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de Sousa LP, Mondego JMC. Leaf surface microbiota transplantation confers resistance to the coffee leaf rust in susceptible Coffea arabica. FEMS Microbiol Ecol 2024:fiae049. [PMID: 38599638 DOI: 10.1093/femsec/fiae049] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/12/2024] Open
Abstract
Coffee leaf rust, caused by the fungus Hemileia vastatrix, became a major concern for coffee-producing countries. Additionally, there is an increase in the resistance of certain races of the fungus to fungicides and breeding cultivars, making producers to use alternative control methods. In this work, we transplanted the leaf surface microbiota of rust-resistant coffee species (Coffea racemosa and Coffea stenophylla) to Coffea arabica and tested whether the new microbiota would be able to minimize the damage caused by H. vastatrix. It was seen that the transplant was successful in controlling rust, especially from C. stenophylla, but the protection depended on the concentration of the microbiota. Certain fungi such as Acrocalymma, Bipolaris, Didymella, Nigrospora, Setophaeosphaeria, Simplicillium, Stagonospora, Torula and bacteria such as Chryseobacterium, Sphingobium and especially Enterobacter and have their populations increased and may be related to the antagonism seen against H. vastatrix. Interestingly, relative population of bacteria from genera Pantoea, Methylobacterium and Sphingomonas decreased after transplant, suggesting a positive interaction between them and H. vastatrix development. Our findings may help to better understand the role of the microbiota in coffee leaf rust as well as help to optimize the development of biocontrol agents.
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Affiliation(s)
- Leandro Pio de Sousa
- Centro de Pesquisa e Desenvolvimento de Recursos Genéticos Vegetais, Instituto Agronômico, Campinas, São Paulo, Brazil
| | - Jorge Maurício Costa Mondego
- Centro de Pesquisa e Desenvolvimento de Recursos Genéticos Vegetais, Instituto Agronômico, Campinas, São Paulo, Brazil
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Ángel C. CA, Marín-Ramírez GA, Maldonado CE. Genome sequence of Hemileia vastatrix Berk. and Br. (Race I), the causal agent of coffee leaf rust, isolate from Risaralda, Colombia. Microbiol Resour Announc 2023; 12:e0044423. [PMID: 37791781 PMCID: PMC10652848 DOI: 10.1128/mra.00444-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2023] [Accepted: 09/08/2023] [Indexed: 10/05/2023] Open
Abstract
Coffee leaf rust, caused by the fungus Hemileia vastatrix (Basidiomycota; Pucciniomycota), is a devastating disease spread worldwide. To improve the available genomes, we use PacBio HiFi sequencing enhanced by Dovetail Omni-C chromatin conformation capture to assemble a highly contiguous 747.98 Mb genome of an isolate collected from Coffea arabica.
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Affiliation(s)
- Carlos A. Ángel C.
- Plant Pathology, Colombian National Coffee Federation (FNC)/National Coffee Research Center (CENICAFE), Chinchiná, Colombia
| | - Gustavo A. Marín-Ramírez
- Plant Pathology, Colombian National Coffee Federation (FNC)/National Coffee Research Center (CENICAFE), Chinchiná, Colombia
| | - Carlos E. Maldonado
- Plant Breeding, Colombian National Coffee Federation (FNC)/National Coffee Research Center (CENICAFE), Chinchiná, Colombia
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Kapeua-Ndacnou M, de Abreu LM, de Macedo DM, da Nóbrega TF, Pereira CM, Evans HC, Barreto RW. Assessing the Biocontrol Potential of Clonostachys Species Isolated as Endophytes from Coffea Species and as Mycoparasites of Hemileia Rusts of Coffee in Africa. J Fungi (Basel) 2023; 9. [PMID: 36836362 DOI: 10.3390/jof9020248] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/24/2022] [Revised: 02/03/2023] [Accepted: 02/07/2023] [Indexed: 02/16/2023] Open
Abstract
During surveys conducted in South America and Africa to identify natural fungal enemies of coffee leaf rust (CLR), Hemileia vastatrix, over 1500 strains were isolated, either as endophytes from healthy tissues of Coffea species or as mycoparasites growing on rust pustules. Based on morphological data, eight isolates-three isolated from wild or semiwild coffee and five from Hemileia species on coffee, all from Africa-were provisionally assigned to the genus Clonostachys. A polyphasic study of their morphological, cultural and molecular characteristics-including the Tef1 (translation elongation factor 1 alpha), RPB1 (largest subunit of RNA polymerase II), TUB (β-tubulin) and ACL1 (ATP citrate lyase) regions-confirmed these isolates as belonging to three species of the genus Clonostachys: namely C. byssicola, C. rhizophaga and C. rosea f. rosea. Preliminary assays were also conducted to test the potential of the Clonostachys isolates to reduce CLR severity on coffee under greenhouse conditions. Foliar and soil applications indicated that seven of the isolates had a significant effect (p < 0.05) in reducing CLR severity. In parallel, in vitro tests that involved conidia suspensions of each of the isolates together with urediniospores of H. vastatrix resulted in high levels of inhibition of urediniospore germination. All eight isolates showed their ability to establish as endophytes in C. arabica during this study, and some proved to be mycoparasites of H. vastatrix. In addition to reporting the first records of Clonostachys associated with healthy coffee tissues and with Hemileia rusts of coffee, this work provides the first evidence that Clonostachys isolates have potential as biological control agents against CLR.
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Saavedra LM, Caixeta ET, Barka GD, Borém A, Zambolim L, Nascimento M, Cruz CD, de Oliveira ACB, Pereira AA. Marker-Assisted Recurrent Selection for Pyramiding Leaf Rust and Coffee Berry Disease Resistance Alleles in Coffea arabica L. Genes (Basel) 2023; 14:189. [PMID: 36672930 PMCID: PMC9858729 DOI: 10.3390/genes14010189] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2022] [Revised: 11/23/2022] [Accepted: 01/06/2023] [Indexed: 01/13/2023] Open
Abstract
In this study, marker-assisted recurrent selection was evaluated for pyramiding resistance gene alleles against coffee leaf rust (CLR) and coffee berry diseases (CBD) in Coffea arabica. A total of 144 genotypes corresponding to 12 hybrid populations from crosses between eight parent plants with desired morphological and agronomic traits were evaluated. Molecular data were used for cross-certification, diversity study and resistance allele marker-assisted selection (MAS) against the causal agent of coffee leaf rust (Hemileia vastatrix) and coffee berry disease (Colletotrichum kahawae). In addition, nine morphological and agronomic traits were evaluated to determine the components of variance, select superior hybrids, and estimate genetic gain. From the genotypes evaluated, 134 were confirmed as hybrids. The genetic diversity between and within populations was 75.5% and 24.5%, respectively, and the cluster analysis revealed three primary groups. Pyramiding of CLR and CBD resistance genes was conducted in 11 genotypes using MAS. A selection intensity of 30% resulted in a gain of over 50% compared to the original population. Selected hybrids with increased gain also showed greater genetic divergence in addition to the pyramided resistance alleles. The strategies used were, therefore, efficient to select superior coffee hybrids for recurrent selection programs and could be used as a source of resistance in various crosses.
