WO2004040017A3 - Assay method for detecting fungal infection of soil or vegetables - Google Patents

Assay method for detecting fungal infection of soil or vegetables Download PDF

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Publication number
WO2004040017A3
WO2004040017A3 PCT/GB2003/004712 GB0304712W WO2004040017A3 WO 2004040017 A3 WO2004040017 A3 WO 2004040017A3 GB 0304712 W GB0304712 W GB 0304712W WO 2004040017 A3 WO2004040017 A3 WO 2004040017A3
Authority
WO
WIPO (PCT)
Prior art keywords
soil
vegetables
assay method
detecting
fungal infection
Prior art date
Application number
PCT/GB2003/004712
Other languages
French (fr)
Other versions
WO2004040017A2 (en
Inventor
Arne Hermansen
Sonja Klemsdal
Ragnhild Naerstad
Leslie Wanner
Grete Lund
Original Assignee
Carrotech As
Arne Hermansen
Sonja Klemsdal
Ragnhild Naerstad
Leslie Wanner
Grete Lund
Cockbain Julian R M
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
Priority claimed from GB0225551A external-priority patent/GB0225551D0/en
Priority claimed from GB0225550A external-priority patent/GB0225550D0/en
Application filed by Carrotech As, Arne Hermansen, Sonja Klemsdal, Ragnhild Naerstad, Leslie Wanner, Grete Lund, Cockbain Julian R M filed Critical Carrotech As
Priority to AU2003278388A priority Critical patent/AU2003278388A1/en
Priority to CA002503704A priority patent/CA2503704A1/en
Priority to JP2004547812A priority patent/JP2006504424A/en
Priority to US10/533,166 priority patent/US20060172302A1/en
Priority to EP03769693A priority patent/EP1558761A2/en
Publication of WO2004040017A2 publication Critical patent/WO2004040017A2/en
Publication of WO2004040017A3 publication Critical patent/WO2004040017A3/en

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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
    • C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6888—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms
    • C12Q1/6895—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms for plants, fungi or algae

Landscapes

  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Analytical Chemistry (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Organic Chemistry (AREA)
  • Health & Medical Sciences (AREA)
  • Biotechnology (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Microbiology (AREA)
  • Biochemistry (AREA)
  • Biophysics (AREA)
  • Molecular Biology (AREA)
  • Physics & Mathematics (AREA)
  • Mycology (AREA)
  • Botany (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)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)

Abstract

The invention provides an assay method for detecting fungal infection of soil or vegetables by pathogenic fungal species, in particular M. acerina, F. carotae and Pythium species, said method comprising: obtaining a sample of soil or vegetable; treating said sample to lyse fungal cells therein; using an oligonucleotide primer pair, effecting a polymerase chain reaction on DNA released by lysis of the fungal cells; and detecting DNA fragments generated by said polymerase chain reaction; wherein said primer pair comprises an 18- to 24-mer having the ability to hybridize to one of the oligonucleotide sequences of formulae (Ia), (Ib), (IIa), (IIb), (IIIa), (IIIb), (IVa), (IVb), (Va), (Vb), (VIa), (VIb), (VIIa), (VIIb), (VIIIa), (VIIIb), (IXa), (IXb), (Xa), (Xb), (XIa), (XIb), (XIIa), (XIIb), (XIIIa), (XIIIb), (XIVa) and (XIVb).
PCT/GB2003/004712 2002-11-01 2003-10-31 Assay method for detecting fungal infection of soil or vegetables WO2004040017A2 (en)

Priority Applications (5)

Application Number Priority Date Filing Date Title
AU2003278388A AU2003278388A1 (en) 2002-11-01 2003-10-31 Assay method for detecting fungal infection of soil or vegetables
CA002503704A CA2503704A1 (en) 2002-11-01 2003-10-31 Assay method for detecting fungal infection of soil or vegetables
JP2004547812A JP2006504424A (en) 2002-11-01 2003-10-31 Inspection method
US10/533,166 US20060172302A1 (en) 2002-11-01 2003-10-31 Assay method
EP03769693A EP1558761A2 (en) 2002-11-01 2003-10-31 Assay method for detecting fungal infection of soil or vegetables

Applications Claiming Priority (4)

Application Number Priority Date Filing Date Title
GB0225551.1 2002-11-01
GB0225550.3 2002-11-01
GB0225551A GB0225551D0 (en) 2002-11-01 2002-11-01 Assay method
GB0225550A GB0225550D0 (en) 2002-11-01 2002-11-01 Assay

Publications (2)

Publication Number Publication Date
WO2004040017A2 WO2004040017A2 (en) 2004-05-13
WO2004040017A3 true WO2004040017A3 (en) 2004-09-16

Family

ID=32232403

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/GB2003/004712 WO2004040017A2 (en) 2002-11-01 2003-10-31 Assay method for detecting fungal infection of soil or vegetables

Country Status (7)

Country Link
US (1) US20060172302A1 (en)
EP (1) EP1558761A2 (en)
JP (1) JP2006504424A (en)
AU (1) AU2003278388A1 (en)
CA (1) CA2503704A1 (en)
PL (1) PL376503A1 (en)
WO (1) WO2004040017A2 (en)

