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2. Genome‐wide identification of fitness determinants in the Xanthomonas campestris bacterial pathogen during early stages of plant infection

Author

Luneau, Julien S, Baudin, Maël, Monnens, Thomas Quiroz, Carrère, Sébastien, Bouchez, Olivier, Jardinaud, Marie‐Françoise, Gris, Carine, François, Jonas, Ray, Jayashree, Torralba, Babil, Arlat, Matthieu, Lewis, Jennifer D, Lauber, Emmanuelle, Deutschbauer, Adam M, Noël, Laurent D, and Boulanger, Alice

Subjects
Infectious Diseases, Genetics, Prevention, Emerging Infectious Diseases, 2.2 Factors relating to the physical environment, Aetiology, Infection, Zero Hunger, Bacterial Proteins, Brassica, Plant Diseases, Virulence, Xanthomonas campestris, Xylem, Brassica oleracea, fitness, hydathodes, RB-TnSeq, Xanthomonas, xylem, Brassica oleracea, Xanthomonas, Biological Sciences, Agricultural and Veterinary Sciences, Plant Biology & Botany
Abstract

Plant diseases are an important threat to food production. While major pathogenicity determinants required for disease have been extensively studied, less is known on how pathogens thrive during host colonization, especially at early infection stages. Here, we used randomly barcoded-transposon insertion site sequencing (RB-TnSeq) to perform a genome-wide screen and identify key bacterial fitness determinants of the vascular pathogen Xanthomonas campestris pv campestris (Xcc) during infection of the cauliflower host plant (Brassica oleracea). This high-throughput analysis was conducted in hydathodes, the natural entry site of Xcc, in xylem sap and in synthetic media. Xcc did not face a strong bottleneck during hydathode infection. In total, 181 genes important for fitness were identified in plant-associated environments with functional enrichment in genes involved in metabolism but only few genes previously known to be involved in virulence. The biological relevance of 12 genes was independently confirmed by phenotyping single mutants. Notably, we show that XC_3388, a protein with no known function (DUF1631), plays a key role in the adaptation and virulence of Xcc possibly through c-di-GMP-mediated regulation. This study revealed yet unsuspected social behaviors adopted by Xcc individuals when confined inside hydathodes at early infection stages.

Published
2022

4. Parallel Evolution of Salinity Tolerance in Arabidopsis thaliana Accessions from Cape Verde Islands

Author

Rivas, Félix J Martínez, primary, Wozny, Dorothee, additional, Xue, Zeyun, additional, Gilbault, Elodie, additional, Sapir, Thomas, additional, Rouille, Melissa, additional, Ricou, Antony, additional, Medina, Joaquín, additional, Noël, Laurent D., additional, Lauber, Emmanuelle, additional, Voxeur, Aline, additional, Loudet, Olivier, additional, Clément, Gilles, additional, and Jiménez-Gómez, Jose M, additional

Published
2024
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9. Cruciferous Weed Isolates of Xanthomonas campestris Yield Insight into Pathovar Genomic Relationships and Genetic Determinants of Host and Tissue Specificity

Author

Dubrow, Zoë E., primary, Carpenter, Sara C. D., additional, Carter, Morgan E., additional, Grinage, Ayress, additional, Gris, Carine, additional, Lauber, Emmanuelle, additional, Butchachas, Jules, additional, Jacobs, Jonathan M., additional, Smart, Christine D., additional, Tancos, Matthew A., additional, Noël, Laurent D., additional, and Bogdanove, Adam J., additional

Published
2022
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11. Genome-wide identification of fitness determinants in theXanthomonas campestrisbacterial pathogen during early stages of plant infection

Author

Luneau, Julien S., primary, Baudin, Maël, additional, Quiroz-Monnens, Thomas, additional, Carrère, Sébastien, additional, Bouchez, Olivier, additional, Jardinaud, Marie-Françoise, additional, Gris, Carine, additional, François, Jonas, additional, Ray, Jayashree, additional, Torralba, Babil, additional, Arlat, Matthieu, additional, Lewis, Jennifer D., additional, Deutschbauer, Adam M., additional, Lauber, Emmanuelle, additional, Noël, Laurent D., additional, and Boulanger, Alice, additional

Published
2022
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13. Xanthomonas transcriptome inside cauliflower hydathodes reveals bacterial virulence strategies and physiological adaptations at early infection stages

Author

Luneau, Julien S., primary, Cerutti, Aude, additional, Roux, Brice, additional, Carrère, Sébastien, additional, Jardinaud, Marie‐Françoise, additional, Gaillac, Antoine, additional, Gris, Carine, additional, Lauber, Emmanuelle, additional, Berthomé, Richard, additional, Arlat, Matthieu, additional, Boulanger, Alice, additional, and Noël, Laurent D., additional

Published
2021
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14. The Same against Many: AtCML8, a Ca2+ Sensor Acting as a Positive Regulator of Defense Responses against Several Plant Pathogens

Author

Zhu, Xiaoyang, Mazard, Julie, Robe, Eugénie, Pignoly, Sarah, Aguilar, Marielle, San Clemente, Hélène, Lauber, Emmanuelle, Berthomé, Richard, Galaud, Jean-Philippe, South China Agricultural University (SCAU), Laboratoire de Recherche en Sciences Végétales (LRSV), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées, Laboratoire des Interactions Plantes Microbes Environnement (LIPME), Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), the CaPPTure project, the International Science and Technology Cooperation Major Project Cultivation Special Fund of SCAU (2019SCAUGH05), Pearl River Talent Program for Young Talent (grant no. 2017GC010321)., ANR-17-CE20-0017,CaPPTure,Interaction plante-pathogène: influence de la température et contribution de la signalisation calcium(2017), ANR-10-LABX-0041,TULIP,Towards a Unified theory of biotic Interactions: the roLe of environmental(2010), and ANR-18-EURE-0019,TULIP-GSR,The Toulouse-Perpignan(2018)

