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Diagnostic activities for plant pests
Information on diagnostic activities on pests and diseases of plants follow the activities of EPPO Panels on diagnostics
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Detection of phytopathogens of the genus Dickeya using a PCR primer prediction pipeline for draft bacterial genome sequences

Detection of phytopathogens of the genus Dickeya using a PCR primer prediction pipeline for draft bacterial genome sequences | Diagnostic activities for plant pests | Scoop.it

This study used a novel computational pipeline to exploit draft bacterial genome sequences in order to predict, automatically and rapidly, PCR primer sets for Dickeya spp. that were unbiased in terms of diagnostic gene choice.

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Genomics-informed design of loop-mediated isothermal amplification for detection of phytopathogenic Xanthomonas arboricola pv. pruni at the intraspecific level.

Genomics-informed design of loop-mediated isothermal amplification for detection of phytopathogenic Xanthomonas arboricola pv. pruni at the intraspecific level. | Diagnostic activities for plant pests | Scoop.it

The objective of this study was to develop a rapid, sensitive detection assay for the quarantine pathogen Xanthomonas arboricola pv. pruni, causal agent of stone fruit bacterial spot, an economically important disease of Prunus spp.

Petter Françoise's insight:

Xanthomonas arboricola pv. pruni is a pest recommended for Regulation by EPPO (A2 List) and a diagnostic protocol was adopted in 2005.

http://onlinelibrary.wiley.com/doi/10.1111/j.1365-2338.2006.00925.x/abstract

This test will be considered for inclusion in this protocol.

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2013 Member consultation on draft ISPMs opened including two diagnostic protocols

2013 Member consultation on draft ISPMs opened including two diagnostic protocols | Diagnostic activities for plant pests | Scoop.it

Two diagnostic protocols have been posted on 2013-07-01 for IPPC member consultation

2004-011: Draft Annex to ISPM 27:2006 - Xanthomonas citri subsp. citri

2006-022: Draft Annex to ISPM 27:2006 - Potato spindle tuber viroid

 

All comments must be submitted by the IPPC contact point using the OCS (http://ocs.ippc.int/index.html). Consult the IPPC website for more information.

 

The consultation ends on the 1st od December 2013

Petter Françoise's insight:

The EPPO Panels on Diagnostics and the relevant specialized Panels will srutinize these texts and prepare EPPO draft comments if needed. 

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New EPPO diagnostic protocols ready to be presented for final approval

New EPPO diagnostic protocols ready to be presented for final approval | Diagnostic activities for plant pests | Scoop.it
Petter Françoise's insight:

The Working Party on Phytosanitary Regulations met in Sarajevo on 2013-06-17/20. Five new pest sepcific diagnostic protocols and one horizontal Standard on nematode extraction have been recommended for final approval and will be presented to the EPPO Council in September according to the EPPO Standard's approval procedure. 

The pest specific protocols concern the following pests

 

Hymenoscyphus pseudoalbidus
Tomato chlorosis virus and Tomato infectious chlorosis virus

Tetranychus evansi

Bactrocera zonata

Drosophila suzukii

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EuroReference: special plant health issue

EuroReference, is an online magazine launched in June 2009, of the French Agency for Food, Environmental and Occupational Health & Safety

 

As a common forum for the members of the networks of reference laboratories and all the players concerned, it is geared to National Centres of Reference, health monitoring laboratories, the National and European Reference Laboratories, Ministries, directors of institutions, etc.

EuroReference focuses on scientific knowledge and news and deals with numerous issues concerning reference activities: methods, scientific and technical results, research, joint national, European and international projects, regulations governing health safety, the detection of emerging health risks,

Petter Françoise's insight:

A special issue on plant health with short articles on EUPHRESCO, TESTA,  Q-bacco-net, Inter-Laboratory Proficiency Tests and much more....

 

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EPPO poster now available as downloadable pdf

EPPO poster now available as downloadable pdf | Diagnostic activities for plant pests | Scoop.it

Pests and diseases can hitch a ride on plants, seeds, flowers, fruit and vegetables, even if they look healthy, and on soil clinging to roots. In this way, when we move plants between different parts of the world, we can inadvertently introduce new pests and diseases into our countries. Once introduced into a new environment, some of these alien pests and diseases can cause severe economic losses to agriculture and forestry, and threaten biodiversity.

 

Help us to prevent this!

Petter Françoise's insight:

Share it please!

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Knapco's curator insight, June 11, 2013 4:45 AM

There are many cases recorded that single introduction of infested or infected plants caused later fast spreading and outbreaks of plant pests and diseases in new environment. With increased international trade and travel risk of new introductions are greater than ever before. Common pests from Asia or Australia can become quarantine pests in America or Europe and vice versa. New pests are often introduced unintentionally with different commodities of plant origin (e. g. fruits, flowers, wood, pot plants) and soil. European national plant protection organizations will therefore join the EPPO campaign, translate the poster into national languages and help spreading the message to people, who move around the world and are not aware of organisms that present risks to plants.

