UMR PHIM

Plant Health Institute of Montpellier

Among the interactions between the plant and its environment (microbial organisms or insects, whether pathogenic or beneficial), the research unit studies those that have an impact on plant health, growth and productivity. The unit is organized in 4 research departments:

Plant-pathogen interactions (ITEM)
Plant-vector-pathogen interactions (VIROM)
Towards an understanding of the phytobiome (PHYTOBIOM)
Understanding epidemics in the field (PRISM)

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1 to 10 of 11 Results

Symptom evaluation, sampling, and molecular detection for two rice diseases (rice yellow mottle and Bacterial leaf streak) in western Burkina Faso (2021-2022) Mar 11, 2025 - LMI PathoBios Guigma, Abdoul Kader; Saengram, Phonsiri; Bangratz, Martine; Kassankogno, Itolou Abalo; Tollenaere, Charlotte; Billard, Estelle, 2025, "Symptom evaluation, sampling, and molecular detection for two rice diseases (rice yellow mottle and Bacterial leaf streak) in western Burkina Faso (2021-2022)", https://doi.org/10.23708/QB8BOO, DataSuds, V1, UNF:6:8ljQXziWNW5W0EiHZ9s4Cg== [fileUNF] Co-occurrence of multiple diseases and co-infection of individual plants by various pathogens have potential epidemiological and evolutionary implications. However detailed epidemiolocal assessment involving multiple diseases remain rare, especially considering pathogens from dif...
Supplementary information for: The rice ILI2 locus is a bidirectional target of the African Xanthomonas oryzae pv. oryzae major Transcription Activator-Like Effector TalC but does not contribute to disease susceptibility Nov 26, 2024 Doucouré, Hinda; Auguy, Florence; Blanvillain-Baufumé, Servane; Fabre, Sandrine; Gabriel, Marc; Thomas, Emilie; Dambreville, Fleur; Sciallano, Coline; Szurek, Boris; Koita, Ousmane; Verdier, Valérie; Cunnac, Sebastien, 2022, "Supplementary information for: The rice ILI2 locus is a bidirectional target of the African Xanthomonas oryzae pv. oryzae major Transcription Activator-Like Effector TalC but does not contribute to disease susceptibility", https://doi.org/10.23708/XBTRUV, DataSuds, V2, UNF:6:jdkGW/8VhWIPR5jUnVyxTw== [fileUNF] This dataset contains additional supporting information related to the discovery of an alternative transcriptional target locus of the Xanthomonas oryzae pv. oryzae (Xoo) TalC effector in the rice genome as described in a manuscript submitted for publication. Xoo strains that cau...
Wild plants coverage at the borders of six rice fields in western Burkina Faso (2017) Dec 8, 2023 - LMI PathoBios Nignan, Saïbou; Barro, Mariam; Tollenaere, Charlotte, 2023, "Wild plants coverage at the borders of six rice fields in western Burkina Faso (2017)", https://doi.org/10.23708/1IPJAU, DataSuds, V1 During a project focused on rice microbial biodiversity (root microbiome and pathogens), we performed a pluriannual and multi-site survey (see https://doi.org/10.23708/8FDWIE). Because microbial species may be shared between rice and surrounding wild plants, we chose to perform a...
Collection of rice-root associated bacteria sampled in Burkina Faso, 2017-2019 Jun 29, 2023 - LMI PathoBios Klonowska, Agnieszka; Sondo, Moussa; Wonni, Issa; Moulin, Lionel; Barro, Mariam; Tollenaere, Charlotte; Rimbault, Isabelle, 2023, "Collection of rice-root associated bacteria sampled in Burkina Faso, 2017-2019", https://doi.org/10.23708/ANBYIH, DataSuds, V1, UNF:6:MBkWpVWqmPLZEzgWkk1bww== [fileUNF] In Burkina Faso, studies have been initiated on the diversity of rice rhizosphere and root microbiomes using metabarcoding (Barro et al., 2022) and culturable bacteria (Sondo et al., 2023) approaches to analyse the effects of rice production systems (irrigated cropping areas vs r...