Subjects
Arabidopsis thaliana, QH301-705.5, Ralstonia solanacearum, food and beverages, Xanthomonas campestris, calcium signaling, [SDV.IMM.II]Life Sciences [q-bio]/Immunology/Innate immunity, [SDV.BV.PEP]Life Sciences [q-bio]/Vegetal Biology/Phytopathology and phytopharmacy, Phytophtora capsica, Chemistry, [SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Genomics [q-bio.GN], calmodulin-like protein, Biology (General), plant immunity, QD1-999, multi-pathogens
Abstract

Calcium signals are crucial for the activation and coordination of signaling cascades leading to the establishment of plant defense mechanisms. Here, we studied the contribution of CML8, an Arabidopsis calmodulin-like protein in response to Ralstonia solanacearum and to pathogens with different lifestyles, such as Xanthomonas campestris pv. campestris and Phytophtora capsici. We used pathogenic infection assays, gene expression, RNA-seq approaches, and comparative analysis of public data on CML8 knockdown and overexpressing Arabidopsis lines to demonstrate that CML8 contributes to defense mechanisms against pathogenic bacteria and oomycetes. CML8 gene expression is finely regulated at the root level and manipulated during infection with Ralstonia, and CML8 overexpression confers better plant tolerance. To understand the processes controlled by CML8, genes differentially expressed at the root level in the first hours of infection have been identified. Overexpression of CML8 also confers better tolerance against Xanthomonas and Phytophtora, and most of the genes differentially expressed in response to Ralstonia are differentially expressed in these different pathosystems. Collectively, CML8 acts as a positive regulator against Ralstonia solanaceraum and against other vascular or root pathogens, suggesting that CML8 is a multifunctional protein that regulates common downstream processes involved in the defense response of plants to several pathogens.

Published
2021
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15. Xanthomonas transcriptome inside cauliflower hydathodes reveals bacterial virulence strategies and physiological adaptation at early infection stages

Author

Noël, Laurent D., Luneau, Julien, Cerutti, Aude, Roux, Brice, Carrère, Sébastien, Jardinaud, Marie-Françoise, Gaillac, Antoine, Gris, Carine, Lauber, Emmanuelle, Berthomé, Richard, Arlat, Matthieu, Boulanger, Alice, Noël, Laurent, Laboratoire des Interactions Plantes Microbes Environnement (LIPME), Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), the COST action CA16107 EuroXanth., ANR-10-GENM-0013,XANTHOMIX,Etude comparative des génomes et des transcriptomes de Xanthomonas phytopathogènes(2010), ANR-10-JCJC-1703,XOPAQUE,Immunité vasculaire des plantes dépendante de XopAC(2010), ANR-18-CE20-0020,NEPHRON,Analyse génétique et moléculaire de l'immunité de l'hydathode et du système vasculaire(2018), ANR-19-CE20-0014,XBOX,L'étoffe d'un pathogène : comment Xanthomonas s'adapte à la vie in planta(2019), ANR-10-LABX-0041,TULIP,Towards a Unified theory of biotic Interactions: the roLe of environmental(2010), and ANR-11-IDEX-0002,UNITI,Université Fédérale de Toulouse(2011)

Subjects
Xanthomonas, Soil Science, Virulence, Brassica, adaptation, Plant Science, Xanthomonas campestris, Microbiology, Transcriptome, 03 medical and health sciences, Bacterial Proteins, type III secretion, [SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Genomics [q-bio.GN], Molecular Biology, Pathogen, Gene, Plant Diseases, 030304 developmental biology, 0303 health sciences, biology, 030306 microbiology, hrpG, Gene Expression Regulation, Bacterial, Original Articles, hrp gene cluster, [SDV.BV.BOT]Life Sciences [q-bio]/Vegetal Biology/Botanics, biology.organism_classification, Adaptation, Physiological, [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology, Hydathode, hydathode, Regulon, Original Article, Agronomy and Crop Science, type III effector
Abstract

Xanthomonas campestris pv. campestris (Xcc) is a seed‐transmitted vascular pathogen causing black rot disease on cultivated and wild Brassicaceae. Xcc enters the plant tissues preferentially via hydathodes, which are organs localized at leaf margins. To decipher both physiological and virulence strategies deployed by Xcc during early stages of infection, the transcriptomic profile of Xcc was analysed 3 days after entry into cauliflower hydathodes. Despite the absence of visible plant tissue alterations and despite a biotrophic lifestyle, 18% of Xcc genes were differentially expressed, including a striking repression of chemotaxis and motility functions. The Xcc full repertoire of virulence factors had not yet been activated but the expression of the HrpG regulon composed of 95 genes, including genes coding for the type III secretion machinery important for suppression of plant immunity, was induced. The expression of genes involved in metabolic adaptations such as catabolism of plant compounds, transport functions, sulphur and phosphate metabolism was upregulated while limited stress responses were observed 3 days postinfection. We confirmed experimentally that high‐affinity phosphate transport is needed for bacterial fitness inside hydathodes. This analysis provides information about the nutritional and stress status of bacteria during the early biotrophic infection stages and helps to decipher the adaptive strategy of Xcc to the hydathode environment., In planta transcriptomic analysis of Xanthomonas campestris inside cauliflower hydathodes reveals the adaptative processes at play during early infection.

