Annex_1_SuppInfo. Database containing representative published articles on quantitative real-time PCR (qPCR) detection of phytopathogenic fungi and oomycetes, published in ISI journals since 1999.

Year Authors Journal Volume and pages Title of the pubblication Matrix Target Pathogen Target gene Chemistry 1999 Bohm et al Journal of Phytopathology 147, 409-416 Real-time quantitative pcr dna determination in isolated spores of the mycorrhizal fungus Glomus mosseae and monitoring of Phytophthora infestans and Phytophthora citricola in their respective host plants Root/tuber Glomus mosseae/Phytophthora infestans/Phytophthora citricola ITS/28S ribosomal rDNA/GC-rich nuclear satellite DNA Hydrolisis probe 1999 Zhang et al Phytopathology 89, 797-804 Molecular detection of Diaporthe phaseolorum and Phomopsis longicolla from soybean seeds Seed Diaporthe phaseolorum/Phomopsis longicolla ITS Hydrolisis probe 2001 Schnerr et al International Journal of Food Microbiology 71, 53-61 Real time detection of the tri5 gene in Fusarium species by LightCycler-PCR using SYBR Green I for continuous fluorescence monitoring Kernel Fusarium spp. Trichotecene biosynthetic gene tri5 SYBR Green 2001 Fraaije et al European Journal of Plant Pathology 107, 905-917 PCR-based assays to assess wheat varietal resistance to blotch ( Septoria tritici and Stagonospora nodorum ) and rust ( Puccinia striiformis and Puccinia recondita ) diseases Leaf Septoria tritici/Stagonospora nodorum/Puccinia recondita/Puccinia striiformis β-tubulin SYBR Green 2001 Bates and Taylor Molecular Plant Pathology 2 , 275-280 Scorpion ARMS primers for SNP real-time PCR detection and quantification of Pyrenophora teres Seed Pyrenophora teres ITS Scorpion-PCR/SYBR Green 2001 Bates et al Molecular Plant Pathology 2, 49-57 The application of real-time PCR to the identification, detection and quantification of Pyrenophora species in barley seed Seed Pyrenophora spp. ITS SYBR Green 2001 Cullen et al European Journal of Plant Pathology 107, 387-398 Conventional PCR and real-time quantitative PCR detection of Helminthosporium solani in soil and on potato tubers Soil/tuber Helminthosporium solani ITS Hydrolisis probe 2002 Haugland et al Journal of Microbiological Methods 50, 319-323 Evaluation of rapid DNA extraction methods for the quantitative detection of fungi using real-time PCR analysis Air/water/dust Stachybotrys chartarum/Aspergillus fumigatus/Candida albicans/Geotrichum candidum ITS/28S ribosomal DNA Hydrolisis probe 2002 Schena et al Plant Disease 86, 54-60 Molecular detection of strain L47 of Aureobasidium pullulans , a biocontrol agent of postharvest diseases Fruit Aureobasidium pullulans Sequence characterized amplification region (SCAR) Scorpion-PCR 2002 Qi & Yang Phytopathology 92, 870-876 Quantification of Magnaporthe grisea during infection of rice plants using real-time polymerase chain reaction and northern blot/phosphoimaging analyses Leaf Magnaporthe grisea 28S ribosomal DNA SYBR Green 2002 Heuser & Zimmer FEMS Microbiology Letters 209, 295-299 Quantitative analysis of phytopathogenic ascomycota on leaves of pedunculate oaks ( Quercus robur L.) by real-time PCR Leaf Cladosporium sp., Ramularia sp., Microsphaera alphitoides ITS SYBR Green 2002 Winton et al Phytopathology 92, 112-116 Simultaneous one-tube quantification of host and pathogen DNA with real-time polymerase chain reaction Needle Phaeocryptopus gaeumannii β-tubulin Hydrolisis probe 2002 Vandemark et al Phytopathology 92, 265-272 Quantifying Aphanomyces euteiches in alfalfa with a fluorescent polymerase chain reaction assay Root Aphanomyces euteiches Sequence characterized amplification region (SCAR) Hydrolisis probe 2002 Schena et al European Journal of Plant Pathology 108, 355-366 Identification and detection of Rosellinia necatrix by conventional and real-time Scorpion-PCR Soil Rosellinia necatrix ITS Scorpion-PCR 2002 Cullen et al Plant Pathology 51, 281-292 Detection of Colletotrichum coccodes from soil and potato tubers by conventional and quantitative real-time PCR Soil/tuber Colletotrichum coccodes ITS Hydrolisis probe 2002 Lees et al Plant Pathology 51, 293-302 Development of conventional and quantitative real-time PCR assays for the detection and identification of Rhizoctonia solani AG-3 in potato and soil Soil/tuber Rhizoctonia solani ITS Hydrolisis probe 2003 Mayer et al International Journal of Food Microbiology 82, 143- 151 Quantification of the copy number of nor-1, a gene of the aflatoxin biosynthetic pathway by real-time PCR, and its correlation to the cfu of Aspergillus flavus in foods Kernel Aspergillus flavus Aflatoxin biosynthetic gene nor-1 Hydrolisis probe 2003 Brouwer et al FEMS Microbiology Letters 228, 241-248 Quantification of disease progression of several microbial pathogens on Arabidopsis thaliana using real-time fluorescence PCR Leaf Alternaria brassicicola/Botrytis cinerea/Peronospora parasitica 5.8S-18S ribosomal rDNA/ β-tubulin/Cutinase/Actin SYBR Green 2003 Vandemark & Barker Journal of Phytopathology 151, 577-583 Quantifying Phytophthora medicaginis in susceptible and resistant alfalfa with a real-time fluorescent PCR assay Root Phytophthora medicaginis Sequence characterized amplification region (SCAR) Hydrolisis probe 2003 Filion et al Journal of Microbiological Methods 53, 67- 76 Direct quantification of fungal DNA from soil substrate using real-time PCR Soil Fusarium solani/Glomus intraradices Elongation Factor 1- α/18S ribosomal DNA SYBR Green 2003 Atkins et al Applied and Environmental Microbiology 69, 4788-4793 Detection and quantification of Plectosphaerella cucumerina , a potential biological control agent of potato cyst nematodes, by using conventional PCR, real-time PCR, selective media, and baiting Soil/root Plectosphaerella cucumerina ITS Hydrolisis probe 2003 Schena & Ippolito Journal of Plant Pathology 85, 15-25 Rapid and sensitive detection of Rosellinia necatrix in roots and soils by real-time Scorpion-PCR Soil/root Rosellinia necatrix ITS Scorpion-PCR 2003 Hietala et al Applied and Environmental Microbiology 69, 4413-4420 Multiplex real-time pcr for