CN117098855A - 用于从扩增文库中选择性地耗尽不期望的片段的阻断寡核苷酸 - Google Patents

用于从扩增文库中选择性地耗尽不期望的片段的阻断寡核苷酸 Download PDF

Info

Publication number
CN117098855A
CN117098855A CN202280025253.7A CN202280025253A CN117098855A CN 117098855 A CN117098855 A CN 117098855A CN 202280025253 A CN202280025253 A CN 202280025253A CN 117098855 A CN117098855 A CN 117098855A
Authority
CN
China
Prior art keywords
library
blocking
rna
pcr
nucleotides
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
CN202280025253.7A
Other languages
English (en)
Chinese (zh)
Inventor
C·布朗
S·舒尔特扎贝尔格
S·M.·格罗斯
A·巴尔
S·斯诺
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.)
Illumina Inc
Original Assignee
Illumina 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
Application filed by Illumina Inc filed Critical Illumina Inc
Publication of CN117098855A publication Critical patent/CN117098855A/zh
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
    • C12Q1/6848—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
    • C12Q1/48—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
    • C12Q1/6844—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
    • 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
    • C12Q2525/113—Modifications characterised by incorporating modified backbone
    • 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
    • C12Q2525/117—Modifications characterised by incorporating modified base
    • 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
    • C12Q2531/00—Reactions of nucleic acids characterised by
    • C12Q2531/10—Reactions of nucleic acids characterised by the purpose being amplify/increase the copy number of target nucleic acid
    • C12Q2531/113—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
    • 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
    • C12Q2537/163—Reactions characterised by the reaction format or use of a specific feature the purpose or use of blocking probe

Landscapes

  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Organic Chemistry (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Molecular Biology (AREA)
  • Biochemistry (AREA)
  • Microbiology (AREA)
  • Biotechnology (AREA)
  • Biophysics (AREA)
  • Analytical Chemistry (AREA)
  • Physics & Mathematics (AREA)
  • Immunology (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)
  • Preparation Of Compounds By Using Micro-Organisms (AREA)
  • Saccharide Compounds (AREA)
CN202280025253.7A 2021-03-31 2022-03-30 用于从扩增文库中选择性地耗尽不期望的片段的阻断寡核苷酸 Pending CN117098855A (zh)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US202163169185P 2021-03-31 2021-03-31
US63/169,185 2021-03-31
PCT/US2022/022663 WO2022212589A1 (en) 2021-03-31 2022-03-30 Blocking oligonucleotides for the selective depletion of non-desirable fragments from amplified libraries

Publications (1)

Publication Number Publication Date
CN117098855A true CN117098855A (zh) 2023-11-21

Family

ID=81346581

Family Applications (1)

Application Number Title Priority Date Filing Date
CN202280025253.7A Pending CN117098855A (zh) 2021-03-31 2022-03-30 用于从扩增文库中选择性地耗尽不期望的片段的阻断寡核苷酸

Country Status (11)

Country Link
US (1) US20240191288A1 (https=)
EP (1) EP4314335A1 (https=)
JP (1) JP2024512463A (https=)
KR (1) KR20230163386A (https=)
CN (1) CN117098855A (https=)
AU (1) AU2022252302A1 (https=)
BR (1) BR112023019999A2 (https=)
CA (1) CA3213037A1 (https=)
IL (1) IL306060A (https=)
MX (1) MX2023011523A (https=)
WO (1) WO2022212589A1 (https=)

Cited By (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN120060439A (zh) * 2025-02-27 2025-05-30 江苏硕世生物科技股份有限公司 一种基于封闭引物去人源核酸的测序文库构建方法及应用

Families Citing this family (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2024137316A1 (en) * 2022-12-23 2024-06-27 Foundation Medicine, Inc. Oligonucleotides and methods for capturing single-stranded templates and/or templates with 3' overhangs
WO2024220771A1 (en) * 2023-04-21 2024-10-24 Ohio State Innovation Foundation Rapid enzyme-free release of single-stranded dna from unmodified dsdna templates
WO2025244841A1 (en) 2024-05-23 2025-11-27 Illumina, Inc. Methods and systems for quantifying targeted enrichment efficiency