Families Citing this family (6)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP2130928A1 (en) * 2008-06-02 2009-12-09 Omya Development AG Nucleic acids and methods for detecting turfgrass pathogenic fungi
US8993341B2 (en) 2011-05-12 2015-03-31 Exact Sciences Corporation Removal of PCR inhibitors
US8808990B2 (en) 2011-05-12 2014-08-19 Exact Sciences Corporation Serial isolation of multiple DNA targets from stool
US8980107B2 (en) 2011-05-12 2015-03-17 Exact Sciences Corporation Spin filter
CN104450680A (en) * 2011-05-12 2015-03-25 精密科学公司 Isolation of nucleic acids
CN110016438B (en) * 2019-01-29 2021-04-13 西北大学 Liquid culture method of fungus strain and mycelium thereof

Family Cites Families (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6235501B1 (en) * 1995-02-14 2001-05-22 Bio101, Inc. Method for isolation DNA
WO2001092572A1 (en) * 2000-06-01 2001-12-06 Nisshinbo Industries, Inc. Kit and method for determining hla type

Non-Patent Citations (12)

* Cited by examiner, † Cited by third party
Title
BARASUBIYE T ET AL: "Molecular identification and detection of root rot pathogens in soybean.", PHYTOPATHOLOGY, vol. 93, no. 6 Supplement, June 2003 (2003-06-01), Annual Meeting of the American Phytopathological Society;Charlotte, North Carolina, USA; August 09-13, 2003, pages S6, XP002275152, ISSN: 0031-949X (ISSN print) *
KAGEYAMA K ET AL: "DETECTION OF PYTHIUM ULTIMUM USING POLYMERASE CHAIN REACTION WITH SPECIES-SPECIFIC PRIMERS", PLANT DISEASE, AMERICAN PHYTOPATHOLOGICAL SOCIETY, ST. PAUL, MN, US, vol. 81, October 1997 (1997-10-01), pages 1155 - 1160, XP009024662, ISSN: 0191-2917 *
KAGEYAMA KOJI ET AL: "Refined PCR protocol for detection of plant pathogens in soil.", JOURNAL OF GENERAL PLANT PATHOLOGY, vol. 69, no. 3, June 2003 (2003-06-01), pages 153 - 160, XP002275151, ISSN: 1345-2630 (ISSN print) *
LEVESQUE C A ET AL: "The use of DNA arrays for direct detection of oomycetes from roots and soils", CANADIAN JOURNAL OF PLANT PATHOLOGY, vol. 22, no. 2, June 2000 (2000-06-01), Annual Meeting of the Canadian Phytopathological Society, 2000;Victoria, British Colombia, Canada, pages 188, XP009028449, ISSN: 0706-0661 *
LEVESQUE C ANDRE ET AL: "Identification of some oomycetes by reverse dot blot hybridization", PHYTOPATHOLOGY, vol. 88, no. 3, March 1998 (1998-03-01), pages 213 - 222, XP001180427, ISSN: 0031-949X *
MATSUMOTO CHIEKO ET AL: "Phylogenetic relationships of Pythium species based on ITS and 5.8S sequences of the ribosomal DNA", MYCOSCIENCE, vol. 40, no. 4, 15 August 1999 (1999-08-15), pages 321 - 331, XP001180153, ISSN: 1340-3540 *
QUAIL A ET AL: "Pythium identification by hybridization to a DNA array", CANADIAN JOURNAL OF PLANT PATHOLOGY, vol. 22, no. 2, June 2000 (2000-06-01), Annual Meeting of the Canadian Phytopathological Society, 2000;Victoria, British Colombia, Canada, pages 191, XP009028447, ISSN: 0706-0661 *
WANG P H ET AL: "Detection of the low-germination-rate resting oospores of Pythium myriotylum from soil by PCR.", LETTERS IN APPLIED MICROBIOLOGY. ENGLAND 2003, vol. 36, no. 3, 2003, pages 157 - 161, XP001180356, ISSN: 0266-8254 *
WANG P H ET AL: "Erratum: Species-specific PCR primers for Pythium developed from ribosomal ITS1 region (Letters in Applied Microbiology (2003) 37 (127-132))", LETTERS IN APPLIED MICROBIOLOGY 2004 UNITED KINGDOM, vol. 38, no. 1, 2004, pages 78, XP001180357, ISSN: 0266-8254 *
WANG P H ET AL: "Species-specific PCR primers for Pythium developed from ribosomal ITS1 region.", LETTERS IN APPLIED MICROBIOLOGY. ENGLAND 2003, vol. 37, no. 2, 2003, pages 127 - 132, XP001180355, ISSN: 0266-8254 *
WANG P H ET AL: "Specific detection of Pythium aphanidermatum from hydroponic nutrient solution by booster PCR with DNA primers developed from mitochondrial DNA.", PHYTOPARASITICA, vol. 30, no. 5, October 2002 (2002-10-01), pages 473 - 485, XP009027978, ISSN: 0334-2123 *
WANG P H ET AL: "Use of polymerase chain reaction to detect the soft rot pathogen, Pythium myriotylum, in infected ginger rhizomes.", LETTERS IN APPLIED MICROBIOLOGY, vol. 36, no. 2, 2003, pages 116 - 120, XP001180354, ISSN: 0266-8254 *

Also Published As

Publication number Publication date
WO2004040017A2 (en) 2004-05-13
PL376503A1 (en) 2005-12-27
EP1558761A2 (en) 2005-08-03
AU2003278388A1 (en) 2004-05-25
CA2503704A1 (en) 2004-05-13
JP2006504424A (en) 2006-02-09
US20060172302A1 (en) 2006-08-03

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