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Affiliation(s)
- Laura Maritza Saavedra
- Instituto de Biotecnologia Aplicada à Agropecuária-Bioagro, Universidade Federal de Viçosa, Viçosa 36570-900, MG, Brazil
| | - Eveline Teixeira Caixeta
- Instituto de Biotecnologia Aplicada à Agropecuária-Bioagro, Universidade Federal de Viçosa, Viçosa 36570-900, MG, Brazil
- Brazilian Agricultural Research Corporation (Embrapa), Embrapa Coffee, Brasília 70770-901, DF, Brazil
| | - Geleta Dugassa Barka
- Department of Applied Biology, School of Applied Natural Science, Adama Science and Technology University, Adama 1888, Ethiopia
| | - Aluízio Borém
- Departamento de Agronomia, Universidade Federal de Viçosa, Viçosa 36570-900, MG, Brazil
| | - Laércio Zambolim
- Instituto de Biotecnologia Aplicada à Agropecuária-Bioagro, Universidade Federal de Viçosa, Viçosa 36570-900, MG, Brazil
| | - Moysés Nascimento
- Departamento de Estatística, Universidade Federal de Viçosa, Viçosa 36570-900, MG, Brazil
| | - Cosme Damião Cruz
- Departamento de Biologia Geral, Universidade Federal de Viçosa, Viçosa 36570-000, MG, Brazil
| | - Antonio Carlos Baião de Oliveira
- Brazilian Agricultural Research Corporation (Embrapa), Embrapa Coffee, Brasília 70770-901, DF, Brazil
- Empresa de Pesquisa Agropecuária de Minas Gerais-Epamig, Viçosa 36570-000, MG, Brazil
| | - Antonio Alves Pereira
- Empresa de Pesquisa Agropecuária de Minas Gerais-Epamig, Viçosa 36570-000, MG, Brazil
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Rabello AS, Rubinger MMM, da Silva LF, de Oliveira AH, Serrão JE, Albuini-Oliveira NM, Tavares EDC, Vidigal AEC, de Oliveira MRL, Zambolim L, Souza RAC, Guilardi S, Ellena J. Zinc-dithiocarbimates for the control of Hemileia vastatrix: a versatile alternative. Pest Manag Sci 2022; 78:4741-4752. [PMID: 35871604 DOI: 10.1002/ps.7094] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2021] [Revised: 07/20/2022] [Accepted: 07/24/2022] [Indexed: 06/15/2023]
Abstract
BACKGROUND The purpose of this work was to investigate the potential use of zinc-dithiocarbimate salts to control Hemileia vastatrix, the causal agent of the coffee leaf rust disease, and to evaluate their toxicity towards Apis mellifera, one of the most important coffee plant pollinators. RESULTS Zinc-dithiocarbimate salts were prepared and fully characterized by infrared, proton (1 H) and carbon-13 (13 C) nuclear magnetic resonance and elemental analyses of carbon (C), hydrogen (H), nitrogen (N) and zinc (Zn). X-ray diffraction technique studies confirmed the proposed structures. The salts inhibited the germination of H. vastatrix spores in vitro, with a 50% inhibitory concentration (IC50 ) from 12 to 18 μmol.L-1 and a 90% inhibitory concentration (IC90 ) from 23 to 26 μmol.L-1 . Zinc-dithiocarbimate salts with the best in vitro results were selected for in vivo experiments with Coffea arabica var Caturra and with the pollinator A. mellifera. The results were similar to those of Mancozeb, a broad-spectrum contact fungicide, with a good control of the disease and low toxicity to the honeybee. CONCLUSION The zinc-dithiocarbimate complex salts have potential to control coffee leaf rust, with low toxicity to the pollinator insect. © 2022 Society of Chemical Industry.
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Affiliation(s)
| | | | | | | | - José Eduardo Serrão
- Departamento de Biologia Geral, Universidade Federal de Viçosa, Viçosa, Brazil
| | | | | | | | | | - Laércio Zambolim
- Departamento de Fitopatologia, Universidade Federal de Viçosa, Viçosa, Brazil
| | | | - Silvana Guilardi
- Instituto de Química, Universidade Federal de Uberlândia, Uberlândia, Brazil
| | - Javier Ellena
- Instituto de Física de São Carlos, Universidade de São Paulo, São Carlos, Brazil
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6
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Rodrigues ASB, Silva DN, Várzea V, Paulo OS, Batista D. Worldwide Population Structure of the Coffee Rust Fungus Hemileia vastatrix Is Strongly Shaped by Local Adaptation and Breeding History. Phytopathology 2022; 112:1998-2011. [PMID: 35322716 DOI: 10.1094/phyto-09-21-0376-r] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
The devastating disease coffee leaf rust, caused by Hemileia vastatrix, has been a major constraint to worldwide coffee production. Recently, H. vastatrix populations were shown to be structured into three divergent genetic lineages with marked host specialization (C1, C2, and C3). However, there is yet no overall understanding of the population dynamics and adaptation of the most widespread and epidemiological relevant H. vastatrix group (C3). We used restriction site-associated DNA sequencing to generate 13,804 single nucleotide polymorphisms (SNPs) across a worldwide collection of 99 H. vastatrix isolates. Phylogenetic analyses uncovered a well-supported structuring within C3, with three main subgroups (SGs; SGI, SGII, and SGIII), which seem to reflect the historical distribution, breeding, and exchange of coffee cultivars. SGI shows a ladder-like diversification pattern and occurs across all four continents sampled, SGII is mainly restricted to Africa, and SGIII is observed only in Timor, revealing a higher genetic differentiation. Outlier and association tests globally identified 112 SNPs under putative positive selection, which impacted population structure. In particular, 29 overlapping SNPs per se seemed to have an extremely strong effect on H. vastatrix population divergence. We also found exclusive and fixed alleles associated with the SGs supporting local adaptation. Functional annotation revealed that transposable elements may play a role in host adaptation. Our study provides a higher-resolution perspective on the evolutionary history of H. vastatrix on cultivated coffee, showing its strong ability to adapt and the strength of the selective force imposed by coffee hosts, which should be taken into account when designing strategies for pathogen dissemination control and selective breeding.
