RU2721965C2 - Обнаружение изменений конформации полимеразы нуклеиновых кислот с помощью нанотрубки - Google Patents

Обнаружение изменений конформации полимеразы нуклеиновых кислот с помощью нанотрубки Download PDF

Info

Publication number
RU2721965C2
RU2721965C2 RU2017125417A RU2017125417A RU2721965C2 RU 2721965 C2 RU2721965 C2 RU 2721965C2 RU 2017125417 A RU2017125417 A RU 2017125417A RU 2017125417 A RU2017125417 A RU 2017125417A RU 2721965 C2 RU2721965 C2 RU 2721965C2
Authority
RU
Russia
Prior art keywords
thio
nucleic acid
nucleotide
molecule
dntp
Prior art date
Application number
RU2017125417A
Other languages
English (en)
Russian (ru)
Other versions
RU2017125417A (ru
RU2017125417A3 (enExample
Inventor
Филип Г. КОЛЛИНЗ
Грегори А. ВАЙСС
Йонгки ЧОЙ
Тиволи ОЛСЕН
Original Assignee
Дзе Риджентс Оф Дзе Юниверсити Оф Калифорния
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 Дзе Риджентс Оф Дзе Юниверсити Оф Калифорния filed Critical Дзе Риджентс Оф Дзе Юниверсити Оф Калифорния
Publication of RU2017125417A publication Critical patent/RU2017125417A/ru
Publication of RU2017125417A3 publication Critical patent/RU2017125417A3/ru
Application granted granted Critical
Publication of RU2721965C2 publication Critical patent/RU2721965C2/ru

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
    • C12Q1/48—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving transferase
    • 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
    • C12Q1/48—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving transferase
    • C12Q1/485—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving transferase involving kinase
    • 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
    • C12Y—ENZYMES
    • C12Y207/00—Transferases transferring phosphorus-containing groups (2.7)
    • C12Y207/07—Nucleotidyltransferases (2.7.7)
    • C12Y207/07007—DNA-directed DNA polymerase (2.7.7.7), i.e. DNA replicase
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N27/00—Investigating or analysing materials by the use of electric, electrochemical, or magnetic means
    • G01N27/26—Investigating or analysing materials by the use of electric, electrochemical, or magnetic means by investigating electrochemical variables; by using electrolysis or electrophoresis
    • G01N27/403—Cells and electrode assemblies
    • G01N27/414—Ion-sensitive or chemical field-effect transistors, i.e. ISFETS or CHEMFETS
    • G01N27/4146—Ion-sensitive or chemical field-effect transistors, i.e. ISFETS or CHEMFETS involving nanosized elements, e.g. nanotubes, nanowires
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/483—Physical analysis of biological material
    • G01N33/487—Physical analysis of biological material of liquid biological material
    • G01N33/48707—Physical analysis of biological material of liquid biological material by electrical means
    • G01N33/48721—Investigating individual macromolecules, e.g. by translocation through nanopores
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N2333/00—Assays involving biological materials from specific organisms or of a specific nature
    • G01N2333/90—Enzymes; Proenzymes
    • G01N2333/91—Transferases (2.)
    • G01N2333/912—Transferases (2.) transferring phosphorus containing groups, e.g. kinases (2.7)
    • G01N2333/91205—Phosphotransferases in general
    • G01N2333/91245—Nucleotidyltransferases (2.7.7)
    • G01N2333/9125—Nucleotidyltransferases (2.7.7) with a definite EC number (2.7.7.-)
    • G01N2333/9126—DNA-directed DNA polymerase (2.7.7.7)

Landscapes

  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Organic Chemistry (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Molecular Biology (AREA)
  • Biochemistry (AREA)
  • General Health & Medical Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Analytical Chemistry (AREA)
  • Immunology (AREA)
  • Genetics & Genomics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • Biophysics (AREA)
  • Biotechnology (AREA)
  • Microbiology (AREA)
  • Nanotechnology (AREA)
  • General Physics & Mathematics (AREA)
  • Pathology (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Microelectronics & Electronic Packaging (AREA)
  • Electrochemistry (AREA)
  • Biomedical Technology (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Hematology (AREA)
  • Urology & Nephrology (AREA)
  • Food Science & Technology (AREA)
  • Medicinal Chemistry (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
RU2017125417A 2014-12-18 2015-12-17 Обнаружение изменений конформации полимеразы нуклеиновых кислот с помощью нанотрубки RU2721965C2 (ru)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US201462093671P 2014-12-18 2014-12-18
US62/093,671 2014-12-18
PCT/US2015/066321 WO2016100635A1 (en) 2014-12-18 2015-12-17 Detection of nucleic acid polymerase conformational changes using a nanotube

