34 results on '"Tollenaere, Charlotte"'
Search Results
2. Old foe, New host: Epidemiology, genetic diversity, and pathogenic characterization of maize streak virus in rice fields from Burkina Faso
- Author
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Magdy Ibrahim Fouad, Noun, Barro, Mariam, Bangratz, Martine, Sérémé, Drissa, Filloux, Denis, Fernandez, Emmanuel, Julian, Charlotte, Saïbou, Nignan, Kassankogno, Abalo Itolou, Guigma, Abdoul Kader, Roumagnac, Philippe, Wonni, Issa, Tollenaere, Charlotte, Poulicard, Nils, Magdy Ibrahim Fouad, Noun, Barro, Mariam, Bangratz, Martine, Sérémé, Drissa, Filloux, Denis, Fernandez, Emmanuel, Julian, Charlotte, Saïbou, Nignan, Kassankogno, Abalo Itolou, Guigma, Abdoul Kader, Roumagnac, Philippe, Wonni, Issa, Tollenaere, Charlotte, and Poulicard, Nils
- Abstract
Rice is of critical significance regarding food security worldwide, including in Africa. Only two viruses impacting rice production in Africa have been deeply investigated for decades: the rice yellow mottle virus (Solemoviridae) and the rice stripe necrosis virus (Benyviridae). Using viral metagenomics, we aimed at broadening knowledge on interacting communities associated with plants in rice landscapes and exploring the diversity and epidemiological status of viruses circulating in rice fields from Burkina Faso. We performed an epidemiological survey in this country between 2016 and 2019 involving 57 small farmers' rice fields under two production systems: rainfed lowlands and irrigated areas. More than 2,700 rice samples were collected without regard to disease symptoms following a regular scheme. Wild and cultivated Poaceae (maize and sugarcane) growing in nearby rice fields were also collected. Unexpectedly, metagenomics detected maize streak virus (MSV) (Geminiviridae) in analyzed rice samples. Further molecular analyses using rolling circle amplification-polymerase chain reaction showed that MSV was widely distributed and highly prevalent in both rainfed lowlands and irrigated rice areas. MSV-A and MSV-G strains were identified. MSV-G, exclusively identified thus far in wild grasses, was the most prevalent strain, whereas MSV-A, known to cause severe symptoms in maize, was sporadically identified. Using infectious clones in experimental conditions, we confirmed the pathogenicity of both MSV strains in rice. Thus, in addition to contributing to the epidemiological surveillance of rice production in Africa, our results illuminate new epidemiological and pathogenic aspects of one of the most studied plant viruses with significant economic consequences in Africa.
- Published
- 2024
3. Deciphering mixed infections by plant RNA virus and reconstructing complete genomes simultaneously present within-host
- Author
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BANGRATZ, Martine, primary, COMTE, Aurore, additional, BILLARD, Estelle, additional, GUIGMA, Abdoul Kader, additional, GANDOLFI, Guillaume, additional, KASSANKOGNO, Abalo Itolou, additional, SEREME, Drissa, additional, POULICARD, Nils, additional, and TOLLENAERE, Charlotte, additional
- Published
- 2024
- Full Text
- View/download PDF
4. Old foe, new host: epidemiology, genetic diversity and pathogenic characterization of maize streak virus in rice fields from Burkina Faso
- Author
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Fouad, Noun Magdy Ibrahim, primary, Barro, Mariam, additional, Bangratz, Martine, additional, Sérémé, Drissa, additional, Filloux, Denis, additional, Fernandez, Emmanuel, additional, Julian, Charlotte, additional, Saïbou, Nignan, additional, Kassankogno, Abalo Itolou, additional, Guigma, Abdoul Kader, additional, Roumagnac, Philippe, additional, Wonni, Issa, additional, Tollenaere, Charlotte, additional, and Poulicard, Nils, additional
- Published
- 2023
- Full Text
- View/download PDF
5. Dynamics of the rice yellow mottle disease in western Burkina Faso: epidemic monitoring, spatio-temporal variation of viral diversity and pathogenicity in a disease hotspot
- Author
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Billard, Estelle, primary, Barro, Mariam, additional, Sérémé, Drissa, additional, Bangratz, Martine, additional, Wonni, Issa, additional, Koala, Moustapha, additional, Kassankogno, Abalo Itolou, additional, Hébrard, Eugénie, additional, Thébaud, Gaël, additional, Brugidou, Christophe, additional, Poulicard, Nils, additional, and Tollenaere, Charlotte, additional
- Published
- 2023
- Full Text
- View/download PDF
6. Microbial community structure associated with rice roots in contrasting rice agrosystems in western Burkina Faso [P1.1-150]
- Author
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Barro, Mariam, Wonni, Issa, Simonin, Marie, Kassankogno, Abalo Itolou, Klonowska, Agnieszka, Moulin, Lionel, Béna, Gilles, Somda, Irénée, Brunel, Caroline, Tollenaere, Charlotte, Barro, Mariam, Wonni, Issa, Simonin, Marie, Kassankogno, Abalo Itolou, Klonowska, Agnieszka, Moulin, Lionel, Béna, Gilles, Somda, Irénée, Brunel, Caroline, and Tollenaere, Charlotte
- Abstract
Plants recruit soil microorganisms to provide various functions or protection against pathogens. Crop plants and their associated microbial communities are therefore increasingly studied together. However, the mechanisms that control the assembly of the root-associated microbiome remain difficult to disentangle, especially in rice ecosystems, which are poorly studied. Here, we compare the assembly of rice rootassociated microbiota sampled from 19 smallholder fields in the irrigated and rainfed lowlands of Burkina Faso. Using a 16S rRNA gene amplicon and ITS metabarcoding approach, we show that the rice production system is a major factor in the structure of the microbiome in addition to the expected structure by root compartments (root vs. rhizosphere) and geographic areas. In irrigated systems, we found greater diversity of rhizosphere prokaryotic communities and more complex co-occurrence networks, compared to rainfed lowlands, while fungal communities showed an opposite pattern. The main taxa were different between the two systems, and indicator species were identified: mostly within Bacillaceae in the rainfed lowlands, and within Burkholderiaceae and Moraxellaceae in the irrigated areas. Finally, a higher abundance in rainfed lowlands was found for mycorrhizal fungi. Our results highlight profound differences in the microbiome induced by contrasting rice production systems that should therefore be considered for microbial engineering applications.
