EP0183822A4 - Katalysierte nukleinsäurehybridisierung mittels enzymreagenz. - Google Patents

Katalysierte nukleinsäurehybridisierung mittels enzymreagenz.

Info

Publication number
EP0183822A4
EP0183822A4 EP19850903113 EP85903113A EP0183822A4 EP 0183822 A4 EP0183822 A4 EP 0183822A4 EP 19850903113 EP19850903113 EP 19850903113 EP 85903113 A EP85903113 A EP 85903113A EP 0183822 A4 EP0183822 A4 EP 0183822A4
Authority
EP
European Patent Office
Prior art keywords
carrier
micrograms
dna
hybridization
radioactive
Prior art date
Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
Withdrawn
Application number
EP19850903113
Other languages
English (en)
French (fr)
Other versions
EP0183822A1 (de
Inventor
Edward J Zapolski
Douglas M Gersten
Robert S Ledley
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
NATIONAL BIOMEDICAL RESEARCH FOUNDATION
NAT BIOMEDICAL RES FOUNDATION
Original Assignee
NATIONAL BIOMEDICAL RESEARCH FOUNDATION
NAT BIOMEDICAL RES FOUNDATION
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by NATIONAL BIOMEDICAL RESEARCH FOUNDATION, NAT BIOMEDICAL RES FOUNDATION filed Critical NATIONAL BIOMEDICAL RESEARCH FOUNDATION
Publication of EP0183822A1 publication Critical patent/EP0183822A1/de
Publication of EP0183822A4 publication Critical patent/EP0183822A4/de
Withdrawn legal-status Critical Current

Links

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
    • 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
    • C12Q1/6813—Hybridisation assays
    • 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
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6832—Enhancement of hybridisation reaction

