Xylella fastidiosa outbreaks in Europe: new genotypes in France
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1 Xylella fastidiosa outbreaks in Europe: new genotypes in France Bruno Legendre (1), Valérie Olivier (1), Dimitri Molusson(1), Virginie Juteau (1), David Agud-Miguel(1), Antoine Sainte-Luce (1), Christèle Dousset(1), Corinne Audusseau(1), Sandrine Paillard (1), Christelle François (1), Carène Rivoal(1), Nicolas Denancé (1,2), Marie-Agnès Jacques (2) and Françoise Poliakoff (1) 1) UBVO - Anses / Plant Health Laboratory Angers, France (2) UMR1345 IRHS EMERSYS - INRA - Centre Angers-Nantes Beaucouzé, France Testa-EPPO Conference on diagnostics for plant pests, Angers, 30/11-1 and 2/12/2015
2 Xylella fastidiosa Xylem-limited bacterium. Invades xylem vessels and produces biofilms First description of the disease in 1887 (USA) First isolation on media in 1978 X.f. within a xylem vessel in the leaf of affected Chardonnay grape. (ca. x 4,000). E. W. Kitajima (ESALQ/USP/Brazil). Transmitted by: Insect vectors (Cicadellidae, Cercopidae, Cicadidae) Infected plants for planting Quarantine disease (2000/29CE) (Photo : Fred CHEVAILLOT Source : INPN MNHN) EPPO Conference 2015
3 Xylella fastidiosa : distribution interceptions in 2012, 2014 and 2015 on coffee trees 1880 Ontario Canada USA 2013 Italie Mexico Costa Rica Venezuela Italie Iran Iran outbreaks Taiwan Equateur Brésil Paraguay Brésil 1987 Argentine
4 A large range of hosts 6 subspecies Pearce s disease on grapevine X. f. subsp. fastidiosa Almond Leaf Scorch X. f. subsp. multiplex Oleander Leaf Schorch X. f. subsp. sandyi Citrus Variegated Chlorosis X. f. subsp. pauca (Photo: Michael J. Plagens Source : Wikipédia) Photo : Joao Roberto Spotti Lopes subsp morus subsp tashke CoDIRO X. f. subsp. pauca Photo : F. VALENTINI
5 X. fastidiosa : distribution of subspecies subsp. fastidiosa subsp. multiplex Ontario Canada USA subsp. pauca subsp. sandyi Mexico Italie Italie Iran Iran Costa Rica Venezuela Equateur Brésil Paraguay Brésil Argentine
6 Very Serious Threat for agriculture in Europe! Our experience on Xylella in France: (2000) IF tests for Quarantine on Vitis, Citrus, Prunus (2012; 2014; 2015) Import / survey of territory: coffee plants intercepted Urgent need of sensitive tools to prevent introduction
7 Import / survey Interception of infected coffee plants in France 2012: France 2014: The Netherlands, Italy, Germany 2015: Switzerland Isolation of strains from Coffea: : subsp. fastidiosa/sandyi and subsp. pauca (Jacques et al., in revision) ; 2015: subsp.sandyi; subsp.pauca 7
8 Our experience on Xylella in France: (2000) IF tests for Quarantine on Vitis, Citrus, Prunus (2012; 2014; 2015) Import / survey of territory: coffee plants intercepted. Improvement of detecting scheme / test perf studies: Intra laboratory study: diagnostic sensitivity, specificity, detection threshold : Inter-laboratory comparison (6 labs; Italy, The Netherlands, New Zealand, France) 2015: French reference method MA039
9 Comparison with an alternative extraction method: QuickPick SML Plant DNA (Bio-Nobile) vs DNeasy Performance criteria (%) Diagnostic sensitivity Diagnostic Specificity DNeasy Plant mini kit Qiagen QuickPick + Robot (BioSprint15 = KingFisher TM ml) QuickPick + magnets (manual protocol) 52,8 80,6 79, Repeatability 97,8 97,8 96,6 Limit of detection Orange 10² bact./ml Grapevine 10 6 bact./ml Olive 10 5 bact./ml Orange 10² bact./ml Grapevine 10 3 bact./ml Olive 10 5 bact./ml Improvement of the limit of detection and sensitivity ; Always some matrices with inhibitors
10 Official French protocol MA Preparation of sample : - Cutting and soaking of 0,5 to 1 g of petioles / midribs in water; grounding (minimum 15 minutes under shaking) -Use of 250 µl of macerate per replicate asymptomatic / symptomatic : min 2 replicates Centrifugation 20 minutes / g pellet 2. DNA extraction with the QuickPick kit (Bio Nobile) 3. Real-time PCR Harper et al. 2010, repeats per replicates
11 Official French protocol MA 039 Real-time PCR results Positive Ct>35 : undetermined result Negative
12 Our experience on Xylella in France: (2000) IF tests for Quarantine on Vitis, Citrus, Prunus (2012; 2014; 2015) Import / survey of territory: coffee plants intercepted Since 2012: Improvement of detecting scheme 2015: French reference method MA039 First detection in Corsica in July 2015
13
14 Our experience on Xylella in France: (2000) IF tests for Quarantine on Vitis, Citrus, Prunus (2012; 2014; 2015) Import / survey of territory: coffee plants intercepted in Since 2012: Improvement of detecting scheme First detection in Corsica in July 2015 First detection in South East of France in October
15
16 First alert in Corsica: Polygala myrtifolia Host range in Corsica
17 Host range in Corsica First alert in Corsica: Polygala myrtifolia (sentinel plant) Next to Polygala: Spartium junceum, Cytisus racemosus, Genista ephedroides Myrtus communis Cistus creticus, C. monspeliensis, C. salviifolius
18 Host range in Corsica First alert in Corsica: Polygala myrtifolia Next to Polygala Spartium junceum, Cytisus racemosus, Genista ephedroides Myrtus communis Cistus creticus, C. monspeliensis, C. salviifolius Pelargonium spp.