- Published
- 2023
7. Evolutionary and Epidemiological Implications of Multiple Infection in Plants
- Author
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Tollenaere, Charlotte, Susi, Hanna, and Laine, Anna-Liisa
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- 2016
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8. Diversity and plant growth promoting ability of rice root-associated bacteria in Burkina-Faso and cross-comparison with metabarcoding data.
- Author
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Sondo, Moussa, Wonni, Issa, Koïta, Kadidia, Rimbault, Isabelle, Barro, Mariam, Tollenaere, Charlotte, Moulin, Lionel, and Klonowska, Agnieszka
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PLANT growth ,PLANT diversity ,GENETIC barcoding ,BACTERIA ,NUCLEOTIDE sequencing ,RALSTONIA - Abstract
Plant-associated bacteria are essential partners in plant health and development. In addition to taking advantage of the rapid advances recently achieved in high-throughput sequencing approaches, studies on plant-microbiome interactions require experiments with culturable bacteria. A study on the rice root microbiome was recently initiated in Burkina Faso. As a follow up, the aim of the present study was to develop a collection of corresponding rice root-associated bacteria covering maximum diversity, to assess the diversity of the obtained isolates based on the culture medium used, and to describe the taxonomy, phenotype and abundance of selected isolates in the rice microbiome. More than 3,000 isolates were obtained using five culture media (TSA, NGN, NFb, PCAT, Baz). The 16S rRNA fragment sequencing of 1,013 selected isolates showed that our working collection covered four bacterial phyla (Proteobacteria, Firmicutes, Actinobacteria and Bacteroidetes) and represented 33% of the previously described diversity of the rice root microbiome at the order level. Phenotypic in vitro analysis of the plant growth promoting capacity of the isolates revealed an overall ammonium production and auxin biosynthesis capacity, while siderophore production and phosphate solubilisation were enriched in Burkholderia, Ralstonia, Acinetobacter and Pseudomonas species. Of 45 representative isolates screened for growth promotion on seedlings of two rice cultivars, five showed an ability to improve the growth of both cultivars, while five others were effective on only one cultivar. The best results were obtained with Pseudomonas taiwanensis ABIP 2315 and Azorhizobium caulinodans ABIP 1219, which increased seedling growth by 158% and 47%, respectively. Among the 14 best performing isolates, eight appeared to be abundant in the rice root microbiome dataset from previous study. The findings of this research contribute to the in vitro and in planta PGP capacities description of rice root-associated bacteria and their potential importance for plants by providing, for the first time, insight into their prevalence in the rice root microbiome. [ABSTRACT FROM AUTHOR]
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- 2023
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9. Lasiodiplodiaspecies associated with mango (Mangifera indicaL.) decline in Burkina Faso and influence of climatic factors on the disease distribution
- Author
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Dianda, Oumarou Zoéyandé, primary, Wonni, Issa, additional, Ouédraogo, Léonard, additional, Sankara, Philippe, additional, Tollenaere, Charlotte, additional, Del Ponte, Emerson M., additional, and Fernandez, Diana, additional
- Published
- 2023
- Full Text
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10. Ecological and evolutionary effects of fragmentation on infectious disease dynamics
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Jousimo, Jussi, Tack, Ayco J. M., Ovaskainen, Otso, Mononen, Tommi, Susi, Hanna, Tollenaere, Charlotte, and Laine, Anna-Liisa
- Published
- 2014
11. The impact of the rice production system (irrigated vs lowland) on root-associated microbiome from farmer's fields in western Burkina Faso
- Author
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Barro, Mariam, primary, Wonni, Issa, additional, Simonin, Marie, additional, Kassankogno, Abalo Itolou, additional, Klonowska, Agnieszka, additional, Moulin, Lionel, additional, Béna, Gilles, additional, Somda, Irénée, additional, Brunel, Caroline, additional, and Tollenaere, Charlotte, additional
- Published
- 2022
- Full Text
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12. The impact of the rice production system (irrigated vs lowland) on root-associated microbiome from farmer's fields in western Burkina Faso
- Author
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Barro, Mariam, Wonni, Issa, Simonin, Marie, Kassankogno, Abalo Itolou, Klonowska, Agnieszka, Moulin, Lionel, Béna, Gilles, Somda, Irénée, Brunel, Caroline, Tollenaere, Charlotte, Barro, Mariam, Wonni, Issa, Simonin, Marie, Kassankogno, Abalo Itolou, Klonowska, Agnieszka, Moulin, Lionel, Béna, Gilles, Somda, Irénée, Brunel, Caroline, and Tollenaere, Charlotte
- Abstract
Due to their potential applications for food safety, there is a growing interest in rice root-associated microbial communities, but some systems remain understudied. Here, we compare the assemblage of root-associated microbiota in rice sampled in 19 small farmer's fields from irrigated and rainfed lowlands in Burkina Faso, using an amplicon metabarcoding approach of the 16S rRNA gene (prokaryotes, three plant samples per field) and ITS (fungi, one sample per field). In addition to the expected structure by root compartments (root vs rhizosphere) and geographical zones, we showed that the rice production system is a major driver of microbiome structure. In irrigated systems, we found a higher diversity of prokaryotic communities from the rhizosphere and more complex co-occurrence networks, compared to rainfed lowlands, while fungal communities exhibited an opposite pattern (higher richness in rainfed lowlands). Core taxa were different between the two systems, and indicator species were identified: mostly within Bacillaceae in rainfed lowlands, and within Burkholderiaceae and Moraxellaceae in irrigated areas. Finally, a higher abundance in rainfed lowlands was found for mycorrhizal fungi (both compartments) and rhizobia (rhizosphere only). Our results highlight deep microbiome differences induced by contrasted rice production systems that should consequently be considered for microbial engineering applications.
