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Kantor C, Eisenback JD, Kantor M. Biosecurity risks to human food supply associated with plant-parasitic nematodes. FRONTIERS IN PLANT SCIENCE 2024; 15:1404335. [PMID: 38745921 PMCID: PMC11091314 DOI: 10.3389/fpls.2024.1404335] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/20/2024] [Accepted: 04/11/2024] [Indexed: 05/16/2024]
Abstract
Biosecurity in agriculture is essential for preventing the introduction and spread of plant-parasitic nematodes (PPNs) which threaten global food security by reducing crop yields and facilitating disease spread. These risks are exacerbated by increased global trade and climate change, which may alter PPN distribution and activity, increasing their impact on agricultural systems. Addressing these challenges is vital to maintaining the integrity of the food supply chain. This review highlights significant advancements in managing PPN-related biosecurity risks within the food supply chain, particularly considering climate change's evolving influence. It discusses the PPN modes of transmission, factors increasing the risk of infestation, the impact of PPNs on food safety and security, and traditional and emerging approaches for detecting and managing these pests. Literature suggests that implementing advanced biosecurity measures could decrease PPN infestation rates by up to 70%, substantially reducing crop yield losses and bolstering food security. Notably, the adoption of modern detection and management techniques, (molecular diagnostics and integrated pest management) and emerging geospatial surveillance and analysis systems (spectral imaging, change-detection analysis) has shown greater effectiveness than traditional methods. These innovations offer promising avenues for enhancing crop health and securing the food supply chain against environmental shifts. The integration of these strategies is crucial, demonstrating the potential to transform biosecurity practices and sustain agricultural productivity in the face of changing climatic conditions. This analysis emphasizes the importance of adopting advanced measures to protect crop health and ensure food supply chain resilience, providing valuable insights for stakeholders across the agricultural sector.
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Affiliation(s)
- Camelia Kantor
- Huck Institutes of the Life Sciences, Pennsylvania State University, State College, PA, United States
| | - Jonathan D. Eisenback
- School of Plant and Environmental Science, Virginia Tech, State College, Blacksburg, VA, United States
| | - Mihail Kantor
- Plant Pathology and Environmental Microbiology Department, Pennsylvania State University, University Park, State College, PA, United States
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2
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Wernet V, Fischer R. Establishment of Arthrobotrys flagrans as biocontrol agent against the root pathogenic nematode Xiphinema index. Environ Microbiol 2023; 25:283-293. [PMID: 36354014 DOI: 10.1111/1462-2920.16282] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2022] [Accepted: 11/08/2022] [Indexed: 11/11/2022]
Abstract
Plant-parasitic nematodes cause devastating agricultural damage worldwide. Only a few synthetic nematicides can be used and their application is limited in fields. Therefore, there is a need for sustainable and environment-friendly alternatives. Nematode-trapping fungi (NTF) are natural predators of nematodes. They capture and digest them with their hyphae and are starting to being used as bio-control agents. In this study, we applied the NTF Arthrobotrys flagrans (Duddingtonia flagrans) against the wine pathogenic nematode Xiphinema index. A. flagrans reduced the number of X. index juveniles in pot cultures of Ficus carica, an alternative host plant for X. index, significantly. Sodium-alginate pellets with A. flagrans spores were produced for vineyard soil inoculation under laboratory conditions. The NTF A. conoides, A. musiformis and A. superba were enriched from several soil samples, showing their natural presence. Trap formation is an energy-consuming process and depends upon various biotic and abiotic stimuli. Here, we show that bacteria of the genus Delftia, Bacillus, Pseudomonas, Enterobacter and Serratia induced trap formation in NTF like A. conoides and A. oligospora but not in A. flagrans in the absence of nematodes. The application of NTF along with such bacteria could be a combinatorial way of efficient biocontrol in nematode-infested soil.