monitoring Heterobasidion annosum colonization in Norway spruce clones that differ in disease resistance Stem Heterobasidion annosum Laccase Hydrolisis probe 2003 van de Graaf et al European Journal of Plant Pathology 109, 589-597 Detection and quantification of Spongospora subterranea in soil, water and plant tissue samples using real-time PCR Water/soil/root Spongospora subterranea ITS Hydrolisis probe 2004 Schweigkofler et al Applied and Environmental Microbiology 70, 3512-3520 Detection and quantification of airborne conidia of Fusarium circinatum , the causal agent of pine pitch canker, from two California sites by using a real-time PCR approach combined with a simple spore trapping method Air Fusarium circinatum IGS SYBR Green 2004 Gachon & Saindrenan Plant Physiology and Biochemistry 42, 367-371 Real-time PCR monitoring of fungal development in Arabidopsis thaliana infected by Alternaria brassicicola and Botrytis cinerea Leaf Alternaria brassicicola/Botrytis cinerea a-Shaggy kinase/Cutinase A SYBR Green 2004 Waalwijk et al. European Journal of Plant Pathology 110, 481-494 Quantitative detection of Fusarium species in wheat using TaqMan Leaf/kernel Fusarium avenaceum/F. culmorum/F. graminearum/F. poae/Microdochium nivale Trichotecene biosynthetic gene tri5 Hydrolisis probe 2004 Hayden et al Phytopathology 94, 1075-1083 Detection and quantification of Phytophtora ramorum from california forests using a real-time polymerase chain reaction assay Leaf/wood Phytophtora ramorum ITS SYBR Green 2004 Gao et al Plant Disease 82, 1372-1380 Detection and quantification of Fusarium solani f. sp. glycines in soybean roots with real-time quantitative polymerase chain reaction Root Fusarium solani 18S ribosomal DNA Hydrolisis probe 2004 Alkan et al New Phytologist 161, 877-885 Quantification of the arbuscular mycorrhizal fungus Glomus intraradices in host tissue using real-time polymerase chain reaction Root Glomus intraradices 28S ribosomal rDNA SYBR Green 2004 Guillemette et al Plant Disease 88, 490-496 Conventional and Real-time PCR-based assay for detecting pathogenic Alternaria brassicae in cruciferous seed Seed Alternaria brassicae Nonribosomal peptide synthase SYBR Green 2004 Ippolito et al European Journal of Plant Pathology 110, 833-843 Real-time detection of Phytophthora nicotianae and P. citrophthora in citrus roots and soil Soil/root Phytophthora nicotianae/P. citrophthora ITS Scorpion-PCR 2004 Reischer et al Journal of Microbiological Methods 59, 141-146 Quantification of Fusarium graminearum in infected wheat by species specific real-time PCR applying a TaqMan Probe Spike Fusarium graminearum β-tubulin Hydrolisis probe 2004 Pasquali et al Journal of Plant Pathology 86, 53-59 real-time polymerase chain reaction for identification of a highly pathogenic group of Fusarium oxysporum f.sp. chrysanthemi on Argyranthemum frutescens L. Stem/root Fusarium oxysporum Upstream of Fot1 transposable element. Hydrolisis probe 2004 Bonants et al European Journal of Plant Pathology 110, 689-702 A combination of baiting and different PCR formats, including measurement of real-time quantitative fluorescence, for the detection of Phytophthora fragariae in strawberry plants Water/root Phytophthora fragariae 28S/18S ribosomal DNA Hydrolisis probe/Molecular beacon 2005 Tomlinson et al Applied and Environmental Microbiology 71, 6702-6710 On-site DNA extraction and real-time PCR for detection of Phytophthora ramorum in the field Leaf Phytophthora ramorum 5.8S ribosomal DNA Hydrolisis probe 2005 Suarez et al Plant Physiology and Biochemistry 43, 890-899 Development of real-time PCR (TaqMan®) assays for the detection and quantification of Botrytis cinerea in planta Leaf Botrytis cinerea IGS Hydrolisis probe 2005 Boyle et al Applied and Environmental Microbiology 71, 1546-1552 In vivo monitoring of obligate biotrophic pathogen growth by kinetic PCR Leaf Melampsora medusae/Melampsora larici-populina ITS/ β-tubulin SYBR Green 2005 Silvar et al Phytopathology 95, 1423-1429 Real-time polymerase chain reaction quantification of Phytophthora capsici in different pepper genotypes Plant Phytophthora capsici ITS SYBR Green 2005 Vandemark & Grunwald European Journal of Plant Pathology 111, 309-316 Use of real-time PCR to examine the relationship between disease severity in pea and Aphanomyces euteiches DNA content in roots Root Aphanomyces euteiches Sequence characterized amplification region (SCAR) Hydrolisis probe 2005 Van Den Boogert et al European Journal of Plant Pathology 113, 47-57 Development of PCR-based detection methods for the quarantine phytopathogen Synchytrium endobioticum , causal agent of potato wart disease Soil Synchytrium endobioticum ITS Hydrolisis probe 2005 Atkins et al FEMS Microbiology Ecology 51, 257-264 The use of real-time PCR and species-specific primers for the identification and monitoring of Paecilomyces lilacinus Soil/root Paecilomyces lilacinus ITS Hydrolisis probe 2005 Zhang et al FEMS Microbiology Letters 249, 39-47 Molecular detection of Fusarium oxysporum f. sp. niveum and Mycosphaerella melonis in infected plant tissues and soil Soil/stem/leaf Fusarium oxysporum/Mycosphaerella melonis ITS SYBR Green 2005 Cullen et al Phytopathology. 