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Carreón-Anguiano KG, Vila-Luna SE, Sáenz-Carbonell L, Canto-Canche B. PhyEffector, the First Algorithm That Identifies Classical and Non-Classical Effectors in Phytoplasmas. Biomimetics (Basel) 2023; 8:550. [PMID: 37999191 PMCID: PMC10669590 DOI: 10.3390/biomimetics8070550] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2023] [Revised: 11/03/2023] [Accepted: 11/04/2023] [Indexed: 11/25/2023] Open
Abstract
Phytoplasmas are the causal agents of more than 100 plant diseases in economically important crops. Eleven genomes have been fully sequenced and have allowed us to gain a better understanding of the biology and evolution of phytoplasmas. Effectors are key players in pathogenicity and virulence, and their identification and description are becoming an essential practice in the description of phytoplasma genomes. This is of particular importance because effectors are possible candidates for the development of new strategies for the control of plant diseases. To date, the prediction of effectors in phytoplasmas has been a great challenge; the reliable comparison of effectoromes has been hindered because research teams have used the combination of different programs in their predictions. This is not trivial since significant differences in the results can arise, depending on the predictive pipeline used. Here, we tested different predictive pipelines to create the PhyEffector algorithm; the average value of the F1 score for PhyEffector was 0.9761 when applied to different databases or genomes, demonstrating its robustness as a predictive tool. PhyEffector can recover both classical and non-classical phytoplasma effectors, making it an invaluable tool to accelerate effectoromics in phytoplasmas.
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Affiliation(s)
| | | | | | - Blondy Canto-Canche
- Unidad de Biotecnología, Centro de Investigación Científica de Yucatán, A.C., Calle 43 No. 130 x 32 y 34, Colonia Chuburná de Hidalgo, Mérida C.P. 97205, Yucatán, Mexico (S.E.V.-L.); (L.S.-C.)
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Arricau-Bouvery N, Dubrana MP, Canuto F, Duret S, Brocard L, Claverol S, Malembic-Maher S, Foissac X. Flavescence dorée phytoplasma enters insect cells by a clathrin-mediated endocytosis allowing infection of its insect vector. Sci Rep 2023; 13:2211. [PMID: 36750707 PMCID: PMC9905606 DOI: 10.1038/s41598-023-29341-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2022] [Accepted: 02/02/2023] [Indexed: 02/09/2023] Open
Abstract
To perform its propagative and circulative cycle into its insect vector, the flavescence dorée phytoplasma invades different cell types. Clathrin-mediated endocytosis is used by a wide range of bacteria to infect eukaryote cells. Among the insect proteins interacting with the phytoplasma adhesin VmpA, we identified the adaptor protein complex AP-1 and AP-2 suggesting that phytoplasmas could enter the insect cells via clathrin-mediated endocytosis. By infection assays of insect cells in culture, we showed that phytoplasmas entry into Drosophila S2 cells was more efficient than infection of the Euva cell line developed from the insect vector Euscelidius variegatus. Chlorpromazine, cytochalasin D and knockdown of clathrin heavy chain (chc) gene expression using RNA interference inhibited entry of phytoplasmas into S2 cells. During invasion of S2 cells, phytoplasmas were observed very closed to recombinant GFP-labelled clathrin light chain. To verify the role of clathrin in the insect colonization by phytoplasmas, RNAi was performed via artificial feeding of chc dsRNA by the vector E. variegatus. This decreased the expression of chc gene in the midgut and heads of E. variegatus. The chc lower expression correlated to a decreased of midgut and salivary gland cells colonization after the insects had ingested phytoplasmas from infected plants. In conclusion, results indicate that clathrin is important for the FD phytoplasma to enter insect cells and colonize its insect vector.