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Affiliation(s)
- Valentin Wernet
- Department of Microbiology, Institute for Applied Biosciences, Karlsruhe, Germany
| | - Reinhard Fischer
- Department of Microbiology, Institute for Applied Biosciences, Karlsruhe, Germany
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Kubina J, Hily JM, Mustin P, Komar V, Garcia S, Martin IR, Poulicard N, Velt A, Bonnet V, Mercier L, Lemaire O, Vigne E. Characterization of Grapevine Fanleaf Virus Isolates in ‘Chardonnay’ Vines Exhibiting Severe and Mild Symptoms in Two Vineyards. Viruses 2022; 14:v14102303. [PMID: 36298857 PMCID: PMC9609649 DOI: 10.3390/v14102303] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2022] [Revised: 10/14/2022] [Accepted: 10/18/2022] [Indexed: 12/03/2022] Open
Abstract
Fanleaf degeneration is a complex viral disease of Vitis spp. that detrimentally impacts fruit yield and reduces the productive lifespan of most vineyards worldwide. In France, its main causal agent is grapevine fanleaf virus (GFLV). In the past, field experiments were conducted to explore cross-protection as a management strategy of fanleaf degeneration, but results were unsatisfactory because the mild virus strain negatively impacted fruit yield. In order to select new mild GFLV isolates, we examined two old ‘Chardonnay’ parcels harbouring vines with distinct phenotypes. Symptoms and agronomic performances were monitored over the four-year study on 21 individual vines that were classified into three categories: asymptomatic GFLV-free vines, GFLV-infected vines severely diseased and GFLV-infected vines displaying mild symptoms. The complete coding genomic sequences of GFLV isolates in infected vines was determined by high-throughput sequencing. Most grapevines were infected with multiple genetically divergent variants. While no specific molecular features were apparent for GFLV isolates from vines displaying mild symptoms, a genetic differentiation of GFLV populations depending on the vineyard parcel was observed. The mild symptomatic grapevines identified during this study were established in a greenhouse to recover GFLV variants of potential interest for cross-protection studies.
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Affiliation(s)
- Julie Kubina
- INRAE, SVQV UMR-A 1131, Université de Strasbourg, 68000 Colmar, France
| | - Jean-Michel Hily
- INRAE, SVQV UMR-A 1131, Université de Strasbourg, 68000 Colmar, France
- IFV, 30240 Le Grau-Du-Roi, France
| | - Pierre Mustin
- INRAE, SVQV UMR-A 1131, Université de Strasbourg, 68000 Colmar, France
| | - Véronique Komar
- INRAE, SVQV UMR-A 1131, Université de Strasbourg, 68000 Colmar, France
| | - Shahinez Garcia
- INRAE, SVQV UMR-A 1131, Université de Strasbourg, 68000 Colmar, France
| | | | - Nils Poulicard
- PHIM, Université Montpellier, IRD, INRAE, Cirad, SupAgro, 34000 Montpellier, France
| | - Amandine Velt
- INRAE, SVQV UMR-A 1131, Université de Strasbourg, 68000 Colmar, France
| | - Véronique Bonnet
- Maison Moët & Chandon, 20 Avenue de Champagne, 51200 Épernay, France
| | - Laurence Mercier
- Maison Moët & Chandon, 20 Avenue de Champagne, 51200 Épernay, France
| | - Olivier Lemaire
- INRAE, SVQV UMR-A 1131, Université de Strasbourg, 68000 Colmar, France
| | - Emmanuelle Vigne
- INRAE, SVQV UMR-A 1131, Université de Strasbourg, 68000 Colmar, France
- Correspondence:
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Vertical Distribution of Plant-Parasitic Nematodes in Sweet Potato. J Nematol 2022; 54:20220025. [PMID: 36060475 PMCID: PMC9400523 DOI: 10.2478/jofnem-2022-0025] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2022] [Indexed: 11/20/2022] Open
Abstract
Plant-parasitic nematodes (PPN) are harmful pests that have become a severe threat to crop production worldwide. Diversity of PPN at horizontal and spatial scales influence the effectiveness of control strategies. This study evaluated the vertical distribution of PPN genera at 0 cm to 30 cm and 30 cm to 60 cm in sweet potato fields in Central, Manyatta, and Nembure regions of Embu County, Kenya. A significant region × depth interaction was observed for Tylenchus. For all the other nematode genera, there were no significant variations in the abundance at 0 cm to 30 cm and 30 cm to 60 cm depths. However, Helicotylenchus, Meloidogyne, and Scutellonema occurred in greater numbers at both depths in all regions. Shannon and Simpson diversity indices were higher at 0 cm to 30 cm depth while Pielou’s evenness was similar at both depths in the three regions. Diversity partitioning of genus richness, Shannon, and Simpson diversities across all regions at 0 cm to 30 cm, indicated that β component contributed 61.9%, 35.6%, and 22.6% of γ diversity, respectively. Coinertia analysis indicated a significant covariation between nematode genera and soil properties. The results show that management of PPN in sweet potato fields should be targeted at soil depths that are not less than 60 cm.