95, 1462-1471 Use of quantitative molecular diagnostic assays to investigate Fusarium dry rot in potato stocks and soil Tuber Fusarium spp. ITS Hydrolisis probe 2005 Luchi et al Letters in Applied Microbiology 41, 61-68 Real-time PCR detection of Biscogniauxia mediterranea in symptomless oak tissue Twig/epicotyl Biscogniauxia mediterranea ITS Hydrolisis probe 2006 Chandelier et al EPPO Bulletin 36, 409-414 Validation of a real-time PCR method for the detection of Phytophthora ramorum Bark/stem Phytophthora ramorum ITS Hydrolisis probe 2006 Bodles et al Tree Physiology 26, 775-782 Multiplex real-time PCR detection of pathogen colonization in the bark and wood of Picea sitchensis clones differing in resistance to Heterobasidion annosum Bark/wood Heterobasidion annosum Laccase Hydrolisis probe 2006 Sarlin et al European Journal of Plant Pathology 114, 371-380 real-time PCR for quantification of toxigenic Fusarium species in barley and malt Kernel Fusarium spp. Trichotecene biosynthetic gene tri5 Hydrolisis probe 2006 Hayden et al Phytopathology 96, 846-854 TaqMan chemistry for Phytophthora ramorum detection and quantification, with a comparison of diagnostic methods Leaf Phytophthora ramorum ITS Hydrolisis probe 2006 Tooley et al Phytopathology 96, 336-345 Real-time fluorescent polymerase chain reaction detection of Phytophthora ramorum and Phytophthora pseudosyringae using mitochondrial gene regions Leaf Phytophthora ramorum/Phytophthora pseudosyringae ITS Hydrolisis probe 2006 Barnes & Szabo Phytopathology 97, 717-727 Detection and identification of four common rust pathogens of cereals and grasses using real-time polymerase chain reaction Leaf Puccinia graminis/P. striiformis/P. triticina/P. recondita ITS Hydrolisis probe 2006 Berruyer et al Phytopathology 96, 346-355 Quantitative and qualitative influence of inoculation methods on in planta growth of rice blast fungus Leaf Magnaporthe oryzae Repetitive element Pot2 SYBR-Green 2006 Jackson et al Plant Disease. 90, 629-636 A quantitative assay of Puccinia coronata f. sp. avenae DNA in Avena sativa Leaf Puccinia coronata Sequence characterized amplification region (SCAR) Hydrolisis probe 2006 Leisova et al Journal of Microbiological Methods 67, 446-455 Quantification of Pyrenophora teres in infected barley leaves using real-time PCR Leaf Pyrenophora teres Sequence characterized amplification region (SCAR) Hydrolisis probe 2006 Schena et al Molecular Plant Pathology 7, 365-379 Detection and quantification of Phytophthora ramorum, P. kernoviae, P. citricola and P. quercina in symptomatic leaves by multiplex real-time PCR Leaf Phytophthora ramorum/P. kernoviae/P. citricola/P. quercina Ypt 1 gene Hydrolisis probe 2006 Hughes et al Phytopathology 96, 975-981 Development of a one-step real-time polymerase chain reaction assay for diagnosis of Phytophthora ramorum Leaf/stem Phytophthora ramorum ITS Hydrolisis probe 2006 Brandfass & Karlovsky BMC Microbiology 6, 4 Simultaneous detection of Fusarium culmorum and F. graminearum in plant material by duplex PCR with melting curve analysis Rachides Fusarium culmorum/F. graminearum Sequence characterized amplification region (SCAR) SYBR Green 2006 Abd-Elsalam et al Journal of Plant Diseases and Protection 113, 14-19 Molecular detection of Fusarium oxysporum f. sp. vasinfectum in cotton roots by PCR and real-time PCR assay Root Fusarium oxysporum 18S ribosomal DNA SYBR Green 2006 Dyer et al Journal of Microbiological Methods 67, 534-542 Real-time PCR assay to quantify Fusarium graminearum wild-type and recombinant mutant DNA in plant material Seed Fusarium graminearum ITS SYBR Green 2006 Dauch et al Canadian Journal of Plant Pathology. 28, 42-51 Real-time PCR quantification of Colletotrichum coccodes DNA in soils from bioherbicide field-release assays, with normalization for PCR inhibition Soil Colletotrichum coccodes ITS SYBR Green 2006 Lievens et al Plant Science 171, 155-165 Real-time PCR for detection and quantification of fungal and oomycete tomato pathogens in plant and soil samples Soil/plant F. solani/R. solani/Verticillium spp./Pythium ultimum ITS SYBR Green 2006 Walsh et al Journal of Phytopathology 153, 715-721 Using real-time PCR to discriminate and quantify the closely related wheat pathogens Oculimacula yallundae and Oculimacula acuformis Stem Oculimacula yallundae/Oculimacula acuformis ITS Hydrolisis probe 2006 deWeerdt et al Journal of Phytopathology 154, 694-700 Molecular detection of Fusarium foetens in begonia Stem Fusarium foetens Mitochondrial small subunit DNA Hydrolisis probe 2006 Atallah et al Phytopathology 96, 1037-1045 A methodology to detect and quantify five pathogens causing potato tuber decay using real-time quantitative polymerase chain reaction Tuber Phytophthora infestans/Phytophthora erythroseptica/Pythium ultimum/Fusarium sambucinum Ribosomal polymerase B1/RAS protein/ β-tubulin SYBR Green 2007 Luo et al European Journal of Plant Pathology 118, 145-154 Quantification of airborne spores of Monilinia fructicola in stone fruit orchards of California using real-time PCR Air Monilinia fructicola Sequence characterized amplification region (SCAR) SYBR Green 2007 van Gent-Pelzer et al Journal of Phytopathology 155, 357-363 A TaqMan PCR method for routine diagnosis of the quarantine fungus Guignardia citricarpa on citrus fruit Fruit Guignardia citricarpa ITS Hydrolisis probe 2007 Largeteau et al European Journal of Plant Pathology 118, 155-164 Verticillium disease of Agaricus bisporus : Variations in host contribution to total fungal DNA in relation to symptom heterogeneity Fuiting body Verticillium fungicola 5.8S ribosomal DNA SYBR Green 2007 Burlakoti et al Phytopathology 97, 835-841 Real-time PCR quantification and mycotoxin production of Fusarium graminearum in wheat inoculated with isolates collected from potato, sugar beet, and wheat Kernel Fusarium graminearum Trichotecene biosynthetic gene tri5 Hydrolisis probe 2007 Belbahri et al Forest Pathology 3, 403-408 Specific hybridization real-time PCR probes for Phytophthora ramorum detection and diagnosis Leaf Phytophthora ramorum ITS Hydrolisis probe 2007 Sayler & Yang Plant Disease 91, 1663-1668 Detection and quantification of Rhizoctonia solani AG-1 IA, the rice sheath blight pathogen, in rice using real-time PCR Leaf Rhizoctonia solani ITS SYBR Green 2007 Kox et al Phytopathology 97, 1119-1129 Diagnostic values and utility of immunological, morphological, and molecular methods for In planta detection of Phytophthora ramorum Leaf/stem Phytophthora ramorum ITS Hydrolisis probe 2007 Bilodeau et al Phytopathology 97, 632-642. Molecular detection of Phytophthora ramorum by real-time polymerase chain reaction using TaqMan, SYBR Green, and molecular beacons Leaf/twig Phytophthora ramorum ITS/ β-tubulin/elicitin Hydrolisis probe/SYBR Green/Molecular beacons 2007 Bilodeau et al Canadian Journal of Plant Pathology 29, 408-420 Differentiation of European and North American genotypes of Phytophthora ramorum by real-time polymerase chain reaction