JP7556886B2 - 核酸分子の配列決定方法 - Google Patents

核酸分子の配列決定方法 Download PDF

Info

Publication number
JP7556886B2
JP7556886B2 JP2021564773A JP2021564773A JP7556886B2 JP 7556886 B2 JP7556886 B2 JP 7556886B2 JP 2021564773 A JP2021564773 A JP 2021564773A JP 2021564773 A JP2021564773 A JP 2021564773A JP 7556886 B2 JP7556886 B2 JP 7556886B2
Authority
JP
Japan
Prior art keywords
nucleotides
nucleic acid
reaction mixture
acid molecules
nucleotide
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.)
Active
Application number
JP2021564773A
Other languages
English (en)
Japanese (ja)
Other versions
JP2022531589A (ja
JP2022531589A5 (https=
Inventor
オーバーシュトラース，フロリアン
アルモギー，ギラッド
リー，リンダ
トルパニエ，イリアーヌ
ユング，グンウォン
Original Assignee
ウルティマ・ゲノミクス・インコーポレーテッド
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 ウルティマ・ゲノミクス・インコーポレーテッド filed Critical ウルティマ・ゲノミクス・インコーポレーテッド
Publication of JP2022531589A publication Critical patent/JP2022531589A/ja
Publication of JP2022531589A5 publication Critical patent/JP2022531589A5/ja
Application granted granted Critical
Publication of JP7556886B2 publication Critical patent/JP7556886B2/ja
Active legal-status Critical Current
Anticipated expiration legal-status Critical

Links

Images

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
    • C12Q1/6869—Methods for sequencing
    • C12Q1/6874—Methods for sequencing involving nucleic acid arrays, e.g. sequencing by hybridisation
    • 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
    • C12N9/00—Enzymes; Proenzymes; Compositions thereof; Processes for preparing, activating, inhibiting, separating or purifying enzymes
    • C12N9/10—Transferases (2.)
    • C12N9/12—Transferases (2.) transferring phosphorus containing groups, e.g. kinases (2.7)
    • C12N9/1241—Nucleotidyltransferases (2.7.7)
    • C12N9/1252—DNA-directed DNA polymerase (2.7.7.7), i.e. DNA replicase
    • 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
    • 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
    • C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
    • G01N21/62—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light
    • G01N21/63—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light optically excited
    • G01N21/64—Fluorescence; Phosphorescence
    • G01N21/6428—Measuring fluorescence of fluorescent products of reactions or of fluorochrome labelled reactive substances, e.g. measuring quenching effects, using measuring "optrodes"
    • 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
    • C12Q2525/185—Modifications characterised by incorporating bases where the precise position of the bases in the nucleic acid string is important
    • 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
    • C12Q2525/186—Modifications characterised by incorporating a non-extendable or blocking moiety
    • 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
    • C12Q2539/00—Reactions characterised by analysis of gene expression or genome comparison
    • C12Q2539/10—The purpose being sequence identification by analysis of gene expression or genome comparison characterised by
    • C12Q2539/101—Subtraction analysis
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
    • G01N21/62—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light
    • G01N21/63—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light optically excited
    • G01N21/64—Fluorescence; Phosphorescence
    • G01N21/6428—Measuring fluorescence of fluorescent products of reactions or of fluorochrome labelled reactive substances, e.g. measuring quenching effects, using measuring "optrodes"
    • G01N2021/6439—Measuring fluorescence of fluorescent products of reactions or of fluorochrome labelled reactive substances, e.g. measuring quenching effects, using measuring "optrodes" with indicators, stains, dyes, tags, labels, marks

Landscapes

  • Life Sciences & Earth Sciences (AREA)
  • Chemical & Material Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Organic Chemistry (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Engineering & Computer Science (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Genetics & Genomics (AREA)
  • Immunology (AREA)
  • Molecular Biology (AREA)
  • Analytical Chemistry (AREA)
  • General Health & Medical Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Biochemistry (AREA)
  • General Engineering & Computer Science (AREA)
  • Biotechnology (AREA)
  • Microbiology (AREA)
  • Biophysics (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Nuclear Medicine, Radiotherapy & Molecular Imaging (AREA)
  • Optics & Photonics (AREA)
  • General Physics & Mathematics (AREA)
  • Pathology (AREA)
  • Medicinal Chemistry (AREA)
  • Biomedical Technology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
JP2021564773A 2019-05-03 2020-05-01 核酸分子の配列決定方法 Active JP7556886B2 (ja)

Applications Claiming Priority (5)

Application Number Priority Date Filing Date Title
US201962842534P 2019-05-03 2019-05-03
US62/842,534 2019-05-03
US201962909389P 2019-10-02 2019-10-02
US62/909,389 2019-10-02
PCT/US2020/031196 WO2020227161A1 (en) 2019-05-03 2020-05-01 Methods of sequencing nucleic acid molecules

Publications (3)

Publication Number Publication Date
JP2022531589A JP2022531589A (ja) 2022-07-07
JP2022531589A5 JP2022531589A5 (https=) 2023-05-09
JP7556886B2 true JP7556886B2 (ja) 2024-09-26

Family

ID=73051356

Family Applications (1)

Application Number Title Priority Date Filing Date
JP2021564773A Active JP7556886B2 (ja) 2019-05-03 2020-05-01 核酸分子の配列決定方法