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Giffard B, Winter S, Guidoni S, Nicolai A, Castaldini M, Cluzeau D, Coll P, Cortet J, Le Cadre E, d’Errico G, Forneck A, Gagnarli E, Griesser M, Guernion M, Lagomarsino A, Landi S, Bissonnais YL, Mania E, Mocali S, Preda C, Priori S, Reineke A, Rusch A, Schroers HJ, Simoni S, Steiner M, Temneanu E, Bacher S, Costantini EAC, Zaller J, Leyer I. Vineyard Management and Its Impacts on Soil Biodiversity, Functions, and Ecosystem Services. Front Ecol Evol 2022. [DOI: 10.3389/fevo.2022.850272] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Healthy soils form the basis of sustainable viticulture, where soil characteristics have a direct impact on wine quantity and quality. Soil not only provides water and nutrients to vines, but is also a living medium containing micro- and macroorganisms that perform many ecological functions and provide ecosystem services. These organisms are involved in many processes, from decomposing organic matter to providing minerals to vine roots. They also control diseases, pests, and weeds, in addition to improving the soil structure in terms of its capacity to retain water and nutrients. Related to decomposition processes, the carbon content of vineyard soils influences fertility, erosion and biogeochemical cycles, with significant implications for the global climate. However, common agricultural practices represent strong threats to biodiversity and associated ecosystem services provided by vineyard soils. As consumers increasingly consider environmental aspects in their purchase decisions, winegrowers have to adapt their vineyard management strategies, raising the demand for sustainable pest- and weed-control methods. This article presents a comprehensive review of the impacts of vineyard practices on the soil ecosystem, biodiversity, and biodiversity-based ecosystem services, and provides future prospects for sustainable viticulture.
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Rubio B, Lalanne-Tisné G, Voisin R, Tandonnet JP, Portier U, Van Ghelder C, Lafargue M, Petit JP, Donnart M, Joubard B, Bert PF, Papura D, Le Cunff L, Ollat N, Esmenjaud D. Characterization of genetic determinants of the resistance to phylloxera, Daktulosphaira vitifoliae, and the dagger nematode Xiphinema index from muscadine background. BMC PLANT BIOLOGY 2020; 20:213. [PMID: 32398088 PMCID: PMC7218577 DOI: 10.1186/s12870-020-2310-0] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/06/2019] [Accepted: 02/26/2020] [Indexed: 05/23/2023]
Abstract
BACKGROUND Muscadine (Muscadinia rotundifolia) is known as a resistance source to many pests and diseases in grapevine. The genetics of its resistance to two major grapevine pests, the phylloxera D. vitifoliae and the dagger nematode X. index, vector of the Grapevine fanleaf virus (GFLV), was investigated in a backcross progeny between the F1 resistant hybrid material VRH8771 (Vitis-Muscadinia) derived from the muscadine R source 'NC184-4' and V. vinifera cv. 'Cabernet-Sauvignon' (CS). RESULTS In this pseudo-testcross, parental maps were constructed using simple-sequence repeats markers and single nucleotide polymorphism markers from a GBS approach. For the VRH8771 map, 2271 SNP and 135 SSR markers were assembled, resulting in 19 linkage groups (LG) and an average distance between markers of 0.98 cM. Phylloxera resistance was assessed by monitoring root nodosity number in an in planta experiment and larval development in a root in vitro assay. Nematode resistance was studied using 10-12 month long tests for the selection of durable resistance and rating criteria based on nematode reproduction factor and gall index. A major QTL for phylloxera larval development, explaining more than 70% of the total variance and co-localizing with a QTL for nodosity number, was identified on LG 7 and designated RDV6. Additional QTLs were detected on LG 3 (RDV7) and LG 10 (RDV8), depending on the in planta or in vitro experiments, suggesting that various loci may influence or modulate nodosity formation and larval development. Using a Bulked Segregant Analysis approach and a proportion test, markers clustered in three regions on LG 9, LG 10 and LG 18 were shown to be associated to the nematode resistant phenotype. QTL analysis confirmed the results and QTLs were thus designated respectively XiR2, XiR3 and XiR4, although a LOD-score below the significant threshold value was obtained for the QTL on LG 18. CONCLUSIONS Based on a high-resolution linkage map and a segregating grapevine backcross progeny, the first QTLs for resistance to D. vitifoliae and to X. index were identified from a muscadine source. All together these results open the way to the development of marker-assisted selection in grapevine rootstock breeding programs based on muscadine derived resistance to phylloxera and to X. index in order to delay GFLV transmission.