primer extension Leaf/wood Phytophthora ramorum β-tubulin/cellulose binding elicitor lectin SYBR Green 2007 Larsen et al Phytopathology 91, 551-558 Distribution of Phoma sclerotioides on alfalfa and winter wheat crops in the North Central United States Root Phoma sclerotioides ITS SYBR Green 2007 Gayoso et al European Journal of Plant Pathology 118, 199-209 Assessment of real-time PCR as a method for determining the presence of Verticillium dahliae in different Solanaceae cultivars Root Verticillium dahliae Sequence characterized amplification region (SCAR) SYBR Green 2007 Chilvers et al Plant Disease 91, 99-608 A real-time, quantitative PCR seed assay for Botrytis spp. that cause neck rot of onion Seed Botrytis spp. IGS SYBR Green 2007 Kernaghan et al Plant Pathology 56, 508-516 Quantification of Cylindrocarpon destructans f. sp. panacis in soils by real-time PCR Soil Cylindrocarpon destructans IGS SYBR Green 2007 Dart et al Plant Disease 91, 1419-1422 Recovery frequency of Phytophthora ramorum and other Phytophthora spp. in the soil profile of ornamental retail nurseries Soil Phytophtora spp. ITS Hydrolisis probe 2007 Sauvage et al FEMS Microbioiology Letters 273, 64-70 Development of a molecular method to detect and quantify Aphanomyces euteiches in soil Soil Aphanomyces euteiches Sequence characterized amplification region (SCAR) Hydrolisis probe 2007 Cordier et al Journal of Microbiological Methods 68, 60-68 SCAR-based real-time PCR to identify a biocontrol strain (T1) of Trichoderma atroviride and study its population dynamics in soils Soil Trichoderma atroviride Sequence characterized amplification region (SCAR) SYBR Green 2007 Ruano-Rosa et al Plant Pathology 56, 251-256 Comparison of conventional and molecular methods for the detection of Rosellinia necatrix in avocado orchards in southern Spain Soil//root/bark Rosellinia necatrix ITS Scorpion-PCR 2007 Zambounis et al Plant Disease 91, 1564-1573 Intergenic spacer-RFLP analysis and direct quantification of Australian Fusarium oxysporum f. sp. vasinfectum isolates from soil and infected cotton tissues Soil/plantlet Fusarium oxysporum IGS SYBR Green 2007 Okubara et al Canadian Journal of Plant Pathology 29, 304-310 Improved extraction of Rhizoctonia and Pythium DNA from wheat roots and soil samples using pressure cycling technology Soil/root Rhizoctonia oryzae/Pythium spp ITS SYBR Green 2007 Malvick & Impullitti Plant Disease 91, 736-742 Detection and quantification of Phialophora gregata in soybean and soil samples with a quantitative, real-time PCR assay Soil/stem Phialophora gregata IGS Hydrolisis probe 2007 Wang et al Canadian Journal of Plant Pathology 29,. 172-181 Detection of Phytophthora melonis in samples of soil, water, and plant tissue with polymerase chain reaction Soil/water/root Phytophthora melonis ITS SYBR Green 2007 Hogg et al Plant Disease 91, 1021-1028 Applying real-time quantitative PCR to Fusarium crown rot of wheat Stem Fusarium culmorum/F. pseudograminearum Trichotecene biosynthetic gene tri5 Hydrolisis probe 2007 Bae et al Plant Disease 91, 1137-1141 Colonization dynamics and spatial progression of Verticillium dahliae in individual stems of two potato cultivars with differing responses to potato early dying Stem Verticillium dahliae β-tubulin SYBR Green 2007 Atallah et al Phytopathology 97, 865-872 Multiplex real-time quantitative pcr to detect and quantify Verticillium dahliae colonization in potato lines that differ in response to Verticillium wilt Stem Verticillium dahliae β-tubulin SYBR Green 2007 Cullen et al Journal of Phytopathology 155, 309-315 Development and validation of conventional and quantitative polymerase chain reaction assays for the detection of storage rot potato pathogens, Phytophthora erythroseptica , Pythium ultimum and Phoma foveata Tuber Phytophthora erythroseptica/Pythium ultimum/Phoma foveata ITS Hydrolisis probe 2008 Garbelotto et al Phytopathology 98, 137-143 Variation in rates of spore deposition of Fusarium circinatum , the causal agent of pine pitch canker, over a 12-month-period at two locations in northern California Air Fusarium circinatum IGS SYBR Green 2008 Fredlund et al Journal of Microbiological Methods 73, 33-40 Method evaluation of Fusarium DNA extraction from mycelia and wheat for down-stream real-time PCR quantification and correlation to mycotoxin levels Kernel Fusarium spp. Sequence characterized amplification region (SCAR) Hydrolisis probe 2008 Boedo et al European Journal of Plant Pathology 121, 55-66 Impact of carrot resistance on development of the Alternaria leaf blight pathogen ( Alternaria dauci ) Leaf Alternaria dauci ITS SYBR Green 2008 Yan et al Journal of Applied Microbiology 104, 1417-1424 Development of a real-time PCR assay for the detection of Cladosporium fulvum in tomato leaves Leaf Cladosporium fulvum Sequence characterized amplification region (SCAR) SYBR Green 2008 Picò et al European Journal of Plant Pathology 120, 147-156 Quantitative detection of Monosporascus cannonballus in infected melon roots using real-time PCR Root Monosporascus cannonballus ITS SYBR Green 2008 Okubara et al Phytopathology 98, 837-847 Identification and quantification of Rhizoctonia solani and R. oryzae using real-time polymerase chain reaction Root Rhizoctonia solani/R. oryzae ITS SYBR Green 2008 Li et al Theoretical and Applied Genetics 117, 343-352 Quantification of Fusarium solani f. sp. glycines isolates in soybean roots by colony-forming unit assays and real-time quantitative PCR Root Fusarium solani Mitochondrial small subunit DNA Hydrolisis probe 2008 Minerdi et al European Journal of Plant Pathology 122, 227-237 Conventional PCR and real time quantitative PCR detection of Phytophthora cryptogea on Gerbera jamesonii Root Phytophthora cryptogea Ypt 1 gene SYBR Green 2008 Justesen et al European Journal of Plant Pathology 122, 253-263 Quantification of Pyrenophora graminea in barley seed using real-time PCR Seed Pyrenophora graminea RacB gene Hydrolisis probe 2008 Demontis et al European Journal of Plant Pathology 120, 339-351 Development of real-time PCR systems based on SYBR® Green I and