- Published
- 2022
13. Spatiotemporal survey of multiple rice diseases in irrigated areas compared to rainfed lowlands in western Burkina Faso
- Author
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BARRO, Mariam, KASSANKOGNO, Abalo Itolou, WONNI, Issa, SEREME, Drissa, SOMDA, Irénée, KABORE, Kouka Hilaire, BENA, Gilles, BRUGIDOU, Christophe, THARREAU, Didier, and TOLLENAERE, Charlotte
- Subjects
Rice, RYMV, Xanthomonas oryzae, Pyricularia oryzae, Bipolaris spp, Epidemiology, Burkina Faso ,food and beverages - Abstract
Multiple constraints affect rice yields and global production in West Africa. Among these constraints are viral, bacterial and fungal pathogens. We aimed to describe the spatiotemporal patterns of occurrence and incidence of multiple rice diseases in farmers’ fields in contrasting rice growing systems in western Burkina Faso. For this purpose, we selected a set of three pairs of sites, each comprising an irrigated area and a neighboring rainfed lowland, and studied them over four consecutive years. We first performed interviews with the rice farmers to better characterize the management practices at the different sites. This study revealed that the transplanting of rice and the possibility of growing rice twice a year are restricted to irrigated areas, while other practices, such as the use of registered rice cultivars, fertilization and pesticides, are not specific but differ between the two rice growing systems. Then, we performed symptom observations at these study sites to monitor the following four diseases: yellow mottle disease, Bacterial Leaf Streak (BLS), rice leaf blast and brown spot. The infection rates were found to be higher in irrigated areas than in rainfed lowlands, both when analyzing all observed symptoms together (any of the four diseases) and when specifically considering each of the two diseases: BLS and rice leaf blast. Brown spot was particularly prevalent in all six study sites, while yellow mottle disease was particularly structured geographically. Various diseases were frequently found together in the same field (co-occurrence) or even on the same plant (coinfection), especially in irrigated areas.
- Published
- 2022
14. Genetic diversity and structure of Bipolaris oryzae and Exserohilum rostratum populations causing brown spot of rice in Burkina Faso based on genotyping-by-sequencing
- Author
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Kabore, Kouka Hilaire, Kassankogno, Abalo Itolou, Adreit, Henri, Milazzo, Joëlle, Guillou, Sonia, Blondin, Laurence, Chopin, Laurie, Ravel, Sébastien, Charriat, Florian, Barro, Mariam, Tollenaere, Charlotte, Lebrun, Marc-Henri, Tharreau, Didier, BIOlogie et GEstion des Risques en agriculture (BIOGER), Université Paris-Saclay-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Plant Health Institute of Montpellier (UMR PHIM), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM), Institut de l'Environnement et Recherches Agricoles [Ouagadougou] (INERA), Centre national de la recherche scientifique et technologique [Ouagadougou] (CNRST), Département Systèmes Biologiques (Cirad-BIOS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Animal, Santé, Territoires, Risques et Ecosystèmes (UMR ASTRE), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), RICE CRP and the Islamic Development Bank, and ANR-10-LABX-0001,AGRO,Agricultural Sciences for sustainable Development(2010)
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Oryza ,Maladie fongique ,recombination ,[SDV.BV.PEP]Life Sciences [q-bio]/Vegetal Biology/Phytopathology and phytopharmacy ,Recombinaison ,reproduction ,rice disease ,fungal pathogen ,mating type ,linkage disequilibrium ,H20 - Maladies des plantes - Abstract
International audience; In recent years, Brown spot disease of rice (BSR) has been observed on leaves and seeds of rice in all rice-growing areas of Burkina Faso. Bipolaris oryzae and Exserohilum rostratum are the main fungal species isolated from BSR infected tissues and they are frequently observed in the same field. However, we are lacking information on the genetic diversity and population structure of these fungi in Burkina Faso. The mode of reproduction is also unknown. The genetic diversity of isolates of B. oryzae (n=61) and E. rostratum (n=151), collected from major ricegrowing areas of Burkina Faso, was estimated using genotyping-by-sequencing (GBS). The mean values for nucleotide diversity (p) were 1.9 x10-4 for B. oryzae and 4.8 x10-4 for E. rostratum. There is no genetic differentiation between the geographical populations of each species. The analysis of molecular variance revealed that 89% and 94% of the genetic variances were within the populations of B. oryzae and E. rostratum, respectively. For each species, four genetic clusters were identified by two clustering methods (DAPC and sNMF). The distribution of these genetic groups was independent of the geographical origin of the isolates. Evidence of recombination was detected in the populations of B. oryzae and E. rostratum. For B. oryzae balanced mating type ratios were supporting sexual reproduction. For E. rostratum overrepresentation of MAT1-2 isolates (79%) suggested a predominant asexual reproduction. This study provides important information on the biology and genetics of the two major fungi causing brown spot disease of rice in Burkina Faso.