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Affiliation(s)
- Nathalie Arricau-Bouvery
- Univ. Bordeaux, INRAE, Biologie du Fruit et Pathologie, UMR 1332, 33140, Villenave d'Ornon, France.
| | - Marie-Pierre Dubrana
- Univ. Bordeaux, INRAE, Biologie du Fruit et Pathologie, UMR 1332, 33140, Villenave d'Ornon, France
| | - Francesca Canuto
- Univ. Bordeaux, INRAE, Biologie du Fruit et Pathologie, UMR 1332, 33140, Villenave d'Ornon, France
| | - Sybille Duret
- Univ. Bordeaux, INRAE, Biologie du Fruit et Pathologie, UMR 1332, 33140, Villenave d'Ornon, France
| | - Lysiane Brocard
- Univ. Bordeaux, CNRS, INSERM, Bordeaux Imaging Center, BIC, UAR 3420, US 4, 33140, Villenave d'Ornon, France
| | | | - Sylvie Malembic-Maher
- Univ. Bordeaux, INRAE, Biologie du Fruit et Pathologie, UMR 1332, 33140, Villenave d'Ornon, France
| | - Xavier Foissac
- Univ. Bordeaux, INRAE, Biologie du Fruit et Pathologie, UMR 1332, 33140, Villenave d'Ornon, France
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Ripamonti M, Cerone L, Abbà S, Rossi M, Ottati S, Palmano S, Marzachì C, Galetto L. Silencing of ATP Synthase β Impairs Egg Development in the Leafhopper Scaphoideus titanus, Vector of the Phytoplasma Associated with Grapevine Flavescence Dorée. Int J Mol Sci 2022; 23:765. [PMID: 35054956 PMCID: PMC8775575 DOI: 10.3390/ijms23020765] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2021] [Revised: 12/29/2021] [Accepted: 01/07/2022] [Indexed: 11/17/2022] Open
Abstract
Scaphoideus titanus (Hemiptera: Cicadellidae) is the natural vector of Flavescence dorée phytoplasma, a quarantine pest of grapevine with severe impact on European viticulture. RNA interference (RNAi) machinery components are present in S. titanus transcriptome and injection of ATP synthase β dsRNAs into adults caused gene silencing, starting three days post injection (dpi) up to 20 dpi, leading to decrease cognate protein. Silencing of this gene in the closely related leafhopper Euscelidiusvariegatus previously showed female sterility and lack of mature eggs in ovaries. Here, alteration of developing egg morphology in S. titanus ovaries as well as overexpression of hexamerin transcript (amino acid storage protein) and cathepsin L protein (lysosome proteinase) were observed in dsATP-injected females. To evaluate RNAi-specificity, E.variegatus was used as dsRNA-receiving model-species. Different doses of two sets of dsRNA-constructs targeting distinct portions of ATP synthase β gene of both species induced silencing, lack of egg development, and female sterility in E. variegatus, indicating that off-target effects must be evaluated case by case. The effectiveness of RNAi in S. titanus provides a powerful tool for functional genomics of this non-model species and paves the way toward RNAi-based strategies to limit vector population, despite several technical and regulatory constraints that still need to be overcome to allow open field application.
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Affiliation(s)
- Matteo Ripamonti
- Istituto per la Protezione Sostenibile Delle Piante, Consiglio Nazionale Delle Ricerche, IPSP-CNR, Strada delle Cacce 73, 10135 Torino, Italy; (M.R.); (L.C.); (S.A.); (M.R.); (S.O.); (S.P.); (C.M.)
- Environmental Research and Innovation Department (ERIN), Luxembourg Institute of Science and Technology (LIST), 41 Rue du Brill, 4422 Luxembourg, Luxembourg
| | - Luca Cerone
- Istituto per la Protezione Sostenibile Delle Piante, Consiglio Nazionale Delle Ricerche, IPSP-CNR, Strada delle Cacce 73, 10135 Torino, Italy; (M.R.); (L.C.); (S.A.); (M.R.); (S.O.); (S.P.); (C.M.)