TaqMan® technologies for specific quantitative detection of Phoma tracheiphila in infected Citrus Seedlings Phoma tracheiphila ITS Hydrolisis probe/SYBR-Green 2008 Savazzini et al Journal of Microbiological Methods 73, 185-194 real-time PCR for detection and quantification of the biocontrol agent Trichoderma atroviride strain SC1 in soil Soil Trichoderma atroviride Endochitinase 42 gene/G protein α subunit gene/Sequence characterized amplification region (SCAR) Hydrolisis probe/SYBR Green 2008 Takenaka et al Phytopathology 98, 187-195 Colonization of Pythium oligandrum in the tomato rhizosphere for biological control of bacterial wilt disease analyzed by real-time PCR and confocal laser-scanning microscopy Soil Phytium oligandrum ITS Hydrolisis probe 2008 Pavon et al Plant disease 92, 143-149 Quantification of Phytophthora capsici oospores in soil by sieving-centrifugation and real-time polymerase chain reaction Soil Phytophthora capsici ITS Hydrolisis probe 2008 Kim & Knudsen Applied Soil Ecology 40, 100-108 Quantitative real-time PCR effectively detects and quantifies colonization of sclerotia of Sclerotinia sclerotiorum by Trichoderma spp. Soil Trichoderma spp./Sclerotinia sclerotiorum ITS/Calmodulin Hydrolisis probe 2008 Licciardello et al Plant Disease 90, 1523-1530 Identification and detection of Phoma tracheiphila , causal agent of citrus mal secco disease, by real-time polymerase chain reaction Twig Phoma tracheiphila Sequence characterized amplification region (SCAR) Hydrolisis probe 2008 Campanile et al Plant Pathology 57, 76-83 Real-time PCR identification and detection of Fuscoporia torulosa in Quercus ilex Wood Fuscoporia torulosa ITS Scorpion-PCR 2008 Aroca et al Applied Microbiology and Biotechnology 80,1131-1140 A biomarker for the identification of four Phaeoacremonium species using the β-tubulin gene as the target sequence Wood Phaeoacremonium spp. β-tubulin Hydrolisis probe 2009 Rogers et al Plant Pathology 58, 324-331 Detection and quantification of airborne inoculum of Sclerotinia sclerotiorum using quantitative PCR Air Sclerotinia sclerotiorum Mitochondrial small subunit DNA SYBR Green 2009 Carisse et al Phytopathology 99, 1273-1280 Development of a TaqMan teal-time PCR assay for quantification of airborne conidia of Botrytis squamosa and management of botrytis leaf blight of onion Air Botrytis squamosa RNA polymerase II largest second subunit Hydrolisis probe 2009 Torelli et al Journal of the Science of Food and Agriculture 90, 641-649 Air analysis in the assessment of fumonisin contamination risk in maize Air/kernel Fusarium spp. Fumonisin biosynthetic gene fum1 Hydrolisis probe 2009 Ioos et al European Journal of Plant Pathology 125, 329-335 Rapid in planta detection of Chalara fraxinea by a real-time PCR assay using a dual-labelled probe Bark Chalara fraxinea ITS Hydrolisis probe 2009 Garrido et al Plant Pathology 58, 43-51 Development of protocols for detection of Colletotrichum acutatum and monitoring of strawberry anthracnose using real-time PCR Crown/root/leaf Colletotrichum acutatum ITS Hydrolisis probe 2009 Pedley Plant disease 93, 1252-1258 PCR-based assays for the detection of Puccinia horiana on chrysanthemums Leaf Puccinia horiana ITS Hydrolisis probe 2009 Alaei et al Journal of Microbiological Methods 76, 136-145 Molecular detection of Puccinia horiana in Chrysanthemum x morifolium through conventional and real-time PCR Leaf Puccinia horiana ITS Hydrolisis probe/SYBR Green 2009 Debode et al Plant Pathology 58, 504-514 Quantitative detection and monitoring of Colletotrichum acutatum in strawberry leaves using real-time PCR Leaf Colletotrichum acutatum ITS/ β-tubulin Hydrolisis probe 2009 Maciá-Vicente et al New Phytologist 182, 213-228 real-time PCR quantification and live-cell imaging of endophytic colonization of barley (Hordeum vulgare) roots by Fusarium equiseti and Pochonia chlamydosporia Root Fusarium equiseti/Pochonia chlamydosporia Elongation factor 1- α/Alkaline serine protease p1 Molecular beacons 2009 Vallance et al Applied and Environmental Microbiology 75, 4790-4800 Influence of Pythium oligandrum biocontrol on fungal and oomycete population dynamics in the rhizosphere Root Pythium oligandrum ITS Hydrolisis probe 2009 Li et al Journal of Phytopathology 157, 438-445 Molecular detection of Phytophthora cryptogea on Calendula officinalis and Gerbera jamesonii artificially inoculated with zoospores Root Phytophthora cryptogea Ypt 1 gene SYBR Green 2009 Ioos et al Phytopathology 99, 582-590 Sensitive detection of Fusarium circinatum in pine seed by combining an enrichment procedure with a realtime polymerase chain reaction using dual-labeled probe chemistry Seed Fusarium circinatum IGS Hydrolisis probe 2009 Yin et al Letters in Applied Microbiology 48, 680-686 Simultaneous detection of Fusarium asiaticum and Fusarium graminearum in wheat seeds using a real-time PCR method Seed Fusarium asiaticum/F. graminearum β-tubulin SYBR Green 2009 Luo et al Journal of Applied Microbiology 106, 1649-1660 Quantification of conidial density of Aspergillus flavus and A. parasiticus in soil from almond orchards using real-time PCR Soil Aspergillus flavus/Aspergillus parasiticus ITS SYBR Green 2009 Longa et al Journal of Applied Microbiology 106, 1549-1557 Evaluating the survival and environmental fate of the biocontrol agent Trichoderma atroviride SC1 in vineyards in northern Italy Soil/Leaf Trichoderma atroviride Endochitinase Hydrolisis probe 2009 Lees et al Journal of Phytopathology 157, 154-158 A quantitative polymerase chain reaction assay for the detection of Polyscytalum pustulans , the cause of skin spot disease of potato Soil/tuber Polyscytalum pustulans ITS Hydrolisis probe 2009 Hietala et al Applied and Environmental Microbiology 75, 4069-4078 Spatial patterns in hyphal growth and substrate exploitation within Norway spruce stems colonized by the pathogenic white-rot fungus Heterobasidion parviporum Wood Heterobasidion parviporum Laccase Hydrolisis probe 2010 Yamamoto et al Journal of Bioscience and Bioengineering 109, 83-88, Optimization of a real-time PCR assay to quantitate