Published
2021

16. Identification and regulation of the N-acetylglucosamine utilization pathway of the plant pathogenic bacterium Xanthomonas campestris pv. campestris

Author

Boulanger, Alice, Dejean, Guillaume, Lautier, Martine, Glories, Marie, Zischek, Claudine, Arlat, Matthieu, and Lauber, Emmanuelle

Subjects
Glucosamine -- Genetic aspects, Glucosamine -- Research, Quantitative trait loci -- Research, Gene expression -- Research, Biological sciences
Abstract

Xanthomonas campestris pv. campestris, the causal agent of black rot disease of brassicas, is known for its ability to catabolize a wide range of plant compounds. This ability is correlated with the presence of specific carbohydrate utilization loci containing TonB-dependent transporters (CUT loci) devoted to scavenging specific carbohydrates. In this study, we demonstrate that there is an X. campestris pv. campestris CUT system involved in the import and catabolism of N-acetylglucosamine (GlcNAc). Expression of genes belonging to this GIcNAc CUT system is under the control of GlcNAc via the LacI family NagR and GntR family NagQ regulators. Analysis of the NagR and NagQ regulons confirmed that GlcNAc utilization involves NagA and NagB-II enzymes responsible for the conversion of GlcNAc-6-phosphate to fructose-6-phosphate. Mutants with mutations in the corresponding genes are sensitive to GlcNAc, as previously reported for Escherichia coli. This GlcNAc sensitivity and analysis of the NagQ and NagR regulons were used to dissect the X. campestris pv. campestris GIcNAc utilization pathway. This analysis revealed specific features, including the fact that uptake of GlcNAc through the inner membrane occurs via a major facilitator superfamily transporter and the fact that this amino sugar is phosphorylated by two proteins belonging to the glucokinase family, NagK-IIA and NagK-IIB. However, NagK-IIA seems to play a more important role in GlcNAc utilization than NagK-IIB under our experimental conditions. The X. campestris pv. campestris GlcNAc NagR regulon includes four genes encoding TonB-dependent active transporters (TBDTs). However, the results of transport experiments suggest that GlcNAc passively diffuses through the bacterial envelope, an observation that calls into question whether GlcNAc is a natural substrate for these TBDTs and consequently is the source of GlcNAc for this nonchitinolytic plant-associated bacterium. doi: 10.1128/JB.01418-09

Published
2010

18. [AvrAC.sub.Xcc8004], a type III effector with a leucine-rich repeat domain from Xanthomonas campestris pathovar campestris confers avirulence in vascular tissues of Arabidopsis thaliana ecotype Col-0

Author

Xu, Rong-Qi, Blanvillain, Servane, Feng, Jia-Xun, Jiang, Bo-Le, Li, Xian-Zhen, Wei, Hong-Yu, Kroj, Thomas, Lauber, Emmanuelle, Roby, Dominique, Chen, Baoshan, He, Yong-Qiang, Lu, Guang-Tao, Tang, Dong-Jie, Vasse, Jacques, Arlat, Matthieu, and Tang, Ji-Liang

Subjects
Arabidopsis thaliana -- Genetic aspects, Arabidopsis thaliana -- Health aspects, Virulence (Microbiology) -- Research, Xanthoma -- Research, Bacterial proteins -- Health aspects, Biological sciences
Abstract

Xanthomonas campestris pathovar campestris causes black rot, a vascular disease on cruciferous plants, including Arabidopsis thaliana. The gene XC1553 from X. campestris pv. campestris strain 8004 encodes a protein containing leucine-rich repeats (LRRs) and appears to be restricted to strains of X. campestris pv. campestris. LRRs are found in a number of type III-secreted effectors in plant and animal pathogens. These prompted us to investigate the role of the XC1553 gene in the interaction between X. campestris pv. campestris and A. thaliana. Translocation assays using the hypersensitive-reaction-inducing domain of X. campestris pv. campestris AvrBs1 as a reporter revealed that XC1553 is a type III effector. Infiltration of Arabidopsis leaf mesophyll with bacterial suspensions showed no differences between the wild-type strain and an XC1553 gene mutant: both strains induced disease symptoms on Kashmir and Col-0 ecotypes. However, a clear difference was observed when bacteria were introduced into the vascular system by piercing the central vein of leaves. In this case, the wild-type strain 8004 caused disease on the Kashmir ecotype, but not on ecotype Col-0; the XC1553 gene mutant became virulent on the Col-0 ecotype and still induced disease on the Kashmir ecotype. Altogether, these data show that the XC1553 gene, which was renamed [avrAC.sub.Xcc8004], functions as an avirulence gene whose product seems to be recognized in vascular tissues.