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Affiliation(s)
- Ana Sofia B Rodrigues
- Centre for Ecology, Evolution and Environmental Changes (cE3c), Computational Biology and Population Genomics Group (CoBiG2), Faculdade de Ciências, Universidade de Lisboa, 1749-016 Lisbon, Portugal
| | - Diogo Nuno Silva
- Centre for Ecology, Evolution and Environmental Changes (cE3c), Computational Biology and Population Genomics Group (CoBiG2), Faculdade de Ciências, Universidade de Lisboa, 1749-016 Lisbon, Portugal
- Centro de Investigação das Ferrugens do Cafeeiro (CIFC)/Linking Landscape, Environment, Agriculture and Food (LEAF), Instituto Superior de Agronomia, Universidade de Lisboa, 1349-017 Lisbon, Portugal
| | - Vitor Várzea
- Centro de Investigação das Ferrugens do Cafeeiro (CIFC)/Linking Landscape, Environment, Agriculture and Food (LEAF), Instituto Superior de Agronomia, Universidade de Lisboa, 1349-017 Lisbon, Portugal
| | - Octávio S Paulo
- Centre for Ecology, Evolution and Environmental Changes (cE3c), Computational Biology and Population Genomics Group (CoBiG2), Faculdade de Ciências, Universidade de Lisboa, 1749-016 Lisbon, Portugal
| | - Dora Batista
- Centre for Ecology, Evolution and Environmental Changes (cE3c), Computational Biology and Population Genomics Group (CoBiG2), Faculdade de Ciências, Universidade de Lisboa, 1749-016 Lisbon, Portugal
- Centro de Investigação das Ferrugens do Cafeeiro (CIFC)/Linking Landscape, Environment, Agriculture and Food (LEAF), Instituto Superior de Agronomia, Universidade de Lisboa, 1349-017 Lisbon, Portugal
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Li L, Várzea VMP, Xia Q, Xiang W, Tang T, Zhu M, He C, Pereira AP, Lavado da Silva MDCM, Wu W, Yi K. First Report of Hemileia vastatrix ( Coffee Leaf Rust) Physiological Races Emergent in Coffee Germplasm Collections in the Coffee-Cropping Regions of China. Plant Dis 2021; 105:4162. [PMID: 34184552 DOI: 10.1094/pdis-04-21-0796-pdn] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Affiliation(s)
- Le Li
- NHC Key Laboratory of Tropical Disease Control/Key Laboratory of Tropical Translational Medicine of Ministry of Education/School of Tropical Medicine and Laboratory Medicine, Hainan Medical University, Haikou City, Hainan Province, P.R. China
| | - Vítor Manuel Pinto Várzea
- Centro de Investigação das Ferrugens do Cafeeiro, Instituto Superior de Agronomia, Universidade de Lisboa, Quinta do Marquês, Oeiras 2784-505, Portugal
- Linking Landscape, Environment, Agriculture and Food, Instituto Superior de Agronomia, Universidade de Lisboa, Tapada da Ajuda, Lisbon 1349-017, Portugal
| | - Qianfeng Xia
- NHC Key Laboratory of Tropical Disease Control/Key Laboratory of Tropical Translational Medicine of Ministry of Education/School of Tropical Medicine and Laboratory Medicine, Hainan Medical University, Haikou City, Hainan Province, P.R. China
| | - Wei Xiang
- NHC Key Laboratory of Tropical Disease Control/Key Laboratory of Tropical Translational Medicine of Ministry of Education/School of Tropical Medicine and Laboratory Medicine, Hainan Medical University, Haikou City, Hainan Province, P.R. China
| | - Tianle Tang
- NHC Key Laboratory of Tropical Disease Control/Key Laboratory of Tropical Translational Medicine of Ministry of Education/School of Tropical Medicine and Laboratory Medicine, Hainan Medical University, Haikou City, Hainan Province, P.R. China
| | - Mengfeng Zhu
- Key Laboratory of Tropical Agriculture Pest Monitoring and Control, Hainan Province/Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou City, Hainan Province, P.R. China
| | - Chunping He
- Key Laboratory of Tropical Agriculture Pest Monitoring and Control, Hainan Province/Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou City, Hainan Province, P.R. China
| | - Ana Paula Pereira
- Centro de Investigação das Ferrugens do Cafeeiro, Instituto Superior de Agronomia, Universidade de Lisboa, Quinta do Marquês, Oeiras 2784-505, Portugal
- Linking Landscape, Environment, Agriculture and Food, Instituto Superior de Agronomia, Universidade de Lisboa, Tapada da Ajuda, Lisbon 1349-017, Portugal
| | - Maria do Céu Machado Lavado da Silva
- Centro de Investigação das Ferrugens do Cafeeiro, Instituto Superior de Agronomia, Universidade de Lisboa, Quinta do Marquês, Oeiras 2784-505, Portugal
- Linking Landscape, Environment, Agriculture and Food, Instituto Superior de Agronomia, Universidade de Lisboa, Tapada da Ajuda, Lisbon 1349-017, Portugal
| | - Weihuai Wu
- Key Laboratory of Tropical Agriculture Pest Monitoring and Control, Hainan Province/Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou City, Hainan Province, P.R. China
| | - Kexian Yi
- Key Laboratory of Tropical Agriculture Pest Monitoring and Control, Hainan Province/Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou City, Hainan Province, P.R. China
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Velásquez D, Sánchez A, Sarmiento S, Velásquez C, Toro M, Montoya E, Trefftz H, Maiza M, Sierra B. A Cyber-Physical Data Collection System Integrating Remote Sensing and Wireless Sensor Networks for Coffee Leaf Rust Diagnosis. Sensors (Basel) 2021; 21:s21165474. [PMID: 34450916 PMCID: PMC8401721 DOI: 10.3390/s21165474] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/13/2021] [Revised: 08/05/2021] [Accepted: 08/11/2021] [Indexed: 11/16/2022]
Abstract
Coffee Leaf Rust (CLR) is a fungal epidemic disease that has been affecting coffee trees around the world since the 1980s. The early diagnosis of CLR would contribute strategically to minimize the impact on the crops and, therefore, protect the farmers' profitability. In this research, a cyber-physical data-collection system was developed, by integrating Remote Sensing and Wireless Sensor Networks, to gather data, during the development of the CLR, on a test bench coffee-crop. The system is capable of automatically collecting, structuring, and locally and remotely storing reliable multi-type data from different field sensors, Red-Green-Blue (RGB) and multi-spectral cameras (RE and RGN). In addition, a data-visualization dashboard was implemented to monitor the data-collection routines in real-time. The operation of the data collection system allowed to create a three-month size dataset that can be used to train CLR diagnosis machine learning models. This result validates that the designed system can collect, store, and transfer reliable data of a test bench coffee-crop towards CLR diagnosis.
