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Epidemiology of Yam Viruses in Guadeloupe: Role of Cropping Practices and Seed-Tuber Supply. Viruses 2022; 14:v14112366. [PMID: 36366464 PMCID: PMC9692558 DOI: 10.3390/v14112366] [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: 10/08/2022] [Revised: 10/20/2022] [Accepted: 10/24/2022] [Indexed: 01/31/2023] Open
Abstract
The epidemiology of yam viruses remains largely unexplored. We present a large-scale epidemiological study of yam viruses in Guadeloupe based on the analysis of 1124 leaf samples collected from yams and weeds. We addressed the prevalence of cucumber mosaic virus (CMV), Cordyline virus 1 (CoV1), Dioscorea mosaic associated virus (DMaV), yam asymptomatic virus 1 (YaV1), yam mosaic virus (YMV), yam mild mosaic virus (YMMV), badnaviruses, macluraviruses and potexviruses, and the key epidemiological drivers of these viruses. We provide evidence that several weeds are reservoirs of YMMV and that YMMV isolates infecting weeds cluster together with those infecting yams, pointing to the role of weeds in the epidemiology of YMMV. We report the occurrence of yam chlorotic necrosis virus (YCNV) in Guadeloupe, the introduction of YMMV isolates through the importation of yam tubers, and the absence of vertical transmission of YaV1. We identified specific effects on some cropping practices, such as weed management and the use of chemical pesticides, on the occurrence of a few viruses, but no crop-related factor had a strong or general effect on the overall epidemiology of the targeted viruses. Overall, our work provides insights into the epidemiology of yam viruses that will help design more efficient control strategies.
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Diouf MB, Festus R, Silva G, Guyader S, Umber M, Seal S, Teycheney PY. Viruses of Yams (Dioscorea spp.): Current Gaps in Knowledge and Future Research Directions to Improve Disease Management. Viruses 2022; 14:v14091884. [PMID: 36146691 PMCID: PMC9501508 DOI: 10.3390/v14091884] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2022] [Revised: 08/19/2022] [Accepted: 08/22/2022] [Indexed: 12/24/2022] Open
Abstract
Viruses are a major constraint for yam production worldwide. They hamper the conservation, movement, and exchange of yam germplasm and are a threat to food security in tropical and subtropical areas of Africa and the Pacific where yam is a staple food and a source of income. However, the biology and impact of yam viruses remains largely unknown. This review summarizes current knowledge on yam viruses and emphasizes gaps that exist in the knowledge of the biology of these viruses, their diagnosis, and their impact on production. It provides essential information to inform the implementation of more effective virus control strategies.
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Affiliation(s)
- Mame Boucar Diouf
- INRAE, UR ASTRO, F-97170 Petit-Bourg, France
- CIRAD, UMR AGAP Institut, F-97130 Capesterre-Belle-Eau, France
- UMR AGAP Institut, University Montpellier, CIRAD, INRAE, Institut Agro, F-97130 Capesterre-Belle-Eau, France
| | - Ruth Festus
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent ME4 4TB, UK
| | - Gonçalo Silva
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent ME4 4TB, UK
| | | | - Marie Umber
- INRAE, UR ASTRO, F-97170 Petit-Bourg, France
| | - Susan Seal
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent ME4 4TB, UK
| | - Pierre Yves Teycheney
- CIRAD, UMR PVBMT, F-97410 Saint Pierre, France
- UMR PVBMT, Université de la Réunion, F-97410 Saint-Pierre, France
- Correspondence: ; Tel.: +33-262-492-819
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Buddenhagen CE, Xing Y, Andrade-Piedra JL, Forbes GA, Kromann P, Navarrete I, Thomas-Sharma S, Choudhury RA, Andersen Onofre KF, Schulte-Geldermann E, Etherton BA, Plex Sulá AI, Garrett KA. Where to Invest Project Efforts for Greater Benefit: A Framework for Management Performance Mapping with Examples for Potato Seed Health. PHYTOPATHOLOGY 2022; 112:1431-1443. [PMID: 34384240 DOI: 10.1094/phyto-05-20-0202-r] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Policymakers and donors often need to identify the locations where technologies are most likely to have important effects, to increase the benefits from agricultural development or extension efforts. Higher-quality information may help to target the high-benefit locations, but often actions are needed with limited information. The value of information (VOI) in this context is formalized by evaluating the results of decision making guided by a set of specific information compared with the results of acting without considering that information. We present a framework for management performance mapping that includes evaluating the VOI for decision making about geographic priorities in regional intervention strategies, in case studies of Andean and Kenyan potato seed systems. We illustrate the use of recursive partitioning, XGBoost, and Bayesian network models to characterize the relationships among seed health and yield responses and environmental and management predictors used in studies of seed degeneration. These analyses address the expected performance of an intervention based on geographic predictor variables. In the Andean example, positive selection of seed from asymptomatic plants was more effective at high altitudes in Ecuador. In the Kenyan example, there was the potential to target locations with higher technology adoption rates and with higher potato cropland connectivity, i.e., a likely more important role in regional epidemics. Targeting training to high management performance areas would often provide more benefits than would random selection of target areas. We illustrate how assessing the VOI can contribute to targeted development programs and support a culture of continuous improvement for interventions.[Formula: see text] Copyright © 2022 The Author(s). This is an open access article distributed under the CC BY 4.0 International license.