Publications (3)

Publication Number Publication Date
RU2017125417A RU2017125417A (ru) 2019-01-23
RU2017125417A3 RU2017125417A3 (enExample) 2019-05-27
RU2721965C2 true RU2721965C2 (ru) 2020-05-25

Family

ID=56127582

Family Applications (1)

Application Number Title Priority Date Filing Date
RU2017125417A RU2721965C2 (ru) 2014-12-18 2015-12-17 Обнаружение изменений конформации полимеразы нуклеиновых кислот с помощью нанотрубки

Country Status (10)

Country Link
US (1) US20180051316A1 (enExample)
EP (1) EP3234178A4 (enExample)
JP (1) JP2018500905A (enExample)
KR (1) KR20170091158A (enExample)
CN (2) CN107109466A (enExample)
AU (1) AU2015364602B2 (enExample)
CA (1) CA2971268A1 (enExample)
RU (1) RU2721965C2 (enExample)
SG (1) SG11201704862UA (enExample)
WO (2) WO2016100635A1 (enExample)

Families Citing this family (53)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN113985017A (zh) 2016-01-14 2022-01-28 罗斯韦尔生物技术股份有限公司 分子传感器及相关方法
EP3408219B1 (en) 2016-01-28 2022-08-17 Roswell Biotechnologies, Inc Massively parallel dna sequencing apparatus
JP7280590B2 (ja) 2016-01-28 2023-05-24 ロズウェル バイオテクノロジーズ，インコーポレイテッド 大スケールの分子電子工学センサアレイを使用する被分析物を測定するための方法および装置
KR20240170584A (ko) 2016-02-09 2024-12-03 로스웰 엠이 아이엔씨. 전자 비표지 dna 및 게놈 시퀀싱
US10597767B2 (en) 2016-02-22 2020-03-24 Roswell Biotechnologies, Inc. Nanoparticle fabrication
US9829456B1 (en) 2016-07-26 2017-11-28 Roswell Biotechnologies, Inc. Method of making a multi-electrode structure usable in molecular sensing devices
CN106244712B (zh) * 2016-08-31 2019-11-19 北京大学 Dna测序方法
EP3545076A4 (en) * 2016-11-22 2020-07-29 Roswell Biotechnologies, Inc NUCLEIC ACID SEQUENCING DEVICE CONTAINING GRAPHEN
KR102622275B1 (ko) 2017-01-10 2024-01-05 로스웰 바이오테크놀로지스 인코포레이티드 Dna 데이터 저장을 위한 방법들 및 시스템들
CA3052140A1 (en) 2017-01-19 2018-07-26 Roswell Biotechnologies, Inc. Solid state sequencing devices comprising two dimensional layer materials
EP3615685B1 (en) 2017-04-25 2025-02-19 Roswell Biotechnologies, Inc Enzymatic circuits for molecular sensors
US10508296B2 (en) 2017-04-25 2019-12-17 Roswell Biotechnologies, Inc. Enzymatic circuits for molecular sensors
EP4023764A3 (en) * 2017-05-09 2022-09-21 Roswell Biotechnologies, Inc. Binding probe circuits for molecular sensors
CN111373049A (zh) 2017-08-30 2020-07-03 罗斯威尔生命技术公司 用于dna数据存储的进行性酶分子电子传感器
EP3682020B1 (en) * 2017-09-15 2025-09-03 Illumina, Inc. Sequence-detection system
US11976322B2 (en) * 2017-09-15 2024-05-07 Illumina, Inc. Tuning and calibration features of sequence-detection system
CN111373051A (zh) 2017-10-10 2020-07-03 罗斯威尔生命技术公司 用于无扩增dna数据存储的方法、装置和系统
IL273875B2 (en) * 2017-10-13 2025-07-01 Dicerna Pharmaceuticals Inc Methods and compositions for inhibiting expression of ldha
IL278769B2 (en) * 2018-05-17 2025-06-01 Stuart Lindsay Device, system and method for direct electrical measurement of enzyme activity
WO2020101795A1 (en) 2018-11-15 2020-05-22 Omniome, Inc. Electronic detection of nucleic acid structure
CN211311438U (zh) 2018-12-04 2020-08-21 欧姆尼欧美公司 流动池
AU2020214334A1 (en) 2019-01-30 2021-08-12 Arizona Board Of Regents On Behalf Of Arizona State University Bioelectronic circuits, systems and methods for preparing and using them
WO2020167574A1 (en) 2019-02-14 2020-08-20 Omniome, Inc. Mitigating adverse impacts of detection systems on nucleic acids and other biological analytes