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Affiliation(s)
- David Velásquez
- RID on Information Technologies and Communications Research Group, Universidad EAFIT, Carrera 49 No. 7 Sur-50, Medellín 050022, Colombia; (A.S.); (S.S.); (C.V.); (M.T.); (E.M.); (H.T.)
- Department of Data Intelligence for Energy and Industrial Processes, Vicomtech Foundation, Basque Research and Technology Alliance (BRTA), 20014 Donostia-San Sebastián, Spain;
- Department of Computer Science and Artificial Intelligence, University of Basque Country, Manuel Lardizabal Ibilbidea, 1, 20018 Donostia-San Sebastián, Spain;
- Correspondence:
| | - Alejandro Sánchez
- RID on Information Technologies and Communications Research Group, Universidad EAFIT, Carrera 49 No. 7 Sur-50, Medellín 050022, Colombia; (A.S.); (S.S.); (C.V.); (M.T.); (E.M.); (H.T.)
| | - Sebastián Sarmiento
- RID on Information Technologies and Communications Research Group, Universidad EAFIT, Carrera 49 No. 7 Sur-50, Medellín 050022, Colombia; (A.S.); (S.S.); (C.V.); (M.T.); (E.M.); (H.T.)
| | - Camilo Velásquez
- RID on Information Technologies and Communications Research Group, Universidad EAFIT, Carrera 49 No. 7 Sur-50, Medellín 050022, Colombia; (A.S.); (S.S.); (C.V.); (M.T.); (E.M.); (H.T.)
| | - Mauricio Toro
- RID on Information Technologies and Communications Research Group, Universidad EAFIT, Carrera 49 No. 7 Sur-50, Medellín 050022, Colombia; (A.S.); (S.S.); (C.V.); (M.T.); (E.M.); (H.T.)
| | - Edwin Montoya
- RID on Information Technologies and Communications Research Group, Universidad EAFIT, Carrera 49 No. 7 Sur-50, Medellín 050022, Colombia; (A.S.); (S.S.); (C.V.); (M.T.); (E.M.); (H.T.)
| | - Helmuth Trefftz
- RID on Information Technologies and Communications Research Group, Universidad EAFIT, Carrera 49 No. 7 Sur-50, Medellín 050022, Colombia; (A.S.); (S.S.); (C.V.); (M.T.); (E.M.); (H.T.)
| | - Mikel Maiza
- Department of Data Intelligence for Energy and Industrial Processes, Vicomtech Foundation, Basque Research and Technology Alliance (BRTA), 20014 Donostia-San Sebastián, Spain;
| | - Basilio Sierra
- Department of Computer Science and Artificial Intelligence, University of Basque Country, Manuel Lardizabal Ibilbidea, 1, 20018 Donostia-San Sebastián, Spain;
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9
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Stüber M, Tack AJM, Zewdie B, Mendesil E, Shimales T, Ayalew B, Nemomissa S, Sjögren J, Vesterinen E, Wezel A, Hylander K. Multi-scale mosaics in top-down pest control by ants from natural coffee forests to plantations. Ecology 2021; 102:e03376. [PMID: 33937985 DOI: 10.1002/ecy.3376] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/02/2021] [Accepted: 03/16/2021] [Indexed: 11/09/2022]
Abstract
While top-down control plays an important role in shaping both natural and agricultural food webs, we lack insights into how top-down control effects vary across spatial scales. We used a multi-scale survey of top-down control of coffee pests and diseases by arboreal ants to examine if colony location creates a small-scale mosaic in top-down control around trees and if the strength of that control varies between sites at the landscape scale. We investigated pest and disease levels on coffee shrubs at different distances from shade trees with and without a Crematogaster spp. ant colony in 59 sites along a coffee management intensity gradient in southwestern Ethiopia. Within sites, ants significantly suppressed herbivory and coffee leaf rust at distances less than 10 m from nesting trees. Top-down control varied between sites, with stronger top-down control of free-feeding herbivory near ant colonies at sites with lower management intensity and stronger top-down control of a skeletonizer at sites with higher canopy cover. We conclude that the strength of top-down control by ants is highly heterogeneous across spatial scales, as a consequence of the biology of the predator at the small scale and herbivore density or changes in herbivore-ant interactions at the landscape scale.