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Affiliation(s)
- C E Buddenhagen
- Plant Pathology Department, University of Florida, Gainesville, U.S.A
- Food Systems Institute, University of Florida, Gainesville, U.S.A
- Emerging Pathogens Institute, University of Florida, Gainesville, U.S.A
- AgResearch, Ltd., Ruakura, Hamilton, New Zealand
| | - Y Xing
- Plant Pathology Department, University of Florida, Gainesville, U.S.A
- Food Systems Institute, University of Florida, Gainesville, U.S.A
- Emerging Pathogens Institute, University of Florida, Gainesville, U.S.A
| | | | | | - P Kromann
- International Potato Center, Lima, Peru
- Field Crops, Wageningen University and Research, Lelystad, The Netherlands
| | - I Navarrete
- International Potato Center, Lima, Peru
- Centre for Crop Systems Analysis, Wageningen University and Research, Wageningen, The Netherlands
- Knowledge, Technology and Innovation, Wageningen University and Research, Wageningen, The Netherlands
| | - S Thomas-Sharma
- Department of Plant Pathology and Crop Physiology, Louisiana State University Agricultural Center, Baton Rouge, U.S.A
| | - R A Choudhury
- Plant Pathology Department, University of Florida, Gainesville, U.S.A
- Food Systems Institute, University of Florida, Gainesville, U.S.A
- Emerging Pathogens Institute, University of Florida, Gainesville, U.S.A
- School of Earth, Environment, Marine Science, University of Texas, Rio Grande Valley, U.S.A
| | - K F Andersen Onofre
- Plant Pathology Department, University of Florida, Gainesville, U.S.A
- Food Systems Institute, University of Florida, Gainesville, U.S.A
- Emerging Pathogens Institute, University of Florida, Gainesville, U.S.A
- Department of Plant Pathology, Kansas State University, Manhattan, U.S.A
| | - E Schulte-Geldermann
- International Potato Center, Nairobi, Kenya
- Department of Agriculture, University of Applied Sciences Bingen, Bingen, Germany
| | - B A Etherton
- Plant Pathology Department, University of Florida, Gainesville, U.S.A
- Food Systems Institute, University of Florida, Gainesville, U.S.A
- Emerging Pathogens Institute, University of Florida, Gainesville, U.S.A
| | - A I Plex Sulá
- Plant Pathology Department, University of Florida, Gainesville, U.S.A
- Food Systems Institute, University of Florida, Gainesville, U.S.A
- Emerging Pathogens Institute, University of Florida, Gainesville, U.S.A
| | - K A Garrett
- Plant Pathology Department, University of Florida, Gainesville, U.S.A
- Food Systems Institute, University of Florida, Gainesville, U.S.A
- Emerging Pathogens Institute, University of Florida, Gainesville, U.S.A
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Challenges and opportunities for plant viruses under a climate change scenario. Adv Virus Res 2022. [DOI: 10.1016/bs.aivir.2022.08.001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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Niño Á, Del Toro FJ, Tenllado F, Canto T, Franco-Lara L. Molecular insights on potato yellow vein crinivirus infections in the highlands of Colombia. J Gen Virol 2021; 102. [PMID: 34097597 DOI: 10.1099/jgv.0.001604] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Potato yellow vein virus (PYVV) was detected in potatoes grown in the Central highlands, north of Bogotá (~3000 m altitude), Colombia. At this altitude viral whitefly vectors are largely absent, but infection persists because of the use of uncertified tubers. Plants with typical PYVV-induced yellowing symptoms, as well as with atypical yellowing or non-symptomatic symptoms were sampled at three separate geographical locations. PYVV presence was assessed by RT-PCR, and several plants were subjected to high-throughput