Title:
METHODS AND DEVICES FOR MULTIPLEXING AMPLIFICATION REACTIONS
Document Type and Number:
WIPO Patent Application WO2001094634
Kind Code:
A3
Abstract:
The present invention pertains to methods, reagents, compositions, kits and instruments for use in simultaneously amplifying multiple targets. In particular, this invention is based on the discovery of a two-step multiplex amplification reaction wherein the first step truncates the standard initial multiplex amplification roud to "boost" the sample copy number by only a 100 - 1000 fold increase in the target. Following the first step the product is divided into optimized secondary single amplification reactions, each containing one of the primer sets that were used previously in the first or multiplexed booster step. The booster step can occur using an aqueous target nucleic acid or using a solid phase archived nucleic acid.
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Inventors:
MARMARO JEFFREY M
GERDES JOHN C
GERDES JOHN C
Application Number:
PCT/US2001/017901
Publication Date:
July 31, 2003
Filing Date:
June 01, 2001
Export Citation:
Assignee:
XTRANA INC (US)
International Classes:
C12N15/09; G01N33/53; C12Q1/06; C12Q1/10; C12Q1/48; C12Q1/68; G01N33/566; (IPC1-7): C12Q1/68
Domestic Patent References:
| WO1997043441A1 | 1997-11-20 | |||
| WO1997019191A1 | 1997-05-29 |
Other References:
BEJ A K ET AL: "DETECTION OF COLIFORM BACTERIA AND ESCHERICHIA COLI BY MULTIPLEX POLYMERASE CHAIN REACTION: COMPARISON WITH DEFINED SUBSTRATE AND PLATING METHODS FOR WATER QUALITY MONITORING", APPLIED AND ENVIRONMENTAL MICROBIOLOGY, WASHINGTON,DC, US, vol. 57, no. 8, August 1991 (1991-08-01), pages 2429 - 2432, XP001004829, ISSN: 0099-2240
ASIM K BEJ ET AL: "MULTIPLEX PCR AMPLIFICATION AND IMMOBILIZED CAPTURE PROBES FOR DETECTION OF BACTERIAL PATHOGENES AND INDICATORS IN WATER", MOLECULAR AND CELLULAR PROBES, ACADEMIC PRESS, LONDON, GB, vol. 4, 1990, pages 353 - 365, XP000578307, ISSN: 0890-8508
EDWARDS M C ET AL: "Multiplex PCR: advantages, development, and applications.", PCR METHODS AND APPLICATIONS. UNITED STATES FEB 1994, vol. 3, no. 4, February 1994 (1994-02-01), pages S65 - S75, XP009003160, ISSN: 1054-9803
GONIN P ET AL: "Performance of a multiplex PCR for the determination of Haemophilus influenzae capsular types in the clinical microbiology laboratory.", DIAGNOSTIC MICROBIOLOGY AND INFECTIOUS DISEASE. UNITED STATES MAY 2000, vol. 37, no. 1, May 2000 (2000-05-01), pages 1 - 4, XP002225665, ISSN: 0732-8893
BORG K L ET AL: "Detection of cytomegalovirus using 'boosted' nested PCR.", MOLECULAR AND CELLULAR PROBES. ENGLAND AUG 1995, vol. 9, no. 4, August 1995 (1995-08-01), pages 251 - 257, XP009003162, ISSN: 0890-8508
RUANO G ET AL: "BIPHASIC AMPLIFICATION OF VERY DILUTE DNA SAMPLES VIA 'BOOSTER' PCR", NUCLEIC ACIDS RESEARCH, OXFORD UNIVERSITY PRESS, SURREY, GB, vol. 17, no. 13, 11 July 1989 (1989-07-11), pages 5407, XP000371657, ISSN: 0305-1048
RUANO G ET AL: "BOOSTER PCR: A BIPHASIC PARADIGM FOR AMPLIFICATION OF A FEW MOLECULES OF TARGET", AMPLIFICATIONS: A FORUM FOR PCR USERS, PERKIN-ELMER CO., NORWALK, CT, US, 1 September 1989 (1989-09-01), pages 12 - 13, XP000567442
PICARD C ET AL: "DETECTION AND ENUMERATION OF BACTERIA IN SOIL BY DIRECT DNA EXTRACTION AND POLYMERASE CHAIN REACTION", APPLIED AND ENVIRONMENTAL MICROBIOLOGY, WASHINGTON,DC, US, vol. 58, no. 9, September 1992 (1992-09-01), pages 2717 - 2722, XP000946427, ISSN: 0099-2240
SAULNIER P ET AL: "DETECTON OF GENES IN FECES BY BOOSTER POLYMERASE CHAIN REACTION", JOURNAL OF CLINICAL MICROBIOLOGY, WASHINGTON, DC, US, vol. 30, no. 8, August 1992 (1992-08-01), pages 2080 - 2083, XP001084737, ISSN: 0095-1137
