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Olita T, Cao Z, Gibberd M. Economic analysis of crop protection strategies: comparing the value of increased fungicide inputs and crop genetic improvement in managing Ascochyta blight in Australian chickpeas. PEST MANAGEMENT SCIENCE 2024. [PMID: 39036897 DOI: 10.1002/ps.8319] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/27/2023] [Revised: 07/03/2024] [Accepted: 07/05/2024] [Indexed: 07/23/2024]
Abstract
BACKGROUND Genetic improvement of crop varieties requires significant investment. Therefore, varieties must be developed to suit a broad range of breeding targets, such as yield and suitability to rainfall zones, farm management practices and quality traits. In the case of breeding for disease resistance, breeders need to consider the value of genetic improvement relative to other disease management strategies and the dynamics of pathogen genetic and phenotypic diversity. This study uses a benefit-cost analysis framework to assess the economic value of fungicide management and crop genetic improvement in disease resistance for Australian chickpea varieties. RESULTS When assessing the likelihood of growers switching to new crop varieties with improved genetic resistance to disease, the simulation results reveal that adopting these varieties yielded higher net benefit values compared to implementing current fungicide strategies across all rainfall zones. On average, the increase in net benefit varied between 2.6% and 3.5%. Conversely, when we examined the scenario involving modifying the current fungicide strategy, we observed that, on average, switching from the current fungicide management strategy to one which involved additional fungicides was beneficial in about 73% of the cases. CONCLUSION Our analysis reveals the importance of factors such as commodity prices, production costs, disease-related variables and risk aversion in determining the economic benefits of adopting new crop protection strategies. Furthermore, the research reveals the need for accessible information and reliable data sources when evaluating the benefits of new agricultural technologies. This would assist growers in making informed and sustainable disease management decisions. © 2024 The Author(s). Pest Management Science published by John Wiley & Sons Ltd on behalf of Society of Chemical Industry.
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Affiliation(s)
- Toto Olita
- Centre for Crop and Disease Management, Curtin University, Bentley, Australia
| | - Zhanglong Cao
- Centre for Crop and Disease Management, Curtin University, Bentley, Australia
| | - Mark Gibberd
- Centre for Crop and Disease Management, Curtin University, Bentley, Australia
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Maya-Aguirre CA, Torres A, Gutiérrez-Castañeda LD, Salazar LM, Abreu-Villaça Y, Manhães AC, Arenas NE. Changes in the proteome of Apis mellifera acutely exposed to sublethal dosage of glyphosate and imidacloprid. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2024; 31:45954-45969. [PMID: 38980489 PMCID: PMC11269427 DOI: 10.1007/s11356-024-34185-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/12/2024] [Accepted: 06/26/2024] [Indexed: 07/10/2024]
Abstract
Uncontrolled use of pesticides has caused a dramatic reduction in the number of pollinators, including bees. Studies on the effects of pesticides on bees have reported effects on both metabolic and neurological levels under chronic exposure. In this study, variations in the differential expression of head and thorax-abdomen proteins in Africanized A. mellifera bees treated acutely with sublethal doses of glyphosate and imidacloprid were studied using a proteomic approach. A total of 92 proteins were detected, 49 of which were differentially expressed compared to those in the control group (47 downregulated and 2 upregulated). Protein interaction networks with differential protein expression ratios suggested that acute exposure of A. mellifera to sublethal doses of glyphosate could cause head damage, which is mainly associated with behavior and metabolism. Simultaneously, imidacloprid can cause damage associated with metabolism as well as, neuronal damage, cellular stress, and impairment of the detoxification system. Regarding the thorax-abdomen fractions, glyphosate could lead to cytoskeleton reorganization and a reduction in defense mechanisms, whereas imidacloprid could affect the coordination and impairment of the oxidative stress response.
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Affiliation(s)
- Carlos Andrés Maya-Aguirre
- Instituto de Biotecnología, Facultad de Ciencias, Universidad Nacional de Colombia, Ciudad Universitaria, Avenida Carrera 30 N° 45-03, Bogota, D.C, Colombia
- Grupo Ciencias Básicas en Salud-CBS-FUCS, Fundación Universitaria de Ciencias de La Salud, Hospital Infanti L Universitario de San José, Carrera 54 No.67A-80, Bogota, D.C., Colombia
| | - Angela Torres
- Departmento de Química, Facultad de Ciencias, Universidad Nacional de Colombia, Ciudad Universitaria, Avenida Carrera 30 N° 45-03, Bogota, D.C., Colombia
| | - Luz Dary Gutiérrez-Castañeda
- Grupo Ciencias Básicas en Salud-CBS-FUCS, Fundación Universitaria de Ciencias de La Salud, Hospital Infanti L Universitario de San José, Carrera 54 No.67A-80, Bogota, D.C., Colombia
| | - Luz Mary Salazar
- Departmento de Química, Facultad de Ciencias, Universidad Nacional de Colombia, Ciudad Universitaria, Avenida Carrera 30 N° 45-03, Bogota, D.C., Colombia
| | - Yael Abreu-Villaça
- Laboratório de Neurofisiologia, Departamento de Ciências Fisiológicas, Instituto de Biologia Roberto Alcantara Gomes, Universidade Do Estado Do Rio de Janeiro (UERJ), Rio de Janeiro, RJ, 20550-170, Brazil
| | - Alex Christian Manhães
- Laboratório de Neurofisiologia, Departamento de Ciências Fisiológicas, Instituto de Biologia Roberto Alcantara Gomes, Universidade Do Estado Do Rio de Janeiro (UERJ), Rio de Janeiro, RJ, 20550-170, Brazil
| | - Nelson Enrique Arenas
- Facultad de Medicina, Universidad de Cartagena, Campus Zaragocilla, Barrio Zaragocilla, Carrera 50a #24-63, Cartagena de Indias, Bolivar, Colombia.
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Sajad M, Shabir S, Singh SK, Bhardwaj R, Alsanie WF, Alamri AS, Alhomrani M, Alsharif A, Vamanu E, Singh MP. Role of nutraceutical against exposure to pesticide residues: power of bioactive compounds. Front Nutr 2024; 11:1342881. [PMID: 38694227 PMCID: PMC11061536 DOI: 10.3389/fnut.2024.1342881] [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: 11/23/2023] [Accepted: 03/25/2024] [Indexed: 05/04/2024] Open
Abstract
Pesticides play a crucial role in modern agriculture, aiding in the protection of crops from pests and diseases. However, their indiscriminate use has raised concerns about their potential adverse effects on human health and the environment. Pesticide residues in food and water supplies are a serious health hazards to the general public since long-term exposure can cause cancer, endocrine disruption, and neurotoxicity, among other health problems. In response to these concerns, researchers and health professionals have been exploring alternative approaches to mitigate the toxic effects of pesticide residues. Bioactive substances called nutraceuticals that come from whole foods including fruits, vegetables, herbs, and spices have drawn interest because of their ability to mitigate the negative effects of pesticide residues. These substances, which include minerals, vitamins, antioxidants, and polyphenols, have a variety of biological actions that may assist in the body's detoxification and healing of harm from pesticide exposure. In this context, this review aims to explore the potential of nutraceutical interventions as a promising strategy to mitigate the toxic effects of pesticide residues.
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Affiliation(s)
- Mabil Sajad
- School of Bioengineering and Biosciences, Lovely Professional University, Phagwara, India
| | - Shabnam Shabir
- School of Bioengineering and Biosciences, Lovely Professional University, Phagwara, India
| | | | - Rima Bhardwaj
- Department of Chemistry, Poona College, Savitribai Phule Pune University, Pune, India
| | - Walaa F. Alsanie
- Department of Clinical Laboratory Sciences, The Faculty of Applied Medical Sciences, Taif University, Taif, Saudi Arabia
- Research Center for Health Sciences, Deanship of Graduate Studies and Scientific Research, Taif University, Taif, Saudi Arabia
| | - Abdulhakeem S. Alamri
- Department of Clinical Laboratory Sciences, The Faculty of Applied Medical Sciences, Taif University, Taif, Saudi Arabia
- Research Center for Health Sciences, Deanship of Graduate Studies and Scientific Research, Taif University, Taif, Saudi Arabia
| | - Majid Alhomrani
- Department of Clinical Laboratory Sciences, The Faculty of Applied Medical Sciences, Taif University, Taif, Saudi Arabia
- Research Center for Health Sciences, Deanship of Graduate Studies and Scientific Research, Taif University, Taif, Saudi Arabia
| | - Abdulaziz Alsharif
- Department of Clinical Laboratory Sciences, The Faculty of Applied Medical Sciences, Taif University, Taif, Saudi Arabia
- Research Center for Health Sciences, Deanship of Graduate Studies and Scientific Research, Taif University, Taif, Saudi Arabia
| | - Emanuel Vamanu
- Faculty of Biotechnology, University of Agricultural Sciences and Veterinary Medicine, Bucharest, Romania
| | - Mahendra P. Singh
- Department of Zoology, Deen Dayal Upadhyay Gorakhpur University, Gorakhpur, India
- Centre of Genomics and Bioinformatics, Deen Dayal Upadhyay Gorakhpur University, Gorakhpur, India
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Palacio JCR, Bunn C, Rahn E, Little-Savage D, Schimidt P, Ryo M. Geographic-Scale Coffee Cherry Counting with Smartphones and Deep Learning. PLANT PHENOMICS (WASHINGTON, D.C.) 2024; 6:0165. [PMID: 38572469 PMCID: PMC10988386 DOI: 10.34133/plantphenomics.0165] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/05/2023] [Accepted: 03/07/2024] [Indexed: 04/05/2024]
Abstract
Deep learning and computer vision, using remote sensing and drones, are 2 promising nondestructive methods for plant monitoring and phenotyping. However, their applications are infeasible for many crop systems under tree canopies, such as coffee crops, making it challenging to perform plant monitoring and phenotyping at a large spatial scale at a low cost. This study aims to develop a geographic-scale monitoring method for coffee cherry counting, supported by an artificial intelligence (AI)-powered citizen science approach. The approach uses basic smartphones to take a few pictures of coffee trees; 2,968 trees were investigated with 8,904 pictures in Junín and Piura (Peru), Cauca, and Quindío (Colombia) in 2022, with the help of nearly 1,000 smallholder coffee farmers. Then, we trained and validated YOLO (You Only Look Once) v8 for detecting cherries in the dataset in Peru. An average number of cherries per picture was multiplied by the number of branches to estimate the total number of cherries per tree. The model's performance in Peru showed an R2 of 0.59. When the model was tested in Colombia, where different varieties are grown in different biogeoclimatic conditions, the model showed an R2 of 0.71. The overall performance in both countries reached an R2 of 0.72. The results suggest that the method can be applied to much broader scales and is transferable to other varieties, countries, and regions. To our knowledge, this is the first AI-powered method for counting coffee cherries and has the potential for a geographic-scale, multiyear, photo-based phenotypic monitoring for coffee crops in low-income countries worldwide.