Pathogenic diversity of rice yellow mottle virus isolates from western Burkina Faso (2015-2021): phenotypic evaluation data Mar 24, 2023 - LMI PathoBios Billard, Estelle; Thomas, Emilie; Perez, Manon; Boyer, Pascaline; Tollenaere, Charlotte, 2023, "Pathogenic diversity of rice yellow mottle virus isolates from western Burkina Faso (2015-2021): phenotypic evaluation data", https://doi.org/10.23708/MDQIUE, DataSuds, V1, UNF:6:s6z/ab1uEzE8BGyoZ906Dw== [fileUNF] The rice yellow mottle virus (RYMV) constitutes a major threat to the actual development of rice cultivation in Africa. As climate change and agricultural intensification increase the risk of epidemics, there is an urgent need to understand the spatio-temporal dynamics of RYMV at...
Yellow mottle disease epidemiology: RYMV specific detection in field-collected leaves from western Burkina Faso (2015-2019) Mar 23, 2023 - LMI PathoBios Barro, Mariam; Sérémé, Drissa; Bangratz, Martine; Kassankogno, Itolou Abalo; Wonni, Issa; Poulicard, Nils; Tollenaere, Charlotte, 2023, "Yellow mottle disease epidemiology: RYMV specific detection in field-collected leaves from western Burkina Faso (2015-2019)", https://doi.org/10.23708/GZCM1O, DataSuds, V1, UNF:6:QdAkQ0xLZwp669pBgerjJg== [fileUNF] This project aims at a better understanding of yellow mottle disease epidemiology, both at the regional level, by comparing irrigated areas to rainfed lowland rice, and at the within-field level. The study area is located in western Burkina Faso, in a 100x100kms region within the...
Analyses of the rice (Oryza spp.) transcriptome during infection with the root-knot nematode (Meloidogyne graminicola) Dec 23, 2022 Fernandez, Diana; Petitot, Anne-Sophie; Dereeper, Alexis, 2022, "Analyses of the rice (Oryza spp.) transcriptome during infection with the root-knot nematode (Meloidogyne graminicola)", https://doi.org/10.23708/1VFBVT, DataSuds, V1, UNF:6:QdPgnoH1UIS4e41AVlHNbw== [fileUNF] The root-knot nematode Meloidogyne graminicola is responsible for production losses in rice (Oryza sativa) in Asia and Latin America. The accession TOG5681 of African rice, O. glaberrima, presents improved resistance to several biotic and abiotic factors, including nematodes. The...
Analyses of the root-knot nematode (Meloidogyne graminicola) transcriptome during rice (Oryza spp.) infection Dec 21, 2022 Fernandez, Diana; Petitot, Anne-Sophie; Dereeper, Alexis, 2022, "Analyses of the root-knot nematode (Meloidogyne graminicola) transcriptome during rice (Oryza spp.) infection", https://doi.org/10.23708/CTTFQW, DataSuds, V1, UNF:6:RP6B9JcVkkPIxyMZCSMH3Q== [fileUNF] The plant-parasitic nematode Meloidogyne graminicola causes considerable damages to rice (Oryza sativa) culture. Resistance to M. graminicola in the related species Oryza glaberrima reduces root penetration by juveniles and stops further nematode development. M. graminicola genes...
Soil Physicochemical Properties in rice fields from six sites in western Burkina Faso, 2018 Nov 2, 2021 - LMI PathoBios Barro, Mariam; Wonni, Issa; Tollenaere, Charlotte, 2021, "Soil Physicochemical Properties in rice fields from six sites in western Burkina Faso, 2018", https://doi.org/10.23708/LZ8A5B, DataSuds, V1, UNF:6:rqze4JhkLprhV3rphRgnmg== [fileUNF] This dataset presents the physico-chemical analysis of 19 soil samples, from 6 rice-growing sites in western Burkina Faso (Hauts-Bassins and Cascades). The six sites are located in the 3 geographical zones, all in Lixisols (soils with subsurface accumulation of low activity clays...
Supplementary information and source code for "An atypical class of non-coding small RNAs produced in rice leaves upon bacterial infection" Sep 30, 2021 Reshetnyak, Ganna; Jacobs, Jonathan M.; Auguy, Florence; Sciallano, Coline; Claude, Lisa; Medina, Clemence; Perez-Quintero, Alvaro J.; Comte, Aurore; Thomas, Emilie; Bogdanove, Adam; Koebnik, Ralf; Szurek, Boris; Dievart, Anne; Brugidou, Christophe; Lacombe, Severine; Cunnac, Sebastien, 2021, "Supplementary information and source code for "An atypical class of non-coding small RNAs produced in rice leaves upon bacterial infection"", https://doi.org/10.23708/RXIXM3, DataSuds, V2 This dataset contains additional supporting information and source code related to the discovery of Xanthomonas-induced small RNAs (xisRNAs) as described in the Related Publication. Deep small RNA (sRNA) sequencing analysis discovered a class of sRNA in rice (Oryza sativa) specif...

