WO2001062975A3 - Pyrophosphorolysis activated polymerization (pap): application to allele-specific amplification and nucleic acid sequence determination - Google Patents

Pyrophosphorolysis activated polymerization (pap): application to allele-specific amplification and nucleic acid sequence determination Download PDF

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Publication number
WO2001062975A3
WO2001062975A3 PCT/US2001/005527 US0105527W WO0162975A3 WO 2001062975 A3 WO2001062975 A3 WO 2001062975A3 US 0105527 W US0105527 W US 0105527W WO 0162975 A3 WO0162975 A3 WO 0162975A3
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WO
WIPO (PCT)
Prior art keywords
pap
allele
pyrophosphorolysis
amplification
polymerization
Prior art date
Application number
PCT/US2001/005527
Other languages
French (fr)
Other versions
WO2001062975A9 (en
WO2001062975A2 (en
Inventor
Qiang Liu
Steve S Sommer
Original Assignee
Hope City
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 Hope City filed Critical Hope City
Priority to AU4162101A priority Critical patent/AU4162101A/en
Priority to JP2001561783A priority patent/JP4989004B2/en
Priority to CA2395391A priority patent/CA2395391C/en
Priority to EP01912883A priority patent/EP1259646B1/en
Priority to AU2001241621A priority patent/AU2001241621B2/en
Priority to AT01912883T priority patent/ATE441726T1/en
Priority to DE60139762T priority patent/DE60139762D1/en
Publication of WO2001062975A2 publication Critical patent/WO2001062975A2/en
Publication of WO2001062975A3 publication Critical patent/WO2001062975A3/en
Publication of WO2001062975A9 publication Critical patent/WO2001062975A9/en

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    • 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
    • C12Q1/6844—Nucleic acid amplification reactions
    • C12Q1/6858—Allele-specific amplification
    • 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
    • C12Q1/6869—Methods for sequencing

Abstract

A novel method of pyrophosphorolysis activated polymerization (PAP) has been developed. In PAP, pyrophosphorolysis and polymerization by DNA polymerase are coupled serially for each amplification by using an activatable oligonucleotide P* that has a non-extendable 3'-deoxynucleotide at its 3' terminus. PAP can be applied for exponential amplification or for linear amplification. PAP can be applied to amplification of a rare allele in admixture with one or more wild type alleles by using an activatable oligonucleotide P* that is an exact match at its 3' end for the rare allele but has a mismatch at or near its 3' terminus for the wild type allele. PAP is inhibited by a mismatch in the 3' specific subsequence as far as 16 nucleotides away from the 3' terminus. PAP can greatly increase the specificity of detection of an extremely rare mutant allele in the presence of the wild type allele. Specificity results from both pyrophosphorolysis and polymerization since significant nonspecific amplification requires the combination of mismatch pyrophosphorolysis and misincorporation by the DNA polymerase, an extremely rare event. Using genetically engineered DNA polymerases greatly improves the efficiency of PAP.
PCT/US2001/005527 2000-02-23 2001-02-22 Pyrophosphorolysis activated polymerization (pap): application to allele-specific amplification and nucleic acid sequence determination WO2001062975A2 (en)

Priority Applications (7)

Application Number Priority Date Filing Date Title
AU4162101A AU4162101A (en) 2000-02-23 2001-02-22 Pyrophosphorolysis activated polymerization (pap): application to allele-specific amplification and nucleic acid sequence determination
JP2001561783A JP4989004B2 (en) 2000-02-23 2001-02-22 Pyrophosphate degradation-activated polymerization (PAP): adaptation to allyl-specific amplification and nucleic acid sequencing
CA2395391A CA2395391C (en) 2000-02-23 2001-02-22 Pyrophosphorolysis activated polymerization (pap): application to allele-specific amplification and nucleic acid sequence determination
EP01912883A EP1259646B1 (en) 2000-02-23 2001-02-22 Pyrophosphorolysis activated polymerization (pap): application to allele-specific amplification and nucleic acid sequence determination
AU2001241621A AU2001241621B2 (en) 2000-02-23 2001-02-22 Pyrophosphorolysis activated polymerization (PAP): application to allele-specific amplification and nucleic acid sequence determination
AT01912883T ATE441726T1 (en) 2000-02-23 2001-02-22 PYROPHOSPHOROLYSIS-ACTIVATED POLYMERIZATION (PAP): APPLICATION FOR ALLEL-SPECIFIC AMPLIFICATION AND SEQUENCE DETERMINATION OF NUCLEIC ACIDS
DE60139762T DE60139762D1 (en) 2000-02-23 2001-02-22 PYROPHOSPHOROLYSIS-ACTIVATED POLYMERIZATION (PAP): APPLICATION FOR ALLEL-SPECIFIC AMPLIFICATION AND SEQUENCING OF NUCLEIC ACIDS