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Affiliation(s)
- Moritz Stüber
- Department of Ecology, Environment and Plant Sciences, Stockholm University, Stockholm, 106 91, Sweden.,Agroecology and Environment Research Unit, ISARA-Lyon, Lyon, 69007, France.,Center for Organic Farming, University of Hohenheim, Stuttgart, 70599, Germany
| | - Ayco J M Tack
- Department of Ecology, Environment and Plant Sciences, Stockholm University, Stockholm, 106 91, Sweden
| | - Beyene Zewdie
- Department of Ecology, Environment and Plant Sciences, Stockholm University, Stockholm, 106 91, Sweden
| | - Esayas Mendesil
- Department of Horticulture & Plant Sciences, College of Agriculture and Veterinary Medicine, Jimma University, P.O. Box 307, Jimma, Ethiopia
| | - Tamiru Shimales
- Jimma Agricultural Research Center, P.O. Box 192, Jimma, Ethiopia
| | - Biruk Ayalew
- Department of Ecology, Environment and Plant Sciences, Stockholm University, Stockholm, 106 91, Sweden
| | - Sileshi Nemomissa
- Department of Plant Biology and Biodiversity Management, College of Natural Sciences, Addis Ababa University, P.O. Box 3434, Addis Ababa, Ethiopia
| | - Jörgen Sjögren
- Department of Ecology, Environment and Plant Sciences, Stockholm University, Stockholm, 106 91, Sweden.,Department of Wildlife, Fish, and Environmental Studies, Swedish University of Agricultural Sciences (SLU), Umeå, SE-901 83, Sweden
| | - Eero Vesterinen
- Department of Biology, University of Turku, Turku, Finland.,Department of Ecology, Swedish University of Agricultural Sciences, Uppsala, Sweden
| | - Alexander Wezel
- Agroecology and Environment Research Unit, ISARA-Lyon, Lyon, 69007, France
| | - Kristoffer Hylander
- Department of Ecology, Environment and Plant Sciences, Stockholm University, Stockholm, 106 91, Sweden
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10
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Quispe-Apaza C, Mansilla-Samaniego R, Espejo-Joya R, Bernacchia G, Yabar-Larios M, López-Bonilla C. Spatial and Temporal Genetic Diversity and Population Structure of Hemileia vastatrix from Peruvian Coffee Plantations. Plant Pathol J 2021; 37:280-290. [PMID: 34111917 PMCID: PMC8200579 DOI: 10.5423/ppj.oa.10.2020.0192] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/14/2020] [Revised: 04/23/2021] [Accepted: 05/05/2021] [Indexed: 06/01/2023]
Abstract
Population genetic studies of Hemileia vastatrix have been conducted in order to describe the evolutionary dynamics of the pathogen and the disease epidemiology as consequence of changes in disease management and host distribution occurred in Peru after the 2013 epidemic. These analyses were performed by sequencing the internal transcribed spacers of the nuclear ribosomal DNA (rDNA-ITS) of H. vastatrix collected from two coffee growing areas in 2014 and 2018. H. vastatrix population showed high haplotype diversity (Hd = 0.9373 ± 0.0115) with a low nucleotide diversity (π = 0.00322 ± 0.00018). Likewise, AMOVA indicated that fungus population has behaved as a large population without structuring by geographical origin and sampling years (FST = 0.00180, P = 0.20053 and FST = 0.00241, P = 0.19693, respectively). Additionally, the haplotype network based on intraspecific phylogenetic analysis of H. vastatrix using Peruvian and NCBI sequences revealed that Peruvian ancestral haplotypes, which were maintained in time and space, would correspond to the reported sequences of the races II and XXII. This result suggests that no substantial changes have occurred through time in Peruvian Hemileia vastatrix population.
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Affiliation(s)
- Cinthia Quispe-Apaza
- Universidad Nacional Agraria La Molina, Av. La Molina s/n, La Molina, 15024 Lima, Perú
| | | | - Rosa Espejo-Joya
- Universidad Nacional Agraria La Molina, Av. La Molina s/n, La Molina, 15024 Lima, Perú
| | - Giovanni Bernacchia
- Università degli Studi di Ferrara, Dip Scienze della Vita e Biotecnologie, Via Borsari 46, 44121 Ferrara, Italy
| | - Marisela Yabar-Larios
- Servicio Nacional de Sanidad Agraria, Av. La Molina 1915, La Molina, 15024 Lima, Perú
| | - César López-Bonilla
- Universidad Nacional Agraria La Molina, Av. La Molina s/n, La Molina, 15024 Lima, Perú
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11
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Koutouleas A, Jørgen Lyngs Jørgensen H, Jensen B, Lillesø JB, Junge A, Ræbild A. On the hunt for the alternate host of Hemileia vastatrix. Ecol Evol 2019; 9:13619-13631. [PMID: 31871671 PMCID: PMC6912922 DOI: 10.1002/ece3.5755] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2019] [Revised: 08/12/2019] [Accepted: 09/24/2019] [Indexed: 12/14/2022] Open
Abstract
Coffee leaf rust (CLR), caused by the fungal pathogen Hemileia vastatrix, has plagued coffee production worldwide for over 150 years. Hemileia vastatrix produces urediniospores, teliospores, and the sexual basidiospores. Infection of coffee by basidiospores of H. vastatrix has never been reported and thus far, no alternate host, capable of supporting an aecial stage in the disease cycle, has been found. Due to this, some argue that an alternate host of H. vastatrix does not exist. Yet, to date, the plant pathology community has been puzzled by the ability of H. vastatrix to overcome resistance in coffee cultivars despite the apparent lack of sexual reproduction and an aecidial stage. The purpose of this study was to introduce a new method to search for the alternate host(s) of H. vastatrix. To do this, we present the novel hypothetical alternate host ranking (HAHR) method and an automated text mining (ATM) procedure, utilizing comprehensive biogeographical botanical data from the designated sites of interests (Ethiopia, Kenya and Sri Lanka) and plant pathology insights. With the HAHR/ATM methods, we produced prioritized lists of potential alternate hosts plant of coffee leaf rust. This is a first attempt to seek out an alternate plant host of a pathogenic fungus in this manner. The HAHR method showed the highest-ranking probable alternate host as Psychotria mahonii, Rubus apetalus, and Rhamnus prinoides. The cross-referenced results by the two methods suggest that plant genera of interest are Croton, Euphorbia, and Rubus. The HAHR and ATM methods may also be applied to other plant-rust interactions that include an unknown alternate host or any other biological system, which rely on data mining of published data.