Symptom evaluation, sampling, and molecular detection for two rice diseases (rice yellow mottle and Bacterial leaf streak) in western Burkina Faso (2021-2022)

Mar 11, 2025 - LMI PathoBios

Guigma, Abdoul Kader; Saengram, Phonsiri; Bangratz, Martine; Kassankogno, Itolou Abalo; Tollenaere, Charlotte; Billard, Estelle, 2025, "Symptom evaluation, sampling, and molecular detection for two rice diseases (rice yellow mottle and Bacterial leaf streak) in western Burkina Faso (2021-2022)", https://doi.org/10.23708/QB8BOO, DataSuds, V1, UNF:6:8ljQXziWNW5W0EiHZ9s4Cg== [fileUNF]

Co-occurrence of multiple diseases and co-infection of individual plants by various pathogens have potential epidemiological and evolutionary implications. However detailed epidemiolocal assessment involving multiple diseases remain rare, especially considering pathogens from dif...

Supplementary information for: The rice ILI2 locus is a bidirectional target of the African Xanthomonas oryzae pv. oryzae major Transcription Activator-Like Effector TalC but does not contribute to disease susceptibility

Nov 26, 2024

Doucouré, Hinda; Auguy, Florence; Blanvillain-Baufumé, Servane; Fabre, Sandrine; Gabriel, Marc; Thomas, Emilie; Dambreville, Fleur; Sciallano, Coline; Szurek, Boris; Koita, Ousmane; Verdier, Valérie; Cunnac, Sebastien, 2022, "Supplementary information for: The rice ILI2 locus is a bidirectional target of the African Xanthomonas oryzae pv. oryzae major Transcription Activator-Like Effector TalC but does not contribute to disease susceptibility", https://doi.org/10.23708/XBTRUV, DataSuds, V2, UNF:6:jdkGW/8VhWIPR5jUnVyxTw== [fileUNF]

This dataset contains additional supporting information related to the discovery of an alternative transcriptional target locus of the Xanthomonas oryzae pv. oryzae (Xoo) TalC effector in the rice genome as described in a manuscript submitted for publication. Xoo strains that cau...

Wild plants coverage at the borders of six rice fields in western Burkina Faso (2017)

Dec 8, 2023 - LMI PathoBios

Nignan, Saïbou; Barro, Mariam; Tollenaere, Charlotte, 2023, "Wild plants coverage at the borders of six rice fields in western Burkina Faso (2017)", https://doi.org/10.23708/1IPJAU, DataSuds, V1

During a project focused on rice microbial biodiversity (root microbiome and pathogens), we performed a pluriannual and multi-site survey (see https://doi.org/10.23708/8FDWIE). Because microbial species may be shared between rice and surrounding wild plants, we chose to perform a...

Collection of rice-root associated bacteria sampled in Burkina Faso, 2017-2019

Jun 29, 2023 - LMI PathoBios

Klonowska, Agnieszka; Sondo, Moussa; Wonni, Issa; Moulin, Lionel; Barro, Mariam; Tollenaere, Charlotte; Rimbault, Isabelle, 2023, "Collection of rice-root associated bacteria sampled in Burkina Faso, 2017-2019", https://doi.org/10.23708/ANBYIH, DataSuds, V1, UNF:6:MBkWpVWqmPLZEzgWkk1bww== [fileUNF]

In Burkina Faso, studies have been initiated on the diversity of rice rhizosphere and root microbiomes using metabarcoding (Barro et al., 2022) and culturable bacteria (Sondo et al., 2023) approaches to analyse the effects of rice production systems (irrigated cropping areas vs r...

Pathogenic diversity of rice yellow mottle virus isolates from western Burkina Faso (2015-2021): phenotypic evaluation data

Mar 24, 2023 - LMI PathoBios

Billard, Estelle; Thomas, Emilie; Perez, Manon; Boyer, Pascaline; Tollenaere, Charlotte, 2023, "Pathogenic diversity of rice yellow mottle virus isolates from western Burkina Faso (2015-2021): phenotypic evaluation data", https://doi.org/10.23708/MDQIUE, DataSuds, V1, UNF:6:s6z/ab1uEzE8BGyoZ906Dw== [fileUNF]

The rice yellow mottle virus (RYMV) constitutes a major threat to the actual development of rice cultivation in Africa. As climate change and agricultural intensification increase the risk of epidemics, there is an urgent need to understand the spatio-temporal dynamics of RYMV at...