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Affiliation(s)
- Juan Camilo Rivera Palacio
- Leibniz Centre for Agricultural Landscape Research (ZALF), Müncheberg, 15374, Germany
- Alliance of Bioversity International and CIAT, Rome, 00153, Italy
- Brandenburg University of Technology Cottbus-Senftenberg, Cottbus, 03046, Germany
| | - Christian Bunn
- Alliance of Bioversity International and CIAT, Rome, 00153, Italy
| | - Eric Rahn
- Alliance of Bioversity International and CIAT, Rome, 00153, Italy
| | | | - Paul Schimidt
- Alliance of Bioversity International and CIAT, Rome, 00153, Italy
| | - Masahiro Ryo
- Leibniz Centre for Agricultural Landscape Research (ZALF), Müncheberg, 15374, Germany
- Brandenburg University of Technology Cottbus-Senftenberg, Cottbus, 03046, Germany
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Ajuna HB, Lim HI, Moon JH, Won SJ, Choub V, Choi SI, Yun JY, Ahn YS. The Prospect of Hydrolytic Enzymes from Bacillus Species in the Biological Control of Pests and Diseases in Forest and Fruit Tree Production. Int J Mol Sci 2023; 24:16889. [PMID: 38069212 PMCID: PMC10707167 DOI: 10.3390/ijms242316889] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2023] [Revised: 11/26/2023] [Accepted: 11/27/2023] [Indexed: 12/18/2023] Open
Abstract
Plant diseases and insect pest damage cause tremendous losses in forestry and fruit tree production. Even though chemical pesticides have been effective in the control of plant diseases and insect pests for several decades, they are increasingly becoming undesirable due to their toxic residues that affect human life, animals, and the environment, as well as the growing challenge of pesticide resistance. In this study, we review the potential of hydrolytic enzymes from Bacillus species such as chitinases, β-1,3-glucanases, proteases, lipases, amylases, and cellulases in the biological control of phytopathogens and insect pests, which could be a more sustainable alternative to chemical pesticides. This study highlights the application potential of the hydrolytic enzymes from different Bacillus sp. as effective biocontrol alternatives against phytopathogens/insect pests through the degradation of cell wall/insect cuticles, which are mainly composed of structural polysaccharides like chitins, β-glucans, glycoproteins, and lipids. This study demonstrates the prospects for applying hydrolytic enzymes from Bacillus sp. as effective biopesticides in forest and fruit tree production, their mode of biocidal activity and dual antimicrobial/insecticidal potential, which indicates a great prospect for the simultaneous biocontrol of pests/diseases. Further research should focus on optimizing the production of hydrolytic enzymes, and the antimicrobial/insecticidal synergism of different Bacillus sp. which could facilitate the simultaneous biocontrol of pests and diseases in forest and fruit tree production.
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Affiliation(s)
- Henry B. Ajuna
- Department of Forest Resources, College of Agriculture and Life Sciences, Chonnam National University, Gwangju 61186, Republic of Korea; (H.B.A.); (J.-H.M.); (S.-J.W.); (V.C.); (S.-I.C.); (J.-Y.Y.)
| | - Hyo-In Lim
- Forest Bioinformation Division, National Institute of Forest Science, Suwon 16631, Republic of Korea;
| | - Jae-Hyun Moon
- Department of Forest Resources, College of Agriculture and Life Sciences, Chonnam National University, Gwangju 61186, Republic of Korea; (H.B.A.); (J.-H.M.); (S.-J.W.); (V.C.); (S.-I.C.); (J.-Y.Y.)
| | - Sang-Jae Won
- Department of Forest Resources, College of Agriculture and Life Sciences, Chonnam National University, Gwangju 61186, Republic of Korea; (H.B.A.); (J.-H.M.); (S.-J.W.); (V.C.); (S.-I.C.); (J.-Y.Y.)
| | - Vantha Choub
- Department of Forest Resources, College of Agriculture and Life Sciences, Chonnam National University, Gwangju 61186, Republic of Korea; (H.B.A.); (J.-H.M.); (S.-J.W.); (V.C.); (S.-I.C.); (J.-Y.Y.)
| | - Su-In Choi
- Department of Forest Resources, College of Agriculture and Life Sciences, Chonnam National University, Gwangju 61186, Republic of Korea; (H.B.A.); (J.-H.M.); (S.-J.W.); (V.C.); (S.-I.C.); (J.-Y.Y.)
| | - Ju-Yeol Yun
- Department of Forest Resources, College of Agriculture and Life Sciences, Chonnam National University, Gwangju 61186, Republic of Korea; (H.B.A.); (J.-H.M.); (S.-J.W.); (V.C.); (S.-I.C.); (J.-Y.Y.)
| | - Young Sang Ahn
- Department of Forest Resources, College of Agriculture and Life Sciences, Chonnam National University, Gwangju 61186, Republic of Korea; (H.B.A.); (J.-H.M.); (S.-J.W.); (V.C.); (S.-I.C.); (J.-Y.Y.)
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Triki HEM, Ribeyre F, Pinard F, Jaeger M. Coupling Plant Growth Models and Pest and Disease Models: An Interaction Structure Proposal, MIMIC. PLANT PHENOMICS (WASHINGTON, D.C.) 2023; 5:0077. [PMID: 37545839 PMCID: PMC10403158 DOI: 10.34133/plantphenomics.0077] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/31/2023] [Accepted: 07/10/2023] [Indexed: 08/08/2023]
Abstract
Coupling plant growth model with pests and diseases (P&D) models, with consideration for the long-term feedback that occurs after the interaction, is still a challenging task nowadays. While a number of studies have examined various methodologies, none of them provides a generic frame able to host existing models and their codes without updating deeply their architecture. We developed MIMIC (Mediation Interface for Model Inner Coupling), an open-access framework/tool for this objective. MIMIC allows to couple plant growth and P&D models in a variety of ways. Users can experiment with various interaction configurations, ranging from a weak coupling that is mediated by the direct exchange of inputs and outputs between models to an advanced coupling that utilizes a third-party tool if the models' data or operating cycles do not align. The users decide how the interactions operate, and the platform offers powerful tools to design key features of the interactions, mobilizing metaprogramming techniques. The proposed framework is demonstrated, implementing coffee berry borers' attacks on Coffea arabica fruits. Observations conducted in a field in Sumatra (Indonesia) assess the coupled interaction model. Finally, we highlight the user-centric implementation characteristics of MIMIC, as a practical and convenient tool that requires minimal coding knowledge to use.
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Affiliation(s)
- Houssem E. M. Triki
- CIRAD, UMR AMAP, F-34398 Montpellier, France
- AMAP, University of Montpellier, CIRAD, CNRS, INRAE, IRD, Montpellier, France
- CIRAD, UMR PHIM, F-34398 Montpellier, France
- PHIM, University of Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France
| | - Fabienne Ribeyre
- CIRAD, UMR PHIM, F-34398 Montpellier, France
- PHIM, University of Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France
| | - Fabrice Pinard
- PHIM, University of Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France
- CIRAD, UMR PHIM, 00100 Nairobi, Kenya
| | - Marc Jaeger
- CIRAD, UMR AMAP, F-34398 Montpellier, France
- AMAP, University of Montpellier, CIRAD, CNRS, INRAE, IRD, Montpellier, France
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Saeed F, Hashmi MH, Aksoy E, Demirel U, Bakhsh A. Identification and characterization of RNA polymerase II (RNAP) C-Terminal domain phosphatase-like 3 (SlCPL3) in tomato under biotic stress. Mol Biol Rep 2023; 50:6783-6793. [PMID: 37392286 DOI: 10.1007/s11033-023-08564-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2022] [Accepted: 05/31/2023] [Indexed: 07/03/2023]
Abstract
BACKGROUND Bacterial diseases are a huge threat to the production of tomatoes. During infection intervals, pathogens affect biochemical, oxidant and molecular properties of tomato. Therefore, it is necessary to study the antioxidant enzymes, oxidation state and genes involved during bacterial infection in tomato. METHODS AND RESULTS Different bioinformatic analyses were performed to conduct homology, gene promoter analysis and determined protein structure. Antioxidant, MDA and H2O2 response was measured in Falcon, Rio grande and Sazlica tomato cultivars. In this study, RNA Polymerase II (RNAP) C-Terminal Domain Phosphatase-like 3 (SlCPL-3) gene was identified and characterized. It contained 11 exons, and encoded for two protein domains i.e., CPDCs and BRCT. SOPMA and Phyre2, online bioinformatic tools were used to predict secondary structure. For the identification of protein pockets CASTp web-based tool was used. Netphos and Pondr was used for prediction of phosphorylation sites and protein disordered regions. Promoter analysis revealed that the SlCPL-3 is involved in defense-related mechanisms. We further amplified two different regions of SlCPL-3 and sequenced them. It showed homology respective to the reference tomato genome. Our results showed that SlCPL-3 gene was triggered during bacterial stress. SlCPL-3 expression was upregulated in response to bacterial stress during different time intervals. Rio grande showed a high level of SICPL-3 gene expression after 72 hpi. Biochemical and gene expression analysis showed that under biotic stress Rio grande cultivar is more sensitive to Pst DC 3000 bacteria. CONCLUSION This study lays a solid foundation for the functional characterization of SlCPL-3 gene in tomato cultivars. All these findings would be beneficial for further analysis of SlCPL-3 gene and may be helpful for the development of resilient tomato cultivars.
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Affiliation(s)
- Faisal Saeed
- Department of Agricultural Genetic Engineering, Faculty of Agricultural Sciences and Technologies, Nigde Omer Halisdemir University, 51240, Nigde, Turkey
| | - Muneeb Hassan Hashmi
- Department of Agricultural Genetic Engineering, Faculty of Agricultural Sciences and Technologies, Nigde Omer Halisdemir University, 51240, Nigde, Turkey
| | - Emre Aksoy
- Dept. of Biological Sciences, Middle East Technical University, 06800, Cankaya, Ankara, Turkey
| | - Ufuk Demirel
- Department of Agricultural Genetic Engineering, Faculty of Agricultural Sciences and Technologies, Nigde Omer Halisdemir University, 51240, Nigde, Turkey
| | - Allah Bakhsh
- Department of Agricultural Genetic Engineering, Faculty of Agricultural Sciences and Technologies, Nigde Omer Halisdemir University, 51240, Nigde, Turkey.
- Centre of Excellence in Molecular Biology, University of the Punjab, Lahore, Pakistan.
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Watts D, Palombo EA, Jaimes Castillo A, Zaferanloo B. Endophytes in Agriculture: Potential to Improve Yields and Tolerances of Agricultural Crops. Microorganisms 2023; 11:1276. [PMID: 37317250 DOI: 10.3390/microorganisms11051276] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2023] [Revised: 05/08/2023] [Accepted: 05/10/2023] [Indexed: 06/16/2023] Open
Abstract
Endophytic fungi and bacteria live asymptomatically within plant tissues. In recent decades, research on endophytes has revealed that their significant role in promoting plants as endophytes has been shown to enhance nutrient uptake, stress tolerance, and disease resistance in the host plants, resulting in improved crop yields. Evidence shows that endophytes can provide improved tolerances to salinity, moisture, and drought conditions, highlighting the capacity to farm them in marginal land with the use of endophyte-based strategies. Furthermore, endophytes offer a sustainable alternative to traditional agricultural practices, reducing the need for synthetic fertilizers and pesticides, and in turn reducing the risks associated with chemical treatments. In this review, we summarise the current knowledge on endophytes in agriculture, highlighting their potential as a sustainable solution for improving crop productivity and general plant health. This review outlines key nutrient, environmental, and biotic stressors, providing examples of endophytes mitigating the effects of stress. We also discuss the challenges associated with the use of endophytes in agriculture and the need for further research to fully realise their potential.