Definitions

  • the invention generally relates to a hybridization method for treating target DNA fragments to identify known genetic sequences, and more particularly, a hybridization method which is catalyzed by use of an enzymatic hybridization reagent formed, inter alia, of RecA protein, single- stranded DNA binding protein (SSB) , and adenosine triphosphate (ATP) .
  • an enzymatic hybridization reagent formed, inter alia, of RecA protein, single- stranded DNA binding protein (SSB) , and adenosine triphosphate (ATP) .
  • Nucleic acid hybridization technology used to identify the presence of known genetic sequences in a particular sample, is a necessary element in many processes of modern biotechnology, and in almost all aspects of genetic engineering. Under appropriate conditions, single strand nucleic acids that are complementary (homologous) unite to form duplex strands. This process of hybridization is generally accomplished by utilizing conditions whereby duplex nucleic acid molecules unwind (“melt”) and slowly reanneal to natually form the classical double stranded helix. Because of the rigid specificity (only strands of complementary base sequence will pair) , the process is used to seek and identify regions of DNA (target material) that are complementary to a specific single strand of DNA which is employed as the probe.
  • DNA fragments are separated according to size by electrophoresis in agarose gel, denatured to single strands by treatment with alkali, and neutralized. They are then transferred to a membrane or to specially treated paper matrix by blotting. The transfer may be expedited -by electrophoresis. The nucleic acid fragments are then fixed to the matrix by baking.
  • the bound matrix containing the nucleic acids is then exposed to a prehybridization solution of noncomplementary DNA in order to mask extraneous DNA binding sites on the matrix, thereby reducing background.
  • Hybridization is then performed, and is accomplished by annealing the matrix bound target DNA with probe DNA in various formulations of media and at temperatures which can be as high as 65-70 ⁇ C. Some formulations contain up to 50% dimethylformamide, or other dangerous substances, to help lower the DNA melting temperature so that hybridization can occur by annealing.
  • the present invention generally relates to catalyzed hybridization utilizing an enzymatic hybridization reagent. More particularly, the invention relates to
  • ⁇ a hybridization method for treating target DNA fragments to identify known genetic sequences the method involving the disposition of the target DNA fragments on a carrier, the formation of a hybridization reagent consisting of a radioactive- labelled probe DNA and catalyzing enzymes, the immersing of the carrier in the hybridization reagent for a given period of time, the washing of the carrier in at least one wash solution, the exposure of X-ray film to the carrier, and the developing of the X-ray film to detect and locate the radioactive- labelled probe DNA, thus identifying a known genetic sequence.
  • the present invention relates to the discovery of the fact that two proteins from the bacterium E. coli.
  • the RecA protein will pair homologous molecules of DNA by a mechanism that differs kinetically from the thermal reannealing of complementary DNA single strands. It will pair homologous single strands of DNA to form the duplex DNA, or it will promote the exchange of a single- strand DNA with duplex-strand DNA.
  • the SSB DNA binding protein binds cooperatively to single-strand regions of DNA to increase the conversion of single- strand DNA into double-strand DNA mediated by RecA protein.
  • both of these proteins have been used in the prior art to study the mechanisms of DNA recombination and repair.
  • the SSB DNA binding protein has been used in electron microscopy to locate single-strand regions of DNA.
  • biochemical activity of both of these proteins has been documented in the prior art, their use in DNA hybridization is unknown in the prior art.
  • the use of these two proteins when the target DNA is disposed on a matrix or carrier, rather than a solution, is also unknown in the prior art.
  • the subject invention describes a suitable, novel, rapid ' enzymatic alternative to physicochemical denaturation/renaturation for hybridization on a matrix, which alternative can bypass the fixation, denaturation, neutralization, lengthy incubation, high temperature and stringent washing steps of the prior art, as described previously.
  • the carrier or matrix comprises a gel film on which target DNA fragments are placed.
  • target DNA fragments can be transferred from such a matrix to another matrix by use of the Southern blotting technique, or variations thereof, and the hybridization method can proceed accordingly.
  • Target DNA Lambda DNA - Hind III digestion fragments (Bethesda Research Labs Inc., Gaithersburg, Maryland) were placed into sample wells (1.0 or 0.5 micrograms total DNA) , and were separated according to their molecular weight by horizontal electrophoresis in agarose gel (0.6% w/v) , affixed to a glass plate of 15 x 15 cm. in size, and the agarose gel was dried to provide target DNA.
  • Probe DNA Radioactive labelled probe DNA was prepared by nick translation of 1.0 micrograms lambda DNA using a reagent kit (BRL Inc. , Gaithersburg, Maryland) and 50 micro-Ci of deoxycytidine-5'-[ oc - 32 P] triphosphate (Amersham Corp., Arlington Heights, Illinois). The enzymatic hybridization reagent (5 milliliters thereof) was formed as follows: the probe DNA;
  • RecA protein 200 micrograms of RecA protein (P-L Biochemicals, Div. of Pharmacia, Inc., Milwaukee, Wisconsin) ;
  • SSB DNA binding protein 140 micrograms of SSB DNA binding protein (Worthington Diagnostic Systems, Inc. , Freehold, New Jersey) ;
  • Pentex Bovine Albumin 500 micrograms of Pentex Bovine Albumin (Miles Laboratories, Inc., Elkhart, Indiana);
  • the dried gel film (15 x 15cm) , containing the target DNA fragments, was immersed into a solution containing 0.5M NaOH, 3M NaCl for 15 minutes, then into 0.5M Tris, 0.3M NaCl for 15 minutes, and then into the hybridization reagent (5 ml) containing the labelled probe DNA, enzymes and co-factors. It was incubated at 37 ⁇ C for one hour. The glass plate bearing the film was washed by gentle agitation a total of 6 times for 5 mins. each wash.
  • SSPE includes (per liter) 8.7 gm. NaCl, 1.38 gm NaH 2 P0 4 • H 2 0, and 0.37 g .
  • EDTA diosodiu salt
  • ph 7.4 The location of 32 P-labelled probe DNA which was enzymatically hybridized to undenatured target DNA was determined by radiofluorography developed after 24 hours exposure to X-ray film at -70 ⁇ C.
  • the target DNA was transferred to nitrocellulose membrane by the Southern blotting technique and fixed by baking. Enzymatic hybridization was then performed exactly as described above (starting with immersion into the hybridization reagent) .
  • the .inventive technique presents the further advantage of employment of mild conditions; for example, incubation of the dried gel film and target DNA fragments, immersed in the hybridization reagent containing the labelled probe DNA> enzymes and co-factors, takes place at 37 ⁇ C. for one hour).
  • the hybridization method of the invention is characterized by increased sensitivity in that the enzymatic procedure employed therein is possibly more efficient than the thermal annealing technique employed in the prior art.