Country Status (8)

Country Link
US (1) US20220154272A1 (https=)
EP (1) EP3963106A4 (https=)
JP (1) JP7556886B2 (https=)
KR (1) KR102934116B1 (https=)
CN (1) CN114222824B (https=)
AU (1) AU2020267371A1 (https=)
CA (1) CA3136034A1 (https=)
WO (1) WO2020227161A1 (https=)

Families Citing this family (5)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN114423873B (zh) 2019-07-10 2025-06-13 阿尔缇玛基因组学公司 Rna测序方法
EP4081653B1 (en) 2019-12-23 2024-07-03 Singular Genomics Systems, Inc. Methods for long read sequencing
WO2022197942A1 (en) * 2021-03-17 2022-09-22 Singular Genomics Systems, Inc. Phase protective reagent flow ordering
CN115917006A (zh) * 2021-09-07 2023-04-04 深圳华大智造科技股份有限公司 一种用于分析靶多核苷酸的序列的方法
WO2024086277A1 (en) * 2022-10-20 2024-04-25 Ultima Genomics, Inc. Sequencing with concatemerization

Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20120264621A1 (en) 2011-04-08 2012-10-18 Life Technologies Corporation Phase-protecting reagent flow orderings for use in sequencing-by-synthesis
JP2014518633A (ja) 2011-05-27 2014-08-07 ジナプシス インコーポレイテッド 遺伝学的及び生物学的分析のためのシステム及び方法
WO2018064297A1 (en) 2016-09-29 2018-04-05 Ultima Genomics, Inc. Systems and methods for nucleic acid sequencing

Family Cites Families (5)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US4962020A (en) 1988-07-12 1990-10-09 President And Fellows Of Harvard College DNA sequencing
US8364417B2 (en) * 2007-02-15 2013-01-29 454 Life Sciences Corporation System and method to correct out of phase errors in DNA sequencing data by use of a recursive algorithm
US10597643B2 (en) * 2016-04-29 2020-03-24 Omniome, Inc. Polymerases engineered to reduce nucleotide-independent DNA binding
EP3449012B1 (en) * 2016-04-29 2020-12-23 Omniome, Inc. Sequencing method employing ternary complex destabilization to identify cognate nucleotides
WO2019191003A1 (en) * 2018-03-26 2019-10-03 Ultima Genomics, Inc. Methods of sequencing nucleic acid molecules

Patent Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20120264621A1 (en) 2011-04-08 2012-10-18 Life Technologies Corporation Phase-protecting reagent flow orderings for use in sequencing-by-synthesis
JP2014518633A (ja) 2011-05-27 2014-08-07 ジナプシス インコーポレイテッド 遺伝学的及び生物学的分析のためのシステム及び方法
WO2018064297A1 (en) 2016-09-29 2018-04-05 Ultima Genomics, Inc. Systems and methods for nucleic acid sequencing

Also Published As

Publication number Publication date
CA3136034A1 (en) 2020-11-12
EP3963106A1 (en) 2022-03-09
CN114222824B (zh) 2024-07-30
CN114222824A (zh) 2022-03-22
JP2022531589A (ja) 2022-07-07
WO2020227161A1 (en) 2020-11-12
KR102934116B1 (ko) 2026-03-04
US20220154272A1 (en) 2022-05-19
EP3963106A4 (en) 2023-01-25
KR20220016078A (ko) 2022-02-08
AU2020267371A1 (en) 2021-12-02

Similar Documents

Publication Publication Date Title
JP7556886B2 (ja) 核酸分子の配列決定方法
US20220064728A1 (en) Methods of sequencing nucleic acid molecules
US20260103741A1 (en) Nucleic acid clonal amplification and sequencing methods, systems, and kits
WO2020172197A1 (en) Linkers and methods for optical detection and sequencing
JP7528103B2 (ja) 核酸分析方法
US20240167080A1 (en) Methods for nucleic acid detection
US20250059593A1 (en) Methods and systems for nucleic acid sequencing
US20250154582A1 (en) Systems and methods for sequencing error correction via double strand preservation
US20230062391A1 (en) Nucleic acid molecules comprising cleavable or excisable moieties

Legal Events

Date Code Title Description
A521 Request for written amendment filed

Free format text: JAPANESE INTERMEDIATE CODE: A523

Effective date: 20230425

A621 Written request for application examination

Free format text: JAPANESE INTERMEDIATE CODE: A621

Effective date: 20230425

A131 Notification of reasons for refusal

Free format text: JAPANESE INTERMEDIATE CODE: A131

Effective date: 20240430

A521 Request for written amendment filed

Free format text: JAPANESE INTERMEDIATE CODE: A523

Effective date: 20240730

TRDD Decision of grant or rejection written
A01 Written decision to grant a patent or to grant a registration (utility model)

Free format text: JAPANESE INTERMEDIATE CODE: A01

Effective date: 20240827

A61 First payment of annual fees (during grant procedure)

Free format text: JAPANESE INTERMEDIATE CODE: A61

Effective date: 20240912

R150 Certificate of patent or registration of utility model

Ref document number: 7556886

Country of ref document: JP

Free format text: JAPANESE INTERMEDIATE CODE: R150