 

 

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2nd EPPO Workshop for heads of laboratories

2nd EPPO Workshop for heads of laboratories | Diagnostic activities for plant pests | Scoop.it
Petter Françoise's insight:

The main topic was "Plant pest diagnostic laboratories: towards national and regional reference laboratories" 

View the presentations and read the main conclusions and recommendations

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Chalara dieback of ash - Spring symptoms

How to spot symptoms of Chalara dieback of ash in the spring.

Via Anne-Sophie Roy
Petter Françoise's insight:

The EPPO Chalara fraxinea will be presented to the next EPPO Working PArty on Phytosanitary Measures in June. We hope that this protocol will be adopted this year.  

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Anne-Sophie Roy's curator insight, May 21, 2013 4:17 AM

Forest Commission has posted an informative video on how to recognize symptoms of ash dieback (Chalara fraxinea) in spring.

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TNAU commercialises device that detects pests in stored grains

TNAU commercialises device that detects pests in stored grains | Diagnostic activities for plant pests | Scoop.it
The Department of Agricultural Entomology of Tamil Nadu Agricultural University has developed a trap that does not need any attractants.

Via Global Milling
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Development and validation of a real-time RT-PCR assay for generic detection of pospiviroids

Development and validation of a real-time RT-PCR assay for generic detection of pospiviroids | Diagnostic activities for plant pests | Scoop.it

A test was developed that detects all known species of the genus Pospiviroid, using real-time RT-PCR based on TaqMan technology.

Petter Françoise's insight:

The EPPO Panel on diagnostics in virology and phytoplasmology recommended that an EPPO Standard should be developed for generic pospiviroid detection. This article will be a valuable source of information for the preparation of this Standard.

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Identification, Virulence, and Distribution of Two Biovars of Pseudomonas syringae pv. actinidiae in New Zealand

Identification, Virulence, and Distribution of Two Biovars of Pseudomonas syringae pv. actinidiae in New Zealand | Diagnostic activities for plant pests | Scoop.it

In  this article it is reported that based on molecular analysis (ctshaplotype and BOX-polymerase chain reaction [PCR] electrophoretic pattern) of strains isolated from different regions of New Zealand two biovars could be distinguished. They have been called biovar 3 and biovar 4 to differentiate them from strains from Japan (biovar 1) or Korea (biovar 2), which have a different ctshaplotype or a different BOX-PCR pattern. Biovar 3, has also been present in Italy since 2008 and in France. 

Petter Françoise's insight:

Information on the distribution and the disease progression of biovars 3 and 4 in New Zealand is reported.

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A loop-mediated isothermal amplification-based method for confirmation of Guignardia citricarpa in citrus black spot lesions - Springer

A loop-mediated isothermal amplification-based method for confirmation of Guignardia citricarpa in citrus black spot lesions - Springer | Diagnostic activities for plant pests | Scoop.it

Guignardia citricarpa Kiely (anamorph Phyllosticta citricarpa Van der Aa),  is subject to phytosanitary restrictions in the EU and USA, and consignments of citrus are rejected at import if citrus black spot is identified on inspection. As an aid to visual inspection of symptoms,  a method for detection ofG. citricarpa using loop-mediated isothermal amplification (LAMP) has been developed which can be used to confirm the presence of G. citricarpa in black spot lesions, including those lacking pycnidia.

Recent years have seen the description of a number of newly recognised species in the genus Phyllosticta that are associated with citrus. As new species emerge, and the taxonomy of the genus is resolved, it will be important to periodically re-evaluate the performance of DNA-based methods for detection of G. citricarpa, including the LAMP assay described here, such that the accuracy of diagnosis can be assured.

Petter Françoise's insight:

The LAMP test can be completed in less than 40 min and  is sufficiently simple to allow deployment in the course of import inspections.

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European and Mediterranean Plant Protection Organization (EPPO)

European and Mediterranean Plant Protection Organization (EPPO) | Diagnostic activities for plant pests | Scoop.it

EPPO Poster don't risk it

For the first time in its history, EPPO has prepared a poster on behalf of its member countries. The objective of this poster is to raise public awareness about the risks of moving plants and their associated pests during international travel and to encourage responsible behaviour.

Petter Françoise's insight:

this is not purely a diagnostic issue but it is very important! Share it!