- Dipartimento di Scienze Agrarie, Forestali ed Alimentari DISAFA, Università degli Studi di Torino, Largo Paolo Braccini 2, Grugliasco, 10095 Torino, Italy
| | - Simona Abbà
- Istituto per la Protezione Sostenibile Delle Piante, Consiglio Nazionale Delle Ricerche, IPSP-CNR, Strada delle Cacce 73, 10135 Torino, Italy; (M.R.); (L.C.); (S.A.); (M.R.); (S.O.); (S.P.); (C.M.)
| | - Marika Rossi
- Istituto per la Protezione Sostenibile Delle Piante, Consiglio Nazionale Delle Ricerche, IPSP-CNR, Strada delle Cacce 73, 10135 Torino, Italy; (M.R.); (L.C.); (S.A.); (M.R.); (S.O.); (S.P.); (C.M.)
| | - Sara Ottati
- Istituto per la Protezione Sostenibile Delle Piante, Consiglio Nazionale Delle Ricerche, IPSP-CNR, Strada delle Cacce 73, 10135 Torino, Italy; (M.R.); (L.C.); (S.A.); (M.R.); (S.O.); (S.P.); (C.M.)
- Dipartimento di Scienze Agrarie, Forestali ed Alimentari DISAFA, Università degli Studi di Torino, Largo Paolo Braccini 2, Grugliasco, 10095 Torino, Italy
| | - Sabrina Palmano
- Istituto per la Protezione Sostenibile Delle Piante, Consiglio Nazionale Delle Ricerche, IPSP-CNR, Strada delle Cacce 73, 10135 Torino, Italy; (M.R.); (L.C.); (S.A.); (M.R.); (S.O.); (S.P.); (C.M.)
| | - Cristina Marzachì
- Istituto per la Protezione Sostenibile Delle Piante, Consiglio Nazionale Delle Ricerche, IPSP-CNR, Strada delle Cacce 73, 10135 Torino, Italy; (M.R.); (L.C.); (S.A.); (M.R.); (S.O.); (S.P.); (C.M.)
| | - Luciana Galetto
- Istituto per la Protezione Sostenibile Delle Piante, Consiglio Nazionale Delle Ricerche, IPSP-CNR, Strada delle Cacce 73, 10135 Torino, Italy; (M.R.); (L.C.); (S.A.); (M.R.); (S.O.); (S.P.); (C.M.)
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Hunter WB, Wintermantel WM. Optimizing Efficient RNAi-Mediated Control of Hemipteran Pests (Psyllids, Leafhoppers, Whitefly): Modified Pyrimidines in dsRNA Triggers. PLANTS 2021; 10:plants10091782. [PMID: 34579315 PMCID: PMC8472347 DOI: 10.3390/plants10091782] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/16/2021] [Revised: 08/23/2021] [Accepted: 08/23/2021] [Indexed: 01/09/2023]
Abstract
The advantages from exogenously applied RNAi biopesticides have yet to be realized in through commercialization due to inconsistent activity of the dsRNA trigger, and the activity level of RNAi suppression. This has prompted research on improving delivery methods for applying exogenous dsRNA into plants and insects for the management of pests and pathogens. Another aspect to improve RNAi activity is the incorporation of modified 2′-F pyrimidine nucleotides into the dsRNA trigger. Modified dsRNA incorporating 32–55% of the 2′-F- nucleotides produced improved RNAi activity that increased insect mortality by 12–35% greater than non-modified dsRNA triggers of the same sequence. These results were repeatable across multiple Hemiptera: the Asian citrus psyllid (Diaphorina citri, Liviidae); whitefly (Bemisia tabaci, Aleyroididae); and the glassy-winged sharpshooter (Homalodisca vitripennis, Cicadellidae). Studies using siRNA with modified 2′-F- pyrimidines in mammalian cells show they improved resistance to degradation from nucleases, plus result in greater RNAi activity, due to increase concentrations and improved binding affinity to the mRNA target. Successful RNAi biopesticides of the future will be able to increase RNAi repeatability in the field, by incorporating modifications of the dsRNA, such as 2′-F- pyrimidines, that will improve delivery after applied to fruit trees or crop plants, with increased activity after ingestion by insects. Costs of RNA modification have decreased significantly over the past few years such that biopesticides can now compete on pricing with commercial chemical products.
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Affiliation(s)
- Wayne Brian Hunter
- U.S. Horticultural Research Laboratory, U.S. Department of Agriculture, Agriculture Research Service, Subtropical Insects Res., Fort Pierce, FL 34945, USA
- Correspondence:
| | - William M. Wintermantel
- U.S. Department of Agriculture, Agriculture Research Service, Crop Improvement and Protection Research, Salinas, CA 93905, USA;
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