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Affiliation(s)
- Declan Watts
- Department of Chemistry and Biotechnology, School of Science, Computing and Engineering Technologies, Swinburne University of Technology, Hawthorn, VIC 3122, Australia
| | - Enzo A Palombo
- Department of Chemistry and Biotechnology, School of Science, Computing and Engineering Technologies, Swinburne University of Technology, Hawthorn, VIC 3122, Australia
| | - Alex Jaimes Castillo
- Department of Chemistry and Biotechnology, School of Science, Computing and Engineering Technologies, Swinburne University of Technology, Hawthorn, VIC 3122, Australia
| | - Bita Zaferanloo
- Department of Chemistry and Biotechnology, School of Science, Computing and Engineering Technologies, Swinburne University of Technology, Hawthorn, VIC 3122, Australia
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Priyadarshana TS, Lee MB, Slade EM, Goodale E. Local scale crop compositional heterogeneity suppresses the abundance of a major lepidopteran pest of cruciferous vegetables. Basic Appl Ecol 2023. [DOI: 10.1016/j.baae.2023.03.001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/13/2023]
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10
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Dispersal and plant arrangement condition the timing and magnitude of coffee rust infection. Ecol Modell 2023. [DOI: 10.1016/j.ecolmodel.2022.110206] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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11
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Buziashvili A, Yemets A. Lactoferrin and its role in biotechnological strategies for plant defense against pathogens. Transgenic Res 2022; 32:1-16. [PMID: 36534334 PMCID: PMC9761627 DOI: 10.1007/s11248-022-00331-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2022] [Accepted: 11/25/2022] [Indexed: 12/23/2022]
Abstract
Agricultural crops are susceptible to many diseases caused by various pathogens, such as viruses, bacteria and fungi. This paper reviews the general principles of plant protection against pathogens, as well as the role of iron and antimicrobial peptide metabolism in plant immunity. The article highlights the principles of antibacterial, fungicidal and antiviral action of lactoferrin, a mammalian secretory glycoprotein, and lactoferrin peptides, and their role in protecting plants from phytopathogens. This review offers a comprehensive analysis and shows potential prospects of using the lactoferrin gene to enhance plant resistance to various phytopathogens, as well as the advantages of this biotechnological approach over existing methods of protecting plants against various diseases.
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Affiliation(s)
- Anastasiia Buziashvili
- Department of Cell Biology and Biotechnology, Institute of Food Biotechnology and Genomics, National Academy of Sciences of Ukraine, Baidy-Vyshnevetskogo Str., 2a, Kyiv, 04123 Ukraine
| | - Alla Yemets
- Department of Cell Biology and Biotechnology, Institute of Food Biotechnology and Genomics, National Academy of Sciences of Ukraine, Baidy-Vyshnevetskogo Str., 2a, Kyiv, 04123 Ukraine
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12
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Gomes FM, Baranzini N, Grimaldi A, Lopes-Torres EJ. Editorial: Advances on the physiology and cell Biology of invertebrate parasites. Front Physiol 2022; 13:1066273. [DOI: 10.3389/fphys.2022.1066273] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2022] [Accepted: 10/12/2022] [Indexed: 11/13/2022] Open
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13
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Hough J, Howard JD, Brown S, Portwood DE, Kilby PM, Dickman MJ. Strategies for the production of dsRNA biocontrols as alternatives to chemical pesticides. Front Bioeng Biotechnol 2022; 10:980592. [PMID: 36299286 PMCID: PMC9588923 DOI: 10.3389/fbioe.2022.980592] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2022] [Accepted: 08/23/2022] [Indexed: 01/09/2023] Open
Abstract
Current crop pest control strategies rely on insecticidal and fungicidal sprays, plant genetic resistance, transgenes and agricultural practices. However, many insects, plant viruses, and fungi have no current means of control or have developed resistance against traditional pesticides. dsRNA is emerging as a novel sustainable method of plant protection as an alternative to traditional chemical pesticides. The successful commercialisation of dsRNA based biocontrols for effective pest management strategies requires the economical production of large quantities of dsRNA combined with suitable delivery methods to ensure RNAi efficacy against the target pest. A number of methods exist for the production and delivery of dsRNA based biocontrols and here we review alternative methods currently employed and emerging new approaches for their production. Additionally, we highlight potential challenges that will need to be addressed prior to widespread adoption of dsRNA biocontrols as novel sustainable alternatives to traditional chemical pesticides.
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Affiliation(s)
- James Hough
- Department of Chemical and Biological Engineering, University of Sheffield, Sheffield, United Kingtom
| | - John D. Howard
- Department of Chemical and Biological Engineering, University of Sheffield, Sheffield, United Kingtom
| | - Stephen Brown
- Sheffield RNAi Screening Facility, School of Biosciences, University of Sheffield, Sheffield, United Kingtom
| | - David E. Portwood
- Syngenta, Jealott’s Hill International Research Centre, Bracknell, United Kingdom
| | - Peter M. Kilby
- Syngenta, Jealott’s Hill International Research Centre, Bracknell, United Kingdom
| | - Mark J. Dickman
- Department of Chemical and Biological Engineering, University of Sheffield, Sheffield, United Kingtom
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Girma F, Fininsa C, Terefe H, Amsalu B. Evaluation of common bean (Phaseolus vulgaris) genotypes for resistance to common bacterial blight and angular leaf spot diseases, and agronomic performances. Heliyon 2022; 8:e10425. [PMID: 36090225 PMCID: PMC9449762 DOI: 10.1016/j.heliyon.2022.e10425] [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: 01/25/2022] [Revised: 06/10/2022] [Accepted: 08/18/2022] [Indexed: 11/27/2022] Open
Abstract
Common bean is the most important pulse crops worldwide and in Ethiopia for its multipurpose uses. However, common bean production and productivity is mainly constrained by common bacterial blight (CBB) and angular leaf spot (ALS) diseases. Identifying and using resistant common bean genotypes is the best option to reduce the impact of such bacterial and fungal diseases. Field experiments were carried out to evaluate the genetic resistance of 25 common bean genotypes as treatments to CBB and ALS diseases, and agronomic performances at Haramaya and Melkassa, Ethiopia, during the 2019 and 2020 main cropping seasons. The treatments were arranged in a 5 × 5 triple lattice design with three replications. Data on disease intensity, growth, grain yield and yield components were recorded. Analysis of variance indicated significant (p < 0.0001) variations existed among the genotypes for diseases intensity, grain yield and yield components. Eight genotypes, namely DAB-388, DAB-478, DRKDDRB-70, DRKDDRB-81, NUA-225, NUA-517, NUA-536 and NUA-577 attained relatively low disease severity, AUDPC and disease progress rate next to the checks Zoasho (DAB-96) and Gorossa (Biofort large seed-5) to both common bean diseases regardless of locations and seasons. The genotype DAB-525 showed a moderately resistant reaction to both CBB and ALS, and the other genotypes demonstrated variable disease resistance reactions at both locations and in the two cropping years. Similarly, genotypes DAB-388, NUA-225, NUA-517, and NUA-577 relatively executed well for grain yield and yield components at both experimental fields in the 2019 and 2020 main cropping seasons. Disease severity and grain yield variably and negatively associated with reaction groups of genotypes evaluated for reaction CBB and ALS diseases. In the study, resistance to CBB and ALS diseases and good agronomic performing common bean genotypes were identified which could be important for smallholder and commercial bean production in the study area and other similar agro-ecologies in Ethiopia. It is suggested that a large number of common bean accessions should be evaluated in CBB and ALS hot spot agro-ecologies of Ethiopia for more sources of resistance and better agronomic advantages.
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Harmon O'Driscoll J, Siggins A, Healy MG, McGinley J, Mellander PE, Morrison L, Ryan PC. A risk ranking of pesticides in Irish drinking water considering chronic health effects. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 829:154532. [PMID: 35302029 DOI: 10.1016/j.scitotenv.2022.154532] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/15/2021] [Revised: 02/21/2022] [Accepted: 03/08/2022] [Indexed: 06/14/2023]
Abstract
This paper presents a novel scoring system which facilitates a relative ranking of pesticide risk to human health arising from contaminated drinking water. This method was developed to identify risky pesticides to better inform monitoring programmes and risk assessments. Potential risk was assessed considering pesticide use, chronic human health effects and environmental fate. Site-specific soil conditions, such as soil erodibility, hydrologic group, soil depth, clay, sand, silt, and organic carbon content of soil, were incorporated to demonstrate how pesticide fate can be influenced by the areas in which they are used. The indices of quantity of use, consequence and likelihood of exposure, hazard score and quantity-weighted hazard score were used to describe the level of concern that should be attributed to a pesticide. Metabolite toxicity and persistence were also considered in a separate scoring to highlight the contribution metabolites make to overall pesticide risk. This study presents two sets of results for 63 pesticides in an Irish case study, (1) risk scores calculated for the parent compounds only and (2) a combined pesticide-metabolite risk score. In both cases the results are assessed for two locations with differing soil and hydrological properties. The method developed in this paper can be adapted by pesticide users to assess and compare pesticide risk at site level using pesticide hazard scores. Farm advisors, water quality monitors, and catchment managers can apply this method to screen pesticides for human health risk at a regional or national level.
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Affiliation(s)
- J Harmon O'Driscoll
- Discipline of Civil, Structural and Environmental Engineering, School of Engineering, University College Cork, Cork, Ireland
| | - A Siggins
- Civil Engineering and Ryan Institute, National University of Ireland Galway, Galway, Ireland; Teagasc Environmental Research Centre, Johnstown Castle, Co. Wexford, Ireland
| | - M G Healy
- Civil Engineering and Ryan Institute, National University of Ireland Galway, Galway, Ireland
| | - J McGinley
- Civil Engineering and Ryan Institute, National University of Ireland Galway, Galway, Ireland
| | - P-E Mellander
- Teagasc Environmental Research Centre, Johnstown Castle, Co. Wexford, Ireland
| | - L Morrison
- Earth and Ocean Sciences, School of Natural Sciences and Ryan Institute, National University of Ireland Galway, Galway, Ireland
| | - P C Ryan
- Discipline of Civil, Structural and Environmental Engineering, School of Engineering, University College Cork, Cork, Ireland; Environmental Research Institute, University College Cork, Cork, T23 XE10, Ireland.
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Santos MDL, de Resende MLV, Alves GSC, Huguet-Tapia JC, Resende MFRDJ, Brawner JT. Genome-Wide Identification, Characterization, and Comparative Analysis of NLR Resistance Genes in Coffea spp. FRONTIERS IN PLANT SCIENCE 2022; 13:868581. [PMID: 35874027 PMCID: PMC9301388 DOI: 10.3389/fpls.2022.868581] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/02/2022] [Accepted: 06/09/2022] [Indexed: 06/15/2023]
Abstract
The largest family of disease resistance genes in plants are nucleotide-binding site leucine-rich repeat genes (NLRs). The products of these genes are responsible for recognizing avirulence proteins (Avr) of phytopathogens and triggering specific defense responses. Identifying NLRs in plant genomes with standard gene annotation software is challenging due to their multidomain nature, sequence diversity, and clustered genomic distribution. We present the results of a genome-wide scan and comparative analysis of NLR loci in three coffee species (Coffea canephora, Coffea eugenioides and their interspecific hybrid Coffea arabica). A total of 1311 non-redundant NLR loci were identified in C. arabica, 927 in C. canephora, and 1079 in C. eugenioides, of which 809, 562, and 695 are complete loci, respectively. The NLR-Annotator tool used in this study showed extremely high sensitivities and specificities (over 99%) and increased the detection of putative NLRs in the reference coffee genomes. The NLRs loci in coffee are distributed among all chromosomes and are organized mostly in clusters. The C. arabica genome presented a smaller number of NLR loci when compared to the sum of the parental genomes (C. canephora, and C. eugenioides). There are orthologous NLRs (orthogroups) shared between coffee, tomato, potato, and reference NLRs and those that are shared only among coffee species, which provides clues about the functionality and evolutionary history of these orthogroups. Phylogenetic analysis demonstrated orthologous NLRs shared between C. arabica and the parental genomes and those that were possibly lost. The NLR family members in coffee are subdivided into two main groups: TIR-NLR (TNL) and non-TNL. The non-TNLs seem to represent a repertoire of resistance genes that are important in coffee. These results will support functional studies and contribute to a more precise use of these genes for breeding disease-resistant coffee cultivars.