sequencing (HTS) of their small RNA (sRNA) populations. Complete or almost complete sequences of four PYVV isolates were thus reconstructed, all from symptomatic plants. Three viral isolates infected plants singly, while the fourth co-infected the plant together with a potyvirus. Relative proportions of sRNAs to each of the three crinivirus genomic RNAs were found to remain comparable among the four infections. Genomic regions were identified as hotspots of sRNA formation, or as regions that poorly induced sRNAs. Furthermore, PYVV titres in the mixed versus single infections remained comparable, indicating an absence of synergistic/antagonistic effects of the potyvirus on the accumulation of PYVV. Daughter plants raised in the greenhouse from tubers of the infected, field-sampled plants displayed mild PYVV infection symptoms that disappeared with time, demonstrating the occurrence of recovery and asymptomatic infection phenotypes in this pathosystem.
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Affiliation(s)
- Ángela Niño
- Faculty of Basic and Applied Sciences, Universidad Militar Nueva Granada, Km 2 via Cajicá-Zipaquirá, Cajicá, Cundinamarca, Colombia
| | - Francisco J Del Toro
- Department of Microbial and Plant Biotechnology, Center for Biological Research, CIB-CSIC, Ramiro de Maeztu 9, Madrid 28040, Spain
| | - Francisco Tenllado
- Department of Microbial and Plant Biotechnology, Center for Biological Research, CIB-CSIC, Ramiro de Maeztu 9, Madrid 28040, Spain
| | - Tomás Canto
- Department of Microbial and Plant Biotechnology, Center for Biological Research, CIB-CSIC, Ramiro de Maeztu 9, Madrid 28040, Spain
| | - Liliana Franco-Lara
- Faculty of Basic and Applied Sciences, Universidad Militar Nueva Granada, Km 2 via Cajicá-Zipaquirá, Cajicá, Cundinamarca, Colombia
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Kumar RR, Ansar M, Rajani K, Kumar J, Ranjan T. First report on molecular basis of potato leaf roll virus (PLRV) aggravation by combined effect of tuber and prevailing aphid. BMC Res Notes 2020; 13:523. [PMID: 33172492 PMCID: PMC7657319 DOI: 10.1186/s13104-020-05370-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2020] [Accepted: 10/31/2020] [Indexed: 11/10/2022] Open
Abstract
OBJECTIVE The Potato Leaf Roll Virus (PLRV) is one of the most devastating virus causing severe yield losses worldwide in potato. The comprehensive observations were made to study the PLRV infestation in major potato growing areas of Bihar (India) and further detailed molecular basis of PLRV aggravation was established. RESULTS Although aphids population were found comparatively lower with maximum symptomatic plants, our molecular data further confirms the presence of PLRV in all possible symptomatic tissues such as tubers, shoots and leaves. For the first time, we have proposed molecular basis of aggravation of PLRV, where tuber acts as a reservoir during off-season and further transmitted by aphids.
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Affiliation(s)
- Ravi Ranjan Kumar
- Department of Molecular Biology and Genetic Engineering, Bihar Agricultural University, Sabour, Bhagalpur, 813 210, India
| | - Mohammad Ansar
- Department of Plant Pathology, Bihar Agricultural University, Sabour, Bhagalpur, 813 210, India
| | - Kumari Rajani
- Department of Seed Science and Technology, Bihar Agricultural University, Sabour, Bhagalpur, 813 210, India
| | - Jitesh Kumar
- Department of Molecular Biology and Genetic Engineering, Bihar Agricultural University, Sabour, Bhagalpur, 813 210, India
| | - Tushar Ranjan
- Department of Molecular Biology and Genetic Engineering, Bihar Agricultural University, Sabour, Bhagalpur, 813 210, India.