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- 2022
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15. Phylogeography of the introduced species Rattus rattus in the western Indian Ocean, with special emphasis on the colonization history of Madagascar
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Tollenaere, Charlotte, Brouat, Carine, Duplantier, Jean-Marc, Rahalison, Lila, Rahelinirina, Soanandrasana, Pascal, Michel, Moné, Hélène, Mouahid, Gabriel, Leirs, Herwig, Cosson, Jean-François, and Riddle, Brett
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- 2010
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16. Spatiotemporal Survey of Multiple Rice Diseases in Irrigated Areas Compared to Rainfed Lowlands in the Western Burkina Faso
- Author
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Barro, Mariam, primary, Kassankogno, Abalo Itolou, additional, Wonni, Issa, additional, Sérémé, Drissa, additional, Somda, Irénée, additional, Kaboré, Hilaire Kouka, additional, Béna, Gilles, additional, Brugidou, Christophe, additional, Tharreau, Didier, additional, and Tollenaere, Charlotte, additional
- Published
- 2021
- Full Text
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17. Assessment of Genetic Diversity of Rice in Registered Cultivars and Farmers’ Fields in Burkina Faso
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Barro, Mariam, primary, Konate, Kadougoudiou Abdourasmane, additional, Wonni, Issa, additional, Kassankogno, Abalo Itolou, additional, Sabot, François, additional, Albar, Laurence, additional, Somda, Irénée, additional, Béna, Gilles, additional, Ghesquière, Alain, additional, Kam, Honoré, additional, Sié, Moussa, additional, Cubry, Philippe, additional, and Tollenaere, Charlotte, additional
- Published
- 2021
- Full Text
- View/download PDF
18. Genetic Structure and Diversity of Rice From Certified Cultivars and Farmer’s Fields in Burkina Faso
- Author
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BARRO, Mariam, primary, KONATE, Abdourasmane, additional, WONNI, Issa, additional, KASSANKOGNO, Abalo Itolou, additional, SABOT, François, additional, ALBAR, Laurence, additional, SOMDA, Irénée, additional, BENA, Gilles, additional, GHESQUIERE, Alain, additional, KAM, Honoré, additional, SIE, Moussa, additional, CUBRY, Philippe, additional, and TOLLENAERE, Charlotte, additional
- Published
- 2021
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19. Coévolution plantes-parasites en populations naturelles
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Ravigné, Virginie, Halkett, Fabien, and Tollenaere, Charlotte
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H01 - Protection des végétaux - Considérations générales ,Flore microbienne ,Relation hôte parasite ,Évolution ,Relation hôte pathogène ,Agent pathogène ,Parasite ,Épidémiologie ,Agent de lutte biologique ,H20 - Maladies des plantes - Published
- 2021
20. Spatiotemporal survey of multiple rice diseases in irrigated areas compared to rainfed lowlands in the western Burkina Faso
- Author
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Barro, Mariam, Kassankogno, Abalo Itolou, Wonni, Issa, Sérémé, Drissa, Somda, Irénée, Kabore, Kouka Hilaire, Béna, Gilles, Brugidou, Christophe, Tharreau, Didier, Tollenaere, Charlotte, Barro, Mariam, Kassankogno, Abalo Itolou, Wonni, Issa, Sérémé, Drissa, Somda, Irénée, Kabore, Kouka Hilaire, Béna, Gilles, Brugidou, Christophe, Tharreau, Didier, and Tollenaere, Charlotte
- Abstract
Multiple constraints affect rice yields and global production in West Africa. Among these constraints are viral, bacterial and fungal pathogens. We aimed to describe the spatiotemporal patterns of occurrence and incidence of multiple rice diseases in farmers' fields in contrasting rice growing systems in western Burkina Faso. For this purpose, we selected a set of three pairs of sites, each comprising an irrigated area and a neighboring rainfed lowland, and studied them over four consecutive years. We first performed interviews with the rice farmers to better characterize the management practices at the different sites. This study revealed that the transplanting of rice and the possibility of growing rice twice a year are restricted to irrigated areas, while other practices, such as the use of registered rice cultivars, fertilization and pesticides, are not specific but differ between the two rice growing systems. Then, we performed symptom observations at these study sites to monitor the following four diseases: yellow mottle disease, Bacterial Leaf Streak (BLS), rice leaf blast and brown spot. The infection rates were found to be higher in irrigated areas than in rainfed lowlands, both when analyzing all observed symptoms together (any of the four diseases) and when specifically considering each of the two diseases: BLS and rice leaf blast. Brown spot was particularly prevalent in all six study sites, while yellow mottle disease was particularly structured geographically. Various diseases were frequently found together in the same field (co-occurrence) or even on the same plant (coinfection), especially in irrigated areas.