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Affiliation(s)
- Mariana de Lima Santos
- Laboratório de Fisiologia do Parasitismo, Faculdade de Ciências Agrárias, Departamento de Fitopatologia, Universidade Federal de Lavras, Lavras, Brazil
| | - Mário Lúcio Vilela de Resende
- Laboratório de Fisiologia do Parasitismo, Faculdade de Ciências Agrárias, Departamento de Fitopatologia, Universidade Federal de Lavras, Lavras, Brazil
| | - Gabriel Sérgio Costa Alves
- Laboratório de Processos Biológicos e Produtos Biotecnológicos, Instituto de Ciências Biológicas, Departamento de Biologia Celular, Universidade de Brasília, Brasília, Brazil
| | - Jose Carlos Huguet-Tapia
- Institute of Food and Agricultural Sciences, Department of Plant Pathology, University of Florida, Gainesville, FL, United States
| | | | - Jeremy Todd Brawner
- Institute of Food and Agricultural Sciences, Department of Plant Pathology, University of Florida, Gainesville, FL, United States
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Lu L, Karunarathna SC, Hyde KD, Suwannarach N, Elgorban AM, Stephenson SL, Al-Rejaie S, Jayawardena RS, Tibpromma S. Endophytic Fungi Associated with Coffee Leaves in China Exhibited In Vitro Antagonism against Fungal and Bacterial Pathogens. J Fungi (Basel) 2022; 8:jof8070698. [PMID: 35887454 PMCID: PMC9317674 DOI: 10.3390/jof8070698] [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: 05/16/2022] [Revised: 06/24/2022] [Accepted: 06/28/2022] [Indexed: 11/17/2022] Open
Abstract
Coffee endophytes have been studied for almost 74 years, and several studies have demonstrated coffee-endophytic fungi with antibacterial and antifungal potential for human and plant pathogens. In this study, we isolated and identified a total of 235 strains of endophytic fungi from coffee leaf tissues collected in four coffee plantations in Pu’er city, Yunnan province, China. Molecular identification was carried out using maximum likelihood phylogenetic analysis of nuclear ribosomal internal transcribed spacer (ITS1-5.8S rDNA-ITS2) sequences, while the colonization rate and the isolation frequency were also calculated. Two pathogenic fungi (Alternaria alternata and Penicillium digitatum) and two pathogenic bacteria (Pseudomonas syringae and Salmonella enterica subsp. enterica) were used for screening the antagonistic activities of 61 strains of coffee-endophytic fungi by a dual-culture test assay while maximum likelihood phylogenetic analysis confirmed their natural classification. This is the first study of coffee-leaf-endophytic fungal diversity in China, and the results revealed that coffee-endophytic fungi from this study belong to the Ascomycota, distributed among two classes, 10 orders, and 17 families. Concurrently, endophytic fungi isolates distributed in Arthrinium, Biscogniauxia, Daldinia, Diaporthe, and Nigrospora showed strong antagonistic activities against the pathogens. For the pathogens Alternaria alternata and Pseudomonas syringae, Nigrospora XCE-7 showed the best inhibitory effects with inhibition rates of 71.76% and 61.11%, respectively. For the pathogen Penicillium digitatum, Daldinia ME-9 showed the best inhibitory effect with a 74.67% inhibition rate, while Biscogniauxia PTE-7 and Daldinia T5E-1-3 showed the best inhibitory effect with a rate of 60.42% against the pathogen Salmonella enterica subsp. enterica. Overall, our study shows the diversity of coffee endophytes in four coffee-growing areas in Pu’er city, Yunnan province, China, and their potential use as biological control agents against two fungal and two bacterial pathogens.
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Affiliation(s)
- Li Lu
- Center for Yunnan Plateau Biological Resources Protection and Utilization, Yunnan Engineering Research Center of Fruit Wine, College of Biological Resource and Food Engineering, Qujing Normal University, Qujing 655011, China; (L.L.); (S.C.K.)
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai 57100, Thailand; (K.D.H.); (R.S.J.)
- School of Science, Mae Fah Luang University, Chiang Rai 57100, Thailand
| | - Samantha C. Karunarathna
- Center for Yunnan Plateau Biological Resources Protection and Utilization, Yunnan Engineering Research Center of Fruit Wine, College of Biological Resource and Food Engineering, Qujing Normal University, Qujing 655011, China; (L.L.); (S.C.K.)
| | - Kevin D. Hyde
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai 57100, Thailand; (K.D.H.); (R.S.J.)
- School of Science, Mae Fah Luang University, Chiang Rai 57100, Thailand
- Innovative Institute for Plant Health, Zhong Kai University, Guangzhou 510550, China
| | - Nakarin Suwannarach
- Research Center of Microbial Diversity and Sustainable Utilization, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand;
| | - Abdallah M. Elgorban
- Department of Botany and Microbiology, College of Science, King Saud University, Riyadh P.O. Box 145111, Saudi Arabia;
| | - Steven L. Stephenson
- Department of Biological Sciences, University of Arkansas, Fayetteville, AR 72701, USA;
| | - Salim Al-Rejaie
- Department of Pharmacology & Toxicology, College of Pharmacy, King Saud University, Riyadh P.O. Box 145111, Saudi Arabia;
| | - Ruvishika S. Jayawardena
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai 57100, Thailand; (K.D.H.); (R.S.J.)
- School of Science, Mae Fah Luang University, Chiang Rai 57100, Thailand
| | - Saowaluck Tibpromma
- Center for Yunnan Plateau Biological Resources Protection and Utilization, Yunnan Engineering Research Center of Fruit Wine, College of Biological Resource and Food Engineering, Qujing Normal University, Qujing 655011, China; (L.L.); (S.C.K.)
- Correspondence:
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Merle I, Hipólito J, Requier F. Towards integrated pest and pollinator management in tropical crops. CURRENT OPINION IN INSECT SCIENCE 2022; 50:100866. [PMID: 34971783 DOI: 10.1016/j.cois.2021.12.006] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/26/2021] [Revised: 12/05/2021] [Accepted: 12/15/2021] [Indexed: 06/14/2023]
Abstract
Biotic pollination and pest control are two critical insect-mediated ecosystem services that support crop production. Although management of both services is usually treated separately, the new paradigm of Integrated Pest and Pollinator Management (IPPM) suggests synergetic benefits by considering them together. We reviewed the management practices in two major tropical perennial crops: cocoa and coffee, to assess IPPM applications under the tropics. We found potential synergies and antagonisms among crop pest and pollination management, however, very few studies considered these interactions. Interestingly, we also found management practices focusing mainly on a single service mediated by insects although species can show multiple ecological functions as pests, natural enemies, or pollinators. The tropics represent a promising area for the implementation of IPPM and future research should address this concept to move towards a more sustainable agriculture.
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Affiliation(s)
- Isabelle Merle
- Université Paris-Saclay, CNRS, IRD, UMR Évolution, Génomes, Comportement et Écologie, Gif-sur-Yvette, 91198, France
| | - Juliana Hipólito
- Instituto de Biologia, Universidade Federal da Bahia, Salvador, BA, Brazil; Instituto Nacional de Pesquisas da Amazônia, Manaus, AM, Brazil
| | - Fabrice Requier
- Université Paris-Saclay, CNRS, IRD, UMR Évolution, Génomes, Comportement et Écologie, Gif-sur-Yvette, 91198, France.
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19
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Comprehensive Review of Fungi on Coffee. Pathogens 2022; 11:pathogens11040411. [PMID: 35456086 PMCID: PMC9024902 DOI: 10.3390/pathogens11040411] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2022] [Revised: 03/19/2022] [Accepted: 03/22/2022] [Indexed: 02/04/2023] Open
Abstract
Coffee is grown in more than 80 countries as a cash crop and consumed worldwide as a beverage and food additive. It is susceptible to fungal infection during growth, processing and storage. Fungal infections, in particular, can seriously affect the quality of coffee and threaten human health. The data for this comprehensive review were collected from the United States Department of Agriculture, Agricultural Research Service (USDA ARS) website and published papers. This review lists the fungal species reported on coffee based on taxonomy, life mode, host, affected plant part and region. Five major fungal diseases and mycotoxin-producing species (post-harvest diseases of coffee) are also discussed. Furthermore, we address why coffee yield and quality are affected by fungi and propose methods to control fungal infections to increase coffee yield and improve quality. Endophytic fungi and their potential as biological control agents of coffee disease are also discussed.
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20
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Zewdie B, Tack AJM, Ayalew B, Wondafrash M, Nemomissa S, Hylander K. Plant biodiversity declines with increasing coffee yield in Ethiopia’s coffee agroforests. J Appl Ecol 2022. [DOI: 10.1111/1365-2664.14130] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Beyene Zewdie
- Department of Ecology Environment and Plant Sciences Stockholm University Svante Arrhenius väg 20A Stockholm Sweden
| | - Ayco J. M. Tack
- Department of Ecology Environment and Plant Sciences Stockholm University Svante Arrhenius väg 20A Stockholm Sweden
| | - Biruk Ayalew
- Department of Ecology Environment and Plant Sciences Stockholm University Svante Arrhenius väg 20A Stockholm Sweden
| | - Melaku Wondafrash
- Department of Plant Biology and Biodiversity Management Addis Ababa University College of Natural and Computational Sciences PO Box 3434 Addis Ababa Ethiopia
| | - Sileshi Nemomissa
- Department of Plant Biology and Biodiversity Management Addis Ababa University College of Natural and Computational Sciences PO Box 3434 Addis Ababa Ethiopia
| | - Kristoffer Hylander
- Department of Ecology Environment and Plant Sciences Stockholm University Svante Arrhenius väg 20A Stockholm Sweden
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21
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Cambou A, Thaler P, Clément-Vidal A, Barthès BG, Charbonnier F, Van den Meersche K, Aguilar Vega ME, Avelino J, Davrieux F, Labouisse JP, de Melo Virginio Filho E, Deleporte P, Brunet D, Lehner P, Roupsard O. Concurrent starch accumulation in stump and high fruit production in coffee (Coffea arabica). TREE PHYSIOLOGY 2021; 41:2308-2325. [PMID: 34046676 DOI: 10.1093/treephys/tpab075] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/08/2020] [Accepted: 05/24/2021] [Indexed: 06/12/2023]
Abstract
In coffee, fruit production on a given shoot drops after some years of high yield, triggering pruning to induce resprouting. The timing of pruning is a crucial farmer's decision affecting yield and labour. One reason for fruit production drop could be the exhaustion of resources, particularly the non-structural carbohydrates (NSC). To test this hypothesis in a Coffea L. arabica agroforestry system, we measured the concentrations of NSC, carbon (C) and nitrogen (N) in leaves, stems and stumps of the coffee plants, 2 and 5 years after pruning. We also compared shaded vs full sun plants. For that purpose, both analytical reference and visible and near infrared reflectance spectroscopy (VNIRS) methods were used. As expected, concentrations of biochemical variables linked to photosynthesis activity (N, glucose, fructose, sucrose) decreased from leaves to stems, and then to stumps. In contrast, variables linked more closely to plant structure and reserves (total C, C:N ratio, starch concentration) were higher in long lifespan organs like stumps. Shading had little effect on most measured parameters, contrary to expectations. Concentrations of N, glucose and fructose were higher in 2-year-old organs. Conversely, starch concentration in perennial stumps was three times higher 5 years after pruning than 2 years after pruning, despite high fruit production. Therefore, the drop in fruit production occurring after 5-6 years was not due to a lack of NSC on plant scale. Starch accumulation in perennial organs concurrently to other sinks, such as fruit growth, could be considered as a 'survival' strategy, which may be a relic of the behaviour of wild coffee (a tropical shade-tolerant plant). This study confirmed that VNIRS is a promisingly rapid and cost-effective option for starch monitoring (coefficient of determination for validation, R2val = 0.91), whereas predictions were less accurate for soluble sugars, probably due to their too similar spectral signature.
