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SG11201908680YA - Methods and compositions for preparing nucleic acid libraries - Google Patents

Methods and compositions for preparing nucleic acid libraries

Info

Publication number
SG11201908680YA
SG11201908680YA SG11201908680YA SG11201908680YA SG 11201908680Y A SG11201908680Y A SG 11201908680YA SG 11201908680Y A SG11201908680Y A SG 11201908680YA SG 11201908680Y A SG11201908680Y A SG 11201908680YA
Authority
SG
Singapore
Prior art keywords
international
illumina
acid libraries
linkage
phosphodiester
Prior art date
Application number
Inventor
xi-jun Chen
Tarun Khurana
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 SG11201908680YA publication Critical patent/SG11201908680YA/en

Links

Classifications

    • 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
    • C12N15/1093—General methods of preparing gene libraries, not provided for in other subgroups
    • 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
    • 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
    • C40—COMBINATORIAL TECHNOLOGY
    • C40B—COMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES
    • C40B40/00—Libraries per se, e.g. arrays, mixtures
    • C40B40/04—Libraries containing only organic compounds
    • C40B40/06—Libraries containing nucleotides or polynucleotides, or derivatives thereof
    • C—CHEMISTRY; METALLURGY
    • C40—COMBINATORIAL TECHNOLOGY
    • C40B—COMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES
    • C40B50/00—Methods of creating libraries, e.g. combinatorial synthesis
    • C40B50/06—Biochemical methods, e.g. using enzymes or whole viable microorganisms
    • 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
    • C12Q2521/50—Other enzymatic activities
    • C12Q2521/501—Ligase
    • 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

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  • Life Sciences & Earth Sciences (AREA)
  • Chemical & Material Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Organic Chemistry (AREA)
  • Engineering & Computer Science (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biotechnology (AREA)
  • General Engineering & Computer Science (AREA)
  • Biochemistry (AREA)
  • Biomedical Technology (AREA)
  • Molecular Biology (AREA)
  • Microbiology (AREA)
  • Biophysics (AREA)
  • Physics & Mathematics (AREA)
  • General Health & Medical Sciences (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Plant Pathology (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Analytical Chemistry (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Medicinal Chemistry (AREA)
  • General Chemical & Material Sciences (AREA)
  • Immunology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
  • Preparation Of Compounds By Using Micro-Organisms (AREA)