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Affiliation(s)
- Athina Koutouleas
- Department of Geosciences and Natural Resource ManagementUniversity of CopenhagenFrederiksberg CDenmark
| | - Hans Jørgen Lyngs Jørgensen
- Department of Plant and Environmental Sciences and Copenhagen Plant Science CentreUniversity of CopenhagenFrederiksberg CDenmark
| | - Birgit Jensen
- Department of Plant and Environmental Sciences and Copenhagen Plant Science CentreUniversity of CopenhagenFrederiksberg CDenmark
| | | | - Alexander Junge
- Faculty of Health and Medical SciencesNovo Nordisk Foundation Center for Protein ResearchUniversity of CopenhagenCopenhagen NDenmark
| | - Anders Ræbild
- Department of Geosciences and Natural Resource ManagementUniversity of CopenhagenFrederiksberg CDenmark
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12
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Toniutti L, Breitler JC, Etienne H, Campa C, Doulbeau S, Urban L, Lambot C, Pinilla JCH, Bertrand B. Influence of Environmental Conditions and Genetic Background of Arabica Coffee ( C. arabica L) on Leaf Rust ( Hemileia vastatrix) Pathogenesis. Front Plant Sci 2017; 8:2025. [PMID: 29234340 PMCID: PMC5712408 DOI: 10.3389/fpls.2017.02025] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/26/2017] [Accepted: 11/14/2017] [Indexed: 05/20/2023]
Abstract
Global warming is a major threat to agriculture worldwide. Between 2008 and 2013, some coffee producing countries in South and Central America suffered from severe epidemics of coffee leaf rust (CLR), resulting in high economic losses with social implications for coffee growers. The climatic events not only favored the development of the pathogen but also affected the physiological status of the coffee plant. The main objectives of the study were to evaluate how the physiological status of the coffee plant modified by different environmental conditions impact on the pathogenesis of CLR and to identify indicators of the physiological status able to predict rust incidence. Three rust susceptible genotypes (one inbred line and two hybrids) were grown in controlled conditions with a combination of thermal regime (TR), nitrogen and light intensity close to the field situation before being inoculated with the rust fungus Hemileia vastatrix. It has been demonstrated that a TR of 27-22°C resulted in 2000 times higher sporulation than with a TR of 23-18°C. It has been also shown that high light intensity combined with low nitrogen fertilization modified the CLR pathogenesis resulting in huge sporulation. CLR sporulation was significantly lower in the F1 hybrids than in the inbred line. The hybrid vigor may have reduced disease incidence. Among the many parameters studied, parameters related to photosystem II and photosynthetic electron transport chain components appeared as indicators of the physiological status of the coffee plant able to predict rust sporulation intensity. Taken together, these results show that CLR sporulation not only depends on the TR but also on the physiological status of the coffee plant, which itself depends on agronomic conditions. Our work suggests that vigorous varieties combined with a shaded system and appropriate nitrogen fertilization should be part of an agro-ecological approach to disease control.
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Affiliation(s)
- Lucile Toniutti
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement, UMR IPME, Montpellier, France
- Nestlé R&D Tours, Tours, France
| | - Jean-Christophe Breitler
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement, UMR IPME, Montpellier, France
| | - Hervé Etienne
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement, UMR IPME, Montpellier, France
| | - Claudine Campa
- Institut de Recherche pour le Développement, UMR IPME, Montpellier, France
| | - Sylvie Doulbeau
- Institut de Recherche pour le Développement, UMR IPME, Montpellier, France
| | - Laurent Urban
- UMR QualiSud, Université d’Avignon et des Pays du Vaucluse, Avignon, France
| | | | | | - Benoît Bertrand
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement, UMR IPME, Montpellier, France
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13
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Talhinhas P, Batista D, Diniz I, Vieira A, Silva DN, Loureiro A, Tavares S, Pereira AP, Azinheira HG, Guerra‐Guimarães L, Várzea V, Silva MDC. The coffee leaf rust pathogen Hemileia vastatrix: one and a half centuries around the tropics. Mol Plant Pathol 2017; 18:1039-1051. [PMID: 27885775 PMCID: PMC6638270 DOI: 10.1111/mpp.12512] [Citation(s) in RCA: 39] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/24/2016] [Revised: 11/09/2016] [Accepted: 11/12/2016] [Indexed: 05/22/2023]
Abstract
TAXONOMY AND HISTORY Hemileia vastatrix Berk. and Broome (Basidiomycota, Pucciniales) was described in 1869 in eastern Africa and Ceylon as the agent of coffee leaf rust and has spread to all coffee cultivation areas worldwide. Major disease outbreaks in Asia, Africa and America caused and continue to cause severe yield losses, making this the most important disease of Arabica coffee, a cash crop for many tropical and sub-tropical countries. LIFE CYCLE AND DISEASE SYMPTOMS Hemileia vastatrix is a hemicyclic fungus with the urediniosporic life cycle as its most important (if not only) source of inoculum. Chlorotic spots are the first macroscopic symptoms, preceding the differentiation of suprastomatal, bouquet-shaped, orange-coloured uredinia. The disease can cause yield losses of up to 35% and have a polyetic epidemiological impact on subsequent years. DISEASE CONTROL Although the use of fungicides is one of the preferred immediate control measures, the use of resistant cultivars is considered to be the most effective and durable disease control strategy. The discovery of 'Híbrido de Timor' provided sources of resistance that have been used in several breeding programmes and that have been proven to be effective and durable, as some have been in use for more than 30 years. GENETIC DIVERSITY AND MOLECULAR PATHOGENICITY Although exhibiting limited genetic polymorphism, the very large genome of H. vastatrix (c. 797 Mbp) conceals great pathological diversity, with more than 50 physiological races. Gene expression studies have revealed a very precocious activation of signalling pathways and production of putative effectors, suggesting that the plant-fungus dialogue starts as early as at the germ tube stage, and have provided clues for the identification of avr genes.