HENEGARIU O ET AL: "MULTIPLEX PCR: CRITICAL PARAMETERS AND STEP-BY-STEP PROTOCOL", BIOTECHNIQUES, EATON PUBLISHING, NATICK, US, vol. 23, no. 3, 1 September 1997 (1997-09-01), pages 504 - 511, XP000703350, ISSN: 0736-6205
SONG Y ET AL: "Rapid identification of 11 human intestinal Lactobacillus species by multiplex PCR assays using group- and species-specific primers derived from the 16S-23S rRNA intergenic spacer region and its flanking 23S rRNA.", FEMS MICROBIOLOGY LETTERS. NETHERLANDS 15 JUN 2000, vol. 187, no. 2, 15 June 2000 (2000-06-15), pages 167 - 173, XP002225666, ISSN: 0378-1097
WATERS L C ET AL: "MICROCHIP DEVICE FOR CELL LYSIS, MULTIPLEX PCR AMPLIFICATION, AND ELECTROPHORETIC SIZING", ANALYTICAL CHEMISTRY, AMERICAN CHEMICAL SOCIETY. COLUMBUS, US, vol. 70, no. 1, 1998, pages 158 - 162, XP000733220, ISSN: 0003-2700
ASIM K BEJ ET AL: "MULTIPLEX PCR AMPLIFICATION AND IMMOBILIZED CAPTURE PROBES FOR DETECTION OF BACTERIAL PATHOGENES AND INDICATORS IN WATER", MOLECULAR AND CELLULAR PROBES, ACADEMIC PRESS, LONDON, GB, vol. 4, 1990, pages 353 - 365, XP000578307, ISSN: 0890-8508
EDWARDS M C ET AL: "Multiplex PCR: advantages, development, and applications.", PCR METHODS AND APPLICATIONS. UNITED STATES FEB 1994, vol. 3, no. 4, February 1994 (1994-02-01), pages S65 - S75, XP009003160, ISSN: 1054-9803
GONIN P ET AL: "Performance of a multiplex PCR for the determination of Haemophilus influenzae capsular types in the clinical microbiology laboratory.", DIAGNOSTIC MICROBIOLOGY AND INFECTIOUS DISEASE. UNITED STATES MAY 2000, vol. 37, no. 1, May 2000 (2000-05-01), pages 1 - 4, XP002225665, ISSN: 0732-8893
BORG K L ET AL: "Detection of cytomegalovirus using 'boosted' nested PCR.", MOLECULAR AND CELLULAR PROBES. ENGLAND AUG 1995, vol. 9, no. 4, August 1995 (1995-08-01), pages 251 - 257, XP009003162, ISSN: 0890-8508
RUANO G ET AL: "BIPHASIC AMPLIFICATION OF VERY DILUTE DNA SAMPLES VIA 'BOOSTER' PCR", NUCLEIC ACIDS RESEARCH, OXFORD UNIVERSITY PRESS, SURREY, GB, vol. 17, no. 13, 11 July 1989 (1989-07-11), pages 5407, XP000371657, ISSN: 0305-1048
RUANO G ET AL: "BOOSTER PCR: A BIPHASIC PARADIGM FOR AMPLIFICATION OF A FEW MOLECULES OF TARGET", AMPLIFICATIONS: A FORUM FOR PCR USERS, PERKIN-ELMER CO., NORWALK, CT, US, 1 September 1989 (1989-09-01), pages 12 - 13, XP000567442
PICARD C ET AL: "DETECTION AND ENUMERATION OF BACTERIA IN SOIL BY DIRECT DNA EXTRACTION AND POLYMERASE CHAIN REACTION", APPLIED AND ENVIRONMENTAL MICROBIOLOGY, WASHINGTON,DC, US, vol. 58, no. 9, September 1992 (1992-09-01), pages 2717 - 2722, XP000946427, ISSN: 0099-2240
SAULNIER P ET AL: "DETECTON OF GENES IN FECES BY BOOSTER POLYMERASE CHAIN REACTION", JOURNAL OF CLINICAL MICROBIOLOGY, WASHINGTON, DC, US, vol. 30, no. 8, August 1992 (1992-08-01), pages 2080 - 2083, XP001084737, ISSN: 0095-1137
HENEGARIU O ET AL: "MULTIPLEX PCR: CRITICAL PARAMETERS AND STEP-BY-STEP PROTOCOL", BIOTECHNIQUES, EATON PUBLISHING, NATICK, US, vol. 23, no. 3, 1 September 1997 (1997-09-01), pages 504 - 511, XP000703350, ISSN: 0736-6205
SONG Y ET AL: "Rapid identification of 11 human intestinal Lactobacillus species by multiplex PCR assays using group- and species-specific primers derived from the 16S-23S rRNA intergenic spacer region and its flanking 23S rRNA.", FEMS MICROBIOLOGY LETTERS. NETHERLANDS 15 JUN 2000, vol. 187, no. 2, 15 June 2000 (2000-06-15), pages 167 - 173, XP002225666, ISSN: 0378-1097
WATERS L C ET AL: "MICROCHIP DEVICE FOR CELL LYSIS, MULTIPLEX PCR AMPLIFICATION, AND ELECTROPHORETIC SIZING", ANALYTICAL CHEMISTRY, AMERICAN CHEMICAL SOCIETY. COLUMBUS, US, vol. 70, no. 1, 1998, pages 158 - 162, XP000733220, ISSN: 0003-2700
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