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Affiliation(s)
- Bernadette Rubio
- INRAE, UMR EGFV, 33883, Villenave d'Ornon, France
- IFV, Domaine de l'Espiguette, 30240, Le Grau du Roi, France
| | - Guillaume Lalanne-Tisné
- INRAE, UMR EGFV, 33883, Villenave d'Ornon, France
- IFV, Domaine de l'Espiguette, 30240, Le Grau du Roi, France
| | - Roger Voisin
- INRAE, Université Nice Côte d'Azur, CNRS, ISA, 06903, Sophia Antipolis, France
| | | | - Ulysse Portier
- INRAE, Université Nice Côte d'Azur, CNRS, ISA, 06903, Sophia Antipolis, France
| | - Cyril Van Ghelder
- INRAE, Université Nice Côte d'Azur, CNRS, ISA, 06903, Sophia Antipolis, France
| | | | | | | | | | | | | | - Loïc Le Cunff
- IFV, Domaine de l'Espiguette, 30240, Le Grau du Roi, France
| | | | - Daniel Esmenjaud
- INRAE, Université Nice Côte d'Azur, CNRS, ISA, 06903, Sophia Antipolis, France
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Hao Z, Xie W, Chen B. Arbuscular Mycorrhizal Symbiosis Affects Plant Immunity to Viral Infection and Accumulation. Viruses 2019; 11:E534. [PMID: 31181739 PMCID: PMC6630321 DOI: 10.3390/v11060534] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2019] [Revised: 06/04/2019] [Accepted: 06/06/2019] [Indexed: 11/22/2022] Open
Abstract
Arbuscular mycorrhizal (AM) fungi, as root symbionts of most terrestrial plants, improve plant growth and fitness. In addition to the improved plant nutritional status, the physiological changes that trigger metabolic changes in the root via AM fungi can also increase the host ability to overcome biotic and abiotic stresses. Plant viruses are one of the important limiting factors for the commercial cultivation of various crops. The effect of AM fungi on viral infection is variable, and considerable attention is focused on shoot virus infection. This review provides an overview of the potential of AM fungi as bioprotection agents against viral diseases and emphasizes the complex nature of plant-fungus-virus interactions. Several mechanisms, including modulated plant tolerance, manipulation of induced systemic resistance (ISR), and altered vector pressure are involved in such interactions. We propose that using "omics" tools will provide detailed insights into the complex mechanisms underlying mycorrhizal-mediated plant immunity.
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Affiliation(s)
- Zhipeng Hao
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China.
| | - Wei Xie
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China.
- University of Chinese Academy of Sciences, Beijing 100049, China.
| | - Baodong Chen
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China.
- University of Chinese Academy of Sciences, Beijing 100049, China.
