |
---|---|---|---|
PCT/EP1997/002179 WO1997041253A1 (fr) | 1996-04-26 | 1997-04-26 | Procede de depistage de micro-organismes dans des melanges par amplification modulaire par reaction en chaine de la polymerase |
Country Status (3)
Country | Link |
---|---|
AU (1) | AU2888497A (fr) |
DE (1) | DE19616750A1 (fr) |
WO (1) | WO1997041253A1 (fr) |
Cited By (3)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
WO1999022023A3 (fr) * | 1997-10-29 | 1999-09-16 | Mira Diagnostica Gmbh | Procede de caracterisation de microorganismes |
EP1464710A3 (fr) * | 2003-04-02 | 2004-12-22 | Canon Kabushiki Kaisha | Sonde et une série de sondes utilisé pour la détection des agents infectueux, un support, et une méthode de criblage genétique |
EP1322780A4 (fr) * | 2000-07-27 | 2005-08-03 | Univ Australian | Sondes combinatoires et utilisations associees |
Families Citing this family (5)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
DE19945964A1 (de) | 1999-09-24 | 2001-04-05 | Biotecon Diagnostics Gmbh | Verfahren und Nukleinsäuren zum Nachweis von brauereirelevanten Mikroorganismen |
DE19945916A1 (de) | 1999-09-24 | 2001-04-05 | Biotecon Diagnostics Gmbh | Nukleinsäuremoleküle zum Nachweis von Bakterien und phylogenetischen Einheiten von Bakterien |
FR2811321A1 (fr) * | 2000-07-04 | 2002-01-11 | Bio Merieux | Amplificateur d'une region ribonucleique cible d'un arn ribosomal 16s ou adn pour un tel arn d'une espece eubacterienne et detection de telles especes |
DE102004063801A1 (de) * | 2004-12-30 | 2006-07-13 | Henkel Kgaa | Verfahren zur Herstellung von Farbschutzwirkstoff-Granulaten |
FR3106834B1 (fr) * | 2020-01-30 | 2024-11-29 | Ocean Diagnostics | Nouveau procédé de PCR multiplexe et utilisation |
Citations (3)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
WO1990011369A1 (fr) * | 1989-03-22 | 1990-10-04 | Cemu Bioteknik Ab | Diagnostic en phase solide de conditions medicales |
EP0528306A2 (fr) * | 1991-08-15 | 1993-02-24 | F. Hoffmann-La Roche Ag | Amorce et sonde pour la détection de mycobactérium |
US5494795A (en) * | 1993-05-05 | 1996-02-27 | The United States Of America As Represented By The Secretary Of The Navy | Specific oligonucleotide primers for detection of pathogenic campylobacter bacteria by polymerase chain reaction |
-
1996
- 1996-04-26 DE DE19616750A patent/DE19616750A1/de not_active Withdrawn
-
1997
- 1997-04-26 WO PCT/EP1997/002179 patent/WO1997041253A1/fr active Application Filing
- 1997-04-26 AU AU28884/97A patent/AU2888497A/en not_active Abandoned
Patent Citations (3)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
WO1990011369A1 (fr) * | 1989-03-22 | 1990-10-04 | Cemu Bioteknik Ab | Diagnostic en phase solide de conditions medicales |
EP0528306A2 (fr) * | 1991-08-15 | 1993-02-24 | F. Hoffmann-La Roche Ag | Amorce et sonde pour la détection de mycobactérium |
US5494795A (en) * | 1993-05-05 | 1996-02-27 | The United States Of America As Represented By The Secretary Of The Navy | Specific oligonucleotide primers for detection of pathogenic campylobacter bacteria by polymerase chain reaction |
Non-Patent Citations (3)
Title |
---|
BARRY T ET AL: "A GENERAL METHOD TO GENERATE DNA PROBES FOR MICROORGANISMS", BIO/TECHNOLOGY, vol. 8, no. 3, 1 March 1990 (1990-03-01), pages 233 - 236, XP000244289 * |
BARRY T ET AL: "THE 16S/23S RIBOSOMAL SPACER REGION AS A TARGET FOR DNA PROBES TO IDENTIFY EUBACTERIA", PCR METHODS & APPLICATIONS, vol. 1, 1991, pages 51 - 56, XP000609831 * |
EHRMANN M ET AL: "REVERSE DOT BLOT HYBRIDIZATION: A USEFUL METHOD FOR THE DIRECT IDENTIFICATION OF LACTIC ACID BACTERIA IN FERMENTED FOOD", FEMS MICROBIOLOGY LETTERS, 1994, pages 143 - 149, XP000612834 * |
Cited By (6)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
WO1999022023A3 (fr) * | 1997-10-29 | 1999-09-16 | Mira Diagnostica Gmbh | Procede de caracterisation de microorganismes |
EP1322780A4 (fr) * | 2000-07-27 | 2005-08-03 | Univ Australian | Sondes combinatoires et utilisations associees |
EP1464710A3 (fr) * | 2003-04-02 | 2004-12-22 | Canon Kabushiki Kaisha | Sonde et une série de sondes utilisé pour la détection des agents infectueux, un support, et une méthode de criblage genétique |