- Published
- 2021
21. DISEASE ECOLOGY: Ecological and evolutionary effects of fragmentation on infectious disease dynamics
- Author
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Jousimo, Jussi, Tack, Ayco J. M., Ovaskainen, Otso, Mononen, Tommi, Susi, Hanna, Tollenaere, Charlotte, and Laine, Anna-Liisa
- Published
- 2014
- Full Text
- View/download PDF
22. impact of the rice production system (irrigated vs lowland) on root-associated microbiome from farmer's fields in western Burkina Faso.
- Author
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Barro, Mariam, Wonni, Issa, Simonin, Marie, Kassankogno, Abalo Itolou, Klonowska, Agnieszka, Moulin, Lionel, Béna, Gilles, Somda, Irénée, Brunel, Caroline, and Tollenaere, Charlotte
- Subjects
MYCORRHIZAL fungi ,FOOD safety ,MICROBIAL communities ,BACILLACEAE ,FARMERS ,FUNGAL communities ,RICE ,COMMUNITIES - Abstract
Due to their potential applications for food safety, there is a growing interest in rice root-associated microbial communities, but some systems remain understudied. Here, we compare the assemblage of root-associated microbiota in rice sampled in 19 small farmer's fields from irrigated and rainfed lowlands in Burkina Faso, using an amplicon metabarcoding approach of the 16S rRNA gene (prokaryotes, three plant samples per field) and ITS (fungi, one sample per field). In addition to the expected structure by root compartments (root vs rhizosphere) and geographical zones, we showed that the rice production system is a major driver of microbiome structure. In irrigated systems, we found a higher diversity of prokaryotic communities from the rhizosphere and more complex co-occurrence networks, compared to rainfed lowlands, while fungal communities exhibited an opposite pattern (higher richness in rainfed lowlands). Core taxa were different between the two systems, and indicator species were identified: mostly within Bacillaceae in rainfed lowlands, and within Burkholderiaceae and Moraxellaceae in irrigated areas. Finally, a higher abundance in rainfed lowlands was found for mycorrhizal fungi (both compartments) and rhizobia (rhizosphere only). Our results highlight deep microbiome differences induced by contrasted rice production systems that should consequently be considered for microbial engineering applications. [ABSTRACT FROM AUTHOR]
- Published
- 2022
- Full Text
- View/download PDF
23. Design of a new multiplex PCR assay for rice pathogenic bacteria detection and its application to infer disease incidence and detect co-infection in rice fields in Burkina Faso
- Author
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Bangratz, Martine, Wonni, Issa, Kini, Kossi, Sondo, Moussa, Brugidou, Christophe, Béna, Gilles, Gnacko, Fatoumata, Barro, Mariam, Koebnik, Ralf, Silué, Drissa, Tollenaere, Charlotte, UMR - Interactions Plantes Microorganismes Environnement (UMR IPME), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Université de Montpellier (UM)-Institut de Recherche pour le Développement (IRD [France-Sud]), Institut de l'Environnement et Recherches Agricoles [Ouagadougou] (INERA), Centre national de la recherche scientifique et technologique [Ouagadougou] (CNRST), Africa Rice Center [Côte d'Ivoire] (AfricaRice), Consultative Group on International Agricultural Research [CGIAR] (CGIAR), and ANR-16-IDEX-0006,MUSE,MUSE(2016)
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DNA, Bacterial ,Leaves ,Xanthomonas ,Burkholderia ,Epidemiology ,Science ,[SDV]Life Sciences [q-bio] ,Plant Pathogens ,Artificial Gene Amplification and Extension ,Plant Science ,Research and Analysis Methods ,Pathology and Laboratory Medicine ,Polymerase Chain Reaction ,Sphingomonas ,Microbiology ,Plant and Algal Models ,Pseudomonas ,Burkina Faso ,Medicine and Health Sciences ,Grasses ,Molecular Biology Techniques ,Molecular Biology ,Microbial Pathogens ,Plant Diseases ,Bacteria ,Plant Bacterial Pathogens ,Coinfection ,Plant Anatomy ,Incidence ,Organisms ,Biology and Life Sciences ,Eukaryota ,Oryza ,Plants ,Plant Pathology ,Bacterial Pathogens ,Experimental Organism Systems ,Medical Microbiology ,Animal Studies ,Medicine ,Rice ,Pathogens ,Multiplex Polymerase Chain Reaction ,Research Article - Abstract
International audience; Crop diseases are responsible for considerable yield losses worldwide and particularly in sub-Saharan Africa. To implement efficient disease control measures, detection of the pathogens and understanding pathogen spatio-temporal dynamics is crucial and requires the use of molecular detection tools, especially to distinguish different pathogens causing more or less similar symptoms. We report here the design a new molecular diagnostic tool able to simultaneously detect five bacterial taxa causing important diseases on rice in Africa: (1) Pseudomonas fuscovaginae, (2) Xanthomonas oryzae, (3) Burkholderia glumae and Burkholderia gladioli, (4) Sphingomonas and (5) Pantoea species. This new detection tool consists of a multiplex PCR, which is cost effective and easily applicable. Validation of the method is presented through its application on a global collection of bacterial strains. Moreover, sensitivity assessment for the detection of all five bacteria is reported to be at 0.5 ng DNA by μl. As a proof of concept, we applied the new molecular detection method to a set of 256 rice leaves collected from 16 fields in two irrigated areas in western Burkina Faso. Our results show high levels of Sphingomonas spp. (up to 100% of tested samples in one field), with significant variation in the incidence between the two sampled sites. Xanthomonas oryzae incidence levels were mostly congruent with bacterial leaf streak (BLS) and bacterial leaf blight (BLB) symptom observations in the field. Low levels of Pantoea spp. were found while none of the 256 analysed samples was positive for Burkholderia or Pseudomonas fuscovaginae. Finally, many samples (up to 37.5% in one studied field) were positive for more than one bacterium (co-infection). Documenting co-infection levels are important because of their drastic consequences on epidemiology, evolution of pathogen populations and yield losses. The newly designed multiplex PCR for multiple bacterial pathogens of rice is a significant improvement for disease monitoring in the field, thus contributing to efficient disease control and food safety.