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Affiliation(s)
- Aurélie Cambou
- Eco&Sols, Univ Montpellier, CIRAD, INRAE, IRD, Institut Agro, place Viala, 34060 Montpellier Cedex 2, France
| | - Philippe Thaler
- Eco&Sols, Univ Montpellier, CIRAD, INRAE, IRD, Institut Agro, place Viala, 34060 Montpellier Cedex 2, France
- CIRAD, UMR Eco&Sols, place Viala, 34060 Montpellier Cedex 2, France
| | - Anne Clément-Vidal
- CIRAD, UMR AGAP Institut, avenue Agropolis, 34398 Montpellier Cedex 5, France
- UMR AGAP Institut, Univ Montpellier, CIRAD, INRAE, Institut Agro, avenue Agropolis, 34398 Montpellier Cedex 5, France
| | - Bernard G Barthès
- Eco&Sols, Univ Montpellier, CIRAD, INRAE, IRD, Institut Agro, place Viala, 34060 Montpellier Cedex 2, France
| | - Fabien Charbonnier
- Eco&Sols, Univ Montpellier, CIRAD, INRAE, IRD, Institut Agro, place Viala, 34060 Montpellier Cedex 2, France
- CIRAD, UMR Eco&Sols, place Viala, 34060 Montpellier Cedex 2, France
- CONACyT El Colegio de la Frontera Sur, Carretera panamericana y periférico sur s/n, Barrio María Auxiliadora, 29290 San Cristóbal de Las Casas, Chiapas, México
| | - Karel Van den Meersche
- Eco&Sols, Univ Montpellier, CIRAD, INRAE, IRD, Institut Agro, place Viala, 34060 Montpellier Cedex 2, France
- CIRAD, UMR Eco&Sols, place Viala, 34060 Montpellier Cedex 2, France
- CATIE, Agroforestry and Coffee and Cocoa Breeding Research Unit, 7170 Turrialba, 30501 Cartago, Costa Rica
| | - Maria E Aguilar Vega
- CATIE, Agroforestry and Coffee and Cocoa Breeding Research Unit, 7170 Turrialba, 30501 Cartago, Costa Rica
| | - Jacques Avelino
- CATIE, Agroforestry and Coffee and Cocoa Breeding Research Unit, 7170 Turrialba, 30501 Cartago, Costa Rica
- CIRAD, UMR PHIM, 7170 Turrialba, 30501 Cartago, Costa Rica
- PHIM Plant Health Institute, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, avenue Agropolis, 34394 Montpellier Cedex 5, France
| | - Fabrice Davrieux
- Qualisud, Univ Montpellier, Avignon Université, CIRAD, Institut Agro, Université de La Réunion, rue Jean-François Breton, 34398 Montpellier Cedex 5, France
- CIRAD, UMR Qualisud, rue Joseph Wetzell, 97490 Sainte-Clotilde, Réunion, France
| | - Jean-Pierre Labouisse
- CIRAD, UMR AGAP Institut, avenue Agropolis, 34398 Montpellier Cedex 5, France
- UMR AGAP Institut, Univ Montpellier, CIRAD, INRAE, Institut Agro, avenue Agropolis, 34398 Montpellier Cedex 5, France
| | | | - Philippe Deleporte
- Eco&Sols, Univ Montpellier, CIRAD, INRAE, IRD, Institut Agro, place Viala, 34060 Montpellier Cedex 2, France
- CIRAD, UMR Eco&Sols, place Viala, 34060 Montpellier Cedex 2, France
| | - Didier Brunet
- Eco&Sols, Univ Montpellier, CIRAD, INRAE, IRD, Institut Agro, place Viala, 34060 Montpellier Cedex 2, France
| | - Peter Lehner
- Cafetalera Aquiares S.A., 7150 Turrialba, 30501 Cartago, Costa Rica
| | - Olivier Roupsard
- Eco&Sols, Univ Montpellier, CIRAD, INRAE, IRD, Institut Agro, place Viala, 34060 Montpellier Cedex 2, France
- CATIE, Agroforestry and Coffee and Cocoa Breeding Research Unit, 7170 Turrialba, 30501 Cartago, Costa Rica
- CIRAD, UMR Eco&Sols, Route des Hydrocarbures, BP 1386, Dakar CP 18524, Senegal
- LMI IESOL, Centre IRD-ISRA de Bel Air, Route des Hydrocarbures, BP 1386, CP 18524, Dakar, Senegal
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22
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Ayele A, Worku M, Bekele Y. Trend, instability and decomposition analysis of coffee production in Ethiopia (1993-2019). Heliyon 2021; 7:e08022. [PMID: 34589632 PMCID: PMC8461354 DOI: 10.1016/j.heliyon.2021.e08022] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2021] [Revised: 07/25/2021] [Accepted: 09/15/2021] [Indexed: 11/30/2022] Open
Abstract
Measuring the trends of growth and variability in agricultural production is important to understand how outputs change over time. Ethiopia is the largest producer of coffee in Africa and the fifth in the world. Despite the abundant opportunities and continuous efforts made to enhance its production, it is often said that the productivity of Ethiopian coffee remains far below its potential. Yet, empirical data on the status of coffee production over time in Ethiopia is scant. We, thus, analyzed the trend, instability, and decomposition of coffee production in Ethiopia for three periods, i.e., the entire period (1993–2019), the pre-Agricultural Growth Program period (1993–2010), and the Agricultural Growth Program period (2011–2019). In all three periods, harvested area and production showed an increasing trend while productivity showed a cyclical decreasing trend. The compound growth rates of harvested area (8.14%) and production (6.68%) in the 1993–2019 period were positive and significant at 1% level, whereas that of productivity (-0.45%) was not significant. Similarly, the compound growth rates of harvested area and production during pre-AGP (6.02 and 6.06%) and AGP (6.43 and 3.57%) were positive, but only significant during AGP, and that of productivity in both pre-AGP and AGP (0.19 and -1.6%) were not significant. Productivity was, however, more stable than harvested area and production during the entire and pre-AGP periods, while harvested area and production were more stable in AGP than in the other two periods. Besides, the harvested area effect on production differentials was substantial in all three periods, while productivity and productivity-harvested area interaction effects declined production during the entire and AGP periods. Overall, the results demonstrate that to enhance and sustain coffee production in Ethiopia, using improved varieties and agronomic practices can be a better option than expanding the cultivation area since land is scarce and fixed in supply.
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Affiliation(s)
- Assefa Ayele
- Department of Agricultural Economics and Agribusiness Management, College of Agriculture and Veterinary Medicine, Jimma University, P.O. Box 307, Jimma, Ethiopia
| | - Mohammed Worku
- Department of Horticulture and Plant Sciences, College of Agriculture and Veterinary Medicine, Jimma University, P.O. Box 307, Jimma, Ethiopia
| | - Yadeta Bekele
- Department of Agricultural Economics and Agribusiness Management, College of Agriculture and Veterinary Medicine, Jimma University, P.O. Box 307, Jimma, Ethiopia
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COLMENA: A Culture Collection of Native Microorganisms for Harnessing the Agro-Biotechnological Potential in Soils and Contributing to Food Security. DIVERSITY 2021. [DOI: 10.3390/d13080337] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
COLMENA is a microbial culture collection dedicated to the characterization, classification, preservation, and transferal of native microorganisms isolated from various agro-systems and other ecosystems in Mexico. This collection aims to protect microbial diversity, reducing soil degradation, but also exploiting its agro-biotechnological potential. So far, COLMENA has isolated and cryopreserved soil microorganisms from different crops in two major agricultural regions in Mexico, the Yaqui Valley, Sonora, and the Fuerte Valley, Sinaloa. COLMENA has specialized in the identification and characterization of microbial strains with metabolic capacities related to the promotion of plant growth and the biocontrol of phytopathogens. Thus, COLMENA has identified several promising plant growth-promoting microbial (PGPM) strains due to their metabolic and genetic potentials and their beneficial effects in vivo and field trials. These findings demonstrate the biotechnological potential of these strains for their future use in profitable agricultural alternatives focused on enhancing global food security. To share the knowledge and results of the COLMENA team’s scientific research, a virtual platform was created, where the database of the studied and preserved microorganisms is available to professionals, researchers, agricultural workers, and anyone who is interested.
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Abstract
In this perspective, we draw on recent scientific research on the coffee leaf rust (CLR) epidemic that severely impacted several countries across Latin America and the Caribbean over the last decade, to explore how the socioeconomic impacts from COVID-19 could lead to the reemergence of another rust epidemic. We describe how past CLR outbreaks have been linked to reduced crop care and investment in coffee farms, as evidenced in the years following the 2008 global financial crisis. We discuss relationships between CLR incidence, farmer-scale agricultural practices, and economic signals transferred through global and local effects. We contextualize how current COVID-19 impacts on labor, unemployment, stay-at-home orders, and international border policies could affect farmer investments in coffee plants and in turn create conditions favorable for future shocks. We conclude by arguing that COVID-19's socioeconomic disruptions are likely to drive the coffee industry into another severe production crisis. While this argument illustrates the vulnerabilities that come from a globalized coffee system, it also highlights the necessity of ensuring the well-being of all. By increasing investments in coffee institutions and paying smallholders more, we can create a fairer and healthier system that is more resilient to future social-ecological shocks.
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Kortbeek RWJ, Galland MD, Muras A, van der Kloet FM, André B, Heilijgers M, van Hijum SAFT, Haring MA, Schuurink RC, Bleeker PM. Natural variation in wild tomato trichomes; selecting metabolites that contribute to insect resistance using a random forest approach. BMC PLANT BIOLOGY 2021; 21:315. [PMID: 34215189 PMCID: PMC8252294 DOI: 10.1186/s12870-021-03070-x] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/15/2021] [Accepted: 05/20/2021] [Indexed: 05/13/2023]
Abstract
BACKGROUND Plant-produced specialised metabolites are a powerful part of a plant's first line of defence against herbivorous insects, bacteria and fungi. Wild ancestors of present-day cultivated tomato produce a plethora of acylsugars in their type-I/IV trichomes and volatiles in their type-VI trichomes that have a potential role in plant resistance against insects. However, metabolic profiles are often complex mixtures making identification of the functionally interesting metabolites challenging. Here, we aimed to identify specialised metabolites from a wide range of wild tomato genotypes that could explain resistance to vector insects whitefly (Bemisia tabaci) and Western flower thrips (Frankliniella occidentalis). We evaluated plant resistance, determined trichome density and obtained metabolite profiles of the glandular trichomes by LC-MS (acylsugars) and GC-MS (volatiles). Using a customised Random Forest learning algorithm, we determined the contribution of specific specialised metabolites to the resistance phenotypes observed. RESULTS The selected wild tomato accessions showed different levels of resistance to both whiteflies and thrips. Accessions resistant to one insect can be susceptible to another. Glandular trichome density is not necessarily a good predictor for plant resistance although the density of type-I/IV trichomes, related to the production of acylsugars, appears to correlate with whitefly resistance. For type VI-trichomes, however, it seems resistance is determined by the specific content of the glands. There is a strong qualitative and quantitative variation in the metabolite profiles between different accessions, even when they are from the same species. Out of 76 acylsugars found, the random forest algorithm linked two acylsugars (S3:15 and S3:21) to whitefly resistance, but none to thrips resistance. Out of 86 volatiles detected, the sesquiterpene α-humulene was linked to whitefly susceptible accessions instead. The algorithm did not link any specific metabolite to resistance against thrips, but monoterpenes α-phellandrene, α-terpinene and β-phellandrene/D-limonene were significantly associated with susceptible tomato accessions. CONCLUSIONS Whiteflies and thrips are distinctly targeted by certain specialised metabolites found in wild tomatoes. The machine learning approach presented helped to identify features with efficacy toward the insect species studied. These acylsugar metabolites can be targets for breeding efforts towards the selection of insect-resistant cultivars.