US20220145377A1 (en) * 2019-03-01 2022-05-12 Universal Sequencing Technology Corporation Device and Method for Biopolymer Identification
CN114555832A (zh) * 2019-05-27 2022-05-27 通用测序技术公司 鉴定核酸序列中组分的方法
TW202124406A (zh) 2019-09-10 2021-07-01 美商歐姆尼歐美公司 核苷酸之可逆修飾
DE202019106694U1 (de) 2019-12-02 2020-03-19 Omniome, Inc. System zur Sequenzierung von Nukleinsäuren in Fluidschaum
WO2021158511A1 (en) 2020-02-04 2021-08-12 Omniome, Inc. Flow cells and methods for their manufacture and use
CN115380120A (zh) * 2020-02-28 2022-11-22 代表亚利桑那大学的亚利桑那校董事会 用于对生物聚合物进行测序的方法
CN115552030A (zh) 2020-04-17 2022-12-30 代表亚利桑那大学的亚利桑那校董事会 单分子电子序列检测器及其使用方法
AU2021263432A1 (en) 2020-04-30 2022-12-01 Arizona Board Of Regents On Behalf Of Arizona State University Methods for sequencing biopolymers
US12276653B2 (en) 2020-05-29 2025-04-15 Arizona Board Of Regents On Behalf Of Arizona State University Bioelectronic devices with programmable adaptors
AU2021288692A1 (en) 2020-06-11 2023-02-02 Nautilus Subsidiary, Inc. Methods and systems for computational decoding of biological, chemical, and physical entities
KR20230118570A (ko) 2020-11-11 2023-08-11 노틸러스 서브시디어리, 인크. 강화된 결합 및 검출 특성을 갖는 친화성 시약
EP4281775B1 (en) 2021-01-21 2026-04-29 Nautilus Subsidiary, Inc. Systems and methods for biomolecule preparation
IL305336B2 (en) 2021-03-11 2025-09-01 Nautilus Subsidiary Inc Systems and methods for preserving biomolecules
US12624389B2 (en) 2021-06-07 2026-05-12 Arizona Board Of Regents On Behalf Of Arizona State University Methods for sequencing biopolymers
CA3227872A1 (en) 2021-09-09 2023-03-16 James Henry JOLY Characterization and localization of protein modifications
JP2024537689A (ja) 2021-09-22 2024-10-16 ノーティラス・サブシディアリー・インコーポレイテッド ポリペプチド相互作用を決定するための方法及びシステム
WO2023081728A1 (en) 2021-11-03 2023-05-11 Nautilus Biotechnology, Inc. Systems and methods for surface structuring
US12092578B2 (en) 2022-03-29 2024-09-17 Nautilus Subsidiary, Inc. Integrated arrays for single-analyte processes
CN117174183B (zh) * 2022-05-27 2025-11-25 中国科学院大连化学物理研究所 基于多尺度分子动力学模拟的rna结构预测方法
EP4544077A1 (en) 2022-06-21 2025-04-30 Nautilus Subsidiary, Inc. Method for detecting analytes at sites of optically non-resolvable distances
WO2024073599A1 (en) 2022-09-29 2024-04-04 Nautilus Subsidiary, Inc. Preparation of array surfaces for single-analyte processes
US20240192202A1 (en) 2022-12-09 2024-06-13 Nautilus Subsidiary, Inc. Fluidic media for single-analtye arrays
WO2024130000A1 (en) 2022-12-15 2024-06-20 Nautilus Subsidiary, Inc. Inhibition of photon phenomena on single molecule arrays
EP4689173A1 (en) 2023-03-24 2026-02-11 Nautilus Subsidiary, Inc. Improved transfer of nanoparticles to array surfaces
EP4720641A1 (en) 2023-05-24 2026-04-08 Nautilus Subsidiary, Inc. Systems and methods for machine vision
US20250066841A1 (en) 2023-08-24 2025-02-27 Nautilus Subsidiary, Inc. Compositions and methods for detecting binding interactions under equilibrium or non-equilibrium conditions
WO2025128588A1 (en) 2023-12-11 2025-06-19 Nautilus Subsidiary, Inc. Methods and compositions of particle-based arrays
US20250205706A1 (en) 2023-12-20 2025-06-26 Nautilus Subsidiary, Inc. Fluidic devices for single-analyte assays
WO2025199236A1 (en) 2024-03-22 2025-09-25 Nautilus Subsidiary, Inc. Plasmonic particle systems for single-analyte assays
US20250305034A1 (en) 2024-04-01 2025-10-02 Nautilus Subsidiary, Inc. Nanostructures for modulation of analyte conformation

Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20110160077A1 (en) * 2009-12-16 2011-06-30 Pacific Biosciences Of California, Inc. Sequencing methods using enzyme conformation
US20110287432A1 (en) * 2010-05-21 2011-11-24 454 Life Science Corporation System and method for tailoring nucleotide concentration to enzymatic efficiencies in dna sequencing technologies
US20130078622A1 (en) * 2011-09-26 2013-03-28 The Regents Of The University Of California Electronic device for monitoring single molecule dynamics
US20130165328A1 (en) * 2011-12-21 2013-06-27 Illumina, Inc. Apparatus and methods for kinetic analysis and determination of nucleic acid sequences

Family Cites Families (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2011151414A2 (en) * 2010-06-03 2011-12-08 Element Six Limited Diamond tools
EP2663862A4 (en) * 2011-01-11 2015-01-21 Univ Columbia SYSTEMS AND METHOD FOR SINGLE-MOLECULAR DETECTION USING NANOTUBES
EP2885313A4 (en) * 2012-08-20 2016-03-09 Univ California POLYNUCLEOTIDES WITH BIOREVERSIBLE GROUPS

Patent Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20110160077A1 (en) * 2009-12-16 2011-06-30 Pacific Biosciences Of California, Inc. Sequencing methods using enzyme conformation
US20110287432A1 (en) * 2010-05-21 2011-11-24 454 Life Science Corporation System and method for tailoring nucleotide concentration to enzymatic efficiencies in dna sequencing technologies
US20130078622A1 (en) * 2011-09-26 2013-03-28 The Regents Of The University Of California Electronic device for monitoring single molecule dynamics
US20130165328A1 (en) * 2011-12-21 2013-06-27 Illumina, Inc. Apparatus and methods for kinetic analysis and determination of nucleic acid sequences

Non-Patent Citations (1)

* Cited by examiner, † Cited by third party
Title
СУХОДОЛОВ Н.Г. и др., Новые материалы, полученные методом Ленгмюра-Блоджетт, и их применение в нанотехнологии и приборостроении (ч.1 гибридные материалы) // Научное приборостроение, т.23, n.1., 2013, стр.86-105. *

Also Published As

Publication number Publication date
KR20170091158A (ko) 2017-08-08
EP3234178A1 (en) 2017-10-25
WO2016100637A1 (en) 2016-06-23
WO2016100635A1 (en) 2016-06-23
AU2015364602B2 (en) 2021-12-09
SG11201704862UA (en) 2017-07-28
AU2015364602A1 (en) 2017-07-06
RU2017125417A (ru) 2019-01-23
JP2018500905A (ja) 2018-01-18
US20180051316A1 (en) 2018-02-22
CN107109466A (zh) 2017-08-29
RU2017125417A3 (enExample) 2019-05-27
EP3234178A4 (en) 2018-07-11
CA2971268A1 (en) 2016-06-23
CN109517878A (zh) 2019-03-26

Similar Documents

Publication Publication Date Title
AU2015364602B2 (en) Detection of nucleic acid polymerase conformational changes using a nanotube
US12139749B2 (en) Charge perturbation detection system for DNA and other molecules
US20250251359A1 (en) Active-electrode integrated biosensor array and methods for use thereof
CN109891233B (zh) 用于生物分子的测量和测序的系统和方法
JP6456816B2 (ja) ナノ細孔の調製方法およびその使用
AU2014354726B2 (en) Compositions and methods for polynucleotide sequencing
CN112480218A (zh) 用于装配具有多个亚基的蛋白的方法
CN106715453A (zh) 用于生产带标签的核苷酸的化学方法
US20180030506A1 (en) Method for Constructing Nucleic Acid Molecule
US20180044725A1 (en) Polynucleotide binding protein sequencing
US20250236865A1 (en) Methods for capturing library dna for sequencing
CN111836904A (zh) 用于单向核酸测序的组合物和方法
US20240011086A1 (en) Electronic detection of nucleic acid structure
HK40005350A (en) Detection of nucleic acid polymerase conformational changes using a nanotube
RU2780050C1 (ru) Способ безметочного одномолекулярного секвенирования днк и устройство для его реализации на основе зарядочувствительного сенсора
JP2009005631A (ja) 標的核酸の塩基配列を解析するための解析素子、解析装置、及び解析方法
HK1243080A1 (en) Method of preparation of nanopore and uses thereof
Ling The potential and challenges of nanopore sequencing