CA3022431C - Method of nucleic acid sequence determination - Google Patents
Method of nucleic acid sequence determination Download PDFInfo
- Publication number
- CA3022431C CA3022431C CA3022431A CA3022431A CA3022431C CA 3022431 C CA3022431 C CA 3022431C CA 3022431 A CA3022431 A CA 3022431A CA 3022431 A CA3022431 A CA 3022431A CA 3022431 C CA3022431 C CA 3022431C
- Authority
- CA
- Canada
- Prior art keywords
- nucleotide
- nucleic acid
- polymerase
- dna polymerase
- template nucleic
- 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
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
- C12Q1/6869—Methods for sequencing
-
- 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)
- C12N9/1247—DNA-directed RNA polymerase (2.7.7.6)
-
- 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
- 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
- C12Q2521/10—Nucleotidyl transfering
- C12Q2521/101—DNA polymerase
-
- 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
- C12Q2565/00—Nucleic acid analysis characterised by mode or means of detection
- C12Q2565/50—Detection characterised by immobilisation to a surface
- C12Q2565/518—Detection characterised by immobilisation to a surface characterised by the immobilisation of the nucleic acid sample or target
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Y—ENZYMES
- C12Y207/00—Transferases transferring phosphorus-containing groups (2.7)
- C12Y207/07—Nucleotidyltransferases (2.7.7)
- C12Y207/07006—DNA-directed RNA polymerase (2.7.7.6)
Landscapes
- Life Sciences & Earth Sciences (AREA)
- Chemical & Material Sciences (AREA)
- Organic Chemistry (AREA)
- Health & Medical Sciences (AREA)
- Proteomics, Peptides & Aminoacids (AREA)
- Zoology (AREA)
- Wood Science & Technology (AREA)
- Engineering & Computer Science (AREA)
- Molecular Biology (AREA)
- Genetics & Genomics (AREA)
- Bioinformatics & Cheminformatics (AREA)
- General Engineering & Computer Science (AREA)
- General Health & Medical Sciences (AREA)
- Biochemistry (AREA)
- Biotechnology (AREA)
- Microbiology (AREA)
- Immunology (AREA)
- Analytical Chemistry (AREA)
- Biophysics (AREA)
- Physics & Mathematics (AREA)
- Medicinal Chemistry (AREA)
- Biomedical Technology (AREA)
- Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
- Chemical Kinetics & Catalysis (AREA)
- Enzymes And Modification Thereof (AREA)
Applications Claiming Priority (5)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| US201662329489P | 2016-04-29 | 2016-04-29 | |
| US62/329,489 | 2016-04-29 | ||
| US201762444733P | 2017-01-10 | 2017-01-10 | |
| US62/444,733 | 2017-01-10 | ||
| PCT/US2017/030135 WO2017190012A1 (en) | 2016-04-29 | 2017-04-28 | Method of nucleic acid sequence determination |
Publications (2)
| Publication Number | Publication Date |
|---|---|
| CA3022431A1 CA3022431A1 (en) | 2017-11-02 |
| CA3022431C true CA3022431C (en) | 2023-03-21 |
Family
ID=58672825
Family Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| CA3022431A Active CA3022431C (en) | 2016-04-29 | 2017-04-28 | Method of nucleic acid sequence determination |
Country Status (9)
| Country | Link |
|---|---|
| US (2) | US10584379B2 (https=) |
| EP (1) | EP3449011B1 (https=) |
| JP (1) | JP6915939B2 (https=) |
| KR (1) | KR102231977B1 (https=) |
| CN (1) | CN109154024B (https=) |
| AU (1) | AU2017258523B2 (https=) |
| CA (1) | CA3022431C (https=) |
| SG (1) | SG11201809522WA (https=) |
| WO (1) | WO2017190012A1 (https=) |
Families Citing this family (41)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| US10597643B2 (en) | 2016-04-29 | 2020-03-24 | Omniome, Inc. | Polymerases engineered to reduce nucleotide-independent DNA binding |