airborne fungi collected on a gelatin filter Air various fungi 18S ribosomal DNA SYBR Green 2010 Duvivier et al Communications in agricultural and applied biological sciences 75, 635-639 Distribution of Mycosphaerella graminicola inoculum at the field scale Air Mycosphaerella graminicola DNA lyase Hydrolisis probe 2010 Lee et al Science of the Total Environment 408, 1349-1357 Identification of airborne bacterial and fungal community structures in an urban area by T-RFLP analysis and quantitative real-time PCR Air various fungi ITS SYBR Green 2010 Fountaine et al Plant Pathology 59, 330-337 The role of seeds and airborne inoculum in the initiation of leaf blotch ( Rhynchosporium secalis ) epidemics in winter barley Air/seed/root/stem/leaf Rhynchosporium secalis Cytochrome b Hydrolisis probe 2010 Diguta et al FEMS Microbiol Lett 313, 81-87 Development of a qPCR assay for specific quantification of Botrytis cinerea on grapes Fruit Botrytis cinerea IGS SYBR Green 2010 Moradi et al MICROBIOLOGY 79, 646-654 Microbiological and Sybr® Green real-time PCR detection of major Fusarium head blight pathogens on wheat ears Kernel Fusarium spp. Sequence characterized amplification region (SCAR) SYBR Green 2010 Taylor et al Letters in Applied Microbiology 50, 493-499 A quantitative real-time PCR assay for the detection of Ramularia collo-cygni from barley (Hordeum vulgare ) Leaf Ramularia collo-cygni ITS Molecular beacon 2010 Llorente et al Letters in Applied Microbiology 51, 603-610 A quantitative real-time PCR method for in planta monitoring of Phytophthora infestans growth Leaf/tuber Phytophthora infestans Sequence characterized amplification region (SCAR) SYBR Green 2010 Baumgartner et al Fungal Biology 114, 107-109 A rapid infection assay for Armillaria and real-time PCR quantitation of the fungal biomass in planta Root Armillaria spp. Elongation Factor 1- α SYBR Green 2010 Tellenbach et al Applied and Environmental Microbiology 76, 5764-5772 Suitability of quantitative real-time PCR to estimate the biomass of fungal root endophytes Root Phialocephala fortinii/Acephala applanata ITS Hydrolisis probe 2010 Vandemark et al Journal of Phytopathology 158, 117-124 Real-time PCR suggests that Aphanomyces euteiches is associated with reduced amounts of Phytophthora medicaginis in alfalfa that is co-inoculated with both pathogens Root Phytophthora medicaginis Sequence characterized amplification region (SCAR) Hydrolisis probe 2010 Häffner et al BMC Plant Biology 10, 235 Genetic and environmental control of the Verticillium syndrome in Arabidopsis thaliana Shoot Verticillium longisporum ITS SYBR Green 2010 König et al Applied and Environmental Microbiology 76, 3765-3775 TaqMan real-time PCR assays to assess arbuscular mycorrhizal responses to field manipulation of grassland biodiversity: effects of soil characteristics, plant species richness, and functional traits Soil arbuscular mycorrhizal fungi ITS Hydrolisis probe 2010 López-Mondéjar et al Bioresource Technology 101, 2888-2891 Quantification of the biocontrol agent Trichoderma harzianum with real-time TaqMan PCR and its potential extrapolation to the hyphal biomass Soil Trichoderma harzianum ITS Hydrolisis probe 2010 Ashizawa et al European Journal of Plant Pathology 128, 221-232 Quantification of the rice false smut pathogen Ustilaginoidea virens from soil in Japan using real-time PCR Soil Ustilaginoidea virens ITS Hydrolisis probe 2010 Huang et al Journal of Phytopathology 158,15-21 Detection of Phytophthora nicotianae in soil with real-time quantitative PCR Soil Phytophthora nicotianae ITS Hydrolisis probe/SYBR Green 2010 Huang & Kang Microbiological Research 165, 411-417 Detection of Thielaviopsis basicola in soil with real-time quantitative PCR assays Soil Thielaviopsis basicola ITS SYBR Green 2010 Shishido et al Journal of General Plant Pathology 76, 21-30 PCR-based assays to detect and quantify Phomopsis sclerotioides in plants and soil Soil/Root Phomopsis sclerotioides ITS SYBR-Green 2010 Jiménez-Fernández et al Applied Soil Ecology 46, 372-382 Identification and quantification of Fusarium oxysporum in planta and soil by means of an improved specific and quantitative PCR assay Soil/root/stem/leaf Fusarium oxysporum ITS SYBR Green 2010 Marga et al European Journal of Plant Pathology 126, 129-133 Improved real-time PCR assay for detection of the quarantine potato pathogen, Synchytrium endobioticum , in zonal centrifuge extracts from soil and in plants Soil/stolon Synchytrium endobioticum ITS Hydrolisis probe 2012 Ploetz et al Plant Pathology 61, 801-808 Responses of avocado to laurel wilt, caused by Raffaelea lauricola Bark Raffaelea lauricola 18S ribosomal DNA SYBR Green 2011 Boutigny et al Journal of Plant Pathology 93, 321-329 Head blight of barley in South Africa is caused by Fusarium graminearum with a 15-adon chemotype Kernel Fusarium graminearum Elongation factor 1- α SYBR Green 2011 Boutigny et al Plant Pathology 61, 522-531 Quantitative detection of Fusarium pathogens and their mycotoxins in South African maize Kernel Fusarium spp. Elongation factor 1- α SYBR Green 2011 Blanco-Meneses & Ristaino Plant Disease 95, 673-682 Detection and quantification of Peronospora tabacina using a real-time polymerase chain reaction assay Leaf Peronospora tabacina 5.8S ribosomal rDNA Hydrolisis probe 2011 Michalecka et al Journal of Phytopathology 159, 569-578 real-time PCR assay with snp-specific primers for the detection of a g143a mutation level in Venturia inaequalis field populations Leaf Venturia inaequalis Cytochrome b SYBR Green 2011 Crouch & Szabo Plant Disease 95, 624-632 Real-time PCR detection and discrimination of the southern and common corn rust pathogens Puccinia polysora and Puccinia sorghi Leaf Puccinia polysora/Puccinia sorghi ITS Hydrolisis probe 2011 Voegele & Schmid FEMS Microbiology Letters 322, 131-137 RT real-time PCR-based quantification of Uromyces fabae in planta Leaf Uromyces fabae β-tubulin/hypothetical proteins of unknown function coding genes/haustorium-specifically expressed genes SYBR Green 2011 Feng et al BioControl 56, 903-913 Specific SCAR markers and