EP1717323A3 (fr) * | 2003-04-02 | 2006-12-20 | Canon Kabushiki Kaisha | Sonde et une série de sondes utilisé pour la détection des agents infectueux, un support, et une méthode de criblage genétique |
US8080381B2 (en) | 2003-04-02 | 2011-12-20 | Canon Kabushiki Kaisha | Infectious etiologic agent detection probe and probe set, carrier, and genetic screening method |
CN101768638B (zh) * | 2003-04-02 | 2014-04-30 | 佳能株式会社 | 传染性病原体检测用探针和探针组以及载体和基因检查方法 |
Also Published As
Publication number | Publication date |
---|---|
DE19616750A1 (de) | 1997-11-06 |
AU2888497A (en) | 1997-11-19 |
Similar Documents
Publication | Publication Date | Title |
---|---|---|
DE60038015T2 (de) | Verfahren, basierend auf einer polynukleotidmatrix, zur identifizierung von mikroorganismen | |
DE69034219T2 (de) | Nukleinsäure-Sonden und Verfahren zum Nachweis von Fungi | |
DE69527154T2 (de) | Spezifische und universelle amplifizierungs-primer zur raschen bestimmung und identifizierung ueblicher bakterieller pathogene und antibiotikaresistenzgene in klinischen proben zur routinediagnose in mikrobiologie-laboratorien | |
DE69003477T2 (de) | Verfahren zum Nachweis von Nucleinsäuren. | |
DE69334090T2 (de) | Sonde zur Diagnose einer ansteckenden Krankheit verursacht durch Staphylococcus aureus | |
DE60131284T2 (de) | Methode zum nachweis von mikroorganismen | |
DE68921392T2 (de) | Proben zum spezifischen Nachweis von Escherichia coli und Shigella. | |
DE68907772T2 (de) | Hybridisationssonden zum nachweis von neisseria-staemme. | |
DE69937447T2 (de) | Verfahren zur erkennung von nukleinsäuren | |
DE3785590T2 (de) | Campylobacter-sonde. | |
DE68923665T2 (de) | Nachweis von Campylobacter. | |
DE3650317T2 (de) | Test zum nachweis von kampylobakter. | |
DE69627625T2 (de) | Die amplifizierung und bestimmung von arten des mycobakterium avium-komplexes | |
DE69330263T2 (de) | Von der SOD Familie abgeleitete Oligonukleotide | |
EP1389242B1 (fr) | Detection de microorganismes de l'espece yersinia pestis/yersinia pseudotuberculosis et/ou differenciation entre yersinia pestis et yersinia pseudotuberculosis | |
DE69333808T2 (de) | Sonde für die diagnose von candida-infektionen | |
WO1997041253A1 (fr) | Procede de depistage de micro-organismes dans des melanges par amplification modulaire par reaction en chaine de la polymerase | |
EP0408077B1 (fr) | Sondes oligonucléotidiques spécifiques vis-à-vis de Neisseria gonorrhoeae | |
EP0846186B1 (fr) | Extraction, amplification et hybridation sequentielle d'adn de cellules de champignons et procede de detection de cellules de champignons dans un materiau clinique | |
DE69425708T2 (de) | Nukleotidsequenzen die spezifisch mit einer nukleotidsequenz aus campylobacter jejuni hybridisieren | |
DE69825783T2 (de) | Mittel zur qualitativen und quantitativen analyse mikrobiologischer populationen in einer probe | |
DE69022362T2 (de) | Nukleinsäuresonden für die detektion von neisseria gonorrhoeae. | |
DE3925613A1 (de) | Neisseria-spezifische dna-sonde | |
DE69807030T2 (de) | Detektion von Neisseria Gonorrhoeae mittels Amplifizierung und Detektion der entsprechenden Nukleinsäuren | |
DE69215863T2 (de) | Nukleinsäure Sonden für den Nachweis von Mycoplasma Pneumoniae |
Legal Events
Date | Code | Title | Description |
---|---|---|---|
AK | Designated states |
Kind code of ref document: A1 Designated state(s): AL AU BA BB BG BR CA CN CU CZ DE EE GE HU IL IS JP KP KR LC LK LR LT LV MG MK MN MX NO NZ PL RO SG SI SK TM TR TT UA US UZ VN YU AM AZ BY KG KZ MD RU TJ TM |
|
AL | Designated countries for regional patents |
Kind code of ref document: A1 Designated state(s): GH KE LS MW SD SZ UG AT BE CH DE DK ES FI FR GB GR IE IT LU MC NL PT SE BF BJ CF CG CI CM GA GN ML MR NE SN TD TG |
|
DFPE | Request for preliminary examination filed prior to expiration of 19th month from priority date (pct application filed before 20040101) | ||
121 | Ep: the epo has been informed by wipo that ep was designated in this application | ||
NENP | Non-entry into the national phase |
Ref country code: JP Ref document number: 97538585 Format of ref document f/p: F |
|
REG | Reference to national code |
Ref country code: DE Ref legal event code: 8642 |
|
NENP | Non-entry into the national phase |
Ref country code: CA |
|
122 | Ep: pct application non-entry in european phase |