Abstract

OHbp • - •1 3' 5' 5 P5 adaptor Phosphodiester linkage (S)— \\'‘` `'-J\"? zz/z//t/A OH 3 P7' 5' IP 3) 5'Phosphorylation PT Phosphodiester 64bp linkage Phosphodiester linkage 60bp 5' 4) CircLigase Ligation 5' OH ssDNA Insert 5' 3' OH: OH OH 3' G 5 P 1) 5'Dephosphonflation dsDNA Insert & Dehybridization 64bp 5' P ffeloW mw 3' 5' PT adaptor 2) CircLigase Ligation T4 Polynucleotide Phosphodiester Kinase linkage PT P5 (12) INTERNATIONAL APPLICATION PUBLISHED UNDER THE PATENT COOPERATION TREATY (PCT) (19) World Intellectual Property Organization International Bureau (43) International Publication Date 27 September 2018 (27.09.2018) WIP0 I PCT 011101 V III o Ho VII IE (10) International Publication Number WO 2018/175258 Al (51) International Patent Classification: Cl 2N 15/10 (2006.01) (21) International Application Number: PCT/US2018/022978 (22) International Filing Date: 16 March 2018 (16.03.2018) English English (81) Designated States (unless otherwise indicated, for every kind of national protection available): AE, AG, AL, AM, AO, AT, AU, AZ, BA, BB, BG, BH, BN, BR, BW, BY, BZ, CA, CH, CL, CN, CO, CR, CU, CZ, DE, DJ, DK, DM, DO, DZ, EC, EE, EG, ES, FI, GB, GD, GE, GH, GM, GT, HN, HR, HU, ID, IL, IN, IR, IS, JO, JP, KE, KG, KH, KN, KP, KR, KW, KZ, LA, LC, LK, LR, LS, LU, LY, MA, MD, ME, MG, MK, MN, MW, MX, MY, MZ, NA, NG, NI, NO, NZ, OM, PA, PE, PG, PH, PL, PT, QA, RO, RS, RU, RW, SA, SC, SD, SE, SG, SK, SL, SM, ST, SV, SY, TH, TJ, TM, TN, TR, TT, TZ, UA, UG, US, UZ, VC, VN, ZA, ZM, ZW. Designated States (unless otherwise indicated, for every kind of regional protection available): ARIPO (BW, GH, GM, KE, LR, LS, MW, MZ, NA, RW, SD, SL, ST, SZ, TZ, UG, ZM, ZW), Eurasian (AM, AZ, BY, KG, KZ, RU, TJ, TM), European (AL, AT, BE, BG, CH, CY, CZ, DE, DK, EE, ES, FI, FR, GB, GR, HR, HU, IE, IS, IT, LT, LU, LV, MC, MK, MT, NL, NO, PL, PT, RO, RS, SE, SI, SK, SM, TR), OAPI (BF, BJ, CF, CG, CI, CM, GA, GN, GQ, GW, KM, ML, MR, NE, SN, TD, TG). (25) Filing Language: (26) Publication Language: (30) Priority Data: 62/473,595 20 March 2017 (20.03.2017) US (84) (71) Applicant: ILLUMINA, INC. [US/US]; 5200 Illumina Way, San Diego, CA 92122 (US). (72) Inventors: CHEN, Xi-Jun; C/o Illumina, Inc., 5200 Il- lumina Way, San Diego, CA 92122 (US). KHURANA, Tarun; C/o Illumina, Inc., 5200 Illumina Way, San Diego, CA 92122 (US). (74) Agent: FULLER, Michael, L.; Knobbe Martens Olson & Bear LLP, 2040 Main Street, Fourteenth Floor, Irvine, CA 92614 (US). (54) Title: METHODS AND COMPOSITIONS FOR PREPARING NUCLELIC ACID LIBRARIES GC 5'-P5-ssDNA insert-P7 3' N FIG. 1 1-1 © (57) : Systems, methods and compositions provided herein relate to the preparation of nucleic acid libraries. Some embodi- O ments include the preparation of nucleic acid libraries by ligation of single-stranded nucleic acids. [Continued on next page] WO 2018/175258 Al MIDEDIM011111 1111E111 IIE3010M11111111101111111111111111111 Published: with international search report (Art. 21(3)) before the expiration of the time limit for amending the claims and to be republished in the event of receipt of amendments (Rule 48.2(h)) with sequence listing part of description (Rule 5.2(a))
SG11201908680Y 2017-03-20 2018-03-16 Methods and compositions for preparing nucleic acid libraries SG11201908680YA (en)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US201762473595P 2017-03-20 2017-03-20
PCT/US2018/022978 WO2018175258A1 (en) 2017-03-20 2018-03-16 Methods and compositions for preparing nuclelic acid libraries

Publications (1)

Publication Number Publication Date
SG11201908680YA true SG11201908680YA (en) 2019-10-30

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SG10202109852W SG10202109852WA (en) 2017-03-20 2018-03-16 Methods and compositions for preparing nucleic acid libraries

Family Applications After (1)

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Country Status (9)

Country Link
US (2) US11518993B2 (en)
EP (1) EP3601560A1 (en)
JP (3) JP7062681B2 (en)
KR (2) KR102718574B1 (en)
CN (2) CN110612351B (en)
AU (2) AU2018239186B2 (en)
CA (1) CA3056428A1 (en)
SG (2) SG11201908680YA (en)
WO (1) WO2018175258A1 (en)

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Also Published As

Publication number Publication date
EP3601560A1 (en) 2020-02-05
JP7741857B2 (en) 2025-09-18
WO2018175258A1 (en) 2018-09-27
AU2024227579A1 (en) 2024-11-14
KR20230101930A (en) 2023-07-06
US20200115707A1 (en) 2020-04-16
CN110612351A (en) 2019-12-24
CA3056428A1 (en) 2018-09-27
JP2022106809A (en) 2022-07-20
US11518993B2 (en) 2022-12-06
JP7392028B2 (en) 2023-12-05
WO2018175258A8 (en) 2019-10-10
JP2024009211A (en) 2024-01-19
SG10202109852WA (en) 2021-10-28
JP7062681B2 (en) 2022-05-06
US20240141332A1 (en) 2024-05-02
CN110612351B (en) 2023-08-11
RU2019129451A (en) 2021-04-21
JP2020509778A (en) 2020-04-02
AU2018239186B2 (en) 2024-07-25
KR102548274B1 (en) 2023-06-27
KR20190130146A (en) 2019-11-21
AU2018239186A1 (en) 2019-10-17
CN116926061A (en) 2023-10-24
RU2019129451A3 (en) 2021-09-24
KR102718574B1 (en) 2024-10-16

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