Published
2008

19. Xylem Sap Proteomics

Author

de Bernonville, Thomas Dugé, primary, Albenne, Cécile, additional, Arlat, Matthieu, additional, Hoffmann, Laurent, additional, Lauber, Emmanuelle, additional, and Jamet, Elisabeth, additional

Published
2013
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20. PopF1 and PopF2, two proteins secreted by the type III protein secretion system of Ralstonia solanacearum, are translocators belonging to the HrpF/NopX family

Author

Meyer, Damien, Cunnac, Sebastien, Gueneron, Mareva, Declercq, Celine, Van Gijsegem, Frederique, Lauber, Emmanuelle, Boucher, Christian, and Arlat, Matthieu

Subjects
Bacterial proteins -- Research, Bacteria, Pathogenic -- Genetic aspects, Bacteria, Pathogenic -- Physiological aspects, Translocation (Genetics) -- Research, Biological sciences
Abstract

Ralstonia solanacearum GMI1000 is a gram-negative plant pathogen which contains an hrp gene cluster which codes for a type III protein secretion system (TTSS). We identified two novel Hrp-secreted proteins, called PopF1 and PopF2, which display similarity to one another and to putative TTSS translocators, HrpF and NopX, from Xanthomonas spp. and rhizobia, respectively. They also show similarities with TTSS translocators of the YopB family from animal-pathogenic bacteria. Both popF1 and popF2 belong to the HrpB regulon and are required for the interaction with plants, but PopFl seems to play a more important role in virulence and hypersensitive response (HR) elicitation than PopF2 under our experimental conditions. PopF1 and PopF2 are not necessary for the secretion of effector proteins, but they are required for the translocation of AvrA avirulence protein into tobacco cells. We conclude that PopFl and PopF2 are type III translocators belonging to the HrpF/NopX family. The hrpF gene of Xanthomonas campestris pv. campestris partially restored HR-inducing ability to popF1 popF2 mutants of R. solanacearum, suggesting that translocators of R. solanacearum and Xanthomonas are functionally conserved. Finally, R. solanacearum strain UW551, which does not belong to the same phylotype as GMI1000, also possesses two putative translocator proteins. However, although one of these proteins is clearly related to PopFl and PopF2, the other seems to be different and related to NopX proteins, thus showing that translocators might be variable in R. solanacearum.

Published
2006

22. A putative [Ca.sup.2+] and calmodulin-dependent protein kinase required for bacterial and fungal symbioses

Author

Levy, Julien, Bres, Cecile, Geurts, Rene, Chalhoub, Boulos, Kulikova, Olga, Duc, Gerard, Journet, Etienne-Pascal, Ane, Jean-Michel, Lauber, Emmanuelle, Bisseling, Ton, Denarie, Jean, Rosenberg, Charles, and Debelle, Frederic

Subjects
Alfalfa -- Genetic aspects -- Chemical properties, Symbiosis -- Chemical properties -- Genetic aspects, Mycorrhizas -- Genetic aspects -- Chemical properties, Science and technology, Chemical properties, Genetic aspects
Abstract

Legumes can enter into symbiotic relationships with both nitrogen-fixing bacteria (rhizobia) and mycorrhizal fungi. Nodulation by rhizobia results from a signal transduction pathway induced in legume roots by rhizobial Nod factors. DMI3, a Medicago truncatula gene that acts immediately downstream of calcium spiking in this signaling pathway and is required for both nodulation and mycorrhizal infection, has high sequence similarity to genes encoding calcium and calmodulin-dependent protein kinases (CCaMKs). This indicates that calcium spiking is likely an essential component of the signaling cascade leading to nodule development and mycorrhizal infection, and sheds light on the biological role of plant CCaMKs., The legume-rhizobia symbiosis fixes as much nitrogen worldwide as the chemical fertilizer industry, owing to the ability of rhizobial bacteria to induce the morphogenesis of a new plant organ, the [...]

Published
2004

23. Benyvirus

Author

Gilmer, David, primary, Lauber, Emmanuelle, additional, and Guilley, Hubert, additional

Published
2011
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25. Xanthomonas transcriptome inside cauliflower hydathodes reveals bacterial virulence strategies and physiological adaptations at early infection stages.

Author

Luneau, Julien S., Cerutti, Aude, Roux, Brice, Carrère, Sébastien, Jardinaud, Marie‐Françoise, Gaillac, Antoine, Gris, Carine, Lauber, Emmanuelle, Berthomé, Richard, Arlat, Matthieu, Boulanger, Alice, and Noël, Laurent D.

Subjects
PHYSIOLOGICAL adaptation, XANTHOMONAS, CAULIFLOWER, XANTHOMONAS campestris, TRANSCRIPTOMES
Abstract

Xanthomonas campestris pv. campestris (Xcc) is a seed‐transmitted vascular pathogen causing black rot disease on cultivated and wild Brassicaceae. Xcc enters the plant tissues preferentially via hydathodes, which are organs localized at leaf margins. To decipher both physiological and virulence strategies deployed by Xcc during early stages of infection, the transcriptomic profile of Xcc was analysed 3 days after entry into cauliflower hydathodes. Despite the absence of visible plant tissue alterations and despite a biotrophic lifestyle, 18% of Xcc genes were differentially expressed, including a striking repression of chemotaxis and motility functions. The Xcc full repertoire of virulence factors had not yet been activated but the expression of the HrpG regulon composed of 95 genes, including genes coding for the type III secretion machinery important for suppression of plant immunity, was induced. The expression of genes involved in metabolic adaptations such as catabolism of plant compounds, transport functions, sulphur and phosphate metabolism was upregulated while limited stress responses were observed 3 days postinfection. We confirmed experimentally that high‐affinity phosphate transport is needed for bacterial fitness inside hydathodes. This analysis provides information about the nutritional and stress status of bacteria during the early biotrophic infection stages and helps to decipher the adaptive strategy of Xcc to the hydathode environment. [ABSTRACT FROM AUTHOR]