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Affiliation(s)
- Ruy W J Kortbeek
- Green Life Science Research Cluster, Swammerdam Institute for Life Sciences, University of Amsterdam, 1098 XH, Amsterdam, The Netherlands
| | - Marc D Galland
- Green Life Science Research Cluster, Swammerdam Institute for Life Sciences, University of Amsterdam, 1098 XH, Amsterdam, The Netherlands
| | - Aleksandra Muras
- Green Life Science Research Cluster, Swammerdam Institute for Life Sciences, University of Amsterdam, 1098 XH, Amsterdam, The Netherlands
| | - Frans M van der Kloet
- Data Analysis Group, Swammerdam Institute for Life Sciences, University of Amsterdam, 1098 XH, Amsterdam, The Netherlands
| | - Bart André
- Enza Zaden Research & Development B.V, Haling 1E, 1602 DB, Enkhuizen, The Netherlands
| | - Maurice Heilijgers
- Green Life Science Research Cluster, Swammerdam Institute for Life Sciences, University of Amsterdam, 1098 XH, Amsterdam, The Netherlands
| | - Sacha A F T van Hijum
- Radboud University Medical Center, Bacterial Genomics Group, Geert Grooteplein Zuid 26-28, 6525 GA, Nijmegen, The Netherlands
| | - Michel A Haring
- Green Life Science Research Cluster, Swammerdam Institute for Life Sciences, University of Amsterdam, 1098 XH, Amsterdam, The Netherlands
| | - Robert C Schuurink
- Green Life Science Research Cluster, Swammerdam Institute for Life Sciences, University of Amsterdam, 1098 XH, Amsterdam, The Netherlands
| | - Petra M Bleeker
- Green Life Science Research Cluster, Swammerdam Institute for Life Sciences, University of Amsterdam, 1098 XH, Amsterdam, The Netherlands.
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Calcium and Potassium Nutrition Increases the Water Use Efficiency in Coffee: A Promising Strategy to Adapt to Climate Change. HYDROLOGY 2021. [DOI: 10.3390/hydrology8020075] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Coffee (Coffea spp.) represents one of the most important sources of income and goods for the agricultural sector in Central America, Colombia, and the Caribbean region. The sustainability of coffee production at the global and regional scale is under threat by climate change, with a major risk of losing near to 50% of today’s suitable area for coffee by 2050. Rain-fed coffee production dominates in the region, and under increasing climate variability and climate change impacts, these production areas are under threat due to air temperature increase and changes in rainfall patterns and volumes. Identification, evaluation, and implementation of adaptation strategies for growers to cope with climate variability and change impacts are relevant and high priority. Incremental adaptation strategies, including proper soil and water management, contribute to improved water use efficiency (WUE) and should be the first line of action to adapt the coffee crop to the changing growing conditions. This research’s objective was to evaluate at field level over five years the influence of fertilization with calcium (Ca+2) and potassium (K+) on WUE in two coffee arabica varieties: cv. Castillo and cv. Caturra. Castillo has resistance against coffee leaf rust (CLR) (Hemileia vastatrix Verkeley and Brome), while Caturra is not CLR-resistant. WUE was influenced by yield changes during the years by climate variability due to El Niño–ENSO conditions and CLR incidence. Application of Ca+2 and K+ improved the WUE under such variable conditions. The highest WUE values were obtained with an application of 100 kg CaO ha−1 year−1 and between 180 to 230 kg K2O ha−1 year−1. The results indicate that adequate nutrition with Ca+2 and K+ can improve WUE in the long-term, even underwater deficit conditions and after the substantial incidence. Hence, an optimum application of Ca+2 and K+ in rain-fed coffee plantations can be regarded as an effective strategy to adapt to climate variability and climate change.
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Balmant KM, Lawrence SR, Duong BV, Zhu F, Zhu N, Nicklay J, Chen S. Guard cell redox proteomics reveals a role of lipid transfer protein in plant defense. J Proteomics 2021; 242:104247. [PMID: 33940245 DOI: 10.1016/j.jprot.2021.104247] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2021] [Revised: 04/20/2021] [Accepted: 04/21/2021] [Indexed: 12/20/2022]
Abstract
Redox-based post-translational modifications (PTMs) involving protein cysteine residues as redox sensors are important to various physiological processes. However, little is known about redox-sensitive proteins in guard cells and their functions in stomatal immunity. In this study, we applied an integrative protein labeling method cysTMTRAQ, and identified guard cell proteins that were altered by thiol redox PTMs in response to a bacterial flagellin peptide flg22. In total, eight, seven and 20 potential redox-responsive proteins were identified in guard cells treated with flg22 for 15, 30 and 60 min, respectively. The proteins fall into several functional groups including photosynthesis, lipid binding, oxidation-reduction, and defense. Among the proteins, a lipid transfer protein (LTP)-II was confirmed to be redox-responsive and involved in plant resistance to Pseudomonas syringe pv. tomato DC3000. This study not only creates an inventory of potential redox-sensitive proteins in flg22 signal transduction in guard cells, but also highlights the biological relevance of the lipid transfer protein in plant defense against bacterial pathogens. SIGNIFICANCE: Protein redox modifications play important roles in many physiological processes. However, redox proteomics has rarely been studied in plant single cell-types. In this study, isobaric tandem mass tag-based redox proteomics technology was applied to discover redox-sensitive proteins and corresponding cysteine residues in guard cell response to a bacterial flagellin peptide flg22. Many redox-responsive proteins related to photosynthesis, lipid binding, oxidation-reduction, and defense were identified. Using reverse genetics and biochemical analyses, a lipid transfer protein was functionally characterized to be involved in plant defense against pathogens. The study highlights the utility of redox proteomics in discovering new proteins and redox modifications in important stomatal guard cell functions. Furthermore, detailed functional characterization demonstrates the biological relevance of the redox-responsive lipid transfer protein in plant pathogen defense.
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Affiliation(s)
- Kelly M Balmant
- Department of Biology, University of Florida Genetics Institute, Gainesville, FL 32610, USA; Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL 32610, USA
| | - Sheldon R Lawrence
- Department of Biology, University of Florida Genetics Institute, Gainesville, FL 32610, USA; Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL 32610, USA
| | - Benjamin V Duong
- Department of Biology, University of Florida Genetics Institute, Gainesville, FL 32610, USA
| | - Fanzhao Zhu
- Department of Biology, University of Florida Genetics Institute, Gainesville, FL 32610, USA; Proteomics and Mass Spectrometry, Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, FL 32610, USA
| | - Ning Zhu
- Department of Biology, University of Florida Genetics Institute, Gainesville, FL 32610, USA; Proteomics and Mass Spectrometry, Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, FL 32610, USA
| | | | - Sixue Chen
- Department of Biology, University of Florida Genetics Institute, Gainesville, FL 32610, USA; Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL 32610, USA; Proteomics and Mass Spectrometry, Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, FL 32610, USA.
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Islam AKMM, Noh HH, Ro JH, Kim D, Oh MS, Son K, Kwon H. Optimization and validation of a method for the determination of acidic pesticides in cabbage and spinach by modifying QuEChERS procedure and liquid chromatography-tandem mass spectrometry. J Chromatogr B Analyt Technol Biomed Life Sci 2021; 1173:122667. [PMID: 33915385 DOI: 10.1016/j.jchromb.2021.122667] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2020] [Revised: 03/10/2021] [Accepted: 03/11/2021] [Indexed: 01/26/2023]
Abstract
A quick, easy, cheap, effective, rugged, and safe (QuEChERS) method was developed and combined with liquid chromatography-tandem mass spectrometry to analyze 12 acidic pesticides in cabbage and spinach. The extraction solvents, phase partition salts and sorbents effect was studied to optimize the method followed by dilution before sample injection. The extraction involved 5% formic acid in acetonitrile, and the liquid-liquid partition was salt-induced. Carbopack Z, a high surface area graphitized carbon black, was a new sorbent used in the clean-up. The results show that Carbopack Z effectively removes interferences with little loss of acidic pesticides. All tested pesticide recoveries were satisfactory when Carbopack Z was combined with C18 in the clean-up at optimized condition. After clean-up, the extract was subjected to 10-fold dilution to sufficiently reduce the matrix effect (<20%). The limit of quantification (LOQ) was 1-5 ng/g, and the mean recovery was between 95 and 110% with a relative standard deviation <20% (between 2% and 10%) for the spiking of three concentrations: 5, 50, and 500 ng/g. The extract was less pigmented in the modified QuEChERS method than its original version. Thus, the modified method is a useful alternative for investigating the acidic pesticide residues in cabbage and spinach.
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Affiliation(s)
- Abul Kasem Mohammad Mydul Islam
- Department of Agro-food Safety and Crop Protection, National Institute of Agricultural Sciences, Rural Development Administration, Iseo-myeon, Wanju-gun, Jeollabuk-do 55365, Republic of Korea
| | - Hyun Ho Noh
- Department of Agro-food Safety and Crop Protection, National Institute of Agricultural Sciences, Rural Development Administration, Iseo-myeon, Wanju-gun, Jeollabuk-do 55365, Republic of Korea
| | - Jin-Ho Ro
- Department of Agro-food Safety and Crop Protection, National Institute of Agricultural Sciences, Rural Development Administration, Iseo-myeon, Wanju-gun, Jeollabuk-do 55365, Republic of Korea
| | - Danbi Kim
- Department of Agro-food Safety and Crop Protection, National Institute of Agricultural Sciences, Rural Development Administration, Iseo-myeon, Wanju-gun, Jeollabuk-do 55365, Republic of Korea
| | - Min-Seok Oh
- Department of Agro-food Safety and Crop Protection, National Institute of Agricultural Sciences, Rural Development Administration, Iseo-myeon, Wanju-gun, Jeollabuk-do 55365, Republic of Korea
| | - Kyungae Son
- Department of Agro-food Safety and Crop Protection, National Institute of Agricultural Sciences, Rural Development Administration, Iseo-myeon, Wanju-gun, Jeollabuk-do 55365, Republic of Korea
| | - Hyeyoung Kwon
- Department of Agro-food Safety and Crop Protection, National Institute of Agricultural Sciences, Rural Development Administration, Iseo-myeon, Wanju-gun, Jeollabuk-do 55365, Republic of Korea; Planning and Coordination Bureau, Rural Development Administration, Deokjin-gu, Jeonju-si, Jeollabukdo, 54875, Republic of Korea.
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Shahzad R, Jamil S, Ahmad S, Nisar A, Amina Z, Saleem S, Zaffar Iqbal M, Muhammad Atif R, Wang X. Harnessing the potential of plant transcription factors in developing climate resilient crops to improve global food security: Current and future perspectives. Saudi J Biol Sci 2021; 28:2323-2341. [PMID: 33911947 PMCID: PMC8071895 DOI: 10.1016/j.sjbs.2021.01.028] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2020] [Revised: 12/09/2020] [Accepted: 01/12/2021] [Indexed: 12/20/2022] Open
Abstract
Crop plants should be resilient to climatic factors in order to feed ever-increasing populations. Plants have developed stress-responsive mechanisms by changing their metabolic pathways and switching the stress-responsive genes. The discovery of plant transcriptional factors (TFs), as key regulators of different biotic and abiotic stresses, has opened up new horizons for plant scientists. TFs perceive the signal and switch certain stress-responsive genes on and off by binding to different cis-regulatory elements. More than 50 families of plant TFs have been reported in nature. Among them, DREB, bZIP, MYB, NAC, Zinc-finger, HSF, Dof, WRKY, and NF-Y are important with respect to biotic and abiotic stresses, but the potential of many TFs in the improvement of crops is untapped. In this review, we summarize the role of different stress-responsive TFs with respect to biotic and abiotic stresses. Further, challenges and future opportunities linked with TFs for developing climate-resilient crops are also elaborated.
