CA3057163A1 - Methods of attaching adapters to sample nucleic acids - Google Patents

Methods of attaching adapters to sample nucleic acids Download PDF

Info

Publication number
CA3057163A1
CA3057163A1 CA3057163A CA3057163A CA3057163A1 CA 3057163 A1 CA3057163 A1 CA 3057163A1 CA 3057163 A CA3057163 A CA 3057163A CA 3057163 A CA3057163 A CA 3057163A CA 3057163 A1 CA3057163 A1 CA 3057163A1
Authority
CA
Canada
Prior art keywords
adapters
stranded
sample
nucleic acids
polymerase
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.)
Pending
Application number
CA3057163A
Other languages
English (en)
French (fr)
Inventor
Andrew Kennedy
Stefanie Ann Ward Mortimer
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.)
Guardant Health Inc
Original Assignee
Guardant Health Inc
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 PCT/US2017/027809 external-priority patent/WO2017181146A1/en
Application filed by Guardant Health Inc filed Critical Guardant Health Inc
Publication of CA3057163A1 publication Critical patent/CA3057163A1/en
Pending 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
    • C12Q1/6844—Nucleic acid amplification reactions
    • C12Q1/6853—Nucleic acid amplification reactions using modified primers or templates
    • C12Q1/6855—Ligating adaptors
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
    • C12N15/1034—Isolating an individual clone by screening libraries
    • C12N15/1065—Preparation or screening of tagged libraries, e.g. tagged microorganisms by STM-mutagenesis, tagged polynucleotides, gene tags
    • 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
    • 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
    • C12Q2533/00—Reactions characterised by the enzymatic reaction principle used
    • C12Q2533/10—Reactions characterised by the enzymatic reaction principle used the purpose being to increase the length of an oligonucleotide strand
    • C12Q2533/107—Probe or oligonucleotide ligation

Landscapes

  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Organic Chemistry (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Genetics & Genomics (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • General Engineering & Computer Science (AREA)
  • Biotechnology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Analytical Chemistry (AREA)
  • Physics & Mathematics (AREA)
  • General Health & Medical Sciences (AREA)
  • Molecular Biology (AREA)
  • Biochemistry (AREA)
  • Microbiology (AREA)
  • Biophysics (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Immunology (AREA)
  • Biomedical Technology (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Plant Pathology (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
CA3057163A 2017-04-14 2018-04-13 Methods of attaching adapters to sample nucleic acids Pending CA3057163A1 (en)

Applications Claiming Priority (9)

Application Number Priority Date Filing Date Title
US201762485769P 2017-04-14 2017-04-14
US62/485,769 2017-04-14
PCT/US2017/027809 WO2017181146A1 (en) 2016-04-14 2017-04-14 Methods for early detection of cancer
USPCT/US2017/027809 2017-04-14
US201762486663P 2017-04-18 2017-04-18
US62/486,663 2017-04-18
US201762517145P 2017-06-08 2017-06-08
US62/517,145 2017-06-08
PCT/US2018/027632 WO2018191702A2 (en) 2017-04-14 2018-04-13 Methods of attaching adapters to sample nucleic acids

Publications (1)

Publication Number Publication Date
CA3057163A1 true CA3057163A1 (en) 2018-10-18

Family

ID=63792821

Family Applications (1)

Application Number Title Priority Date Filing Date
CA3057163A Pending CA3057163A1 (en) 2017-04-14 2018-04-13 Methods of attaching adapters to sample nucleic acids

Country Status (10)

Country Link
US (2) US20200131567A1 (enExample)
EP (2) EP3885445B1 (enExample)
JP (2) JP7046097B2 (enExample)
CN (1) CN110546272B (enExample)
AU (1) AU2018252018A1 (enExample)
CA (1) CA3057163A1 (enExample)
ES (2) ES2962223T3 (enExample)
HU (1) HUE063675T2 (enExample)
PL (1) PL3885445T3 (enExample)
WO (1) WO2018191702A2 (enExample)

Families Citing this family (14)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2014093330A1 (en) 2012-12-10 2014-06-19 Clearfork Bioscience, Inc. Methods for targeted genomic analysis
US20160053301A1 (en) 2014-08-22 2016-02-25 Clearfork Bioscience, Inc. Methods for quantitative genetic analysis of cell free dna
CN108431233B (zh) 2015-11-11 2022-04-01 分析生物科学有限公司 Dna文库的高效率构建
EP3443066B1 (en) 2016-04-14 2024-10-02 Guardant Health, Inc. Methods for early detection of cancer
AU2017315769B2 (en) 2016-08-25 2024-02-01 Resolution Bioscience, Inc. Methods for the detection of genomic copy changes in DNA samples
CN116144735A (zh) * 2019-08-12 2023-05-23 深圳市真迈生物科技有限公司 核酸样本处理方法、测序方法和试剂盒
CN114616343A (zh) * 2019-09-30 2022-06-10 夸登特健康公司 用于在甲基化分区测定中分析无细胞dna的组合物和方法
ES2971348T3 (es) * 2019-10-25 2024-06-04 Guardant Health Inc Métodos de reparación de salientes 3'
WO2022055984A1 (en) * 2020-09-08 2022-03-17 Resolution Bioscience, Inc. Adaptors and methods for high efficiency construction of genetic libraries and genetic analysis
JP2023551072A (ja) * 2020-11-25 2023-12-06 アリダ・バイオサイエンシーズ・インコーポレイテッド Ｒｎａおよびｄｎａ修飾の多重プロファイリング
US20240102089A1 (en) * 2020-12-15 2024-03-28 Genodive Pharma Inc. Method for Evaluating Adapter Ligation Efficiency in Sequencing of DNA Sample
EP4388091A2 (en) * 2021-08-20 2024-06-26 Guardant Health, Inc. Methods for simultaneous molecular and sample barcoding
JP2024541478A (ja) 2021-11-24 2024-11-08 アリダ・バイオサイエンシーズ・インコーポレイテッド 人工表面を用いたｒｎａおよびｄｎａ解析
WO2024220475A1 (en) * 2023-04-21 2024-10-24 Twist Bioscience Corporation Polymerase variants