Published
2022
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26. The xopJ6 gene encodes a PopP2-like acetyl transferase from Xanthomonas campestris pv. campestris recognized by RRS1/RPS4 R genes in Arabidopsis

Author

Lauber, Emmanuelle, Gonzalez-Fuente, Manuel, Maxime Escouboué, Vicédo, Céline, Luneau, Julien, Jauneau, Alain, Deslandes, Laurent, Noël, Laurent, Laboratoire des interactions plantes micro-organismes (LIPM), Centre National de la Recherche Scientifique (CNRS)-Institut National de la Recherche Agronomique (INRA), Université de Toulouse, International Society for Molecular Plant-Microbe Interactions (IS-MPMI). INT., and Institut National de la Recherche Agronomique (INRA)-Centre National de la Recherche Scientifique (CNRS)

Subjects
[SDV.BV]Life Sciences [q-bio]/Vegetal Biology, [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2019

27. A TnSeq approach to study the genetic bases of Xanthomonas campestris pv. campestris adaptation to in vitro and in planta conditions

Author

Luneau, Julien, Baudin, Mael, Carrere, Sébastien, Bouchez, Olivier, JARDINAUD, Marie-Françoise, Ray, J, Deutschbauer, Adam M., Lewis, Jennifer D., Noël, Laurent, Lauber, Emmanuelle, Boulanger, Alice, Laboratoire des interactions plantes micro-organismes (LIPM), Centre National de la Recherche Scientifique (CNRS)-Institut National de la Recherche Agronomique (INRA), ProdInra, Migration, Institut National de la Recherche Agronomique (INRA)-Centre National de la Recherche Scientifique (CNRS), University of California [Berkeley], University of California, Génome et Transcriptome - Plateforme Génomique (GeT-PlaGe), Institut National de la Recherche Agronomique (INRA)-Plateforme Génome & Transcriptome (GET), Génopole Toulouse Midi-Pyrénées [Auzeville] (GENOTOUL), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Ecole Nationale Vétérinaire de Toulouse (ENVT), Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Génopole Toulouse Midi-Pyrénées [Auzeville] (GENOTOUL), Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Lawrence Berkeley National Laboratory [Berkeley] (LBNL), International Society for Molecular Plant-Microbe Interactions (IS-MPMI). INT., Institut National des Sciences Appliquées - Toulouse (INSA Toulouse), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Université Toulouse III - Paul Sabatier (UT3), and Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut National des Sciences Appliquées - Toulouse (INSA Toulouse)

Subjects
[SDV.BV]Life Sciences [q-bio]/Vegetal Biology, [SDV.BV] Life Sciences [q-bio]/Vegetal Biology, [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2019

28. Genomic insights into strategies used by Xanthomonas albilineans with its reduced artillery to spread within sugarcane xylem vessels

Author

Pieretti Isabelle, Royer Monique, Barbe Valérie, Carrere Sébastien, Koebnik Ralf, Couloux Arnaud, Darrasse Armelle, Gouzy Jérôme, Jacques Marie-Agnès, Lauber Emmanuelle, Manceau Charles, Mangenot Sophie, Poussier Stéphane, Segurens Béatrice, Szurek Boris, Verdier Valérie, Arlat Matthieu, Gabriel Dean W, Rott Philippe, and Cociancich Stéphane

Subjects
Biotechnology, TP248.13-248.65, Genetics, QH426-470
Abstract

Abstract Background Xanthomonas albilineans causes leaf scald, a lethal disease of sugarcane. X. albilineans exhibits distinctive pathogenic mechanisms, ecology and taxonomy compared to other species of Xanthomonas. For example, this species produces a potent DNA gyrase inhibitor called albicidin that is largely responsible for inducing disease symptoms; its habitat is limited to xylem; and the species exhibits large variability. A first manuscript on the complete genome sequence of the highly pathogenic X. albilineans strain GPE PC73 focused exclusively on distinctive genomic features shared with Xylella fastidiosa—another xylem-limited Xanthomonadaceae. The present manuscript on the same genome sequence aims to describe all other pathogenicity-related genomic features of X. albilineans, and to compare, using suppression subtractive hybridization (SSH), genomic features of two strains differing in pathogenicity. Results Comparative genomic analyses showed that most of the known pathogenicity factors from other Xanthomonas species are conserved in X. albilineans, with the notable absence of two major determinants of the “artillery” of other plant pathogenic species of Xanthomonas: the xanthan gum biosynthesis gene cluster, and the type III secretion system Hrp (hypersensitive response and pathogenicity). Genomic features specific to X. albilineans that may contribute to specific adaptation of this pathogen to sugarcane xylem vessels were also revealed. SSH experiments led to the identification of 20 genes common to three highly pathogenic strains but missing in a less pathogenic strain. These 20 genes, which include four ABC transporter genes, a methyl-accepting chemotaxis protein gene and an oxidoreductase gene, could play a key role in pathogenicity. With the exception of hypothetical proteins revealed by our comparative genomic analyses and SSH experiments, no genes potentially involved in any offensive or counter-defensive mechanism specific to X. albilineans were identified, supposing that X. albilineans has a reduced artillery compared to other pathogenic Xanthomonas species. Particular attention has therefore been given to genomic features specific to X. albilineans making it more capable of evading sugarcane surveillance systems or resisting sugarcane defense systems. Conclusions This study confirms that X. albilineans is a highly distinctive species within the genus Xanthomonas, and opens new perpectives towards a greater understanding of the pathogenicity of this destructive sugarcane pathogen.