| CA3022431C (en) | 2016-04-29 | 2023-03-21 | Omniome, Inc. | Method of nucleic acid sequence determination |
| KR102230444B1 (ko) * | 2016-08-15 | 2021-03-23 | 옴니옴 인코포레이티드 | 핵산을 시퀀싱하기 위한 방법 및 시스템 |
| US10975427B2 (en) | 2017-01-20 | 2021-04-13 | Omniome, Inc. | Process for cognate nucleotide detection in a nucleic acid sequencing workflow |
| US10161003B2 (en) * | 2017-04-25 | 2018-12-25 | Omniome, Inc. | Methods and apparatus that increase sequencing-by-binding efficiency |
| WO2019079593A1 (en) | 2017-10-19 | 2019-04-25 | Omniome, Inc. | BACKGROUND NOISE REDUCTION AND STABILIZATION OF SIMULTANEOUS COMPLEXES IN LINKED ASSAY WORKFLOWS |
| AU2019221691B2 (en) | 2018-02-16 | 2022-04-28 | Illumina Singapore Pte. Ltd. | Charge-tagged nucleotides and methods of use thereof |
| US10400272B1 (en) | 2018-04-26 | 2019-09-03 | Omniome, Inc. | Methods and compositions for stabilizing nucleic acid-nucleotide-polymerase complexes |
| SG11202011394WA (en) | 2018-05-17 | 2020-12-30 | Stuart Lindsay | Device, system and method for direct electrical measurement of enzyme activity |
| WO2019231568A1 (en) | 2018-05-31 | 2019-12-05 | Omniome, Inc. | Increased signal to noise in nucleic acid sequencing |
| CN112567048B (zh) | 2018-07-24 | 2026-01-23 | 加利福尼亚太平洋生物科学股份有限公司 | 三元复合物种类的连续形成 |
| EP3853358A1 (en) | 2018-09-17 | 2021-07-28 | Omniome, Inc. | Engineered polymerases for improved sequencing |
| US10876148B2 (en) | 2018-11-14 | 2020-12-29 | Element Biosciences, Inc. | De novo surface preparation and uses thereof |
| US10704094B1 (en) | 2018-11-14 | 2020-07-07 | Element Biosciences, Inc. | Multipart reagents having increased avidity for polymerase binding |
| US10768173B1 (en) | 2019-09-06 | 2020-09-08 | Element Biosciences, Inc. | Multivalent binding composition for nucleic acid analysis |
| US20240011086A1 (en) | 2018-11-15 | 2024-01-11 | Omniome, Inc. | Electronic detection of nucleic acid structure |
| CN211311477U (zh) | 2018-12-04 | 2020-08-21 | 欧姆尼欧美公司 | 测序系统 |
| WO2020132350A2 (en) | 2018-12-20 | 2020-06-25 | Omniome, Inc. | Temperature control for analysis of nucleic acids and other analytes |
| WO2020160300A2 (en) | 2019-01-30 | 2020-08-06 | Stuart Lindsay | Bioelectronic circuits, systems and methods for preparing and using them |
| US11499189B2 (en) | 2019-02-14 | 2022-11-15 | Pacific Biosciences Of California, Inc. | Mitigating adverse impacts of detection systems on nucleic acids and other biological analytes |
| US12313627B2 (en) | 2019-05-01 | 2025-05-27 | Element Biosciences, Inc. | Multivalent binding composition for nucleic acid analysis |
| WO2020242901A1 (en) * | 2019-05-24 | 2020-12-03 | Element Biosciences, Inc. | Polymerase-nucleotide conjugates for sequencing by trapping |
| US12391929B2 (en) | 2019-05-24 | 2025-08-19 | Element Biosciences, Inc. | Polymerase-nucleotide conjugates for sequencing by trapping |
| AU2020294800A1 (en) * | 2019-06-20 | 2022-02-10 | Arizona Board Of Regents On Behalf Of Arizona State University | Direct electrical readout of nucleic acid sequences |
| CN114450401A (zh) * | 2019-06-21 | 2022-05-06 | 赛默飞世尔科技波罗的海封闭股份公司 | 可用于对用于制备下一代测序文库的核酸进行标记的拴系有寡聚核苷酸的三磷酸核苷酸 |
| EP4028407B1 (en) | 2019-09-10 | 2023-08-16 | Pacific Biosciences of California, Inc. | Reversible modification of nucleotides |
| US11287422B2 (en) | 2019-09-23 | 2022-03-29 | Element Biosciences, Inc. | Multivalent binding composition for nucleic acid analysis |
| EP4045683B1 (en) | 2019-10-18 | 2025-02-19 | Pacific Biosciences of California, Inc. | Methods for capping nucleic acids |