Yellow mottle disease epidemiology: RYMV specific detection in field-collected leaves from western Burkina Faso (2015-2019)

Mar 23, 2023 - LMI PathoBios

Barro, Mariam; Sérémé, Drissa; Bangratz, Martine; Kassankogno, Itolou Abalo; Wonni, Issa; Poulicard, Nils; Tollenaere, Charlotte, 2023, "Yellow mottle disease epidemiology: RYMV specific detection in field-collected leaves from western Burkina Faso (2015-2019)", https://doi.org/10.23708/GZCM1O, DataSuds, V1, UNF:6:QdAkQ0xLZwp669pBgerjJg== [fileUNF]

This project aims at a better understanding of yellow mottle disease epidemiology, both at the regional level, by comparing irrigated areas to rainfed lowland rice, and at the within-field level. The study area is located in western Burkina Faso, in a 100x100kms region within the...

Analyses of the rice (Oryza spp.) transcriptome during infection with the root-knot nematode (Meloidogyne graminicola)

Dec 23, 2022

Fernandez, Diana; Petitot, Anne-Sophie; Dereeper, Alexis, 2022, "Analyses of the rice (Oryza spp.) transcriptome during infection with the root-knot nematode (Meloidogyne graminicola)", https://doi.org/10.23708/1VFBVT, DataSuds, V1, UNF:6:QdPgnoH1UIS4e41AVlHNbw== [fileUNF]

The root-knot nematode Meloidogyne graminicola is responsible for production losses in rice (Oryza sativa) in Asia and Latin America. The accession TOG5681 of African rice, O. glaberrima, presents improved resistance to several biotic and abiotic factors, including nematodes. The...

Analyses of the root-knot nematode (Meloidogyne graminicola) transcriptome during rice (Oryza spp.) infection

Dec 21, 2022

Fernandez, Diana; Petitot, Anne-Sophie; Dereeper, Alexis, 2022, "Analyses of the root-knot nematode (Meloidogyne graminicola) transcriptome during rice (Oryza spp.) infection", https://doi.org/10.23708/CTTFQW, DataSuds, V1, UNF:6:RP6B9JcVkkPIxyMZCSMH3Q== [fileUNF]

The plant-parasitic nematode Meloidogyne graminicola causes considerable damages to rice (Oryza sativa) culture. Resistance to M. graminicola in the related species Oryza glaberrima reduces root penetration by juveniles and stops further nematode development. M. graminicola genes...

Soil Physicochemical Properties in rice fields from six sites in western Burkina Faso, 2018

Nov 2, 2021 - LMI PathoBios

Barro, Mariam; Wonni, Issa; Tollenaere, Charlotte, 2021, "Soil Physicochemical Properties in rice fields from six sites in western Burkina Faso, 2018", https://doi.org/10.23708/LZ8A5B, DataSuds, V1, UNF:6:rqze4JhkLprhV3rphRgnmg== [fileUNF]

This dataset presents the physico-chemical analysis of 19 soil samples, from 6 rice-growing sites in western Burkina Faso (Hauts-Bassins and Cascades). The six sites are located in the 3 geographical zones, all in Lixisols (soils with subsurface accumulation of low activity clays...

Supplementary information and source code for "An atypical class of non-coding small RNAs produced in rice leaves upon bacterial infection"

Sep 30, 2021

Reshetnyak, Ganna; Jacobs, Jonathan M.; Auguy, Florence; Sciallano, Coline; Claude, Lisa; Medina, Clemence; Perez-Quintero, Alvaro J.; Comte, Aurore; Thomas, Emilie; Bogdanove, Adam; Koebnik, Ralf; Szurek, Boris; Dievart, Anne; Brugidou, Christophe; Lacombe, Severine; Cunnac, Sebastien, 2021, "Supplementary information and source code for "An atypical class of non-coding small RNAs produced in rice leaves upon bacterial infection"", https://doi.org/10.23708/RXIXM3, DataSuds, V2

This dataset contains additional supporting information and source code related to the discovery of Xanthomonas-induced small RNAs (xisRNAs) as described in the Related Publication. Deep small RNA (sRNA) sequencing analysis discovered a class of sRNA in rice (Oryza sativa) specif...

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