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Nguyen VC, Villate L, Gutierrez-Gutierrez C, Castillo P, Van Ghelder C, Plantard O, Esmenjaud D. Phylogeography of the soil-borne vector nematode Xiphinema index highly suggests Eastern origin and dissemination with domesticated grapevine. Sci Rep 2019; 9:7313. [PMID: 31086246 PMCID: PMC6513855 DOI: 10.1038/s41598-019-43812-4] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2018] [Accepted: 04/27/2019] [Indexed: 11/10/2022] Open
Abstract
The soil-borne nematode Xiphinema index is closely linked to its main host, the grapevine, and presents a major threat to vineyards worldwide due to its ability to transmit Grapevine fanleaf virus (GFLV). The phylogeography of X. index has been studied using mitochondrial and microsatellite markers in samples from most regions of its worldwide distribution to reveal its genetic diversity. We first used the mitochondrial marker CytB and illustrated the low intraspecific divergence of this mainly meiotic parthenogenetic species. To generate a higher polymorphism level, we then concatenated the sequences of CytB and three mitochondrial markers, ATP6, CO1 and ND4, to obtain a 3044-bp fragment. We differentiated two clades, which each contained two well-supported subclades. Samples from the eastern Mediterranean and the Near and Middle East were grouped into three of these subclades, whereas the samples from the western Mediterranean, Europe and the Americas all belonged to the fourth subclade. The highest polymorphism level was found in the samples of one of the Middle and Near East subclades, strongly suggesting that this region contained the native area of the nematode. An east-to-west nematode dissemination hypothesis appeared to match the routes of the domesticated grapevine during Antiquity, presumably mainly dispersed by the Greeks and the Romans. Surprisingly, the samples of the western subclade comprised only two highly similar mitochondrial haplotypes. The first haplotype, from southern Iberian Peninsula, Bordeaux and Provence vineyards, exhibited a high microsatellite polymorphism level that suggests introductions dating from Antiquity. The second haplotype contained a highly predominant microsatellite genotype widespread in distant western countries that may be a consequence of the massive grapevine replanting following the 19th-century phylloxera crisis. Finally, our study enabled us to draw a first scaffold of X. index diversity at the global scale.
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Affiliation(s)
- Van Chung Nguyen
- INRA, Université Nice Côte d'Azur, CNRS, ISA, Sophia Antipolis, 06903, France. .,Plant Protection Research Institute (PPRI), Hanoi, Vietnam.
| | - Laure Villate
- UMR1202 BIOGECO, INRA, University of Bordeaux, Pessac, 33615, France
| | - Carlos Gutierrez-Gutierrez
- NemaLab/ICAAM, Instituto de Ciencias Agrarias e Ambientais Mediterranicas & Dept. de Biologia, Universidade de Evora, Evora, 7002-554, Portugal
| | - Pablo Castillo
- Institute for Sustainable Agriculture (IAS), CSIC, Cordoba, 14004, Spain
| | - Cyril Van Ghelder
- INRA, Université Nice Côte d'Azur, CNRS, ISA, Sophia Antipolis, 06903, France
| | | | - Daniel Esmenjaud
- INRA, Université Nice Côte d'Azur, CNRS, ISA, Sophia Antipolis, 06903, France.
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Gracianne C, Jan P, Fournet S, Olivier E, Arnaud J, Porte C, Bardou‐Valette S, Denis M, Petit EJ. Temporal sampling helps unravel the genetic structure of naturally occurring populations of a phytoparasitic nematode. 2. Separating the relative effects of gene flow and genetic drift. Evol Appl 2016; 9:1005-16. [PMID: 27606008 PMCID: PMC4999530 DOI: 10.1111/eva.12401] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2015] [Accepted: 06/06/2016] [Indexed: 11/29/2022] Open
Abstract
Studying wild pathogen populations in natural ecosystems offers the opportunity to better understand the evolutionary dynamics of biotic diseases in crops and to enhance pest control strategies. We used simulations and genetic markers to investigate the spatial and temporal population genetic structure of wild populations of the beet cyst nematode Heterodera schachtii on a wild host plant species, the sea beet (Beta vulgaris spp. maritima), the wild ancestor of cultivated beets. Our analysis of the variation of eight microsatellite loci across four study sites showed that (i) wild H. schachtii populations displayed fine-scaled genetic structure with no evidence of substantial levels of gene flow beyond the scale of the host plant, and comparisons with simulations indicated that (ii) genetic drift substantially affected the residual signals of isolation-by-distance processes, leading to departures from migration-drift equilibrium. In contrast to what can be suspected for (crop) field populations, this showed that wild cyst nematodes have very low dispersal capabilities and are strongly disconnected from each other. Our results provide some key elements for designing pest control strategies, such as decreasing passive dispersal events to limit the spread of virulence among field nematode populations.