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Erwinia amylovora loop-mediated isothermal amplification (LAMP) assay for rapid pathogen detection and on-site diagnosis of fire blight

Erwinia amylovora loop-mediated isothermal amplification (LAMP) assay for rapid pathogen detection and on-site diagnosis of fire blight | Diagnostic activities for plant pests | Scoop.it

A fast, reliable and field applicable detection method using a novel target on the E. amylovora chromosome that we identified by applying a comparative genomic pipeline.

Comparative validation results using plant samples from inoculated greenhouse trials and from natural field infections (of regional and temporal diverse origin) showed that our LAMP had an equivalent or greater performance regarding sensitivity, specificity, speed and simplicity than real-time PCR (TaqMan), other LAMP assays, immunoassays and plating, demonstrating its utility for routine testing.

Petter Françoise's insight:

Erwinia amylovora is a pest recommeded for regulation by EPPO and a revised version of the EPPO diagnostic protocol was adopted in 2012

http://onlinelibrary.wiley.com/doi/10.1111/epp.12019/pdf

It include a LAMP test developed by Temple et al. (2008), Temple &

Johnson (2011).

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Complete genome sequence of arracacha virus B: a novel cheravirus

Complete genome sequence of arracacha virus B: a novel cheravirus | Diagnostic activities for plant pests | Scoop.it

The complete genome sequences of RNA1 and RNA2 of the oca strain of the potato virus arracacha virus B were determined using next-generation sequencing.

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IPPC Technical Panel on Diagnostic Protocols at EPPO headquarters

IPPC Technical Panel on Diagnostic Protocols at EPPO headquarters | Diagnostic activities for plant pests | Scoop.it

The Technical Panel on Diagnostic Protocol of the International Plant Protection Convention met at the EPPO headquarters this week. It reviewed the following drafts international diagnostic protocols:

Anastrepha spp. 

Tospoviruses (TSWV, INSV, WSMV)

Phytoplasmas (general) 

Ditylenchus destructor / D. dipsaci

Sorghum halepense

 

It also discussed the drafts on Erwina amylovora and Tilletia indica. 

It also reviewed its work plan. It is expected that approximately 15 protocols will be presented for member consultation by 2016.

 

Two IPPC diagnostic protocols will be sent for member consultation on the 1st of July (PSTVd and Xanthomonas citri)

 

Members of the TPDP present at the meeting:

Ms Jane CHARD (GBR) Steward

Mr Robert TAYLOR (NZL) Bacteriology
Ms Géraldine ANTHOINE (FRA)  Nematology
Mr Delano JAMES (CAN) Virology
Mr Brendan RODONI (AUS) Virology and backup bacteriology
Ms Liping YIN (CHN) Botany

 

Other members (not present)

Ms Ana Lía TERRA (URY) Entomology
Mr Norman B. BARR (USA) Entomology
Mr Johannes DE GRUYTER (NLD) Mycology

 

Ms Mehle (NIB, SI) (Phytoplasmology and Virology) was invited as host representative. 

Petter Françoise's insight:

EPPO is following closely the development of IPPC protocols in order to align its protocols with these international standards and avoid duplication of work.

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Real-time and qualitative PCR for detecting Pseudomonas syringae pv. actinidiae isolates causing recent outbreaks of kiwifruit bacterial canker - Gallelli et al 2013

Real-time and qualitative PCR for detecting Pseudomonas syringae pv. actinidiae isolates causing recent outbreaks of kiwifruit bacterial canker - Gallelli  et al 2013 | Diagnostic activities for plant pests | Scoop.it
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two new PCR tests specific for the detection of Psa-V strains

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A sensitive real-time PCR assay for the detection of the two Melampsora medusae formae speciales on infected poplar leaves - Springer

A sensitive real-time PCR assay for the detection of the two Melampsora medusae formae speciales on infected poplar leaves - Springer | Diagnostic activities for plant pests | Scoop.it

A sensitive real-time PCR assay was developed to detect the presence of M. medusae in poplar leaf samples.

The test developed demonstrated a high sensitivity since it enables the reproducible detection of two M.medusae urediniospore in a mixture of 2 mg of urediniospores (ca 800 000 urediniospores) of other Melampsora species. This new real-time PCR tool should be useful for laboratories in charge of official analyses since it has many advantages over the techniques currently used to monitor this quarantine pathogen in Europe

Petter Françoise's insight:

Melampsora medusae is pest recomended for regulation by EPPO A2 List  

An EPPO standard on Melampsora medusae PM 7/93(1) was adopted in 2009

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12th Workshop on EPPO Diagnostic Protocols for fungi held jointly with the 16th Annual Meeting of the European Mycological Network

12th Workshop on EPPO Diagnostic Protocols for fungi held jointly with the 16th Annual Meeting of the European Mycological Network | Diagnostic activities for plant pests | Scoop.it

Since more than 10 years, EPPO organizes a specific session on Fungi diagnostic protocols in the framework of the European Mycology Network annual meeting. 

