AU2016219288B2 - Method and compositions for reducing non-specific amplification products - Google Patents

Method and compositions for reducing non-specific amplification products Download PDF

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Publication number
AU2016219288B2
AU2016219288B2 AU2016219288A AU2016219288A AU2016219288B2 AU 2016219288 B2 AU2016219288 B2 AU 2016219288B2 AU 2016219288 A AU2016219288 A AU 2016219288A AU 2016219288 A AU2016219288 A AU 2016219288A AU 2016219288 B2 AU2016219288 B2 AU 2016219288B2
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target
amplification products
specific amplification
specific
dna
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AU2016219288A1 (en
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Zhitong Liu
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Paragon Genomics Inc
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Paragon Genomics Inc
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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
    • C12Q1/6806—Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay
    • 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
    • C12Q1/6846—Common amplification features
    • 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
    • C12Q1/6848—Nucleic acid amplification reactions characterised by the means for preventing contamination or increasing the specificity or sensitivity of an amplification reaction
    • 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
    • C12Q1/686—Polymerase chain reaction [PCR]
    • 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
    • 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
    • C12Q2521/00—Reaction characterised by the enzymatic activity
    • C12Q2521/30—Phosphoric diester hydrolysing, i.e. nuclease
    • C12Q2521/301—Endonuclease
    • 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
    • C12Q2525/00—Reactions involving modified oligonucleotides, nucleic acids, or nucleotides
    • C12Q2525/10—Modifications characterised by
    • C12Q2525/191—Modifications characterised by incorporating an adaptor
    • 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
    • C12Q2527/00—Reactions demanding special reaction conditions
    • C12Q2527/101—Temperature
    • 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
    • C12Q2537/00—Reactions characterised by the reaction format or use of a specific feature
    • C12Q2537/10—Reactions characterised by the reaction format or use of a specific feature the purpose or use of
    • C12Q2537/143—Multiplexing, i.e. use of multiple primers or probes in a single reaction, usually for simultaneously analyse of multiple analysis

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  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Organic Chemistry (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Zoology (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Wood Science & Technology (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Analytical Chemistry (AREA)
  • Biophysics (AREA)
  • Microbiology (AREA)
  • Molecular Biology (AREA)
  • Immunology (AREA)
  • Biotechnology (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)
  • Enzymes And Modification Thereof (AREA)
AU2016219288A 2015-02-11 2016-02-11 Method and compositions for reducing non-specific amplification products Active AU2016219288B2 (en)

Applications Claiming Priority (5)

Application Number Priority Date Filing Date Title
US201562114788P 2015-02-11 2015-02-11
US62/114,788 2015-02-11
US201562150600P 2015-04-21 2015-04-21
US62/150,600 2015-04-21
PCT/US2016/017454 WO2016130746A1 (en) 2015-02-11 2016-02-11 Method and compositions for reducing non-specific amplification products

Publications (2)

Publication Number Publication Date
AU2016219288A1 AU2016219288A1 (en) 2017-08-17
AU2016219288B2 true AU2016219288B2 (en) 2021-10-28

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AU2016219288A Active AU2016219288B2 (en) 2015-02-11 2016-02-11 Method and compositions for reducing non-specific amplification products

Country Status (10)

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US (1) US9464318B2 (enExample)
EP (1) EP3256584B1 (enExample)
JP (1) JP6755890B2 (enExample)
KR (1) KR20170110721A (enExample)
CN (3) CN107532166A (enExample)
AU (1) AU2016219288B2 (enExample)
BR (1) BR112017017142B1 (enExample)
CA (1) CA2976251C (enExample)
ES (1) ES2795404T3 (enExample)
WO (1) WO2016130746A1 (enExample)

