Title:
METHOD FOR DETECTING DIFFERENCE IN REFERENCE SEQUENCE IN TARGET NUCLEIC ACID REGION
Document Type and Number:
WIPO Patent Application WO/2019/203350
Kind Code:
A1
Abstract:
Provided is a method for detecting differences in a reference sequence in a target nucleic acid region, said method characterized by: comprising a step for adding a single-stranded nucleic acid containing 10-200 bases that hybridize with a reference sequence in a target nucleic acid region to a reaction system and performing the reaction in a template-dependent nucleic acid amplification reaction that amplifies a range containing the reference sequence and uses a nucleic acid containing the target nucleic acid region as a template, and a step in which the amplification product is verified; the single-stranded nucleic acid being an RNA or a chimera of RNA and an other nucleic acid containing a complementary sequence to the reference sequence; and the complementation ratio of the single-stranded nucleic acid to the reference sequence being higher than the complementation ratio to other sequences than the reference sequence, said other sequences having differences to the reference sequence.
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Inventors:
FUJII HODAKA (JP)
FUJITA TOSHITSUGU (JP)
FUJITA TOSHITSUGU (JP)
Application Number:
PCT/JP2019/016843
Publication Date:
October 24, 2019
Filing Date:
April 19, 2019
Export Citation:
Assignee:
EPIGENERON INC (JP)
International Classes:
C12Q1/6848; C12Q1/686; C12N15/09
Domestic Patent References:
| WO2000028082A1 | 2000-05-18 | |||
| WO2002016639A1 | 2002-02-28 |
Foreign References:
| JP2016049107A | 2016-04-11 | |||
| JP2016049107A | 2016-04-11 | |||
| JP2650159B2 | 1997-09-03 | |||
| JPH07114718B2 | 1995-12-13 |
Other References:
TANIGAWA, NAOKI ET AL.: "Oligoribonucleotide (ORN) interference-PCR(ORNi-PCR):a simple method for suppressing PCR amplification of specific DNA sequences using ORNs", PLOS ONE, vol. 9, no. 11, 2014, pages 1 - 10, XP055643261
FUJITA, TOSHITSUGU ET AL.: "Detection of genome-edited cells by oligoribonucleotide interference- PCR", DNA RES., vol. 25, no. 4, 27 April 2018 (2018-04-27), pages 395 - 407, XP055643264
FUJITA, TOSHITSUGU ET AL.: "A refined two-step oligoribonucleotide interference-PCR method for precise discrimination of nucleotide differences", SCI. REP., vol. 8, no. 17195, 21 November 2018 (2018-11-21), pages 1 - 16, XP055643268
TOSHIJI FUJITA, HOTAKA FUJII : "2P-0691 Detection of genome-edited cells using ORNi-PCR", 41ST ANNUAL MEETING OF THE MOLECULAR BIOLOGY SOCIETY OF JAPAN; NOVEMBER 28-30, 2018, vol. 41, 9 November 2018 (2018-11-09) - 30 November 2018 (2018-11-30), JP, pages 1 - 2, XP009524445
SHENDURE, NATURE BIOTECHNOLOGY, vol. 30, 2012, pages 1084 - 1094
HARAYAMA, PLOS ONE, vol. 12, no. 6, 2017, pages e0179165
YU, PLOS ONE, vol. 9, no. 6, 2014, pages e98282
HUA, J. GENET. GENOMICS, vol. 44, no. 4, 2017, pages 207 - 213
YOUNG, NUCLEIC ACIDS RES., vol. 43, no. 11, 2015, pages 5560 - 5571
MIYAOKA, NAT. METHODS, vol. 11, no. 3, 2014, pages 291 - 293