Landscapes

  • Chemical & Material Sciences (AREA)
  • Organic Chemistry (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Microbiology (AREA)
  • Biochemistry (AREA)
  • Physics & Mathematics (AREA)
  • Molecular Biology (AREA)
  • Biotechnology (AREA)
  • Biophysics (AREA)
  • Analytical Chemistry (AREA)
  • Immunology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • General Health & Medical Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Investigating Or Analysing Biological Materials (AREA)
EP19850903113 1984-06-01 1985-05-31 Katalysierte nukleinsäurehybridisierung mittels enzymreagenz. Withdrawn EP0183822A4 (de)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US61620584A 1984-06-01 1984-06-01
US616205 1984-06-01

Publications (2)

Publication Number Publication Date
EP0183822A1 EP0183822A1 (de) 1986-06-11
EP0183822A4 true EP0183822A4 (de) 1988-08-29

Family

ID=24468452

Family Applications (1)

Application Number Title Priority Date Filing Date
EP19850903113 Withdrawn EP0183822A4 (de) 1984-06-01 1985-05-31 Katalysierte nukleinsäurehybridisierung mittels enzymreagenz.

Country Status (3)

Country Link
EP (1) EP0183822A4 (de)
JP (1) JPS61502282A (de)
WO (1) WO1985005685A1 (de)

Families Citing this family (15)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US4963658A (en) * 1987-09-04 1990-10-16 Molecular Devices Corporation DNA detection method
US4978608A (en) * 1987-09-04 1990-12-18 Molecular Devices Corporation DNA detection system
US6326136B1 (en) 1988-04-01 2001-12-04 Digene Corporation Macromolecular conjugate made using unsaturated aldehydes
US5449603A (en) * 1989-10-24 1995-09-12 Stratagene Method for hybridizing nucleic acids using single-stranded nucleic acid binding protein
US5605824A (en) * 1989-10-24 1997-02-25 Stratagene Composition for hybridizing nucleic acids using single-stranded nucleic acid binding protein
FI941016A7 (fi) * 1990-05-07 1994-05-03 Daikin Indsutries Ltd Kaksois-D-silmukan muodostumisen diagnostiset sovellutukset
US5273881A (en) * 1990-05-07 1993-12-28 Daikin Industries, Ltd. Diagnostic applications of double D-loop formation
US5506098A (en) * 1991-09-04 1996-04-09 Daikin Industries, Ltd. In situ hybridization method
WO1993015226A1 (en) * 1992-01-28 1993-08-05 President And Fellows Of Harvard College Method for nucleic acid hybridization using single-stranded dna binding protein
WO1994003639A1 (en) * 1992-08-04 1994-02-17 United States Biochemical Corporation NON-ISOTOPIC DETECTION OF NUCLEIC ACID SEQUENCES USING AN RecA LABEL
WO1995018236A1 (en) * 1993-12-28 1995-07-06 Daikin Industries, Ltd. IN-SITU HYBRIDIZATION METHOD USING RecA PROTEIN AND RecA PROTEIN HAVING MARKER OR LIGAND FOR USE IN SAID METHOD
JP3093116B2 (ja) * 1994-09-30 2000-10-03 株式会社豊田中央研究所 核酸検出方法
SE9602062D0 (sv) * 1996-05-29 1996-05-29 Pharmacia Biotech Ab Method for detection of mutations
US6287765B1 (en) * 1998-05-20 2001-09-11 Molecular Machines, Inc. Methods for detecting and identifying single molecules
US7700281B2 (en) 2004-06-30 2010-04-20 Usb Corporation Hot start nucleic acid amplification

Family Cites Families (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US4395486A (en) * 1981-08-19 1983-07-26 Medical College Of Ga. Research Inst., Inc. Method for the direct analysis of sickle cell anemia

Non-Patent Citations (2)

* Cited by examiner, † Cited by third party
Title
No relevant documents have been disclosed. *
See also references of WO8505685A1 *

Also Published As

Publication number Publication date
EP0183822A1 (de) 1986-06-11
WO1985005685A1 (en) 1985-12-19
JPS61502282A (ja) 1986-10-09

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Inventor name: ZAPOLSKI, EDWARD, J.

Inventor name: GERSTEN, DOUGLAS, M.

Inventor name: LEDLEY, ROBERT, S.