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Bragard C, Dehnen-Schmutz K, Gonthier P, Jacques MA, Jaques Miret JA, Justesen AF, MacLeod A, Magnusson CS, Milonas P, Navas-Cortes JA, Parnell S, Potting R, Reignault PL, Thulke HH, van der Werf W, Vicent Civera A, Yuen J, Zappalà L, Candresse T, Lacomme C, Bottex B, Oplaat C, Roenhorst A, Schenk M, Di Serio F. Pest categorisation of potato leafroll virus (non-EU isolates). EFSA J 2020; 18:e05939. [PMID: 32626493 PMCID: PMC7008912 DOI: 10.2903/j.efsa.2020.5939] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Following a request from the EU Commission, the Panel on Plant Health has addressed the pest categorisation of non‐EU isolates of potato leafroll virus (PLRV). The information currently available on geographical distribution, biology, epidemiology, potential entry pathways, potential additional impact and availability of control measures of non‐EU isolates of PLRV has been evaluated with regard to the criteria to qualify as a potential Union quarantine pest. Because non‐EU isolates of PLRV are absent from the EU, they do not meet one of the requirements to be regulated as a regulated non‐quarantine pest (RNQP) (presence in the EU); as a consequence, the Panel decided not to evaluate the other RNQP criteria for these isolates. This categorisation was performed considering two groups of PLRV isolates: those associated with the tomato yellow top disease (PLRV‐TYTV), not reported from the EU, and all other isolates (hereafter referred to as PLRV), with a worldwide distribution. Isolates of PLRV‐TYTV could potentially have an additional impact over the current situation in the EU and therefore meet all the criteria to qualify as a potential Union quarantine pest. All other non‐EU PLRV isolates, should they be introduced, are not expected to have additional impact and therefore do not meet this criterion to qualify as a potential Union quarantine pest.
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Why interventions in the seed systems of roots, tubers and bananas crops do not reach their full potential. Food Secur 2019. [DOI: 10.1007/s12571-018-0874-4] [Citation(s) in RCA: 51] [Impact Index Per Article: 10.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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Arce A, de Haan S, Burra DD, Ccanto R. Unearthing Unevenness of Potato Seed Networks in the High Andes: A Comparison of Distinct Cultivar Groups and Farmer Types Following Seasons With and Without Acute Stress. FRONTIERS IN SUSTAINABLE FOOD SYSTEMS 2018. [DOI: 10.3389/fsufs.2018.00043] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023] Open
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Buddenhagen CE, Hernandez Nopsa JF, Andersen KF, Andrade-Piedra J, Forbes GA, Kromann P, Thomas-Sharma S, Useche P, Garrett KA. Epidemic Network Analysis for Mitigation of Invasive Pathogens in Seed Systems: Potato in Ecuador. PHYTOPATHOLOGY 2017; 107:1209-1218. [PMID: 28742457 DOI: 10.1094/phyto-03-17-0108-fi] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Seed systems have an important role in the distribution of high-quality seed and improved varieties. The structure of seed networks also helps to determine the epidemiological risk for seedborne disease. We present a new approach for evaluating the epidemiological role of nodes in seed networks, and apply it to a regional potato farmer consortium (Consorcio de Productores de Papa [CONPAPA]) in Ecuador. We surveyed farmers to estimate the structure of networks of farmer seed tuber and ware potato transactions, and farmer information sources about pest and disease management. Then, we simulated pathogen spread through seed transaction networks to identify priority nodes for disease detection. The likelihood of pathogen establishment was weighted based on the quality or quantity of information sources about disease management. CONPAPA staff and facilities, a market, and certain farms are priorities for disease management interventions such as training, monitoring, and variety dissemination. Advice from agrochemical store staff was common but assessed as significantly less reliable. Farmer access to information (reported number and quality of sources) was similar for both genders. However, women had a smaller amount of the market share for seed tubers and ware potato. Understanding seed system networks provides input for scenario analyses to evaluate potential system improvements. [Formula: see text] Copyright © 2017 The Author(s). This is an open access article distributed under the CC BY 4.0 International license .