Published
2012
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29. The complete genome sequence of Xanthomonas albilineans provides new insights into the reductive genome evolution of the xylem-limited Xanthomonadaceae

Author

Szurek Boris, Segurens Béatrice, Poussier Stéphane, Manceau Charles, Mangenot Sophie, Lauber Emmanuelle, Jacques Marie-Agnès, Darrasse Armelle, Gouzy Jérôme, Couloux Arnaud, Cociancich Stéphane, Koebnik Ralf, Carrere Sébastien, Barbe Valérie, Royer Monique, Pieretti Isabelle, Verdier Valérie, Arlat Matthieu, and Rott Philippe

Subjects
Biotechnology, TP248.13-248.65, Genetics, QH426-470
Abstract

Abstract Background The Xanthomonadaceae family contains two xylem-limited plant pathogenic bacterial species, Xanthomonas albilineans and Xylella fastidiosa. X. fastidiosa was the first completely sequenced plant pathogen. It is insect-vectored, has a reduced genome and does not possess hrp genes which encode a Type III secretion system found in most plant pathogenic bacteria. X. fastidiosa was excluded from the Xanthomonas group based on phylogenetic analyses with rRNA sequences. Results The complete genome of X. albilineans was sequenced and annotated. X. albilineans, which is not known to be insect-vectored, also has a reduced genome and does not possess hrp genes. Phylogenetic analysis using X. albilineans genomic sequences showed that X. fastidiosa belongs to the Xanthomonas group. Order of divergence of the Xanthomonadaceae revealed that X. albilineans and X. fastidiosa experienced a convergent reductive genome evolution during their descent from the progenitor of the Xanthomonas genus. Reductive genome evolutions of the two xylem-limited Xanthomonadaceae were compared in light of their genome characteristics and those of obligate animal symbionts and pathogens. Conclusion The two xylem-limited Xanthomonadaceae, during their descent from a common ancestral parent, experienced a convergent reductive genome evolution. Adaptation to the nutrient-poor xylem elements and to the cloistered environmental niche of xylem vessels probably favoured this convergent evolution. However, genome characteristics of X. albilineans differ from those of X. fastidiosa and obligate animal symbionts and pathogens, indicating that a distinctive process was responsible for the reductive genome evolution in this pathogen. The possible role in genome reduction of the unique toxin albicidin, produced by X. albilineans, is discussed.

Published
2009
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30. Two ancestral genes shaped theXanthomonas campestrisTALeffector gene repertoire

Author

Denancé, Nicolas, primary, Szurek, Boris, additional, Doyle, Erin L., additional, Lauber, Emmanuelle, additional, Fontaine‐Bodin, Lisa, additional, Carrère, Sébastien, additional, Guy, Endrick, additional, Hajri, Ahmed, additional, Cerutti, Aude, additional, Boureau, Tristan, additional, Poussier, Stéphane, additional, Arlat, Matthieu, additional, Bogdanove, Adam J., additional, and Noël, Laurent D., additional

Published
2018
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31. Using Ecology, Physiology, and Genomics to Understand Host Specificity inXanthomonas: French Network on Xanthomonads (FNX)

Author

Jacques, Marie Agnes, Arlat, Matthieu, Boulanger, Alice, Boureau, Tristan, Carrere, Sebastien, Cesbron, Sophie, Chen, Nicolas W.G., Cociancich, Stéphane, Darrasse, Armelle, Denance, Nicolas, Le Saux, Marion, Gagnevin, Lionel, Koebnik, Ralf, Lauber, Emmanuelle, NOEL, Laurent, Pieretti, Isabelle, Portier, Perrine, PRUVOST, Olivier, Rieux, Adrian, Robene-Soustrade, Isabelle, Royer, Monique, Szurek, Boris, Verdier, Valérie, Vernière, Christian, Institut de Recherche en Horticulture et Semences (IRHS), AGROCAMPUS OUEST, 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)-Institut National de la Recherche Agronomique (INRA)-Université d'Angers (UA), Laboratoire des interactions plantes micro-organismes (LIPM), Institut National de la Recherche Agronomique (INRA)-Centre National de la Recherche Scientifique (CNRS), Institut de Recherche pour le Développement (IRD [Nouvelle-Calédonie]), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées, Biologie et Génétique des Interactions Plante-Parasite (UMR BGPI), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-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)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro), 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), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Université de Montpellier (UM), Peuplements végétaux et bioagresseurs en milieu tropical (UMR PVBMT), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD)-Institut National de la Recherche Agronomique (INRA)-Université de La Réunion (UR), Institut de Recherche pour le Développement (IRD [France-Ouest]), AGROCAMPUS OUEST-Institut National de la Recherche Agronomique (INRA)-Université d'Angers (UA), Centre National de la Recherche Scientifique (CNRS)-Institut National de la Recherche Agronomique (INRA), Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA), Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, and Institut de Recherche pour le Développement (IRD)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Université de La Réunion (UR)-Institut National de la Recherche Agronomique (INRA)

Subjects
bactérie phytopathogène, type III effectors, habitat, emergence, host specificity, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, adaptation, spécificité de l'hôte, host jump, effecteur type III, phytopathogenic bacteria, analyse phylogénétique
Abstract

How pathogens coevolve with and adapt to their hosts are critical to understanding how host jumps and/or acquisition of novel traits can lead to new disease emergences. The Xanthomonas genus includes Gram-negativeplant-pathogenic bacteria that collectively infect a broad range of crops and wild plant species. However, individual Xanthomonas strains usually cause disease on only a few plant species and are highly adapted to their hosts,making them pertinent models to study host specificity. This review summarizes our current understanding of the molecular basis of host specificity in the Xanthomonas genus, with a particular focus on the ecology, physiology,and pathogenicity of the bacterium. Despite our limited understanding of the basis of host specificity, type III effectors, microbe-associated molecular patterns, lipopolysaccharides, transcriptional regulators, and chemotacticsensors emerge as key determinants for shaping host specificity.