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Affiliation(s)
- Rahil Shahzad
- Agricultural Biotechnology Research Institute, Ayub Agricultural Research Institute, Faisalabad 38000, Pakistan
| | - Shakra Jamil
- Agricultural Biotechnology Research Institute, Ayub Agricultural Research Institute, Faisalabad 38000, Pakistan
| | - Shakeel Ahmad
- State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, China
| | - Amina Nisar
- Department of Plant Breeding and Genetics, University of Agriculture, Faisalabad 38000, Pakistan
| | - Zarmaha Amina
- Department of Plant Breeding and Genetics, University of Agriculture, Faisalabad 38000, Pakistan
| | - Shazmina Saleem
- Department of Plant Breeding and Genetics, University of Agriculture, Faisalabad 38000, Pakistan
| | - Muhammad Zaffar Iqbal
- Agricultural Biotechnology Research Institute, Ayub Agricultural Research Institute, Faisalabad 38000, Pakistan
| | - Rana Muhammad Atif
- Department of Plant Breeding and Genetics, University of Agriculture, Faisalabad 38000, Pakistan
- Center for Advanced Studies in Agriculture and Food Security (CAS-AFS), University of Agriculture Faisalabad, University Road, 38040, Faisalabad, Pakistan
| | - Xiukang Wang
- College of Life Sciences, Yan’an University, Yan’an 716000, China
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30
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Mohamed HI, Abd-Elsalam KA, Tmam AM, Sofy MR. Silver-based nanomaterials for plant diseases management: Today and future perspectives. SILVER NANOMATERIALS FOR AGRI-FOOD APPLICATIONS 2021:495-526. [DOI: 10.1016/b978-0-12-823528-7.00031-7] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/01/2023]
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Schooler SL, Johnson MD, Njoroge P, Bean WT. Shade trees preserve avian insectivore biodiversity on coffee farms in a warming climate. Ecol Evol 2020; 10:12960-12972. [PMID: 33304508 PMCID: PMC7713971 DOI: 10.1002/ece3.6879] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2020] [Revised: 09/02/2020] [Accepted: 09/16/2020] [Indexed: 11/10/2022] Open
Abstract
AIM Coffee is an important export for many developing countries, with a global annual trade value of $100 billion, but it is threatened by a warming climate. Shade trees may mitigate the effects of climate change through temperature regulation that can aid in coffee growth, slow pest reproduction, and sustain avian insectivore diversity. The impact of shade on bird diversity and microclimate on coffee farms has been studied extensively in the Neotropics, but there is a dearth of research in the Paleotropics. LOCATION East Africa. METHODS We created current and future regional Maxent models for avian insectivores in East Africa using Worldclim temperature data and observations from the Global Biodiversity Information Database. We then adjusted current and future bioclimatic layers based on mean differences in temperature between shade and sun coffee farms and projected the models using these adjusted layers to predict the impact of shade tree removal on climatic suitability for avian insectivores. RESULTS Existing Worldclim temperature layers more closely matched temperatures under shade trees than temperatures in the open. Removal of shade trees, through warmer temperatures alone, would result in reduction of avian insectivore species by over 25%, a loss equivalent to 50 years of climate change under the most optimistic emissions scenario. Under the most extreme climate scenario and removal of shade trees, insectivore richness is projected to decline from a mean of 38 to fewer than 8 avian insectivore species. MAIN CONCLUSIONS We found that shade trees on coffee farms already provide important cooler microclimates for avian insectivores. Future temperatures will become a regionally limiting factor for bird distribution in East Africa, which could negatively impact control of coffee pests, but the effect of climate change can be potentially mediated through planting and maintaining shade trees on coffee farms.
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Affiliation(s)
- Sarah L. Schooler
- Wildlife DepartmentHumboldt State UniversityArcataCAUSA
- Department of Environmental and Forest BiologyState University of New York School of Environmental Science and ForestrySyracuseNYUSA
| | | | - Peter Njoroge
- Ornithology SectionNational Museums of KenyaNairobiKenya
| | - William T. Bean
- Wildlife DepartmentHumboldt State UniversityArcataCAUSA
- Biology DepartmentCalifornia Polytechnic State University – San Luis ObispoSan Luis ObispoCAUSA
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Evans KJ, Scott JB, Barry KM. Pathogen Incursions - Integrating Technical Expertise in a Socio-Political Context. PLANT DISEASE 2020; 104:3097-3109. [PMID: 32697177 DOI: 10.1094/pdis-04-20-0812-fe] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
The incursion of a plant pathogen into a new geographic area initiates a series of decisions about appropriate control or eradication efforts. Incomplete, erroneous, and/or selective information may be used by diverse stakeholders to support individual goals and positions on how an incursion should be managed. We discuss the complex social, political, and technical factors that shape a biosecurity response prior to reviewing information needs and common stakeholder misunderstandings. Selected examples focus on the rust fungi (order Pucciniales). We then explore how plant pathologists, as technical experts, can interact with biosecurity stakeholders to build empathy and understanding that in turn allows a shift from being a distant subject matter expert to an active participant helping to structure problems and shape knowledge flows for better outcomes.
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Affiliation(s)
- Katherine J Evans
- Tasmanian Institute of Agriculture, University of Tasmania, Hobart, Tasmania 7001, Australia
| | - Jason B Scott
- Tasmanian Institute of Agriculture, University of Tasmania, Hobart, Tasmania 7001, Australia
| | - Karen M Barry
- Tasmanian Institute of Agriculture, University of Tasmania, Hobart, Tasmania 7001, Australia
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Sharma A, Shukla A, Attri K, Kumar M, Kumar P, Suttee A, Singh G, Barnwal RP, Singla N. Global trends in pesticides: A looming threat and viable alternatives. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2020; 201:110812. [PMID: 32512419 DOI: 10.1016/j.ecoenv.2020.110812] [Citation(s) in RCA: 168] [Impact Index Per Article: 42.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/03/2020] [Revised: 05/19/2020] [Accepted: 05/24/2020] [Indexed: 06/11/2023]
Abstract
Pesticides are widely used chemical compounds in agriculture to destroy insects, pests and weeds. In modern era, they form an indispensable part of agricultural and health practices. Globally, nearly 3 billion kg of pesticides are used every year with a budget of ~40 billion USD. This extensive usage has increased the crop yield as well as led to significant reduction in harvest losses and thereby, enhanced food availability. On the other hand, indiscriminate usage of these chemicals has led to several environmental implications and caused adverse effects on human health. Epidemiological evidences have revealed the harmful effects of pesticides exposure on various organs including liver, brain, lungs and colon. Recent investigations have shown that pesticides can also lead to fatal consequences such as cancer among individuals. These chemicals enter ecosystem, thus hampering the sensitive environmental equilibrium through bio-accumulation. Due to their non-biodegradable nature, they can persist in nature for years and are regarded as potent biohazard. Worldwide, very few surveillance methods have been considered, which can bring awareness among the individuals, therefore the present review is an attempt to delineate consequences induced by various types of pesticide exposure on the environment. Further, the prospective of biopesticides use could facilitate the increase of crop production without compromising human health.
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Affiliation(s)
- Akanksha Sharma
- Department of Biophysics, Panjab University, Chandigarh, 160014, India; UIPS, Panjab University, Chandigarh, 160014, India
| | - Ananya Shukla
- Department of Biophysics, Panjab University, Chandigarh, 160014, India; Department of Biochemistry, Panjab University, Chandigarh, 160014, India
| | - Kriti Attri
- Department of Biophysics, Panjab University, Chandigarh, 160014, India; Biological Sciences, Indian Institute of Science Education and Research, Mohali, 140306, India
| | - Megha Kumar
- CSIR-Centre for Cellular and Molecular Biology, Hyderabad, 500007, India
| | - Puneet Kumar
- Department of Pharmacology, Central University of Punjab, Bathinda, 151001, India
| | - Ashish Suttee
- School of Pharmaceutical Sciences, Lovely Professional University, Phagwara, 144411, India
| | - Gurpal Singh
- UIPS, Panjab University, Chandigarh, 160014, India
| | | | - Neha Singla
- Department of Biophysics, Panjab University, Chandigarh, 160014, India.
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Offor BC, Dubery IA, Piater LA. Prospects of Gene Knockouts in the Functional Study of MAMP-Triggered Immunity: A Review. Int J Mol Sci 2020; 21:ijms21072540. [PMID: 32268496 PMCID: PMC7177850 DOI: 10.3390/ijms21072540] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2020] [Revised: 03/31/2020] [Accepted: 04/01/2020] [Indexed: 12/27/2022] Open
Abstract
Plants depend on both preformed and inducible defence responses to defend themselves against biotic stresses stemming from pathogen attacks. In this regard, plants perceive pathogenic threats from the environment through pattern recognition receptors (PRRs) that recognise microbe-associated molecular patterns (MAMPs), and so induce plant defence responses against invading pathogens. Close to thirty PRR proteins have been identified in plants, however, the molecular mechanisms underlying MAMP perception by these receptors/receptor complexes are not fully understood. As such, knockout (KO) of genes that code for PRRs and co-receptors/defence-associated proteins is a valuable tool to study plant immunity. The loss of gene activity often causes changes in the phenotype of the model plant, allowing in vivo studies of gene function and associated biological mechanisms. Here, we review the functions of selected PRRs, brassinosteroid insensitive 1 (BRI1) associated receptor kinase 1 (BAK1) and other associated defence proteins that have been identified in plants, and also outline KO lines generated by T-DNA insertional mutagenesis as well as the effect on MAMP perception—and triggered immunity (MTI). In addition, we further review the role of membrane raft domains in flg22-induced MTI in Arabidopsis, due to the vital role in the activation of several proteins that are part of the membrane raft domain theory in this regard.
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Affiliation(s)
- Benedict C Offor
- Department of Biochemistry, University of Johannesburg, Auckland Park 2006, South Africa
| | - Ian A Dubery
- Department of Biochemistry, University of Johannesburg, Auckland Park 2006, South Africa
| | - Lizelle A Piater
- Department of Biochemistry, University of Johannesburg, Auckland Park 2006, South Africa
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Merle I, Pico J, Granados E, Boudrot A, Tixier P, Virginio Filho EDM, Cilas C, Avelino J. Unraveling the Complexity of Coffee Leaf Rust Behavior and Development in Different Coffea arabica Agroecosystems. PHYTOPATHOLOGY 2020; 110:418-427. [PMID: 31502519 DOI: 10.1094/phyto-03-19-0094-r] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Crop health management systems can be designed according to practices that help to reduce crop losses by restricting pathogen development and promoting host plant growth. A good understanding of pathogen and host dynamics, which are interdependent, is therefore needed. In this article, we used a holistic approach to explain the behavior of coffee leaf rust (CLR), a major coffee disease. We monitored coffee plant and CLR dynamics simultaneously in plots under different disease management and agroforestry systems. Diseased leaves were also collected to characterize inoculum stock and rust life stages (latent rust area, area with uredospores, necrosis due to rust) through picture analysis. We used structural equation modeling to obtain an overview of CLR pathosystem functioning on a plant scale. This overview integrates processes such as disease dilution by host leaf renewal, direct and indirect effects of fruit load on CLR development, antagonistic effects of shading depending on rust life stages, the tonic effect of copper-based fungicides on leaf retention, and effects on rust life stages depending on fungicide types. From our results, we also deduced that the inoculum stock could be calculated in unsprayed plots from the rust area with uredospores, with uredospores at 58 × 103 cm-2, on average.