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Affiliation(s)
- Pedro Talhinhas
- CIFC, Centro de Investigação das Ferrugens do CafeeiroInstituto Superior de Agronomia, Universidade de LisboaQuinta do MarquêsOeiras2784‐505Portugal
- LEAF, Linking Landscape, Environment, Agriculture and FoodInstituto Superior de Agronomia, Universidade de LisboaTapada da AjudaLisbon1349‐017Portugal
| | - Dora Batista
- CIFC, Centro de Investigação das Ferrugens do CafeeiroInstituto Superior de Agronomia, Universidade de LisboaQuinta do MarquêsOeiras2784‐505Portugal
- LEAF, Linking Landscape, Environment, Agriculture and FoodInstituto Superior de Agronomia, Universidade de LisboaTapada da AjudaLisbon1349‐017Portugal
- Computational Biology and Population Genomics Group, cE3c – Centre for EcologyEvolution and Environmental Changes, Faculdade de Ciências, Universidade de LisboaCampo GrandeLisbon1749‐016Portugal
| | - Inês Diniz
- CIFC, Centro de Investigação das Ferrugens do CafeeiroInstituto Superior de Agronomia, Universidade de LisboaQuinta do MarquêsOeiras2784‐505Portugal
- LEAF, Linking Landscape, Environment, Agriculture and FoodInstituto Superior de Agronomia, Universidade de LisboaTapada da AjudaLisbon1349‐017Portugal
| | - Ana Vieira
- CIFC, Centro de Investigação das Ferrugens do CafeeiroInstituto Superior de Agronomia, Universidade de LisboaQuinta do MarquêsOeiras2784‐505Portugal
- Computational Biology and Population Genomics Group, cE3c – Centre for EcologyEvolution and Environmental Changes, Faculdade de Ciências, Universidade de LisboaCampo GrandeLisbon1749‐016Portugal
| | - Diogo N. Silva
- CIFC, Centro de Investigação das Ferrugens do CafeeiroInstituto Superior de Agronomia, Universidade de LisboaQuinta do MarquêsOeiras2784‐505Portugal
- Computational Biology and Population Genomics Group, cE3c – Centre for EcologyEvolution and Environmental Changes, Faculdade de Ciências, Universidade de LisboaCampo GrandeLisbon1749‐016Portugal
| | - Andreia Loureiro
- CIFC, Centro de Investigação das Ferrugens do CafeeiroInstituto Superior de Agronomia, Universidade de LisboaQuinta do MarquêsOeiras2784‐505Portugal
- LEAF, Linking Landscape, Environment, Agriculture and FoodInstituto Superior de Agronomia, Universidade de LisboaTapada da AjudaLisbon1349‐017Portugal
| | - Sílvia Tavares
- CIFC, Centro de Investigação das Ferrugens do CafeeiroInstituto Superior de Agronomia, Universidade de LisboaQuinta do MarquêsOeiras2784‐505Portugal
| | - Ana Paula Pereira
- CIFC, Centro de Investigação das Ferrugens do CafeeiroInstituto Superior de Agronomia, Universidade de LisboaQuinta do MarquêsOeiras2784‐505Portugal
| | - Helena G. Azinheira
- CIFC, Centro de Investigação das Ferrugens do CafeeiroInstituto Superior de Agronomia, Universidade de LisboaQuinta do MarquêsOeiras2784‐505Portugal
- LEAF, Linking Landscape, Environment, Agriculture and FoodInstituto Superior de Agronomia, Universidade de LisboaTapada da AjudaLisbon1349‐017Portugal
| | - Leonor Guerra‐Guimarães
- CIFC, Centro de Investigação das Ferrugens do CafeeiroInstituto Superior de Agronomia, Universidade de LisboaQuinta do MarquêsOeiras2784‐505Portugal
- LEAF, Linking Landscape, Environment, Agriculture and FoodInstituto Superior de Agronomia, Universidade de LisboaTapada da AjudaLisbon1349‐017Portugal
| | - Vítor Várzea
- CIFC, Centro de Investigação das Ferrugens do CafeeiroInstituto Superior de Agronomia, Universidade de LisboaQuinta do MarquêsOeiras2784‐505Portugal
- LEAF, Linking Landscape, Environment, Agriculture and FoodInstituto Superior de Agronomia, Universidade de LisboaTapada da AjudaLisbon1349‐017Portugal
| | - Maria do Céu Silva
- CIFC, Centro de Investigação das Ferrugens do CafeeiroInstituto Superior de Agronomia, Universidade de LisboaQuinta do MarquêsOeiras2784‐505Portugal
- LEAF, Linking Landscape, Environment, Agriculture and FoodInstituto Superior de Agronomia, Universidade de LisboaTapada da AjudaLisbon1349‐017Portugal
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14
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Abstract
Many fungal plant diseases are strongly controlled by weather, and global climate change is thus likely to have affected fungal pathogen distributions and impacts. Modelling the response of plant diseases to climate change is hampered by the difficulty of estimating pathogen-relevant microclimatic variables from standard meteorological data. The availability of increasingly sophisticated high-resolution climate reanalyses may help overcome this challenge. We illustrate the use of climate reanalyses by testing the hypothesis that climate change increased the likelihood of the 2008-2011 outbreak of Coffee Leaf Rust (CLR, Hemileia vastatrix) in Colombia. We develop a model of germination and infection risk, and drive this model using estimates of leaf wetness duration and canopy temperature from the Japanese 55-Year Reanalysis (JRA-55). We model germination and infection as Weibull functions with different temperature optima, based upon existing experimental data. We find no evidence for an overall trend in disease risk in coffee-growing regions of Colombia from 1990 to 2015, therefore, we reject the climate change hypothesis. There was a significant elevation in predicted CLR infection risk from 2008 to 2011 compared with other years. JRA-55 data suggest a decrease in canopy surface water after 2008, which may have helped terminate the outbreak. The spatial resolution and accuracy of climate reanalyses are continually improving, increasing their utility for biological modelling. Confronting disease models with data requires not only accurate climate data, but also disease observations at high spatio-temporal resolution. Investment in monitoring, storage and accessibility of plant disease observation data are needed to match the quality of the climate data now available.This article is part of the themed issue 'Tackling emerging fungal threats to animal health, food security and ecosystem resilience'.
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Affiliation(s)
- Daniel P Bebber
- Department of Biosciences, University of Exeter, Stocker Road, Exeter EX4 4QD, UK
| | | | - Sarah J Gurr
- Department of Biosciences, University of Exeter, Stocker Road, Exeter EX4 4QD, UK
- Rothamsted Research, North Wyke, Okehampton EX20 2SB, UK
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15
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Hajian-Forooshani Z, Rivera Salinas IS, Jiménez-Soto E, Perfecto I, Vandermeer J. Impact of Regionally Distinct Agroecosystem Communities on the Potential for Autonomous Control of the Coffee Leaf Rust. Environ Entomol 2016; 45:1521-1526. [PMID: 28028100 DOI: 10.1093/ee/nvw125] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/25/2016] [Accepted: 08/20/2016] [Indexed: 06/06/2023]
Abstract
Recent theoretical work suggests that two ineffective control agents can provide effective biological control when coupled together. We explore the implications of this work with the system of coffee leaf rust (CLR), caused by the fungal agent Hemileiae vastatrix, and two of its natural enemies, a fungal pathogen (Lecanicillium lecanii) and a spore predator (Mycodiplosis hemileiae). Here we report on comparative surveys of the CLR and its two natural enemies in Mexico, where the CLR has been at epidemic status since 2012, and Puerto Rico, where the CLR is present but has not reached epidemic densities. We found that the densities of the two control agents per CLR lesion is higher in Puerto Rico than in Mexico, and we hypothesize that their joint presence at higher densities is contributing to the suppression of the CLR in Puerto Rico but not in Mexico. Furthermore, we found that the presence of Azteca sericeasur, a keystone ant species that occurs in Mexico but not Puerto Rico, significantly reduces the prevalence of M. hemileiae on coffee plants. Our work provides data that allows us to hypothesize that the joint presence of these two control agents may potentially provide control of the CLR and also highlights the importance of regionally specific communities within agroecosystems, and how variation in community composition may lead to varying outcomes for biological control. Additionally, this is the first report of the presence of a potentially important biological control agent, M. hemileiae, in Latin America and the Caribbean.