Published
2016

32. The N-Glycan Cluster from Xanthomonas campestris pv. campestris: A toolbox for sequential plant n-glycan processing

Author

Dupoiron, Stéphanie, Zischek, Claudine, Ligat, Laetitia, Carbonne, Julien, Boulanger, Alice, Duge De Bernonville, Thomas, Lautier, Martine, RIVAL, Pauline, Arlat, Matthieu, Jamet, Elisabeth, Lauber, Emmanuelle, Albenne, Cécile, Laboratoire de Recherche en Sciences Végétales (LRSV), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS), Laboratoire des interactions plantes micro-organismes (LIPM), Institut National de la Recherche Agronomique (INRA)-Centre National de la Recherche Scientifique (CNRS), Interactions Microbiennes dans la Rhizosphère et les Racines, Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), and Dynamique et Evolution des Parois cellulaires végétales

Subjects
Enzyme Kinetics, Xanthomonas, Glycoside Hydrolases, Bacteria, N-Linked Glycosylation, [SDV]Life Sciences [q-bio], Glycoside Hydrolase, food and beverages, Brassica, Plant, Xanthomonas campestris, Carbohydrate Processing, Phytopathogen, Xylosidases, Polysaccharides, alpha-Mannosidase, Enzymology, bacteria, Humans, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, hormones, hormone substitutes, and hormone antagonists, Plant Diseases
Abstract

International audience; N-Glycans are widely distributed in living organisms but represent only a small fraction of the carbohydrates found in plants. This probably explains why they have not previously been considered as substrates exploited by phytopathogenic bacteria during plant infection. Xanthomonas campestris pv. campestris, the causal agent of black rot disease of Brassica plants, possesses a specific system for GlcNAc utilization expressed during host plant infection. This system encompasses a cluster of eight genes (nixE to nixL) encoding glycoside hydrolases (GHs). In this paper, we have characterized the enzymatic activities of these GHs and demonstrated their involvement in sequential degradation of a plant N-glycan using a N-glycopeptide containing two GlcNAcs, three mannoses, one fucose, and one xylose (N2M3FX) as a substrate. The removal of the α-1,3-mannose by the α-mannosidase NixK (GH92) is a prerequisite for the subsequent action of the β-xylosidase NixI (GH3), which is involved in the cleavage of the β-1,2-xylose, followed by the α-mannosidase NixJ (GH125), which removes the α-1,6-mannose. These data, combined to the subcellular localization of the enzymes, allowed us to propose a model of N-glycopeptide processing by X. campestris pv. campestris. This study constitutes the first evidence suggesting N-glycan degradation by a plant pathogen, a feature shared with human pathogenic bacteria. Plant N-glycans should therefore be included in the repertoire of molecules putatively metabolized by phytopathogenic bacteria during their life cycle.

Published
2015

33. Additional file 5: of Genomics and transcriptomics of Xanthomonas campestris species challenge the concept of core type III effectome

Author

Roux, Brice, Bolot, Stéphanie, Endrick Guy, Denancé, Nicolas, Lautier, Martine, Marie-Françoise Jardinaud, Saux, Marion Fischer-Le, Portier, Perrine, Marie-Agnès Jacques, Gagnevin, Lionel, Pruvost, Olivier, Lauber, Emmanuelle, Arlat, Matthieu, Carrère, Sébastien, Koebnik, Ralf, and Noël, Laurent

Subjects
body regions, nervous system, fungi
Abstract

Oligonucleotides used in this study. (PDF 865 kb)

Published
2015
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34. Additional file 2: of Genomics and transcriptomics of Xanthomonas campestris species challenge the concept of core type III effectome

Author

Roux, Brice, Bolot, Stéphanie, Endrick Guy, Denancé, Nicolas, Lautier, Martine, Marie-Françoise Jardinaud, Saux, Marion Fischer-Le, Portier, Perrine, Marie-Agnès Jacques, Gagnevin, Lionel, Pruvost, Olivier, Lauber, Emmanuelle, Arlat, Matthieu, Carrère, Sébastien, Koebnik, Ralf, and Noël, Laurent

Abstract

Scatter plots of the normalized expression levels of the 141 hrpG -regulated genes of strain CFBP 5828R of X. campestris pv. raphani by RNA sequencing (Table 4 , Fig. 4a ). (PDF 635 kb)

Published
2015
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35. Development of Sinorhizobium meliloti pilot macroarrays for transcriptome analysis

Author

Berges, Helene, Lauber, Emmanuelle, Liebe, Carine, Batut, Jacques, Kahn, Daniel, de Bruijn, Frans J., and Ampe, Frederic

Subjects
Host-bacteria relationships -- Genetic aspects, Host-bacteria relationships -- Analysis, Genomes -- Analysis, Gene expression -- Analysis, DNA -- Analysis, Biological sciences
Abstract

Research describes the designing of DNA macroarrays of Sinorhizobium meliloti genes and testing them in the bacteium's gene expression process. Thirtyfour regulatory genes are used in the construction of macroarrays to assess the length of the polymerase chain reaction products, the influence of of the 5' tag of the primers, and RNA labeling method.