FINDLAY, PLOS ONE, vol. 11, no. 4, 2016, pages e0153901
ZHU, SCIENTIFIC REPORTS, vol. 4, 2014, pages 6420
DAHLEM, PLOS GENET., vol. 8, no. 8, 2012, pages e1002861
RAMLEE, SCI, REP., vol. 5, 2015, pages 15587
WHITE, T.J. ET AL.: "Polymerase Chain Reaction (PCR", TRENDS GENET., vol. 5, 1989, pages 185
JAMES W. LARRICK: "Reverse Transcriptase-Polymerase Chain Reaction (RT-PCR", TRENDS IN BIOTECHNOLOGY, vol. 10, 1992, pages 146 - 152
BARANY, F.: "Ligase Chain Reaction (LCR", PROC. NATL. ACAD. SCI. USA, vol. 88, 1991, pages 189 - 193
NAKAGUCHI Y. ET AL.: "Transcription-Reverse Transcription-Concerted method (TRC method", J. CLIN. MICROBIOL., vol. 42, 2004, pages 4248 - 4292
SARRAZIN C. ET AL.: "Transcription-Mediated-Amplification (TMA", J. CLIN. MICROBIOL., vol. 39, 2001, pages 2850 - 2855
PIEPENBURG, O. ET AL.: "Recombinase Polymerase Amplification (RPA", PLOS BIOL., vol. 4, 2006, pages e204
See also references of EP 3789504A4
FUJITA, TOSHITSUGU ET AL.: "Detection of genome-edited cells by oligoribonucleotide interference- PCR", DNA RES., vol. 25, no. 4, 27 April 2018 (2018-04-27), pages 395 - 407, XP055643264
FUJITA, TOSHITSUGU ET AL.: "A refined two-step oligoribonucleotide interference-PCR method for precise discrimination of nucleotide differences", SCI. REP., vol. 8, no. 17195, 21 November 2018 (2018-11-21), pages 1 - 16, XP055643268
TOSHIJI FUJITA, HOTAKA FUJII : "2P-0691 Detection of genome-edited cells using ORNi-PCR", 41ST ANNUAL MEETING OF THE MOLECULAR BIOLOGY SOCIETY OF JAPAN; NOVEMBER 28-30, 2018, vol. 41, 9 November 2018 (2018-11-09) - 30 November 2018 (2018-11-30), JP, pages 1 - 2, XP009524445
SHENDURE, NATURE BIOTECHNOLOGY, vol. 30, 2012, pages 1084 - 1094
HARAYAMA, PLOS ONE, vol. 12, no. 6, 2017, pages e0179165
YU, PLOS ONE, vol. 9, no. 6, 2014, pages e98282
HUA, J. GENET. GENOMICS, vol. 44, no. 4, 2017, pages 207 - 213
YOUNG, NUCLEIC ACIDS RES., vol. 43, no. 11, 2015, pages 5560 - 5571
MIYAOKA, NAT. METHODS, vol. 11, no. 3, 2014, pages 291 - 293
FINDLAY, PLOS ONE, vol. 11, no. 4, 2016, pages e0153901
ZHU, SCIENTIFIC REPORTS, vol. 4, 2014, pages 6420
DAHLEM, PLOS GENET., vol. 8, no. 8, 2012, pages e1002861
RAMLEE, SCI, REP., vol. 5, 2015, pages 15587
WHITE, T.J. ET AL.: "Polymerase Chain Reaction (PCR", TRENDS GENET., vol. 5, 1989, pages 185
JAMES W. LARRICK: "Reverse Transcriptase-Polymerase Chain Reaction (RT-PCR", TRENDS IN BIOTECHNOLOGY, vol. 10, 1992, pages 146 - 152
BARANY, F.: "Ligase Chain Reaction (LCR", PROC. NATL. ACAD. SCI. USA, vol. 88, 1991, pages 189 - 193
NAKAGUCHI Y. ET AL.: "Transcription-Reverse Transcription-Concerted method (TRC method", J. CLIN. MICROBIOL., vol. 42, 2004, pages 4248 - 4292
SARRAZIN C. ET AL.: "Transcription-Mediated-Amplification (TMA", J. CLIN. MICROBIOL., vol. 39, 2001, pages 2850 - 2855
PIEPENBURG, O. ET AL.: "Recombinase Polymerase Amplification (RPA", PLOS BIOL., vol. 4, 2006, pages e204
See also references of EP 3789504A4
Attorney, Agent or Firm:
IWATANI, Ryo (JP)
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