- Published
- 2020
- Full Text
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24. Detection of five bacterial pathogens of rice by multiplex PCR v1
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Bangratz, Martine, primary and Tollenaere, Charlotte, additional
- Published
- 2020
- Full Text
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25. Acid nucleic extraction from rice dried leaves v1
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Bangratz, Martine, primary and Tollenaere, Charlotte, additional
- Published
- 2020
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26. Virus-bacteria rice co-infection in Africa : field estimation, reciprocal effects, molecular mechanisms, and evolutionary implications
- Author
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Tollenaere, Charlotte, Lacombe, Severine, Wonni, Issa, Barro, Mariam, Ndougonna, Cyrielle, Gnacko, Fatoumata, Sérémé, Drissa, Jacobs, Jonathan M., Hebrard, Eugénie, Cunnac, Sebastien, Brugidou, Christophe, UMR - Interactions Plantes Microorganismes Environnement (UMR IPME), Institut de Recherche pour le Développement (IRD [France-Sud])-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Institut de l'Environnement et Recherches Agricoles [Ouagadougou] (INERA), Institut de Recherche pour le Développement (IRD), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Université de Montpellier (UM)-Institut de Recherche pour le Développement (IRD [France-Sud]), and Centre national de la recherche scientifique et technologique [Ouagadougou] (CNRST)
- Subjects
silencing mechanisms ,co-infection ,genotype-by-genotype effects ,[SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology ,pathogen evolution ,food and beverages ,Plant Science ,phytopathology ,[SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology ,rice diseases ,[SDV.BV.PEP]Life Sciences [q-bio]/Vegetal Biology/Phytopathology and phytopharmacy - Abstract
International audience; Simultaneous infection of a single plant by various pathogen species is increasingly recognized as an important modulator of host resistance and a driver of pathogen evolution. Because plants in agro-ecosystems are the target of a multitude of pathogenic microbes, co-infection could be frequent, and consequently important to consider. This is particularly true for rapidly intensifying crops, such as rice in Africa. This study investigated potential interactions between pathogens causing two of the major rice diseases in Africa: the Rice yellow mottle virus (RYMV) and the bacterium Xanthomonas oryzae pathovar oryzicola (Xoc) in order to: 1/ document virus-bacteria co-infection in rice in the field, 2/ explore experimentally their consequences in terms of symptom development and pathogen multiplication, 3/ test the hypothesis of underlying molecular mechanisms of interactions and 4/ explore potential evolutionary consequences. Field surveys in Burkina Faso revealed that a significant proportion of rice fields were simultaneously affected by the two diseases. Co-infection leads to an increase in bacterial specific symptoms, while a decrease in viral load is observed compared to the mono-infected mock. The lack of effect found when using a bacterial mutant for an effector specifically inducing expression of a small RNA regulatory protein, HEN1, as well as a viral genotype-specific effect, both suggest a role for gene silencing mechanisms mediating the within-plant interaction between RYMV and Xoc. Potential implications for pathogen evolution could not be inferred because genotype-specific effects were found only for pathogens originating from different countries, and consequently not meeting in the agrosystem. We argue that pathogen-pathogen-host interactions certainly deserve more attention, both from a theoretical and applied point of view.