19 Host range in Corsica (November 2015) First alert in Corsica: Polygala myrtifolia Next to Polygala Spartium junceum, Cytisus racemosus, Genista ephedroides Myrtus communis Cistus creticus, C. monspeliensis, C. salviifolius Pelargonium spp. Hebe pinguifolia Lavandula dentata hybr. Rosa sp. Prunus cerasifera Acer pseudoplatanus Rosmarinus officinalis Quercus suber
20 Host range in Corsica (November 2015) First alert in Corsica: Polygala myrtifolia Spartium junceum, Cytisus racemosus, Genista ephedroides Myrtus communis Cistus creticus, C. monspeliensis, C. salviifolius Pelargonium spp. Hebe pinguifolia Lavandula dentata hybr.; L. angustifolia Rosa sp. Prunus cerasifera Acer pseudoplatanus Rosmarinus officinalis Quercus suber NEW!!
21 Samples tested in 2015 by Anses 2015 N of samples 4648 received Samples tested 4559 Samples refused 89 Positive samples 485 (10,4%) Polygala 1234 Olea spp 589 Citrus spp 221 Rosmarinus spp 195 Polygala sp. Total of samples 1234 Positive 399 (32%) Negative 811 Corsica 909 Out of Corsica 325 Coffea Total of samples 127 Positive 15 (12%) Negative 109 «Genista» family Pelargonium spp. Nerium oleander 181 Coffea spp 127 Quercus spp 123 Vigne 109 Myrtus 91 Ficus spp 73 Prunus spp 68 Total of samples 42 Positifs 9 (21%) Négatifs 33 Total of samples 70 Positive 16 (23%) Negative 50
22 Identification of the X.f subspecies on plant samples Multiplex PCR Hernandez-Martinez et al. (2006): ALSII ALSI - subsp. fastidiosa - subsp. multiplex with 2 profiles ALSI :2 amplicons ALSII: 3 amplicons - subsp. sandyi - subsp. pauca (+ PCR Pooler and Hartung)
23 22 strains of X fastidiosa isolated from France Dilaceration of petioles and veins Isolation by plating on mpwg IF (antiserum INRA/LSV) Typical colonies Typical cells Confirmation of the species X fastidiosa: PCR (Minsavage et al. 1994) Identification of the subspecies, phylogeny Multiplex PCR (Hernandez-Martinez et al., 2007) and/or Pooler & Hartung 1995 Confirmation scheme by culturing isolates MLSA (7 housekeeping genes ) Genome sequencing RST31/RST int/272-2-int F/XF6-R XF1-
24 Conclusion According to our experience, Outbreaks in France are different of Italian Introduction of plants from infected countries: very big threat for Europe Survey of imported plants and of territory is necessary to prevent and protect agriculture Using of sensitive and reliable tools for early detecting : big challenge for EPPO members Next step: working on insect detection
25 Xylella fastidiosa outbreak in Europe: new genotypes in France Bruno Legendre (1), Valérie Olivier (1), Dimitri Molusson(1), Virginie Juteau (1), David Agud-Miguel(1), Antoine Sainte-Luce (1), Christèle Dousset(1), Corinne Audusseau(1), Sandrine Paillard (1), Christelle François (1), Carène Rivoal(1), Nicolas Denancé (1,2), Marie-Agnès Jacques (2) and Françoise Poliakoff (1) Thank you for your attention
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