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Affiliation(s)
- Isabelle Merle
- Bioagresseurs, Université de Montpellier, CIRAD, Montpellier, France
- CIRAD, UPR Bioagresseurs, 30501 Turrialba, Costa Rica
| | - Jimmy Pico
- INIAP, Estación experimental Joya de los Sachas 220350, Orellana, Ecuador
- CATIE, 7170, Cartago, Turrialba, 30501, Costa Rica
| | - Eduardo Granados
- Universidad de Costa Rica, sede del Atlántico, Turrialba, Costa Rica
| | - Audrey Boudrot
- Agrocampus Ouest, 65, rue de Saint Brieuc 35000 Rennes, France
| | - Philippe Tixier
- CIRAD, UPR GECO, F-34398 Montpellier, France, and GECO, Université de Montpellier, CIRAD, Montpellier, France
| | | | - Christian Cilas
- Bioagresseurs, Université de Montpellier, CIRAD, Montpellier, France
- CIRAD, UPR Bioagresseurs, F-34398 Montpellier, France
| | - Jacques Avelino
- Bioagresseurs, Université de Montpellier, CIRAD, Montpellier, France
- CIRAD, UPR Bioagresseurs, 30501 Turrialba, Costa Rica
- CATIE, 7170, Cartago, Turrialba, 30501, Costa Rica
- IICA AP. 55, 2200 Coronado, San Jose, Costa Rica
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Guilbaud CSE, Khudr MS. Disturbance and competition drive diversity effects in cabbage-aphid-onion systems with intra-specific genetic variation. BULLETIN OF ENTOMOLOGICAL RESEARCH 2020; 110:123-135. [PMID: 31190661 DOI: 10.1017/s0007485319000373] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Decreased reliance on pesticides can be achieved through a clever use of eco-evolutionary knowledge via intercropping economically valuable crops with companion plants that can hamper pest outbreaks. We created a greenhouse multi-layered microcosm system to test two potato peach aphid clones, performing alone or in competition, on mixes of genetically variable cultivars of cabbage, with and without onion. The onion acted as a nuisance/disturbance for the pest, which was generally for the benefit of the cabbage albeit both plants sharing space and nutrients. The onion effect was context-specific and differed by aphid genotype. Onion variable nuisance negatively affected the numbers of one aphid genotype (green) across all contexts, while the other genotype (pink) numbers were decreased in two contexts only. However, the green performed better than the pink on all cases of cabbage di-mixes despite its numbers being capped when the onion was present. Further, there was also a general aphid propensity to wander off the plant along with a differential production of winged morphs to escape the onion-affected environments. Moreover, through a comparative increase in dry mass, which was subject to onion and aphid effects, a diversity effect was found where the cabbages of fully genetically variable microcosms sustained similar final dry mass compared with non-infested microcosms. Our findings provide fresh insights into the use of multi-layered contextual designs that not only allow disentangling the relative effects of genetic variation and modes of interaction, but also help integrate their benefits into pest management in view of companion planting.
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Affiliation(s)
- C S E Guilbaud
- Institut für Biologie, Freie Universität Berlin, Königin-Luise-Straße 1-3, 14195 Berlin, Germany
| | - M S Khudr
- Faculty of Biology, Medicine and Health, The University of Manchester, Michael Smith Building, M13 9PT, Manchester, UK
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Abstract
The rational control of harmful organisms for plants (pests) forms the basis of the integrated pest management (IPM), and is fundamental for ensuring agricultural productivity while maintaining economic and environmental sustainability. The high level of complexity of the decision processes linked to IPM requires careful evaluations, both economic and environmental, considering benefits and costs associated with a management action. Plant protection models and other decision tools (DTs) have assumed a key role in supporting decision-making process in pest management. The advantages of using DTs in IPM are linked to their capacity to process and analyze complex information and to provide outputs supporting the decision-making process. Nowadays, several DTs have been developed, tackling different issues, and have been applied in different climatic conditions and agricultural contexts. However, their use in crop management is restricted to only certain areas and/or to a limited group of users. In this paper, we review the current state-of-the-art related to DTs for IPM, investigate the main modelling approaches used, and the different fields of application. We also identify key drivers influencing their adoption and provide a set of critical success factors to guide the development and facilitate the adoption of DTs in crop protection.
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Avelino J, Allinne C, Cerda R, Willocquet L, Savary S. Multiple-Disease System in Coffee: From Crop Loss Assessment to Sustainable Management. ANNUAL REVIEW OF PHYTOPATHOLOGY 2018; 56:611-635. [PMID: 29995592 DOI: 10.1146/annurev-phyto-080417-050117] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Assessment of crop loss due to multiple diseases and pests (D&P) is a necessary step in designing sustainable crop management systems. Understanding the drivers of D&P development and yield loss helps identify leverage points for crop health management. Crop loss assessment is also necessary for the quantification of D&P regulation service to identify promising systems where ecosystem service provision is optimized. In perennial crops, assessment of crop losses due to D&P is difficult, as injuries can affect yield over years. In coffee, one of the first perennials in which crop loss trials were implemented, crop losses concurrent with injuries were found to be approximately 50% lower than lagged losses that originated following the death of productive branches due to D&P. Crop losses can be assessed by field trials and surveys, where yield reduction factors such as the number of productive branches that have died are quantified, and by modeling, where damage mechanisms for each injury are considered over several years.
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Affiliation(s)
- Jacques Avelino
- CIRAD, UPR Bioagresseurs, 30501 Turrialba, Costa Rica; Bioagresseurs, Université de Montpellier, CIRAD, 34090 Montpellier, France;
- Program of Sustainable Agriculture and Agroforestry, Tropical Agricultural Research and Higher Education Center (CATIE), 30501 Turrialba, Costa Rica; , ,
- Inter-American Institute for Cooperation on Agriculture (IICA), 11101 Coronado, San José, Costa Rica
| | - Clémentine Allinne
- Program of Sustainable Agriculture and Agroforestry, Tropical Agricultural Research and Higher Education Center (CATIE), 30501 Turrialba, Costa Rica; , ,
- CIRAD, UMR SYSTEM, 30501 Turrialba, Costa Rica; SYSTEM, Université de Montpellier, CIHEAM-IAMM, CIRAD, INRA, 34090 Montpellier SupAgro, Montpellier, France;
| | - Rolando Cerda
- Program of Sustainable Agriculture and Agroforestry, Tropical Agricultural Research and Higher Education Center (CATIE), 30501 Turrialba, Costa Rica; , ,
| | - Laetitia Willocquet
- UMR AGIR, Institut National de la Recherche Agronomique (INRA), Université de Toulouse, INPT, INP-EI Purpan, Castanet-Tolosan, France; ,
| | - Serge Savary
- UMR AGIR, Institut National de la Recherche Agronomique (INRA), Université de Toulouse, INPT, INP-EI Purpan, Castanet-Tolosan, France; ,
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Nogueira Júnior AF, Amorim L, Savary S, Willocquet L. Modelling the dynamics of grapevine growth over years. Ecol Modell 2018. [DOI: 10.1016/j.ecolmodel.2017.12.016] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Islam W, Adnan M, Tayyab M, Hussain M, Islam SU. Phyto-metabolites; An Impregnable Shield against Plant Viruses. Nat Prod Commun 2018. [DOI: 10.1177/1934578x1801300131] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
Worldwide, economically important crops are under continuous threat from plant viruses as they reproduce within the host and spread via various biological and non biological means. The problem can be minimized via application of integrated management approaches involving utilization of resistant genotypes and reducing the insect vector population. But such strategies are rarely applied in developing countries and farmers prefer to use chemicals against all type of diseases. But increasing use of pesticides is a leading cause of disaster to our ecosystem so alternative means such as phyto-metabolites should be explored for eco friendly management of plant viruses. So here we have reviewed about different phyto-metabolites that can be effectively and potentially used against various plant virus diseases. We further explained about the various primary and secondary metabolites such as alkaloids, essential oils, flavonoids, polysaccharides and proteins. The review highlights the recent advances in the field of phyto-metabolites utilization against plant viruses and sums up via hoping through prospects that future drugs will be safer for human beings and our ecosystem.
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Affiliation(s)
- Waqar Islam
- College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, China
- Fujian Province Key Laboratory for Plant Viruses, Institute of Plant Virology, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, China
| | - Muhammad Adnan
- College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, China
| | - Muhammad Tayyab
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, China
| | - Mubasher Hussain
- College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, China
- College of Horticulture, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, China
| | - Saif Ul Islam
- College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, China
- Fujian Province Key Laboratory for Plant Viruses, Institute of Plant Virology, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, China
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Gómez Expósito R, de Bruijn I, Postma J, Raaijmakers JM. Current Insights into the Role of Rhizosphere Bacteria in Disease Suppressive Soils. Front Microbiol 2017; 8:2529. [PMID: 29326674 PMCID: PMC5741648 DOI: 10.3389/fmicb.2017.02529] [Citation(s) in RCA: 109] [Impact Index Per Article: 15.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2017] [Accepted: 12/05/2017] [Indexed: 01/22/2023] Open
Abstract
Disease suppressive soils offer effective protection to plants against infection by soil-borne pathogens, including fungi, oomycetes, bacteria, and nematodes. The specific disease suppression that operates in these soils is, in most cases, microbial in origin. Therefore, suppressive soils are considered as a rich resource for the discovery of beneficial microorganisms with novel antimicrobial and other plant protective traits. To date, several microbial genera have been proposed as key players in disease suppressiveness of soils, but the complexity of the microbial interactions as well as the underlying mechanisms and microbial traits remain elusive for most disease suppressive soils. Recent developments in next generation sequencing and other 'omics' technologies have provided new insights into the microbial ecology of disease suppressive soils and the identification of microbial consortia and traits involved in disease suppressiveness. Here, we review the results of recent 'omics'-based studies on the microbial basis of disease suppressive soils, with specific emphasis on the role of rhizosphere bacteria in this intriguing microbiological phenomenon.
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Affiliation(s)
- Ruth Gómez Expósito
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, Netherlands
- Laboratory of Phytopathology, Wageningen University and Research, Wageningen, Netherlands
| | - Irene de Bruijn
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, Netherlands
| | - Joeke Postma
- Biointeractions and Plant Health, Plant Research International, Wageningen University and Research, Wageningen, Netherlands
| | - Jos M. Raaijmakers
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, Netherlands
- Institute of Biology, Leiden University, Leiden, Netherlands
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Nogueira Júnior AF, Ribeiro RV, Appezzato-da-Glória B, Soares MKM, Rasera JB, Amorim L. Phakopsora euvitis Causes Unusual Damage to Leaves and Modifies Carbohydrate Metabolism in Grapevine. FRONTIERS IN PLANT SCIENCE 2017; 8:1675. [PMID: 29018470 PMCID: PMC5623187 DOI: 10.3389/fpls.2017.01675] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2017] [Accepted: 09/12/2017] [Indexed: 05/04/2023]
Abstract
Asian grapevine rust (Phakopsora euvitis) is a serious disease, which causes severe leaf necrosis and early plant defoliation. These symptoms are unusual for a strict biotrophic pathogen. This work was performed to quantify the effects of P. euvitis on photosynthesis, carbohydrates, and biomass accumulation of grapevine. The reduction in photosynthetic efficiency of the green leaf tissue surrounding the lesions was quantified using the virtual lesion concept (β parameter). Gas exchange and responses of CO2 assimilation to increasing intercellular CO2 concentration were analyzed. Histopathological analyses and quantification of starch were also performed on diseased leaves. Biomass and carbohydrate accumulation were quantified in different organs of diseased and healthy plants. Rust reduced the photosynthetic rate, and β was estimated at 5.78, indicating a large virtual lesion. Mesophyll conductance, maximum rubisco carboxylation rate, and regeneration of ribulose-1,5-bisphosphate dependent on electron transport rate were reduced, causing diffusive and biochemical limitations to photosynthesis. Hypertrophy, chloroplast degeneration of mesophyll cells, and starch accumulation in cells close to lesions were observed. Root carbohydrate concentration was reduced, even at low rust severity. Asian grapevine rust dramatically reduced photosynthesis and altered the dynamics of production and accumulation of carbohydrates, unlike strict biotrophic pathogens. The reduction in carbohydrate reserves in roots would support polyetic damage on grapevine, caused by a polycyclic disease.
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Affiliation(s)
| | - Rafael V. Ribeiro
- Department of Plant Biology, Institute of Biology, University of Campinas, Campinas, Brazil
| | | | - Marli K. M. Soares
- Department of Epidemiology, Plant Pathology, ESALQ, University of Sao Paulo, Piracicaba, Brazil
| | - Júlia B. Rasera
- Department of Epidemiology, Plant Pathology, ESALQ, University of Sao Paulo, Piracicaba, Brazil
| | - Lilian Amorim
- Department of Epidemiology, Plant Pathology, ESALQ, University of Sao Paulo, Piracicaba, Brazil
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