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Affiliation(s)
- Zachary Hajian-Forooshani
- Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI 48109 (; )
- Present address: Natural Science Building 830 N. University Ave. Room 2081, Ann Arbor, MI 48109
| | | | - Estelí Jiménez-Soto
- Environmental Studies Department, University of California, Santa Cruz, CA 95064
| | - Ivette Perfecto
- School of Natural Resources and Environment, University of Michigan, Ann Arbor, MI 48109
| | - John Vandermeer
- Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI 48109 (; )
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16
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Talhinhas P, Azinheira HG, Vieira B, Loureiro A, Tavares S, Batista D, Morin E, Petitot AS, Paulo OS, Poulain J, Da Silva C, Duplessis S, Silva MDC, Fernandez D. Overview of the functional virulent genome of the coffee leaf rust pathogen Hemileia vastatrix with an emphasis on early stages of infection. Front Plant Sci 2014; 5:88. [PMID: 24672531 PMCID: PMC3953675 DOI: 10.3389/fpls.2014.00088] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/22/2014] [Accepted: 02/24/2014] [Indexed: 05/06/2023]
Abstract
Hemileia vastatrix is the causal agent of coffee leaf rust, the most important disease of coffee Arabica. In this work, a 454-pyrosequencing transcriptome analysis of H. vastatrix germinating urediniospores (gU) and appressoria (Ap) was performed and compared to previously published in planta haustoria-rich (H) data. A total of 9234 transcripts were identified and annotated. Ca. 50% of these transcripts showed no significant homology to international databases. Only 784 sequences were shared by the three conditions, and 75% were exclusive of either gU (2146), Ap (1479) or H (3270). Relative transcript abundance and RT-qPCR analyses for a selection of genes indicated a particularly active metabolism, translational activity and production of new structures in the appressoria and intense signaling, transport, secretory activity and cellular multiplication in the germinating urediniospores, suggesting the onset of a plant-fungus dialogue as early as at the germ tube stage. Gene expression related to the production of carbohydrate-active enzymes and accumulation of glycerol in germinating urediniospores and appressoria suggests that combined lytic and physical mechanisms are involved in appressoria-mediated penetration. Besides contributing to the characterization of molecular processes leading to appressoria-mediated infection by rust fungi, these results point toward the identification of new H. vastatrix candidate virulence factors, with 516 genes predicted to encode secreted proteins.
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Affiliation(s)
- Pedro Talhinhas
- Centro de Investigação das Ferrugens do Cafeeiro/BioTrop/Instituto de Investigação Científica TropicalOeiras, Portugal
| | - Helena G. Azinheira
- Centro de Investigação das Ferrugens do Cafeeiro/BioTrop/Instituto de Investigação Científica TropicalOeiras, Portugal
| | - Bruno Vieira
- Computational Biology and Population Genomics Group, Centro de Biologia Ambiental, Faculdade de Ciências da Universidade de LisboaLisboa, Portugal
| | - Andreia Loureiro
- Centro de Investigação das Ferrugens do Cafeeiro/BioTrop/Instituto de Investigação Científica TropicalOeiras, Portugal
| | - Sílvia Tavares
- Centro de Investigação das Ferrugens do Cafeeiro/BioTrop/Instituto de Investigação Científica TropicalOeiras, Portugal
| | - Dora Batista
- Centro de Investigação das Ferrugens do Cafeeiro/BioTrop/Instituto de Investigação Científica TropicalOeiras, Portugal
| | - Emmanuelle Morin
- Institut National de la Recherche Agronomique, Centre INRA Nancy Lorraine, UMR 1136 INRA/Université de Lorraine Interactions Arbres/Micro-organismesChampenoux, France
- Université de Lorraine, UMR 1136 INRA/Université de Lorraine Interactions Arbres/Micro-organismes, Faculté des Sciences et TechnologiesVandoeuvre-lès-Nancy, France
| | - Anne-Sophie Petitot
- Institut de Recherche pour le Développement, UMR 186 IRD-Cirad-UM2 Résistance des Plantes aux BioagresseursMontpellier, France
| | - Octávio S. Paulo
- Computational Biology and Population Genomics Group, Centro de Biologia Ambiental, Faculdade de Ciências da Universidade de LisboaLisboa, Portugal
| | - Julie Poulain
- Genoscope, Centre National de Séquençage, Commissariat à l'Energie Atomique, Institut de GénomiqueEvry, France
| | - Corinne Da Silva
- Genoscope, Centre National de Séquençage, Commissariat à l'Energie Atomique, Institut de GénomiqueEvry, France
| | - Sébastien Duplessis
- Institut National de la Recherche Agronomique, Centre INRA Nancy Lorraine, UMR 1136 INRA/Université de Lorraine Interactions Arbres/Micro-organismesChampenoux, France
- Université de Lorraine, UMR 1136 INRA/Université de Lorraine Interactions Arbres/Micro-organismes, Faculté des Sciences et TechnologiesVandoeuvre-lès-Nancy, France
| | - Maria do Céu Silva
- Centro de Investigação das Ferrugens do Cafeeiro/BioTrop/Instituto de Investigação Científica TropicalOeiras, Portugal
| | - Diana Fernandez
- Institut de Recherche pour le Développement, UMR 186 IRD-Cirad-UM2 Résistance des Plantes aux BioagresseursMontpellier, France
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