- Published
- 2017
- Full Text
- View/download PDF
27. Negative relationships between cellular immune response, Mhc class II heterozygosity and secondary sexual trait in the montane water vole
- Author
-
Charbonnel, Nathalie, Bryja, Josef, Galan, Maxime, Deter, Julie, Tollenaere, Charlotte, Chaval, Yannick, Morand, Serge, Cosson, Jean-Francois, Centre de Biologie pour la Gestion des Populations (UMR CBGP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Université de Montpellier (UM)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Department of Population Biology, Institute of Vertebrate Biology, Czech Academy of Sciences [Prague] (CAS), Département Environnement, Microbiologie et Phycotoxines, Laboratoire de Microbiologie, Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), Institut des Sciences de l'Evolution de Montpellier (UMR ISEM), École pratique des hautes études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de recherche pour le développement [IRD] : UR226, Laboratoire de Microbiologie, Environnement, Microbiologie et Phycotoxines (EMP), Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Montpellier (UM)-Institut de recherche pour le développement [IRD] : UR226-Centre National de la Recherche Scientifique (CNRS), Czech Academy of Sciences [Prague] (ASCR), and Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-École pratique des hautes études (EPHE)-Université de Montpellier (UM)-Institut de recherche pour le développement [IRD] : UR226-Centre National de la Recherche Scientifique (CNRS)
- Subjects
ABUNDANCE CYCLES ,DQA AND DRB ,IMMUNOCOMPETENCE HANDICAP ,MHC CLASS II GENES ,PARASITE-MEDIATED BALANCING SELECTION ,SEXUAL SELECTION ,RELATION ANIMAL-PATHOGENE ,GENETIQUE DES POPULATIONS ,IMMUNOECOLOGIE ,[SDV]Life Sciences [q-bio] ,chemical and pharmacologic phenomena ,Original Articles ,campagnol ,immunogénétique ,épidémiologie animale - Abstract
Heterogeneities in immune responsiveness may affect key epidemiological parameters and the dynamics of pathogens. The roles of immunogenetics in these variations remain poorly explored. We analysed the influence of Major histocompatibility complex (Mhc) genes and epigamic traits on the response to phytohaemagglutinin in males from cyclic populations of the montane water vole (Arvicola scherman). Besides, we tested the relevance of lateral scent glands as honest signals of male quality. Our results did not corroborate neither the hypotheses of genome-wide heterozygosity-fitness correlation nor the Mhc heterozygote advantage. We found a negative relationship between Mhc hetetozygosity and response to phytohaemagglutinin, mediated by a specific Mhc homozygous genotype. Our results therefore support the hypothesis of the Arte-Dqa-05 homozygous genotype being a 'good' Mhc variant in terms of immunogenetic quality. The development of the scent glands seems to be an honest signal for mate choice as it is negatively correlated with helminth load. The 'good gene' hypothesis was not validated as Arte-Dqa-05 homozygous males did not exhibit larger glands. Besides, the negative relationship observed between the size of these glands and the response to phytohaemagglutinin, mainly for Mhc homozygotes, corroborates the immunocompetence handicap hypothesis. The Mhc variants associated with larger glands remain yet to be determined.
- Published
- 2010
- Full Text
- View/download PDF
28. Regression-Based Ranking of Pathogen Strains with Respect to Their Contribution to Natural Epidemics
- Author
-
Soubeyrand, Samuel, primary, Tollenaere, Charlotte, additional, Haon-Lasportes, Emilie, additional, and Laine, Anna-Liisa, additional
- Published
- 2014
- Full Text
- View/download PDF
29. SNP Design from 454 Sequencing of Podosphaera plantaginis Transcriptome Reveals a Genetically Diverse Pathogen Metapopulation with High Levels of Mixed-Genotype Infection
- Author
-
Tollenaere, Charlotte, primary, Susi, Hanna, additional, Nokso-Koivisto, Jussi, additional, Koskinen, Patrik, additional, Tack, Ayco, additional, Auvinen, Petri, additional, Paulin, Lars, additional, Frilander, Mikko J., additional, Lehtonen, Rainer, additional, and Laine, Anna-Liisa, additional
- Published
- 2012
- Full Text
- View/download PDF
30. Contrasted Patterns of Selection on MHC-Linked Microsatellites in Natural Populations of the Malagasy Plague Reservoir
- Author
-
Tollenaere, Charlotte, primary, Ivanova, Svilena, additional, Duplantier, Jean-Marc, additional, Loiseau, Anne, additional, Rahalison, Lila, additional, Rahelinirina, Soanandrasana, additional, and Brouat, Carine, additional
- Published
- 2012
- Full Text
- View/download PDF
31. Phylogeography of the introduced speciesRattus rattusin the western Indian Ocean, with special emphasis on the colonization history of Madagascar
- Author
-
Tollenaere, Charlotte, primary, Brouat, Carine, additional, Duplantier, Jean-Marc, additional, Rahalison, Lila, additional, Rahelinirina, Soanandrasana, additional, Pascal, Michel, additional, Moné, Hélène, additional, Mouahid, Gabriel, additional, Leirs, Herwig, additional, and Cosson, Jean-François, additional
- Published
- 2010
- Full Text
- View/download PDF
32. Design of a new multiplex PCR assay for rice pathogenic bacteria detection and its application to infer disease incidence and detect co-infection in rice fields in Burkina Faso.