Families Citing this family (13)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US10421993B2 (en) 2015-02-11 2019-09-24 Paragon Genomics, Inc. Methods and compositions for reducing non-specific amplification products
CN107058573B (zh) * 2016-06-13 2020-07-10 艾吉泰康生物科技(北京)有限公司 一种利用Cas9/gRNA系统构建扩增子文库的方法
CN110382716A (zh) * 2017-01-10 2019-10-25 佰隆基因公司 用于减少引物延伸反应中产生的冗余分子条形码的方法和组合物
WO2018140329A1 (en) * 2017-01-24 2018-08-02 Tsavachidou Dimitra Methods for constructing copies of nucleic acid molecules
CN111936635B (zh) * 2018-03-02 2024-08-23 豪夫迈·罗氏有限公司 用于单分子测序的单链环状dna模板的产生
US11976275B2 (en) 2018-06-15 2024-05-07 Kapa Biosystems, Inc. Generation of double-stranded DNA templates for single molecule sequencing
WO2020145351A1 (ja) * 2019-01-09 2020-07-16 国立研究開発法人理化学研究所 薬物動態関連遺伝子の網羅的配列解析法とそれに使用されるプライマーセット
US11396674B2 (en) * 2019-02-22 2022-07-26 Gianluca ROMA Multiplex nucleic acid amplification and library preparation
US10941453B1 (en) 2020-05-20 2021-03-09 Paragon Genomics, Inc. High throughput detection of pathogen RNA in clinical specimens
CN114875119B (zh) * 2021-02-05 2025-11-18 广东菲鹏生物有限公司 一种提高核酸扩增产物浓度的方法及其应用
CN114369649A (zh) * 2022-02-08 2022-04-19 山东见微生物科技有限公司 一种特异的选择扩增及多重pcr方法和应用
US11680293B1 (en) 2022-04-21 2023-06-20 Paragon Genomics, Inc. Methods and compositions for amplifying DNA and generating DNA sequencing results from target-enriched DNA molecules
US12091715B2 (en) 2022-04-21 2024-09-17 Paragon Genomics, Inc. Methods and compositions for reducing base errors of massive parallel sequencing using triseq sequencing

Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20080014634A1 (en) * 2002-06-26 2008-01-17 Greener Alan L Selective cloning of homoduplex nucleic acids

Family Cites Families (11)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5750341A (en) 1995-04-17 1998-05-12 Lynx Therapeutics, Inc. DNA sequencing by parallel oligonucleotide extensions
CA2513535C (en) * 2003-01-29 2012-06-12 454 Corporation Bead emulsion nucleic acid amplification
EP1574570A1 (en) * 2004-03-12 2005-09-14 Universität Regensburg Process for reducing the number of mismatches in double stranded polynucleotides
DE602005024987D1 (de) 2004-08-24 2011-01-05 Cornell Res Foundation Inc Detektion von nucleinsäureunterschieden mit hilfe von endonucleasespaltungs-/ligaseabgabereaktionen und kapillarelektrophoresen oder mikroarrays
WO2006127423A2 (en) * 2005-05-18 2006-11-30 Codon Devices, Inc. Methods of producing polynucleotide libraries using scarless ligation
US8716190B2 (en) * 2007-09-14 2014-05-06 Affymetrix, Inc. Amplification and analysis of selected targets on solid supports
WO2012044847A1 (en) 2010-10-01 2012-04-05 Life Technologies Corporation Nucleic acid adaptors and uses thereof
US8586310B2 (en) 2008-09-05 2013-11-19 Washington University Method for multiplexed nucleic acid patch polymerase chain reaction
EP3072977B1 (en) * 2011-04-28 2018-09-19 Life Technologies Corporation Methods and compositions for multiplex pcr
AU2014205110A1 (en) 2013-01-13 2015-08-27 Unitaq Bio Methods and compositions for PCR using blocked and universal primers
WO2015063154A1 (en) 2013-10-31 2015-05-07 Multiplicom N.V. Blocking primers in multiplex pcr based assays

Patent Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20080014634A1 (en) * 2002-06-26 2008-01-17 Greener Alan L Selective cloning of homoduplex nucleic acids

Also Published As

Publication number Publication date
CA2976251C (en) 2023-08-22
BR112017017142A2 (pt) 2018-04-03
CA2976251A1 (en) 2016-08-18
CN107532166A (zh) 2018-01-02
CN120700119A (zh) 2025-09-26
EP3256584A1 (en) 2017-12-20
JP6755890B2 (ja) 2020-09-16
AU2016219288A1 (en) 2017-08-17
US20160230222A1 (en) 2016-08-11
EP3256584B1 (en) 2020-03-25
BR112017017142B1 (pt) 2024-03-12
US9464318B2 (en) 2016-10-11
CN120700118A (zh) 2025-09-26
JP2018506307A (ja) 2018-03-08
ES2795404T3 (es) 2020-11-23
WO2016130746A1 (en) 2016-08-18
KR20170110721A (ko) 2017-10-11
EP3256584A4 (en) 2018-08-15

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