Petter Françoise's insight:

Read a short summary of the main outcome of this meeting. 

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2nd meeting of the EPPO Panel on Diagnostics in Virology and Phytoplasmology

2nd meeting of the EPPO Panel on Diagnostics in Virology and Phytoplasmology | Diagnostic activities for plant pests | Scoop.it
Petter Françoise's insight:

Read a short report about the achievements and furture programme of the Panel 

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Expert Consultation on Draft IPPC Diagnostic Protocols

Expert Consultation on Draft IPPC Diagnostic Protocols | Diagnostic activities for plant pests | Scoop.it

A new step has been initiated this year for the development of IPPC diagnostic protocols. 

 

The TPDP expert consultation on draft diagnostic protocols (DPs) is an expert comment system on the International Phytosanitary Portal (IPP) with the objective to ensure improvement on quality for the development of a draft DP, through inputs and feedback, in a scientific basis, from a wider number of experts worldwide not part of the DP drafting group.

A wider consultation of experts on draft protocols in earlier stages of development is crucial to ensure the quality of the protocol and to facilitate the adoption process.

 

If you are interested and/or know experts in the area, please provide comments on the draft diagnostic protocols by accessing  https://www.ippc.int/index.php?id=1111204&pid=&L=0

Consultation are open for

Anastrepha spp. (2004-015) Open - closing 28-05-2013 
Phytoplasma (General)  closing 03-06-2013  
Tospovirus (TSWV, INSV, WSMV) (2004-019)  closing 03-06-2013  
Ditylenchus dipsaci and Ditylenchus destructor  closing 27-06-2013

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ScienceDirect.com - Journal of Virological Methods - A new method for detection and discrimination of Pepino mosaic virus isolates using high resolution melting analysis of the triple gene block 3

ScienceDirect.com - Journal of Virological Methods - A new method for detection and discrimination of Pepino mosaic virus isolates using high resolution melting analysis of the triple gene block 3 | Diagnostic activities for plant pests | Scoop.it

Necrotic and non-necrotic isolates (pathotypes) of PepMV share a 99% sequence similarity.  In this study, a combination of real-time reverse transcription polymerase chain reaction and high resolution melting curve analysis of triple gene block 3 was developed for simultaneous detection and differentiation of PepMV pathotypes. The results indicated that the high resolution melting method could readily differentiate between necrotic and non-necrotic PepMV pathotypes.

Petter Françoise's insight:

EPPO has approved a diagnostic protocol on PepMV in 2012

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A Real-Time PCR Assay for Early Detection of Eastern Filbert Blight (Anisogramma anomala)

A Real-Time PCR Assay for Early Detection of Eastern Filbert Blight (Anisogramma anomala) | Diagnostic activities for plant pests | Scoop.it

Detection and identification of A. anomala is time consuming using conventional methods because the fungus can only be cultured from sporulating perithecia and the disease symptoms and signs only show 12 to 16 months after infection. In this study, a TaqMan real-time polymerase chain reaction (PCR) assay based on a ribosomal DNA internal transcribed spacer was developed for A. anomala. The assay was validated with multiple isolates of A. anomala, closely related species, common environmental microorganisms, and over 100 C. avellana samples. The real-time PCR assay detected as low as 0.12 pg of A. anomala genomic DNA, and positively diagnosed EFB on 82% of asymptomatic plants as early as 15 weeks from infection. The real-time PCR assay is more sensitive and faster than traditional diagnostic methods. It can facilitate hazelnut breeding and disease management by early and accurate diagnosis of EFB.

Petter Françoise's insight:

Anisogramma anomala is on the A1 List of pests recommended for regulation by EPPO. A diagnostic protocol on Anisogramma anomala was adopted in 2009, this real-time PCR will be considered for addition to the protocol. 

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TAÏGA

TAÏGA | Diagnostic activities for plant pests | Scoop.it
TAÏGA (Tree Aggressors Identification using Genomics Approaches) Project uses genomics for forest health diagnostics and monitoring of pathogens.
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A canadian project in the area of forest plant health aiming at developing new diagnostic tools

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Dahlia latent viroid: a recombinant new species of the family Pospiviroidae posing intriguing questions about its origin and classification

Dahlia latent viroid: a recombinant new species of the family Pospiviroidae posing intriguing questions about its origin and classification | Diagnostic activities for plant pests | Scoop.it

A viroid-like RNA has been detected in two asymptomatic dahlia accessions by return and double PAGE. It appeared smaller than Chrysanthemum stunt viroid and Potato spindle tuber viroid, the two members of the genusPospiviroid, family Pospiviroidae, reported in this ornamental previously.

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