- Author
-
Bangratz M, Wonni I, Kini K, Sondo M, Brugidou C, Béna G, Gnacko F, Barro M, Koebnik R, Silué D, and Tollenaere C
- Subjects
- Burkholderia isolation & purification, Burkholderia pathogenicity, Burkina Faso epidemiology, Coinfection epidemiology, Coinfection genetics, DNA, Bacterial genetics, Incidence, Pseudomonas isolation & purification, Pseudomonas pathogenicity, Xanthomonas isolation & purification, Xanthomonas pathogenicity, Burkholderia genetics, Coinfection diagnosis, DNA, Bacterial analysis, Multiplex Polymerase Chain Reaction methods, Oryza microbiology, Plant Diseases microbiology, Pseudomonas genetics, Xanthomonas genetics
- Abstract
Crop diseases are responsible for considerable yield losses worldwide and particularly in sub-Saharan Africa. To implement efficient disease control measures, detection of the pathogens and understanding pathogen spatio-temporal dynamics is crucial and requires the use of molecular detection tools, especially to distinguish different pathogens causing more or less similar symptoms. We report here the design a new molecular diagnostic tool able to simultaneously detect five bacterial taxa causing important diseases on rice in Africa: (1) Pseudomonas fuscovaginae, (2) Xanthomonas oryzae, (3) Burkholderia glumae and Burkholderia gladioli, (4) Sphingomonas and (5) Pantoea species. This new detection tool consists of a multiplex PCR, which is cost effective and easily applicable. Validation of the method is presented through its application on a global collection of bacterial strains. Moreover, sensitivity assessment for the detection of all five bacteria is reported to be at 0.5 ng DNA by μl. As a proof of concept, we applied the new molecular detection method to a set of 256 rice leaves collected from 16 fields in two irrigated areas in western Burkina Faso. Our results show high levels of Sphingomonas spp. (up to 100% of tested samples in one field), with significant variation in the incidence between the two sampled sites. Xanthomonas oryzae incidence levels were mostly congruent with bacterial leaf streak (BLS) and bacterial leaf blight (BLB) symptom observations in the field. Low levels of Pantoea spp. were found while none of the 256 analysed samples was positive for Burkholderia or Pseudomonas fuscovaginae. Finally, many samples (up to 37.5% in one studied field) were positive for more than one bacterium (co-infection). Documenting co-infection levels are important because of their drastic consequences on epidemiology, evolution of pathogen populations and yield losses. The newly designed multiplex PCR for multiple bacterial pathogens of rice is a significant improvement for disease monitoring in the field, thus contributing to efficient disease control and food safety., Competing Interests: The authors have declared that no competing interests exist.
- Published
- 2020
- Full Text
- View/download PDF
33. Virus-Bacteria Rice Co-Infection in Africa: Field Estimation, Reciprocal Effects, Molecular Mechanisms, and Evolutionary Implications.
- Author
-
Tollenaere C, Lacombe S, Wonni I, Barro M, Ndougonna C, Gnacko F, Sérémé D, Jacobs JM, Hebrard E, Cunnac S, and Brugidou C
- Abstract
Simultaneous infection of a single plant by various pathogen species is increasingly recognized as an important modulator of host resistance and a driver of pathogen evolution. Because plants in agro-ecosystems are the target of a multitude of pathogenic microbes, co-infection could be frequent, and consequently important to consider. This is particularly true for rapidly intensifying crops, such as rice in Africa. This study investigated potential interactions between pathogens causing two of the major rice diseases in Africa: the Rice yellow mottle virus (RYMV) and the bacterium Xanthomonas oryzae pathovar oryzicola ( Xoc ) in order to: 1/ document virus-bacteria co-infection in rice in the field, 2/ explore experimentally their consequences in terms of symptom development and pathogen multiplication, 3/ test the hypothesis of underlying molecular mechanisms of interactions and 4/ explore potential evolutionary consequences. Field surveys in Burkina Faso revealed that a significant proportion of rice fields were simultaneously affected by the two diseases. Co-infection leads to an increase in bacterial specific symptoms, while a decrease in viral load is observed compared to the mono-infected mock. The lack of effect found when using a bacterial mutant for an effector specifically inducing expression of a small RNA regulatory protein, HEN1, as well as a viral genotype-specific effect, both suggest a role for gene silencing mechanisms mediating the within-plant interaction between RYMV and Xoc . Potential implications for pathogen evolution could not be inferred because genotype-specific effects were found only for pathogens originating from different countries, and consequently not meeting in the agrosystem. We argue that pathogen-pathogen-host interactions certainly deserve more attention, both from a theoretical and applied point of view.
- Published
- 2017
- Full Text
- View/download PDF
34. Negative relationships between cellular immune response, Mhc class II heterozygosity and secondary sexual trait in the montane water vole.
- Author
-
Charbonnel N, Bryja J, Galan M, Deter J, Tollenaere C, Chaval Y, Morand S, and Cosson JF
- Abstract
Heterogeneities in immune responsiveness may affect key epidemiological parameters and the dynamics of pathogens. The roles of immunogenetics in these variations remain poorly explored. We analysed the influence of Major histocompatibility complex (Mhc) genes and epigamic traits on the response to phytohaemagglutinin in males from cyclic populations of the montane water vole (Arvicola scherman). Besides, we tested the relevance of lateral scent glands as honest signals of male quality. Our results did not corroborate neither the hypotheses of genome-wide heterozygosity-fitness correlation nor the Mhc heterozygote advantage. We found a negative relationship between Mhc hetetozygosity and response to phytohaemagglutinin, mediated by a specific Mhc homozygous genotype. Our results therefore support the hypothesis of the Arte-Dqa-05 homozygous genotype being a 'good' Mhc variant in terms of immunogenetic quality. The development of the scent glands seems to be an honest signal for mate choice as it is negatively correlated with helminth load. The 'good gene' hypothesis was not validated as Arte-Dqa-05 homozygous males did not exhibit larger glands. Besides, the negative relationship observed between the size of these glands and the response to phytohaemagglutinin, mainly for Mhc homozygotes, corroborates the immunocompetence handicap hypothesis. The Mhc variants associated with larger glands remain yet to be determined.
- Published
- 2010
- Full Text
- View/download PDF
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