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Affiliation(s)
- Cécile Gracianne
- IGEPPINRA, Agrocampus OuestUniversité Rennes 1Le RheuFrance
- VetAgro Sup, UMR 1095, GDECClermont UniversitéClermont‐FerrandFrance
| | - Pierre‐Loup Jan
- IGEPPINRA, Agrocampus OuestUniversité Rennes 1Le RheuFrance
- ESE, Ecology and Ecosystems HealthAgrocampus OuestINRARennesFrance
| | | | - Eric Olivier
- IGEPPINRA, Agrocampus OuestUniversité Rennes 1Le RheuFrance
| | - Jean‐François Arnaud
- UMR CNRS 8198 ÉvolutionÉcologie et PaléontologieUniversité Lille 1 ‐ Sciences et TechnologiesVilleneuve d'Ascq CedexFrance
| | | | | | | | - Eric J. Petit
- ESE, Ecology and Ecosystems HealthAgrocampus OuestINRARennesFrance
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Thompson JR, Fuchs M, McLane H, Celebi-Toprak F, Fischer KF, Potter JL, Perry KL. Profiling viral infections in grapevine using a randomly primed reverse transcription-polymerase chain reaction/macroarray multiplex platform. PHYTOPATHOLOGY 2014; 104:211-9. [PMID: 24111573 DOI: 10.1094/phyto-06-13-0166-r] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
Crop-specific diagnostics to simultaneously detect a large number of pathogens provides an invaluable platform for the screening of vegetative material prior to its propagation. Here we report the use of what is to-date the largest published example of a crop-specific macroarray for the detection of 38 of the most prevalent or emergent viruses to infect grapevine. The reusable array consists of 1,578 virus-specific 60 to 70mer oligonucleotide probes and 19 plant and internal control probes spotted onto an 18 × 7 cm nylon membrane. In a survey of 99 grapevines from the United States and Europe, virus infections were detected in 46 selections of Vitis vinifera, V. labrusca, and interspecific hybrids. The majority of infected vines (30) was singly infected, while 16 were mixed-infected with viruses from two or more families. Representatives of the four main virus families Betaflexiviridae, Closteroviridae, Secoviridae, and Tymoviridae present in grapevines were found alone and in combination, with a notable bias in representation by members of the family Tymoviridae. This work demonstrates the utility of the macroarray platform for the multiplex detection of viruses in a single crop, its potential for characterizing grapevine virus associations, and usefulness for rapid diagnostics of introduced material in quarantine centers or in certification programs.
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11
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Villate L, Morin E, Demangeat G, Van Helden M, Esmenjaud D. Control of Xiphinema index populations by fallow plants under greenhouse and field conditions. PHYTOPATHOLOGY 2012; 102:627-634. [PMID: 22376084 DOI: 10.1094/phyto-01-12-0007] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
The dagger nematode Xiphinema index has a high economic impact in vineyards by direct pathogenicity and above all by transmitting the Grapevine fanleaf virus (GFLV). Agrochemicals have been largely employed to restrict the spread of GFLV by reducing X. index populations but are now banned. As an alternative to nematicides, the use of fallow plants between two successive vine crops was assessed. We selected plant species adapted to vineyard soils and exhibiting negative impact on nematodes and we evaluated their antagonistic effect on X. index in greenhouse using artificially infested soil, and in naturally infested vineyard conditions. The screening was conducted with plants belonging to the families Asteraceae (sunflower, marigold, zinnia, and nyjer), Poaceae (sorghum and rye), Fabaceae (white lupin, white melilot, hairy vetch, and alfalfa), Brassicaceae (rapeseed and camelina), and Boraginaceae (phacelia). In the greenhouse controlled assay, white lupin, nyjer, and marigold significantly reduced X. index populations compared with that of bare soil. The vineyard assay, designed to take into account the aggregative pattern of X. index distribution, revealed that marigold and hairy vetch are good candidates as cover crops to reduce X. index populations in vineyard. Moreover, this original experimental design could be applied to manage other soilborne pathogens.