multiplex real-time PCR for quantification of two Trichoderma biocontrol strains in environmental samples Leaf /stem Trichoderma spp. Sequence characterized amplification region (SCAR) Hydrolisis probe 2011 Spies et al European Journal of Plant Pathology 131, 103-119 Characterisation and detection of Pythium and Phytophthora species associated with grapevines in South Africa Plantlet Pythium spp./Pytophtora spp. ITS Hydrolisis probe/SYBR-Green 2011 Husson et al European Journal of Plant Pathology 130, 311-324 Chalara fraxinea is an invasive pathogen in France Rachis Chalara fraxinea ITS SYBR Green 2011 Regaieg et al World Journal of Microbiology and Biotechnology 27, 1615-1623 Detection and biocontrol potential of Verticillium leptobactrum parasitizing Meloidogyne spp. Root Verticillium leptobactrum ITS Molecular beacon 2011 Huvenne et al European Journal of Plant Pathology 131, 705-717 Real-time PCR mediated monitoring of Fusarium foetens in symptomatic and non-symptomatic hosts Root Fusarium foetens Mitochondrial small subunit DNA Hydrolisis probe 2011 Eshraghi et al European Journal of Plant Pathology 131, 419-430 A quantitative PCR assay for accurate in planta quantification of the necrotrophic pathogen Phytophthora cinnamomi Root Phytophthora cinnamomi Pyruvate phosphate dikinase SYBR Green 2011 Kulik et al FEMS Microbiology Letters 314, 49-56 Developmentof TaqMan assays for the quantitative detection of Fusarium avenaceum/Fusarium tricinctum and Fusarium poae esyn1 genotypes from cereal grain Seed Fusarium avenaceum/Fusarium tricinctum/Fusarium poae Enniatin synthetase esyn1 Hydrolisis probe 2011 Hughes et al European Journal of Plant Pathology 131, 695-703 Development of a real-time PCR assay for detection of Phytophthora kernoviae and comparison of this method with a conventional culturing technique Soil Phytophthora kernoviae ITS Hydrolisis probe 2011 Debode et al Plant Disease 95, 1571-1580 Detection of multiple Verticillium species in soil using density flotation and real-time polymerase chain reaction Soil Verticillium tricorpus/V. dahliae/V. longisporum ITS/ β-tubulin SYBR Green 2011 Kuan et al Journal of Phytopathology 159, 276-282 Rapid detection of Colletotrichum lagenarium , causal agent of anthracnose of cucurbitaceous crops, by PCR and real-time PCR Soil/leaf/stem/root/apex tissue Colletotrichum lagenarium ITS Hydrolisis probe 2011 Bienapfl et al Fungal Biology 115, 733-740 Specific molecular detection of Phytophthora sojae using conventional and real-time PCR Soil/root Phytophthora sojae ITS SYBR Green 2011 Köhl et al Plant Pathology 60, 661-670 Survival of pathogens of Brussels sprouts ( Brassica oleracea Gemmifera Group) in crop residues Stalk Alternaria brassicicola/brassicae ITS Hydrolisis probe 2011 Babu et al Mycologia 106, 466-473 Quantitative real-time PCR assay for rapid detection of plant and human pathogenic Macrophomina phaseolina from field and environmental samples Stem Macrophomina phaseolina Sequence characterized amplification region (SCAR) Hydrolisis probe/SYBR Green 2012 Tofalo et al Food Control 23, 356-362 Development and application of a real-time PCR-based assay to enumerate total yeasts and Pichia anomala, Pichia guillermondii and Pichia kluyveri in fermented table olives Fruit Pichia anomala, Pichia guillermondii and Pichia kluyveri ITS/28S ribosomal rDNA SYBR Green 2012 Rodriguez et al Food Control 25, 666-672 A comparative study of DNA extraction methods to be used in real-time PCR based quantification of ochratoxin A-producing molds in food products Fruit Penicillium nordicum/Aspergillus westerdijkiae β-tubulin/Ochratoxin biosynthetic gene otanpsPN SYBR Green 2012 Sanzani et al Postharvest biology and technology 68, 64-71 Early detection of Botrytis cinere a latent infections as a tool to improve postharvest quality of table grapes Fruit/stamens Botrytis cinerea IGS Hydrolisis probe 2012 de Oliveira Rocha et al European Journal of Plant Pathology 132, 353-366 Characterization of aflatoxigenic and non-aflatoxigenic strains of Aspergillus section flavi isolated from corn grains of different geographic origins in Brazil Kernel Aspergillus flavus Aflatoxin biosynthetic gene aflR/aflP SYBR Green 2012 Rodriguez et al International Journal of Food Microbiology 155, 10-18 Development of a multiplex real-time PCR to quantify aflatoxin, ochratoxin A and patulin producing molds in foods Kernel A. flavus/P. nordicum/P. expansum Aflatoxin biosynthetic gene omt1/ochratoxin biosynthetic gene otanpsPN/isoepoxydon dehydrogenase Hydrolisis probe 2012 Atoui et al International Journal of Food Microbiology 154, 59-65 Quantification of Fusarium graminearum and Fusarium culmorum by real-time PCR system and zearalenone assessment in maize Kernel Fusarium graminearum/F. culmorum Polyketide synthase gene PKS13 SYBR Green 2012 de Gruyter European Journal of Plant Pathology 12, 301-313 The development of a validated real-time (TaqMan) PCR for detection of Stagonosporopsis andigena and S. crystalliniformis in infected leaves of potato and tomato Leaf Stagonosporopsis andigena/S. crystalliniformis Actin Hydrolisis probe 2012 de Coninck et al Plant Pathology 61, 76-84 The use of digital image analysis and real-time PCR fine-tunes bioassays for quantification of Cercospora leaf spot disease in sugar beet breeding Leaf Cercospora beticola Calmodulin Hydrolisis probe 2012 Korsman et al European Journal of Plant Pathology 133, 461-471 Quantitative phenotyping of grey leaf spot disease in maize using real-time PCR Leaf Cercospora zeae-maydis/Cercospora zeina Cytochrome P450 reductase SYBR Green 2012 Cui et al Molecular Plant Pathology 13, 114-122 Analysis of polymorphism and transcription of the effector gene Avr1b in Phytophthora sojae isolates from China virulent to Rps1b Leaf Phytophthora sojae Effector gene Avr1b-1 SYBR Green 2012 Chimento et al Forest Pathology. 