WO2012083072A3 - LIGATION METHOD EMPLOYING EUKARYOTIC tRNA LIGASE - Google Patents

LIGATION METHOD EMPLOYING EUKARYOTIC tRNA LIGASE Download PDF

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Publication number
WO2012083072A3
WO2012083072A3 PCT/US2011/065268 US2011065268W WO2012083072A3 WO 2012083072 A3 WO2012083072 A3 WO 2012083072A3 US 2011065268 W US2011065268 W US 2011065268W WO 2012083072 A3 WO2012083072 A3 WO 2012083072A3
Authority
WO
WIPO (PCT)
Prior art keywords
group
rna
trna ligase
method employing
eukaryotic trna
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.)
Ceased
Application number
PCT/US2011/065268
Other languages
French (fr)
Other versions
WO2012083072A2 (en
Inventor
Gusti Zeiner
Robert A. Ach
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.)
Agilent Technologies Inc
Original Assignee
Agilent Technologies 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 Agilent Technologies Inc filed Critical Agilent Technologies Inc
Priority to EP11849675.1A priority Critical patent/EP2652133B1/en
Priority to CN201180060308.XA priority patent/CN103261416B/en
Publication of WO2012083072A2 publication Critical patent/WO2012083072A2/en
Publication of WO2012083072A3 publication Critical patent/WO2012083072A3/en
Anticipated expiration legal-status Critical
Ceased legal-status Critical Current

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Classifications

    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12P—FERMENTATION OR ENZYME-USING PROCESSES TO SYNTHESISE A DESIRED CHEMICAL COMPOUND OR COMPOSITION OR TO SEPARATE OPTICAL ISOMERS FROM A RACEMIC MIXTURE
    • C12P19/00—Preparation of compounds containing saccharide radicals
    • C12P19/26—Preparation of nitrogen-containing carbohydrates
    • C12P19/28—N-glycosides
    • C12P19/30—Nucleotides
    • C12P19/34—Polynucleotides, e.g. nucleic acids, oligoribonucleotides
    • 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
    • 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
    • C12N15/1096—Processes for the isolation, preparation or purification of DNA or RNA cDNA Synthesis; Subtracted cDNA library construction, e.g. RT, RT-PCR

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  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Chemical & Material Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Engineering & Computer Science (AREA)
  • Organic Chemistry (AREA)
  • Wood Science & Technology (AREA)
  • Zoology (AREA)
  • General Engineering & Computer Science (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biotechnology (AREA)
  • Molecular Biology (AREA)
  • Biomedical Technology (AREA)
  • General Health & Medical Sciences (AREA)
  • Microbiology (AREA)
  • Biochemistry (AREA)
  • Plant Pathology (AREA)
  • Biophysics (AREA)
  • Physics & Mathematics (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • General Chemical & Material Sciences (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)

Abstract

Provided herein is a method of preparing an RNA sample comprising: a) obtaining an RNA sample comprising: i. long RNA molecules that may be unfragmented or fragmented to contain 5'-OH group and a 2'-3'-cyclic phosphate group; and ii. short RNA molecules that comprise a 5' phosphate group and a 3' OH group; and b) contacting the RNA sample with an adaptor comprising either a 2'-PO group and 3'-OH group or a 2',3'-cyclic phosphate group in the presence of a eukaryotic tRNA ligase, thereby producing a ligated RNA sample in which a) the short RNA molecules are selectively ligated to the adaptor or b) the short RNA molecules and long RNA fragments are selectively ligated to the adaptor.
PCT/US2011/065268 2010-12-16 2011-12-15 LIGATION METHOD EMPLOYING EUKARYOTIC tRNA LIGASE Ceased WO2012083072A2 (en)

Priority Applications (2)

Application Number Priority Date Filing Date Title
EP11849675.1A EP2652133B1 (en) 2010-12-16 2011-12-15 LIGATION METHOD EMPLOYING EUKARYOTIC tRNA LIGASE
CN201180060308.XA CN103261416B (en) 2010-12-16 2011-12-15 Ligation method using eukaryotic tRNA ligase

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US42400810P 2010-12-16 2010-12-16
US61/424,008 2010-12-16

Publications (2)

Publication Number Publication Date
WO2012083072A2 WO2012083072A2 (en) 2012-06-21
WO2012083072A3 true WO2012083072A3 (en) 2013-01-10

Family

ID=46234891

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2011/065268 Ceased WO2012083072A2 (en) 2010-12-16 2011-12-15 LIGATION METHOD EMPLOYING EUKARYOTIC tRNA LIGASE

Country Status (4)

Country Link
US (1) US8927245B2 (en)
EP (1) EP2652133B1 (en)
CN (1) CN103261416B (en)
WO (1) WO2012083072A2 (en)