| WO2021092431A1 (en) | 2019-11-08 | 2021-05-14 | Omniome, Inc. | Engineered polymerases for improved sequencing by binding |
| DE202019106694U1 (de) | 2019-12-02 | 2020-03-19 | Omniome, Inc. | System zur Sequenzierung von Nukleinsäuren in Fluidschaum |
| DE202019106695U1 (de) | 2019-12-02 | 2020-03-19 | Omniome, Inc. | System zur Sequenzierung von Nukleinsäuren in Fluidschaum |
| AU2021230282A1 (en) | 2020-03-03 | 2022-09-22 | Pacific Biosciences Of California, Inc. | Methods and compositions for sequencing double stranded nucleic acids |
| KR20230005866A (ko) | 2020-04-30 | 2023-01-10 | 아리조나 보드 오브 리젠츠 온 비하프 오브 아리조나 스테이트 유니버시티 | 바이오폴리머 시퀀싱 방법 |
| CN115836135A (zh) | 2020-05-05 | 2023-03-21 | 加利福尼亚太平洋生物科学股份有限公司 | 用于修饰聚合酶-核酸复合物的组合物和方法 |
| AU2021299216A1 (en) * | 2020-06-30 | 2022-12-08 | Illumina, Inc. | Catalytically controlled sequencing by synthesis to produce scarless DNA |
| WO2022240764A1 (en) | 2021-05-10 | 2022-11-17 | Pacific Biosciences Of California, Inc. | Single-molecule seeding and amplification on a surface |
| EP4337789A1 (en) | 2021-05-10 | 2024-03-20 | Pacific Biosciences of California, Inc. | Dna amplification buffer replenishment during rolling circle amplification |
| WO2023081485A1 (en) * | 2021-11-08 | 2023-05-11 | Pacific Biosciences Of California, Inc. | Stepwise sequencing of a polynucleotide with a homogenous reaction mixture |
| AU2023325064A1 (en) | 2022-08-15 | 2025-03-06 | Element Biosciences, Inc. | Spatially resolved surface capture of nucleic acids |
| WO2025010160A1 (en) | 2023-07-06 | 2025-01-09 | Pacific Biosciences Of California, Inc. | Methods and compositions for stabilizing concatemers |
| WO2025244989A1 (en) | 2024-05-21 | 2025-11-27 | Pacific Biosciences Of California, Inc. | Selectively functionalized nanoscale wells |
Family Cites Families (29)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| CA2044616A1 (en) | 1989-10-26 | 1991-04-27 | Roger Y. Tsien | Dna sequencing |
| US7057026B2 (en) | 2001-12-04 | 2006-06-06 | Solexa Limited | Labelled nucleotides |
| US7414116B2 (en) | 2002-08-23 | 2008-08-19 | Illumina Cambridge Limited | Labelled nucleotides |
| WO2005019476A1 (en) | 2003-08-20 | 2005-03-03 | Applera Corporation | Polymerase compositions |
| US8071755B2 (en) | 2004-05-25 | 2011-12-06 | Helicos Biosciences Corporation | Nucleotide analogs |
| US7264934B2 (en) | 2004-06-10 | 2007-09-04 | Ge Healthcare Bio-Sciences Corp. | Rapid parallel nucleic acid analysis |
| EP1766075B1 (en) * | 2004-06-10 | 2010-03-17 | Amersham Biosciences Corp. | Method for nucleic acid analysis |
| US7315019B2 (en) | 2004-09-17 | 2008-01-01 | Pacific Biosciences Of California, Inc. | Arrays of optical confinements and uses thereof |
| US7482120B2 (en) | 2005-01-28 | 2009-01-27 | Helicos Biosciences Corporation | Methods and compositions for improving fidelity in a nucleic acid synthesis reaction |
| US7544794B1 (en) | 2005-03-11 | 2009-06-09 | Steven Albert Benner | Method for sequencing DNA and RNA by synthesis |
| DK1987159T4 (da) * | 2006-02-08 | 2020-11-16 | Illumina Cambridge Ltd | Fremgangsmåde til sekventering af en polynukleotidtemplate |
| EP3722409A1 (en) | 2006-03-31 | 2020-10-14 | Illumina, Inc. | Systems and devices for sequence by synthesis analysis |
| US8962293B2 (en) * | 2006-10-18 | 2015-02-24 | Roche Molecular Systems, Inc. | DNA polymerases and related methods |
| US8026091B2 (en) * | 2007-07-13 | 2011-09-27 | Roche Molecular Systems, Inc. | DNA polymerases and related methods |
| US8652781B2 (en) | 2008-02-12 | 2014-02-18 | Pacific Biosciences Of California, Inc. | Cognate sampling kinetics |