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12
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Gutiérrez-Gutiérrez C, Castillo P, Cantalapiedra-Navarrete C, Landa BB, Derycke S, Palomares-Rius JE. Genetic structure of Xiphinema pachtaicum and X. index populations based on mitochondrial DNA variation. PHYTOPATHOLOGY 2011; 101:1168-1175. [PMID: 21554182 DOI: 10.1094/phyto-07-10-0194] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/30/2023]
Abstract
The dagger nematodes Xiphinema pachtaicum and X. index are two of the most widespread and frequently occurring Xiphinema spp. co-infesting vineyards and other crops and natural habitats worldwide. Sexual reproduction is rare in these species. The primary objective of this study was to determine the genetic structure of X. pachtaicum and X. index populations using eight and seven populations, respectively, from different "wine of denomination of origin (D.O.) zones" in Spain and Sardinia (Italy), by studying mitochondrial (cytochrome oxidase c subunit 1 or COI) and nuclear (D2-D3 expansion segments of 28S rDNA) markers. Both Xiphinema spp. showed low intraspecific divergence among COI sequences, ranging from 0.2% (1 base substitution) to 2.3% (10 substitutions) in X. pachtaicum and from 0.2% (1 base substitution) to 0.4% (2 substitutions) in X. index. Population genetic structure was strong for both species. Nevertheless, molecular differences among grapevine-growing areas were not significant, and intrapopulation diversity was very low. It is hypothesized that this genetic homogeneity in the nematode populations reflects their predominant parthenogenetic reproduction mode and low dispersal abilities. Our results also show that X. pachtaicum populations in Spain have possibly been established from two different populations of origin. Results also demonstrated that the two DNA regions studied are suitable diagnostic markers for X. index and X. pachtaicum.
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13
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Hwang CF, Xu K, Hu R, Zhou R, Riaz S, Walker MA. Cloning and characterization of XiR1, a locus responsible for dagger nematode resistance in grape. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2010; 121:789-99. [PMID: 20490447 PMCID: PMC2909427 DOI: 10.1007/s00122-010-1349-y] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2010] [Accepted: 04/28/2010] [Indexed: 05/24/2023]
Abstract
The dagger nematode, Xiphinema index, feeds aggressively on grape roots and in the process, vectors grapevine fanleaf virus (GFLV) leading to the severe viral disease known as fanleaf degeneration. Resistance to X. index and GFLV has been the key objective of grape rootstock breeding programs. A previous study found that resistance to X. index derived from Vitis arizonica was largely controlled by a major quantitative trait locus, XiR1 (X. index Resistance 1), located on chromosome 19. The study presented here develops high-resolution genetic and physical maps in an effort to identify the XiR1 gene(s). The mapping was carried out with 1,375 genotypes in three populations derived from D8909-15, a resistant selection from a cross of V. rupestris A. de Serres (susceptible) x V. arizonica b42-26 (resistant). Resistance to X. index was evaluated on 99 informative recombinants that were identified by screening the three populations with two markers flanking the XiR1 locus. The high-resolution genetic map of XiR1 was primarily constructed with seven DNA markers developed in this study. Physical mapping of XiR1 was accomplished by screening three bacterial artificial chromosome (BAC) libraries constructed from D8909-15, V. vinifera Cabernet Sauvignon and V. arizonica b42-26. A total of 32 BAC clones were identified and the XiR1 locus was delineated within a 115 kb region. Sequence analysis of three BAC clones identified putative nucleotide binding/leucine-rich repeat (NB-LRR) genes. This is the first report of a closely linked major gene locus responsible for ectoparasitic nematode resistance. The markers developed from this study are being used to expedite the breeding of resistant grape rootstocks.