Applications Claiming Priority (6)

Application Number Priority Date Filing Date Title
US18431500P 2000-02-23 2000-02-23
US60/184,315 2000-02-23
US18703500P 2000-03-06 2000-03-06
US60/187,035 2000-03-06
US23718000P 2000-10-03 2000-10-03
US60/237,180 2000-10-03

Publications (3)

Publication Number Publication Date
WO2001062975A2 WO2001062975A2 (en) 2001-08-30
WO2001062975A3 true WO2001062975A3 (en) 2002-08-29
WO2001062975A9 WO2001062975A9 (en) 2002-10-24

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PCT/US2001/005527 WO2001062975A2 (en) 2000-02-23 2001-02-22 Pyrophosphorolysis activated polymerization (pap): application to allele-specific amplification and nucleic acid sequence determination

Country Status (9)

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US (2) US6534269B2 (en)
EP (2) EP1259646B1 (en)
JP (1) JP4989004B2 (en)
AT (1) ATE441726T1 (en)
AU (2) AU4162101A (en)
CA (1) CA2395391C (en)
DE (1) DE60139762D1 (en)
ES (1) ES2330408T3 (en)
WO (1) WO2001062975A2 (en)

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CN105331727B (en) * 2015-12-01 2019-09-03 湖南宏雅基因技术有限公司 The detection kit of 9 gene methylation of septin in a kind of human peripheral Circulating tumor DNA
CN105316421B (en) * 2015-12-01 2019-09-03 湖南宏雅基因技术有限公司 For detecting the kit of SHOX2 gene promoter zone methylation degree relevant to lung cancer
KR20230117645A (en) 2017-04-26 2023-08-08 오티아이 루미오닉스 인크. Method for patterning a coating on a surface and device including a patterned coating
US11043636B2 (en) 2017-05-17 2021-06-22 Oti Lumionics Inc. Method for selectively depositing a conductive coating over a patterning coating and device including a conductive coating
WO2019062614A1 (en) * 2017-09-26 2019-04-04 Phocus Technology ( Shanghai) Co. Ltd A method of amplifying a target nucleic acid
US11751415B2 (en) 2018-02-02 2023-09-05 Oti Lumionics Inc. Materials for forming a nucleation-inhibiting coating and devices incorporating same
CN111868238A (en) * 2018-03-21 2020-10-30 豪夫迈·罗氏有限公司 Efficient and efficient incorporation of DNA polymerases for methylating dNTPs
US11268140B2 (en) * 2018-06-12 2022-03-08 Shaofeng Ding Delayed pyrophosphorolysis activated polymerization
CN113785411B (en) 2019-03-07 2023-04-11 Oti照明公司 Material for forming nucleation inhibiting coatings and apparatus incorporating the same
US11832473B2 (en) 2019-06-26 2023-11-28 Oti Lumionics Inc. Optoelectronic device including light transmissive regions, with light diffraction characteristics
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US7105298B2 (en) 2006-09-12
JP4989004B2 (en) 2012-08-01
EP1259646B1 (en) 2009-09-02
EP1259646A2 (en) 2002-11-27
EP2112233B1 (en) 2013-10-23
EP2112233A1 (en) 2009-10-28
JP2003526344A (en) 2003-09-09
ES2330408T3 (en) 2009-12-10
AU2001241621B2 (en) 2005-08-25
AU4162101A (en) 2001-09-03
US20030092051A1 (en) 2003-05-15
US20020127554A1 (en) 2002-09-12
DE60139762D1 (en) 2009-10-15
ATE441726T1 (en) 2009-09-15
WO2001062975A9 (en) 2002-10-24
WO2001062975A2 (en) 2001-08-30
CA2395391A1 (en) 2001-08-30
CA2395391C (en) 2011-08-02
US6534269B2 (en) 2003-03-18

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