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Affiliation(s)
- C E Buddenhagen
- First, second, third, and ninth authors: Plant Pathology Department, Institute for Sustainable Food Systems, and Emerging Pathogens Institute, University of Florida, Gainesville 32611; fourth and fifth authors: International Potato Center, Lima, Peru; sixth author: International Potato Center, Quito, Ecuador; seventh author: Plant Pathology Department, Kansas State University, Manhattan 66506; and eighth author: Food and Resource Economics Department, University of Florida
| | - J F Hernandez Nopsa
- First, second, third, and ninth authors: Plant Pathology Department, Institute for Sustainable Food Systems, and Emerging Pathogens Institute, University of Florida, Gainesville 32611; fourth and fifth authors: International Potato Center, Lima, Peru; sixth author: International Potato Center, Quito, Ecuador; seventh author: Plant Pathology Department, Kansas State University, Manhattan 66506; and eighth author: Food and Resource Economics Department, University of Florida
| | - K F Andersen
- First, second, third, and ninth authors: Plant Pathology Department, Institute for Sustainable Food Systems, and Emerging Pathogens Institute, University of Florida, Gainesville 32611; fourth and fifth authors: International Potato Center, Lima, Peru; sixth author: International Potato Center, Quito, Ecuador; seventh author: Plant Pathology Department, Kansas State University, Manhattan 66506; and eighth author: Food and Resource Economics Department, University of Florida
| | - J Andrade-Piedra
- First, second, third, and ninth authors: Plant Pathology Department, Institute for Sustainable Food Systems, and Emerging Pathogens Institute, University of Florida, Gainesville 32611; fourth and fifth authors: International Potato Center, Lima, Peru; sixth author: International Potato Center, Quito, Ecuador; seventh author: Plant Pathology Department, Kansas State University, Manhattan 66506; and eighth author: Food and Resource Economics Department, University of Florida
| | - G A Forbes
- First, second, third, and ninth authors: Plant Pathology Department, Institute for Sustainable Food Systems, and Emerging Pathogens Institute, University of Florida, Gainesville 32611; fourth and fifth authors: International Potato Center, Lima, Peru; sixth author: International Potato Center, Quito, Ecuador; seventh author: Plant Pathology Department, Kansas State University, Manhattan 66506; and eighth author: Food and Resource Economics Department, University of Florida
| | - P Kromann
- First, second, third, and ninth authors: Plant Pathology Department, Institute for Sustainable Food Systems, and Emerging Pathogens Institute, University of Florida, Gainesville 32611; fourth and fifth authors: International Potato Center, Lima, Peru; sixth author: International Potato Center, Quito, Ecuador; seventh author: Plant Pathology Department, Kansas State University, Manhattan 66506; and eighth author: Food and Resource Economics Department, University of Florida
| | - S Thomas-Sharma
- First, second, third, and ninth authors: Plant Pathology Department, Institute for Sustainable Food Systems, and Emerging Pathogens Institute, University of Florida, Gainesville 32611; fourth and fifth authors: International Potato Center, Lima, Peru; sixth author: International Potato Center, Quito, Ecuador; seventh author: Plant Pathology Department, Kansas State University, Manhattan 66506; and eighth author: Food and Resource Economics Department, University of Florida
| | - P Useche
- First, second, third, and ninth authors: Plant Pathology Department, Institute for Sustainable Food Systems, and Emerging Pathogens Institute, University of Florida, Gainesville 32611; fourth and fifth authors: International Potato Center, Lima, Peru; sixth author: International Potato Center, Quito, Ecuador; seventh author: Plant Pathology Department, Kansas State University, Manhattan 66506; and eighth author: Food and Resource Economics Department, University of Florida
| | - K A Garrett
- First, second, third, and ninth authors: Plant Pathology Department, Institute for Sustainable Food Systems, and Emerging Pathogens Institute, University of Florida, Gainesville 32611; fourth and fifth authors: International Potato Center, Lima, Peru; sixth author: International Potato Center, Quito, Ecuador; seventh author: Plant Pathology Department, Kansas State University, Manhattan 66506; and eighth author: Food and Resource Economics Department, University of Florida
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