42, 14-21 Detection of mRNA by reverse-transcription PCR as an indicator of viability in Phytophthora ramorum Leaf Phytophthora ramorum Mitochondrial cytochrome oxidase SYBR Green 2012 Yan et al Plant Disease 96, 544-551 Field distribution of wheat stripe rust latent infection using real-time PCR Leaf Puccinia striiformis β-tubulin SYBR Green 2012 Divon et al European Journal of Plant Pathology 132, 147-161 Fusarium langsethiae (Torp and Nirenberg), investigation of alternative infection routes in oats Leaf/shoot Fusarium langsethiae β-tubulin Hydrolisis probe 2012 Wallenhammar et al Plant Pathology 61, 16-28 In-field distribution of Plasmodiophora brassicae measured using quantitative real-time PCR Root Plasmodiophora brassicae ITS/18S/5.8 S ribosomal DNA Hydrolisis probe 2012 Amatulli et al European Journal of Plant Pathology 134, 401-408 Conventional and real-time PCR for the identification of Fusarium fujikuroi and Fusarium proliferatum from diseased rice tissues and seeds Seed/stem Fusarium fujikuroi/Fusarium proliferatum Elongation Factor 1- α SYBR Green 2012 Bilodeau et al Phytopathology 102, 331-343 Development of an assay for rapid detection and quantification of Verticillium dahliae in soil Soil Pathogen gene in host IGS SYBR Green 2012 Bithell et al Plant Disease 96, 443-451 Predicting take-all severity in second-year wheat using soil DNA concentrations of Gaeumannomyces graminis var. tritici determined with qPCR Soil Gaeumannomyces graminis ITS Hydrolisis probe 2012 Lees et al Plant Pathology 61, 867–876 Development of a quantitative real-time PCR assay for Phytophthora infestans and its applicability to leaf, tuber and soil samples Soil/leaf/tuber Phytophthora infestans ITS Hydrolisis probe 2012 Shishido et al Journal of General Pathology 78, 115-120 Development of real-time PCR assay using TaqMan probe for detection and quantification of Rosellinia necatrix in plant and soil Soil/root Rosellinia necatrix ITS Hydrolisis probe 2012 López-Mondéjar et al Crop Protection 33, 1-6 SCAR-based real-time TaqMan PCR for early detection of Fusarium oxysporum in melon seedlings under greenhouse nursery conditions Stem Fusarium oxysporum Sequence characterized amplification region (SCAR) Hydrolisis probe 2012 Covarelli et al Plant Pathology 61, 1121-1129 Colonization of soft wheat following infection of the stem base by Fusarium culmorum and translocation of deoxynivalenol to the head Stem Fusarium culmorum Trichotecene biosynthetic gene tri5/ β-tubulin SYBR Green 2012 Piotti et al European Journal of Plant Pathology 1, 61-79 Development of real-time PCR for in wood-detection of Ceratocystis platani , the agent of canker stain of Platanus spp. Wood Ceratocystis platani ITS Hydrolisis probe/EvaGreen 2012 Amatulli et al European Journal of Plant Pathology 134, 401-408 Conventional and real-time PCR for the identification of Fusariumfujikuroi and Fusarium proliferatum from diseased rice tissues and seeds Seed/seedling Fusarium fujikuroi/ Fusarium proliferatum Elongation factor 1 α gene SYBR Green 2012 Daniëls et al European Journal of Plant Pathology 134, 821-833 Real-time PCR as a promising tool to monitor growth of Venturia spp. in scab-susceptible and -resistant apple leaves Leaf Venturia spp. ITS SYBR Green 2012 de Gruyter et al European Journal of Plant Pathology 134, 301-313 The development of a validated real-time (TaqMan) PCR for detection of Stagonosporopsis andigena and S. crystalliniformis in infected leaves of potato and tomato Leaf Stagonosporopsis andigena/S. crystalliniformis Actin Hydrolisis probe 2012 Pilotti at al European Journal of Plant Pathology 134, 61-79 Development of Real-Time PCR for in wood-detection of Ceratocystis platani, the agent of canker stain of Platanus spp. Wood Ceratocystis platani ITS Hydrolisis probe/EvaGreen Sclerotium 2012 Woodhall et al European Journal of Plant Pathology 134, 467-473 A new large scale soil DNA extraction procedure and real-time PCR assay for the detection of Sclerotium cepivorum in soil Soil ITS Hydrolisis probe cepivorum 2012 Vannini et al Forest Pathology 42, 362-370 Behaviour and survival of Phytophthora cambivora inoculumin soil-like substrate under di ffe rent water regimes peat-based substrate Phytophthora cambivora ITS SYBR Green 2012 Scauflaire et al Fungal Biology 116,1073-1080 A multiplex real-timePCR method using hybridization probes for the detection and the quantification of Fusarium proliferatum, F. subglutinans, F. temperatum , and F. verticillioides Kernel Fusarium proliferatum/F. subglutinans/F. temperatum/F. verticillioides Elongation factor 1 α /calmodulin Hydrolisis probe 2012 Guo et al Journal of General Plant Pathology 78, 247-254 Detection and quantification of Rhizoctonia cerealis in soil using real-time PCR Soil Rhizoctonia cerealis β-tubulin SYBR Green 2012 Husson et al Plant Pathology 61, 889-895 Occurrence of Hymenoscyphus pseudoalbidus on infected ash logs Wood Hymenoscyphus pseudoalbidus ITS Hydrolisis probe 2012 Ploetz et al Plant Pathology 61, 801-808 Responses of avocado to laurel wilt, caused by Raffaelea lauricola Stem/root Raffaelea lauricola 18S ribosomal DNA SYBR Green 2012 Vitullo et al Plant Pathology 61, 689–699 Role of new bacterial surfactins in the antifungal interaction between Bacillus amyloliquefaciens and Fusarium oxysporum Root Fusarium oxysporum Actin SYBR Green 2012 Zhao et al Mycologia 104, 1250-1259 Development and application of a TaqMan real-time PCR assay for rapid detection of Magnaporthe poae Root Magnaporthe poae ITS Hydrolisis probe 2012 Ioos et al Phytopathology 102, 908-917 An optimized dupplex real-time PCR tool for sensitive detection of the quarantine oomycete Plasmopara halstedii in sunflower seeds Seed Plasmopara halstedii 28S ribosomal rDNA Hydrolisis probe 2012 Mideros et al Phytopathology 102, 787-793 Tissue-specific components of resistance to Aspergillus ear rot of maize Seed Aspergillus flavus ITS Hydrolisis probe 2012 Duressa et al Phytopathology 102, 443-451 A real-time PCR assay for detection and quantification of Verticillum dahaliae in spinach seed Seed Verticillum dahaliae β-tubulin gene SYBR Green 2013 Shishido et al Journal of General Plant Pathology 1, 18-27 Comparison of PCR assays for detection and quantification of Phomopsis sclerotioides in plant and soil Seedling/soil Phomopsis sclerotioides ITS Hydrolisis probe