Families Citing this family (7)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
DK2914741T3 (en) 2012-11-02 2017-11-20 Life Technologies Corp New Compositions and Methods for Improving PCR Specificity
CN104328112B (en) * 2014-10-31 2017-12-01 江汉大学 A kind of method of the endogenous circular rna of quantitative detection for non-disease diagnostic purpose
EP3967768A1 (en) 2015-03-13 2022-03-16 Life Technologies Corporation Compositions for small rna capture, detection and quantification
US10787703B1 (en) * 2016-01-08 2020-09-29 Georgia Tech Research Corporation Methods to detect ribonucleotides in deoxyribonucleic acid
CN106801050B (en) * 2017-02-20 2020-01-14 广州永诺生物科技有限公司 Construction method of circular RNA high-throughput sequencing library and kit thereof
US11493585B2 (en) 2018-06-29 2022-11-08 Canon Medical Systems Corporation Medical information processing apparatus and medical information processing method
IT201900015914A1 (en) * 2019-09-09 2021-03-09 Immagina Biotechnology S R L PROCEDURE TO PREPARE AN RNA SAMPLE FOR SEQUENCING AND RELATED KIT

Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20100167954A1 (en) * 2006-07-31 2010-07-01 Solexa Limited Method of library preparation avoiding the formation of adaptor dimers

Family Cites Families (9)

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Publication number Priority date Publication date Assignee Title
US5948902A (en) 1997-11-20 1999-09-07 South Alabama Medical Science Foundation Antisense oligonucleotides to human serine/threonine protein phosphatase genes
EP1090293B2 (en) 1998-06-24 2019-01-23 Illumina, Inc. Decoding of array sensors with microspheres
US6355431B1 (en) 1999-04-20 2002-03-12 Illumina, Inc. Detection of nucleic acid amplification reactions using bead arrays
US6242266B1 (en) 1999-04-30 2001-06-05 Agilent Technologies Inc. Preparation of biopolymer arrays
US20040203138A1 (en) 1999-04-30 2004-10-14 Caren Michael P. Polynucleotide array fabrication
US6323043B1 (en) 1999-04-30 2001-11-27 Agilent Technologies, Inc. Fabricating biopolymer arrays
US6180351B1 (en) 1999-07-22 2001-01-30 Agilent Technologies Inc. Chemical array fabrication with identifier
US6232072B1 (en) 1999-10-15 2001-05-15 Agilent Technologies, Inc. Biopolymer array inspection
US6171797B1 (en) 1999-10-20 2001-01-09 Agilent Technologies Inc. Methods of making polymeric arrays

Patent Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20100167954A1 (en) * 2006-07-31 2010-07-01 Solexa Limited Method of library preparation avoiding the formation of adaptor dimers

Non-Patent Citations (5)

* Cited by examiner, † Cited by third party
Title
APOSTOL, B. L. ET AL.: "Deletion analysis of a multifunctional yeast tRNA ligase polypeptide. Identification of essential and dispensable functional domains", JOURNAL OF BIOLOGICAL CHEMISTRY, vol. 266, no. 12, 25 April 1991 (1991-04-25), pages 7445 - 7455, XP055126615 *
ENGLERT, M. ET AL.: "Plant tRNA ligases are multifunctional enzymes that have diverged in sequence and substrate specificity from RNA ligases of other phylogenetic origins", NUCLEIC ACIDS RESEARCH, vol. 33, no. 1, 14 January 2005 (2005-01-14), pages 388 - 399, XP055126607 *
HO, T. ET AL.: "A simplified method for cloning of short interfering RNAs from Brassica juncea infected with Turnip mosaic potyvirus and Turnip crinkle carmovirus", JOURNAL OF VIROLOGICAL METHODS., vol. 136, no. 1-2, 3 July 2006 (2006-07-03), pages 217 - 223, XP027892378 *
LU, C. ET AL.: "Construction of small RNA cDNA libraries for deep sequencing", METHODS., vol. 43, no. 2, October 2007 (2007-10-01), pages 110 - 117, XP022262088 *
SAUNDERS, R. D. ET AL.: "PCR amplification of DNA microdissected from a single polytene chromosome band: a comparison with conventional microcloning", NUCLEIC ACIDS RESEARCH, vol. 17, no. 22, 25 November 1989 (1989-11-25), pages 9027 - 9037, XP000770982 *

Also Published As

Publication number Publication date
US20120156730A1 (en) 2012-06-21
EP2652133A2 (en) 2013-10-23
US8927245B2 (en) 2015-01-06
CN103261416B (en) 2016-08-10
CN103261416A (en) 2013-08-21
WO2012083072A2 (en) 2012-06-21
EP2652133B1 (en) 2023-05-10
EP2652133A4 (en) 2017-04-26

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