Family Cites Families (10)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6582908B2 (en) 1990-12-06 2003-06-24 Affymetrix, Inc. Oligonucleotides
US20030017081A1 (en) 1994-02-10 2003-01-23 Affymetrix, Inc. Method and apparatus for imaging a sample on a device
DE60234464D1 (de) 2001-11-28 2009-12-31 Applied Biosystems Llc Zusammensetzungen und Verfahren zur selektiven Nukleinsäureisolierung
US8835358B2 (en) 2009-12-15 2014-09-16 Cellular Research, Inc. Digital counting of individual molecules by stochastic attachment of diverse labels
WO2011161549A2 (en) * 2010-06-24 2011-12-29 Population Genetics Technologies Ltd. Methods and compositions for polynucleotide library production, immortalization and region of interest extraction
US8829172B2 (en) * 2011-03-11 2014-09-09 Academia Sinica Multiplex barcoded paired-end diTag (mbPED) sequencing approach and ITS application in fusion gene identification
US10023856B2 (en) * 2013-09-25 2018-07-17 Thermo Fisher Scientific Baltics Uab Enzyme composition for DNA end repair, adenylation, phosphorylation
PT3089822T (pt) * 2013-12-30 2022-05-06 Atreca Inc Análise de ácidos nucleicos associados com células isoladas usando códigos de barras de ácido nucleico
WO2016019360A1 (en) * 2014-08-01 2016-02-04 Dovetail Genomics Llc Tagging nucleic acids for sequence assembly
WO2016135300A1 (en) * 2015-02-26 2016-09-01 Qiagen Gmbh Efficiency improving methods for gene library generation

Also Published As

Publication number Publication date
CN110546272A (zh) 2019-12-06
WO2018191702A2 (en) 2018-10-18
AU2018252018A1 (en) 2019-10-10
EP3610032A2 (en) 2020-02-19
PL3885445T3 (pl) 2024-01-29
EP3885445C0 (en) 2023-08-23
ES2868074T3 (es) 2021-10-21
EP3610032B1 (en) 2021-03-10
WO2018191702A3 (en) 2019-02-21
JP2022048389A (ja) 2022-03-25
EP3610032A4 (en) 2020-05-06
US20200131567A1 (en) 2020-04-30
CN110546272B (zh) 2024-06-07
US20200283839A1 (en) 2020-09-10
EP3885445B1 (en) 2023-08-23
HUE063675T2 (hu) 2024-01-28
ES2962223T3 (es) 2024-03-18
JP2020516281A (ja) 2020-06-11
JP7046097B2 (ja) 2022-04-01
EP3885445A1 (en) 2021-09-29
JP7514263B2 (ja) 2024-07-10

Similar Documents

Publication Publication Date Title
JP7514263B2 (ja) 試料核酸にアダプターを付着する方法
CN110036117B (zh) 通过多联短dna片段增加单分子测序的处理量的方法
KR101858344B1 (ko) 바코드 서열을 포함하는 어댑터를 이용한 차세대 염기서열 분석 방법
WO2018195217A1 (en) Compositions and methods for library construction and sequence analysis
CN110869515B (zh) 用于基因组重排检测的测序方法
WO2016181128A1 (en) Methods, compositions, and kits for preparing sequencing library
JP2016520326A (ja) マルチプレックス配列決定のための分子バーコード化
US20190185932A1 (en) Method for preparing libraries for massively parallel sequencing based on molecular barcoding and use of libraries prepared by the method
US20180100180A1 (en) Methods of single dna/rna molecule counting
US20240002922A1 (en) Methods for simultaneous molecular and sample barcoding
EP4048812B1 (en) Methods for 3' overhang repair
EP4466378B1 (en) Multifunctional primers for paired sequencing reads
KR20220063169A (ko) 폴리뉴클레오타이드 분자 집단의 생성 방법
US20250376723A1 (en) Hybrid ssdna- and dsdna-ngs library preparation methods
WO2019090147A1 (en) Correcting for deamination-induced sequence errors
CN119095979A (zh) 目标富集
HK40027193B (zh) 具有可变长度非随机独特分子标识符的通用短衔接子

Legal Events

Date Code Title Description
EEER Examination request

Effective date: 20220929

EEER Examination request

Effective date: 20220929

EEER Examination request

Effective date: 20220929

EEER Examination request

Effective date: 20220929

EEER Examination request

Effective date: 20220929

EEER Examination request

Effective date: 20220929