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Affiliation(s)
- Chin-Feng Hwang
- Department of Viticulture and Enology, University of California, Davis, CA 95616 USA
- Present Address: William H. Darr School of Agriculture, Missouri State University, Mountain Grove, MO 65711 USA
| | - Kenong Xu
- Department of Viticulture and Enology, University of California, Davis, CA 95616 USA
- Present Address: Department of Horticultural Sciences, Cornell University, Geneva, NY 14456 USA
| | - Rong Hu
- Department of Viticulture and Enology, University of California, Davis, CA 95616 USA
| | - Rita Zhou
- Department of Viticulture and Enology, University of California, Davis, CA 95616 USA
- Present Address: Roswell Park Cancer Institute, Molecular and Cellular Biology Department, State Univeristy of New York, Buffalo, NY 14263 USA
| | - Summaira Riaz
- Department of Viticulture and Enology, University of California, Davis, CA 95616 USA
| | - M. Andrew Walker
- Department of Viticulture and Enology, University of California, Davis, CA 95616 USA
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14
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Oliver JE, Vigne E, Fuchs M. Genetic structure and molecular variability of Grapevine fanleaf virus populations. Virus Res 2010; 152:30-40. [PMID: 20540977 DOI: 10.1016/j.virusres.2010.05.017] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2010] [Revised: 05/27/2010] [Accepted: 05/31/2010] [Indexed: 10/19/2022]
Abstract
To gain insights into the evolutionary mechanisms of Grapevine fanleaf virus (GFLV) from the genus Nepovirus, family Secoviridae, the sequences of the complete coding region of RNA2, including genes 2A(HP), 2B(MP) and 2C(CP), and partial sequence from the RNA1-encoded gene 1E(Pol) of 14 GFLV isolates from three naturally infected California vineyards were characterized. Phylogenetic analyses suggested two to three evolutionarily divergent lineages that did not reflect the vineyard origin of the isolates or an association with rootstock genotype or scion cultivar. Examination of the genetic variability of the California isolates alongside isolates worldwide, for which three RNA1 and 44 RNA2 coding sequences are available, revealed similar patterns of molecular evolution for the different regions within the GFLV genome but distinct selection constraints with the strongest pressure exerted on genes 2C(CP) and 2B(MP), an intermediate level of pressure exerted on gene 1E(Pol), and the weakest pressure exerted on gene 2A(HP). Some of the California isolates resulted from interspecies recombination events between GFLV and Arabis mosaic virus with crossover sites suspected in gene 1E(Pol) and identified in genes 2A(HP) and 2B(MP); and intraspecies recombination events inferred in the four target genes but most frequently observed within gene 2C(CP). This study suggested that purifying selection and recombination are important evolutionary mechanisms in the genetic diversification of GFLV.
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Affiliation(s)
- J E Oliver
- Department of Plant Pathology and Plant-Microbe Biology, Cornell University, New York State Agricultural Experiment Station, 630 W. North Street, Geneva, NY 14456, USA
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15
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Demangeat G, Komar V, Van-Ghelder C, Voisin R, Lemaire O, Esmenjaud D, Fuchs M. Transmission competency of single-female Xiphinema index lines for Grapevine fanleaf virus. PHYTOPATHOLOGY 2010; 100:384-389. [PMID: 20205542 DOI: 10.1094/phyto-100-4-0384] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
Grapevine fanleaf virus (GFLV) is vectored specifically from grapevine to grapevine by the ectoparasitic nematode Xiphinema index. Limited information is available on the vector competency of X. index populations from diverse geographical origins. We determined the transmissibility of two GFLV strains showing 4.6% amino acid divergence within their coat protein (e.g., strains F13 and GHu) by seven clonal lines of X. index developed from seven distinct populations from the Mediterranean basin (Cyprus, southern France, Israel, Italy, and Spain), northern France, and California. X. index lines derived from single adult females were produced on fig (Ficus carica) plants to obtain genetically homogenous aviruliferous clones. A comparative reproductive rate analysis on Vitis rupestris du Lot and V. vinifera cv. Cabernet Sauvignon showed significant differences among clones, with the single-female Cyprus line showing the highest rate (30-fold the initial population) and the Spain and California lines showing the lowest rate (10-fold increase), regardless of the grapevine genotype. However, there was no differential vector competency among the seven X. index lines for GFLV strains F13 and GHu. The implications of our findings for the dynamic of GFLV transmission in vineyards and screening of Vitis spp. for resistance to GFLV are discussed.
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16
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VILLATE LAURE, ESMENJAUD DANIEL, VAN HELDEN MAARTEN, STOECKEL SOLENN, PLANTARD OLIVIER. Genetic signature of amphimixis allows for the detection and fine scale localization of sexual reproduction events in a mainly parthenogenetic nematode. Mol Ecol 2010; 19:856-73. [DOI: 10.1111/j.1365-294x.2009.04511.x] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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