Family Cites Families (14)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US4683195A (en) 1986-01-30 1987-07-28 Cetus Corporation Process for amplifying, detecting, and/or-cloning nucleic acid sequences
US4683202A (en) 1985-03-28 1987-07-28 Cetus Corporation Process for amplifying nucleic acid sequences
US5677170A (en) 1994-03-02 1997-10-14 The Johns Hopkins University In vitro transposition of artificial transposons
US5681702A (en) 1994-08-30 1997-10-28 Chiron Corporation Reduction of nonspecific hybridization by using novel base-pairing schemes
US5962271A (en) 1996-01-03 1999-10-05 Cloutech Laboratories, Inc. Methods and compositions for generating full-length cDNA having arbitrary nucleotide sequence at the 3'-end
US5849497A (en) * 1997-04-03 1998-12-15 The Research Foundation Of State University Of New York Specific inhibition of the polymerase chain reaction using a non-extendable oligonucleotide blocker
US6391592B1 (en) * 2000-12-14 2002-05-21 Affymetrix, Inc. Blocker-aided target amplification of nucleic acids
JP5073967B2 (ja) 2006-05-30 2012-11-14 株式会社日立製作所 単一細胞の遺伝子発現定量方法
CA2877094A1 (en) * 2012-06-18 2013-12-27 Nugen Technologies, Inc. Compositions and methods for negative selection of non-desired nucleic acid sequences
US20140274729A1 (en) * 2013-03-15 2014-09-18 Nugen Technologies, Inc. Methods, compositions and kits for generation of stranded rna or dna libraries
WO2017142989A1 (en) * 2016-02-17 2017-08-24 Admera Health LLC Nucleic acid preparation and analysis
CN110382708A (zh) * 2017-02-01 2019-10-25 赛卢拉研究公司 使用阻断性寡核苷酸进行选择性扩增
EP3622089B1 (en) * 2017-05-08 2024-07-17 Illumina, Inc. Method for sequencing using universal short adapters for indexing of polynucleotide samples
WO2020068559A1 (en) * 2018-09-25 2020-04-02 Qiagen Sciences, Llc Depleting unwanted rna species

Cited By (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN120060439A (zh) * 2025-02-27 2025-05-30 江苏硕世生物科技股份有限公司 一种基于封闭引物去人源核酸的测序文库构建方法及应用
CN120060439B (zh) * 2025-02-27 2026-03-10 江苏硕世生物科技股份有限公司 一种基于封闭引物去人源核酸的测序文库构建方法及应用

Also Published As

Publication number Publication date
MX2023011523A (es) 2023-10-06
BR112023019999A2 (pt) 2023-11-14
KR20230163386A (ko) 2023-11-30
WO2022212589A1 (en) 2022-10-06
EP4314335A1 (en) 2024-02-07
AU2022252302A1 (en) 2023-09-14
JP2024512463A (ja) 2024-03-19
CA3213037A1 (en) 2022-10-06
IL306060A (en) 2023-11-01
US20240191288A1 (en) 2024-06-13

Similar Documents

Publication Publication Date Title
US12071711B2 (en) Method of preparing libraries of template polynucleotides
US20240191288A1 (en) Blocking oligonucleotides for the selective depletion of non-desirable fragments from amplified libraries
US20150197789A1 (en) End modification to prevent over-representation of fragments
EP4592386A2 (en) Methods of targeted sequencing
WO2013074833A1 (en) Capture probe and assay for analysis of fragmented nucleic acids
CN109517888B (zh) 使用等位基因特异的反应性引物的核酸扩增方法
EP3927717A1 (en) Guide strand library construction and methods of use thereof
EP4347872A2 (en) Oligo-modified nucleotide analogues for nucleic acid preparation
WO2021156295A1 (en) Methods for amplification of genomic dna and preparation of sequencing libraries
AU2022407332B2 (en) A method of capturing crispr endonuclease cleavage products
HK40100621A (en) Method of preparing libraries of template polynucleotides
HK40014831A (en) Method of preparing libraries of template polynucleotides
WO2022243437A1 (en) Sample preparation with oppositely oriented guide polynucleotides
HK40014831B (en) Method of preparing libraries of template polynucleotides
HK40000246A (en) Nucleic acid amplification method using allele-specific reactive primer
EP3359686A1 (en) Targeted locus amplification using cloning strategies

Legal Events

Date Code Title Description
PB01 Publication
PB01 Publication
SE01 Entry into force of request for substantive examination
SE01 Entry into force of request for substantive examination