WO2008061311A3 - Improved hybridisation of nucleic acids - Google Patents

Improved hybridisation of nucleic acids Download PDF

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Publication number
WO2008061311A3
WO2008061311A3 PCT/AU2007/001797 AU2007001797W WO2008061311A3 WO 2008061311 A3 WO2008061311 A3 WO 2008061311A3 AU 2007001797 W AU2007001797 W AU 2007001797W WO 2008061311 A3 WO2008061311 A3 WO 2008061311A3
Authority
WO
WIPO (PCT)
Prior art keywords
dna
probe
oligonucleotide
hybridisation
oligonucleotide probe
Prior art date
Application number
PCT/AU2007/001797
Other languages
French (fr)
Other versions
WO2008061311A2 (en
Inventor
Peter Laurence Molloy
Maxine June Mccall
Horace R Drew
Original Assignee
Commw Scient Ind Res Org
Peter Laurence Molloy
Maxine June Mccall
Horace R Drew
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
Priority claimed from AU2006906520A external-priority patent/AU2006906520A0/en
Application filed by Commw Scient Ind Res Org, Peter Laurence Molloy, Maxine June Mccall, Horace R Drew filed Critical Commw Scient Ind Res Org
Priority to AU2007324273A priority Critical patent/AU2007324273A1/en
Priority to EP07815599A priority patent/EP2087133A4/en
Publication of WO2008061311A2 publication Critical patent/WO2008061311A2/en
Publication of WO2008061311A3 publication Critical patent/WO2008061311A3/en

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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
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6827—Hybridisation assays for detection of mutation or polymorphism
    • 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

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  • 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)

Abstract

A method of reducing nucleotide mis-pairing in hybridisation between a probe oligonucleotide and a target DNA, the method comprising providing at least one oligonucleotide probe of about 7 to about 25 nucleotides, providing a sampl comprising target DNA, wherein the DNA is prepared so as to comprise fragments of up to about 100 bases, incubating the DNA with the at least one oligonucleotide probe under conditions suitable to enable hybridisation between probe and target DNA, removing unbound DNA, and detecting DNA hybridised to the at least one oligonucleotide probe, wherein either or both of the DNA and the at least one oligonucleotide probe comprises one or more modified nucleotides, and wherein the DNA of the sample is optionally labelled with a detectable moiety. The probe oligonucleotide may be located on a solid support such as a microarray. The sample DNA may be analysed for CpG methylation through treating it with bisulfite.
PCT/AU2007/001797 2006-11-22 2007-11-22 Improved hybridisation of nucleic acids WO2008061311A2 (en)

Priority Applications (2)

Application Number Priority Date Filing Date Title
AU2007324273A AU2007324273A1 (en) 2006-11-22 2007-11-22 Improved hybridisation of nucleic acids
EP07815599A EP2087133A4 (en) 2006-11-22 2007-11-22 Improved hybridisation of nucleic acids

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
AU2006906520 2006-11-22
AU2006906520A AU2006906520A0 (en) 2006-11-22 Improved hybridisation of nucleic acids

Publications (2)

Publication Number Publication Date
WO2008061311A2 WO2008061311A2 (en) 2008-05-29
WO2008061311A3 true WO2008061311A3 (en) 2008-10-02

Family

ID=39430076

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/AU2007/001797 WO2008061311A2 (en) 2006-11-22 2007-11-22 Improved hybridisation of nucleic acids

Country Status (3)

Country Link
EP (1) EP2087133A4 (en)
AU (1) AU2007324273A1 (en)
WO (1) WO2008061311A2 (en)

Families Citing this family (6)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
AU2008338530A1 (en) 2007-12-14 2009-06-25 Minitube Of America, Inc. Gender-specific separation of sperm cells and embryos
WO2011032034A2 (en) 2009-09-10 2011-03-17 University Of Idaho Nucleobase-functionalized conformationally restricted nucleotides and oligonucleotides for targeting nucleic acids
AR088140A1 (en) 2011-07-19 2014-05-14 Univ Idaho PROBE AND METHOD FOR DIRECTING NUCLEIC ACIDS
CA2901293A1 (en) * 2013-03-15 2014-09-25 Abbott Molecular Inc. Detection of bisulfite converted nucleotide sequences
US20190316195A1 (en) * 2018-04-12 2019-10-17 Cellmax, Ltd. Methods of capturing a nucleic acid including a target oligonucleotide sequence and uses thereof
US20190316112A1 (en) * 2018-04-12 2019-10-17 Cellmax, Ltd. Methods of capturing a nucleic acid including a target oligonucleotide sequence and uses thereof

Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2001064958A2 (en) * 2000-03-01 2001-09-07 Epoch Bioscienecs, Inc. Modified oligonucleotides for mismatch discrimination
WO2002038801A1 (en) * 2000-11-13 2002-05-16 Human Genetic Signatures Pty Ltd Detection of methylated dna molecules
EP1247815A2 (en) * 2001-03-25 2002-10-09 Exiqon A/S Modified oligonucleotides and uses thereof
WO2006097234A2 (en) * 2005-03-18 2006-09-21 Eppendorf Ag Microarray and method for genotyping shv beta lactamases

Family Cites Families (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20070099196A1 (en) * 2004-12-29 2007-05-03 Sakari Kauppinen Novel oligonucleotide compositions and probe sequences useful for detection and analysis of micrornas and their target mRNAs

Patent Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2001064958A2 (en) * 2000-03-01 2001-09-07 Epoch Bioscienecs, Inc. Modified oligonucleotides for mismatch discrimination
WO2002038801A1 (en) * 2000-11-13 2002-05-16 Human Genetic Signatures Pty Ltd Detection of methylated dna molecules
EP1247815A2 (en) * 2001-03-25 2002-10-09 Exiqon A/S Modified oligonucleotides and uses thereof
WO2006097234A2 (en) * 2005-03-18 2006-09-21 Eppendorf Ag Microarray and method for genotyping shv beta lactamases

Non-Patent Citations (12)

* Cited by examiner, † Cited by third party
Title
CHEN D. ET AL.: "Analysis of internal (eta-1)mer deletion sequences in synthetic oligodeoxyribonucleotides by hybridization to an immobilized probe array", NUCLEIC ACIDS RESEARCH, vol. 27, no. 2, 1999, pages 389 - 395, XP009081878 *
LANE S. ET AL.: "Amplicon secondary structure prevents target hybridization to oligonucleotide microarrays", BIOSENSORS AND BIOELECTRONICS, vol. 20, 2004, pages 728 - 735, XP004633820 *
LOCKHARDT D.J. ET AL.: "Expression monitoring by hybridization to high-density oligoncleotide arrays", NATURE BIOTECHNOLOGY, vol. 14, 1996, pages 1675 - 1680, XP002022521 *
MAH N. ET AL.: "A comparison of oligonucleotide and cDNA-based microarray systems", PHYSIOLOGICAL GENOMICS, vol. 16, 2004, pages 361 - 370, XP008109647 *
MEHLMANN M. ET AL.: "Optimization of fragmentation conditions for microarrays analysis of viral RNA", ANALYTICAL BIOCHEMISTRY, vol. 347, 2005, pages 316 - 323, XP005176365 *
RELOGIO A. ET AL.: "Optimization of oligonucleotide-based DNA microarrays", NUCLEIC ACIDS RESEARCH, vol. 30, no. 11, 2002, pages E51-1 - E51-10, XP002316925 *
RICELLI P.V. ET AL.: "Hybridization of single-stranded DNA targets to immobilized complementary DNA probes: comparison of hairpin versus linear capture probes", NUCLEIC ACIDS RESEARCH, vol. 29, no. 4, 2001, pages 996 - 1004, XP002282478 *
ROSENOW C. ET AL.: "Proparyotic RNA preparation methods useful for high density array analysis: comparison of two approaches", NUCLEIC ACIDS RESEARCH, vol. 29, no. 22, 2001, pages E112-1 - E112-8, XP002380280 *
See also references of EP2087133A4 *
SEELA F. ET AL.: "Pyrazolo[3,4,-d]pyrimidine nucleic acids: adjustment of dA-dT to dG-dC base pair stability", NUCLEIC ACIDS RESEARCH, vol. 29, no. 10, 2001, pages 2069 - 2078, XP008109646 *
SOUTHERN E. ET AL.: "Molecular interactions on microarrays", NATURE GENETICS, vol. 21, no. SUPPL., 1999, pages 5 - 9, XP000865979 *
YOU Y. ET AL.: "Design of LNA probes that improve mismatch discrimination", NUCLEIC ACIDS RESEARCH, vol. 34, no. 8, May 2006 (2006-05-01), pages E60-1 - E60-11, XP002498572 *

Also Published As

Publication number Publication date
WO2008061311A2 (en) 2008-05-29
EP2087133A2 (en) 2009-08-12
EP2087133A4 (en) 2010-07-21
AU2007324273A1 (en) 2008-05-29

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