| US8628940B2 (en) | 2008-09-24 | 2014-01-14 | Pacific Biosciences Of California, Inc. | Intermittent detection during analytical reactions |
| EP2274446B1 (en) | 2008-03-31 | 2015-09-09 | Pacific Biosciences of California, Inc. | Two slow-step polymerase enzyme systems and methods |
| WO2009145820A2 (en) | 2008-03-31 | 2009-12-03 | Pacific Biosciences Of California, Inc. | Generation of modified polymerases for improved accuracy in single molecule sequencing |
| WO2010075188A2 (en) | 2008-12-23 | 2010-07-01 | Illumina Inc. | Multibase delivery for long reads in sequencing by synthesis protocols |
| US20100261185A1 (en) | 2009-03-27 | 2010-10-14 | Life Technologies Corporation | Labeled enzyme compositions, methods and systems |
| WO2010141391A2 (en) * | 2009-06-05 | 2010-12-09 | Life Technologies Corporation | Mutant dna polymerases |
| CN103857805B (zh) | 2011-08-10 | 2017-07-18 | 生命技术公司 | 聚合酶组合物、制备和使用所述聚合酶组合物的方法 |
| WO2013096692A1 (en) | 2011-12-21 | 2013-06-27 | Illumina, Inc. | Apparatus and methods for kinetic analysis and determination of nucleic acid sequences |
| CN103898077B (zh) | 2012-12-24 | 2017-01-11 | 财团法人工业技术研究院 | 单离的脱氧核糖核酸聚合酶、套组及其应用 |
| GB201301178D0 (en) | 2013-01-23 | 2013-03-06 | Dynamic Biosensors Gmbh | Method for sequencing a template nucleic acid immobilized on a substrate |
| US9657281B2 (en) | 2013-09-30 | 2017-05-23 | Life Technologies Corporation | Polymerase compositions, methods of making and using same |
| US10077470B2 (en) | 2015-07-21 | 2018-09-18 | Omniome, Inc. | Nucleic acid sequencing methods and systems |
| US10597643B2 (en) | 2016-04-29 | 2020-03-24 | Omniome, Inc. | Polymerases engineered to reduce nucleotide-independent DNA binding |
| CA3022431C (en) | 2016-04-29 | 2023-03-21 | Omniome, Inc. | Method of nucleic acid sequence determination |
-
2017
- 2017-04-28 CA CA3022431A patent/CA3022431C/en active Active
- 2017-04-28 CN CN201780026228.XA patent/CN109154024B/zh not_active Expired - Fee Related
- 2017-04-28 EP EP17722356.7A patent/EP3449011B1/en not_active Not-in-force
- 2017-04-28 WO PCT/US2017/030135 patent/WO2017190012A1/en not_active Ceased
- 2017-04-28 KR KR1020187034503A patent/KR102231977B1/ko not_active Expired - Fee Related
- 2017-04-28 AU AU2017258523A patent/AU2017258523B2/en not_active Ceased
- 2017-04-28 SG SG11201809522WA patent/SG11201809522WA/en unknown
- 2017-04-28 JP JP2018556287A patent/JP6915939B2/ja not_active Expired - Fee Related
- 2017-04-28 US US15/581,822 patent/US10584379B2/en active Active
-
2020
- 2020-01-07 US US16/736,071 patent/US11976323B2/en active Active
Also Published As
| Publication number | Publication date |
|---|---|
| AU2017258523B2 (en) | 2020-08-13 |
| EP3449011B1 (en) | 2020-11-04 |
| US11976323B2 (en) | 2024-05-07 |
| JP2019526225A (ja) | 2019-09-19 |
| CN109154024B (zh) | 2022-03-04 |
| SG11201809522WA (en) | 2018-11-29 |
| KR102231977B1 (ko) | 2021-03-24 |
| US20170314072A1 (en) | 2017-11-02 |
| US20200199668A1 (en) | 2020-06-25 |
| KR20190003660A (ko) | 2019-01-09 |
| CA3022431A1 (en) | 2017-11-02 |
| EP3449011A1 (en) | 2019-03-06 |
| CN109154024A (zh) | 2019-01-04 |
| WO2017190012A1 (en) | 2017-11-02 |
| JP6915939B2 (ja) | 2021-08-11 |
| AU2017258523A1 (en) | 2018-11-22 |
| US10584379B2 (en) | 2020-03-10 |
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Legal Events
| Date | Code | Title | Description |
|---|---|---|---|
| EEER | Examination request |
Effective date: 20181026 |
|
| W00 | Other event occurred |
Free format text: ST27 STATUS EVENT CODE: A-4-4-W10-W00-W100 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: LETTER SENT Effective date: 20250922 |