Touchdown nested multiplex PCR detection of Phytophthora cinnamomi and P. cambivora from French and English chestnut grove soils

Langrell, Stephen; Morel, Olivier; Robin, Cécile

doi:10.1016/j.funbio.2011.04.009

Cited by 20 publications

(11 citation statements)

References 55 publications

(66 reference statements)

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“…Peronosporaceae P Root rot South Africaa Oudemans and Coffey (1991), Erwin and Ribeiro (1996) P. cambivora (Petri) Buisman Peronosporaceae P Root rot South Africa Oudemans and Coffey (1991) P. cinnamomi Rands* Peronosporaceae P Root rot Australia, New Zealand, South Africa Gorter (1977), Marais (1980), Pennycook (1989), Shivas (1989), Oudemans and Coffey (1991), Erwin and Ribeiro (1996), Gadgil (2005), Blair et al (2008), Langrell et al (2011) P. citricola Sawada Peronosporaceae P Root rot New Zealand Pennycook (1989), Erwin and Ribeiro (1996) All over the world Doidge (1950), Riley (1960), Whiteside (1966), Dennis (1970), Stevenson (1975), Gorter (1977), Giatgong (1980) Gilman and Archer (1929), Wiehe (1948), Riley (1960), Vasudeva (1963), Whiteside (1966), Norse (1974), Deighton (1976), Gorter (1977), Giatgong (1980), Thaung (1984), Pons and Sutton (1988), Cook and Dubé (1989), Hsieh and Goh (1990), Ahmad et al (1997), Roux et al (1997), Kim and Shin (1998), Liu and Guo (1998) …”

Section: Microfungi Collected From China Italy Russia and Thailandmentioning

confidence: 99%

Biodiversity of fungi on Vitis vinifera L. revealed by traditional and high-resolution culture-independent approaches

et al. 2018

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This study is unique as it compares traditional and high-resolution culture-independent approaches using the same set of samples to study the saprotrophic fungi on Vitis vinifera. We identified the saprotrophic communities of table grape (Red Globe) and wine grape (Carbanate Gernischet) in China using both traditional and culture-independent techniques. The traditional approach used direct observations based on morphology, single spore isolation and phylogenetic analysis yielding 45 taxa which 19 were commonly detected in both cultivars. The same set of samples were then used for Illumina sequencing which analyzed ITS1 sequence data and detected 226 fungal OTUs, of which 176 and 189 belong to the cultivars Carbanate Gernischet and Red Globe, respectively. There were 139 OTUs shared between the two V. vinifera cultivars and 37 and 50 OTUs were specific to Carbanate Gernischet and Red Globe cultivars respectively. In the Carbanate Gernischet cultivar, Ascomycota accounted for 77% of the OTUs and in Red Globe, almost all sequenced were Ascomycota. The fungal taxa overlap at the genus and species level between the traditional and culture-independent approach was relatively low. In the traditional approach we were able to identify the taxa to species level, while in the culture-independent method we were frequently able to identify the taxa to family or genus level. This is remarkable as we used the same set of samples collected in China for both approaches. We recommend the use of traditional techniques to accurately identify taxa. Culture-independent method can be used to get a better understanding about the organisms that are present in a host in its natural environment. We identified primary and secondary plant pathogens and endophytes in the saprotrophic fungal communities, which support previous observations, that dead plant material in grape vineyards can be the primary sources of disease. Finally, based on present and previous findings, we provide a worldwide checklist of 905 fungal taxa on Vitis species, which includes their mode of life and distribution.

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Section: Microfungi Collected From China Italy Russia and Thailandmentioning

confidence: 99%

Biodiversity of fungi on Vitis vinifera L. revealed by traditional and high-resolution culture-independent approaches

et al. 2018

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“…In these assays, the following primers were used: Lpv (N1) (Engelbrecht et al 2013), ITS (N2) (Langrell et al 2011), and ITS (N3) ) ( Table 1). The PCR conditions were as described above and in the original references (Table 1).…”

Section: Nested Pcrmentioning

confidence: 99%

Pathways to false positive diagnoses using molecular genetic detection methods; Phytophthora cinnamomi a case study

Kunadiya¹,

White²,

Dunstan³

et al. 2017

FEMS Microbiology Letters

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“…; Langrell et al. ). PCR‐based detection of Phomopsis using genus‐specific primers such as Phf/Phr (Prasad et al.…”

Section: Introductionmentioning

confidence: 99%

“…The internal transcribed spacer (ITS) region has been extensively used for the identification of fungal pathogens of forest trees (Hamelin et al 2000;Germain et al 2002), fruit trees (Ioos and Frey 2000) and annual crops (Freeman et al 2002;Reid et al 2002). Specific primers developed by targeting ITS region have been selectively used to detect several phytopathogens, including Phomopsis (Mishra et al 2003;Everett and George 2006;Franco et al 2008;Langrell et al 2011). PCR-based detection of Phomopsis using genus-specific primers such as Phf/Phr (Prasad et al 2006) and PF1/PF2 (Girish et al 2009) has been reported.…”

Section: Introductionmentioning

confidence: 99%

Species‐Specific PCR‐Based Assay for Identification and Detection of Phomopsis (Diaporthe) azadirachtae Causing Die‐Back Disease in Azadirachta indica

Vedashree

Sateesh

Chowdappa

et al. 2015

Journal of Phytopathology

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Die-back disease caused by Phomopsis (Diaporthe) azadirachtae is the devastating disease of Azadirachta indica. Accurate identification of P. azadirachtae is always problematic due to morphological plasticity and delayed appearance of conidia. A species-specific PCR-based assay was developed for rapid and reliable identification of P. azadirachtae by designing a species-specific primer-targeting ITS region of P. azadirachtae isolates. The assay was validated with DNA isolated from different Phomopsis species and other fungal isolates. The PCR assay amplified 313-bp product from all the isolates of P. azadirachtae and not from any other Phomopsis species or any genera indicating its specificity. The assay successfully detected the pathogen DNA in naturally and artificially infected neem seeds and twigs indicating its applicability in seed quarantine and seed health testing. The sensitivity of the assay was 100 fg when genomic DNA of all isolates was analysed. The PCR-based assay was 92% effective in comparison with seed plating technique in detecting the pathogen. This is the first report on the development of species-specific PCR assay for identification and detection of P. azadirachtae. Thus, PCR-based assay developed is very specific, rapid, confirmatory and sensitive tool for detection of pathogen P. azadirachtae at early stages.

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Touchdown nested multiplex PCR detection of Phytophthora cinnamomi and P. cambivora from French and English chestnut grove soils

Cited by 20 publications

References 55 publications

Biodiversity of fungi on Vitis vinifera L. revealed by traditional and high-resolution culture-independent approaches

Biodiversity of fungi on Vitis vinifera L. revealed by traditional and high-resolution culture-independent approaches

Pathways to false positive diagnoses using molecular genetic detection methods; Phytophthora cinnamomi a case study

Species‐Specific PCR‐Based Assay for Identification and Detection of Phomopsis (Diaporthe) azadirachtae Causing Die‐Back Disease in Azadirachta indica

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