Published
2003

36. Comparative genomics and transcriptomics of #Xanthomonas campestris# : Session 3- Physiologie, génétique et génomique des bactéries

Author

Bolot, Stéphanie, Roux, Brice, Guy, Endrick, Denance, Nicolas, LAUTIER, Martine, Lauber, Emmanuelle, JARDINAUD, Marie-Françoise, Koebnik, Ralf, Gagnevin, Lionel, Poussier, Stéphane, Carrere, Sebastien, Arlat, Mathieu, Noël, Laurent D., Interactions plantes-microorganismes et santé végétale, Institut National de la Recherche Agronomique (INRA)-Université Nice Sophia Antipolis (... - 2019) (UNS), COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-Centre National de la Recherche Scientifique (CNRS), Laboratoire des interactions plantes micro-organismes (LIPM), Institut National de la Recherche Agronomique (INRA)-Centre National de la Recherche Scientifique (CNRS), Laboratoire de Recherche en Sciences Végétales (LRSV), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS), Institut de Recherche en Horticulture et Semences (IRHS), AGROCAMPUS OUEST, 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)-Institut National de la Recherche Agronomique (INRA)-Université d'Angers (UA), Université d'Angers (UA), Université Fédérale Toulouse Midi-Pyrénées, 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]), Peuplements végétaux et bioagresseurs en milieu tropical (UMR PVBMT), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD)-Institut National de la Recherche Agronomique (INRA)-Université de La Réunion (UR), Université Côte d'Azur (UCA)-Université Côte d'Azur (UCA)-Centre National de la Recherche Scientifique (CNRS), Centre National de la Recherche Scientifique (CNRS)-Institut National de la Recherche Agronomique (INRA), Unite Mixte Rech 5546, Lab Rech Sci Vegetales, Unite Mixte Rech 5546, Lab Rech Sci Vegetales, Ctr Natl Rech Sci, Centre National de la Recherche Scientifique (CNRS), AGROCAMPUS OUEST-Institut National de la Recherche Agronomique (INRA)-Université d'Angers (UA), UNIVERSITE TOULOUSE, Ecole Nationale Supérieure Agronomique de Toulouse, UMR Peuplement Végétaux et Bioagresseurs en Milieu Tropical (UMR PVBMT - INRA), and Institut National de la Recherche Agronomique (INRA)

Subjects
[SDV]Life Sciences [q-bio], Sciences du vivant, Biologie végétale, H20 - Maladies des plantes, F30 - Génétique et amélioration des plantes
Abstract

International audience; The Xanthomonas campestris species causes different diseases on a wide range of Brassicas and is composed of at least four pathovars (campestris, incanae. raphani. unnamed). This species encompasses both vascular and non-vascular pathogens. A comparative genomic analysis of X campestris diversity was performed at the intraspecific and intrapathovar levels by sequencing more than 40 strains. Structural genome annotation was performed and benefited from deep sequencing of small and large RNAs. This approach allowed the exact determination of transcriptional start sites and the identification of small noncoding RNAs. We also used RNA sequencing to characterize the type III regulon in several strains and could identify novel type 111 effectomes. Core and variable genomes and type 111 effectomes were determined. These results evidenced an unsuspected genomic diversity in this species. The latest progress in this project will be presented. (Texte intégral)

Published
2014

37. Using Ecology, Physiology, and Genomics to Understand Host Specificity in Xanthomonas

Author

Jacques, Marie-Agnès, primary, Arlat, Matthieu, additional, Boulanger, Alice, additional, Boureau, Tristan, additional, Carrère, Sébastien, additional, Cesbron, Sophie, additional, Chen, Nicolas W.G., additional, Cociancich, Stéphane, additional, Darrasse, Armelle, additional, Denancé, Nicolas, additional, Fischer-Le Saux, Marion, additional, Gagnevin, Lionel, additional, Koebnik, Ralf, additional, Lauber, Emmanuelle, additional, Noël, Laurent D., additional, Pieretti, Isabelle, additional, Portier, Perrine, additional, Pruvost, Olivier, additional, Rieux, Adrien, additional, Robène, Isabelle, additional, Royer, Monique, additional, Szurek, Boris, additional, Verdier, Valérie, additional, and Vernière, Christian, additional

Published
2016
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38. Genomics and transcriptomics of Xanthomonas campestris species challenge the concept of core type III effectome

Author

Roux, Brice, Bolot, Stéphanie, Guy, Endrick, Denancé, Nicolas, Lautier, Martine, Jardinaud, Marie-Françoise, Fischer-Le-Caux, Marion, Portier, Perrine, Jacques, Marie Agnès, Gagnevin, Lionel, Pruvost, Olivier, Lauber, Emmanuelle, Arlat, Mathieu, Carrère, Sébastien, Koebnik, Ralf, Noel, Laurent D., Roux, Brice, Bolot, Stéphanie, Guy, Endrick, Denancé, Nicolas, Lautier, Martine, Jardinaud, Marie-Françoise, Fischer-Le-Caux, Marion, Portier, Perrine, Jacques, Marie Agnès, Gagnevin, Lionel, Pruvost, Olivier, Lauber, Emmanuelle, Arlat, Mathieu, Carrère, Sébastien, Koebnik, Ralf, and Noel, Laurent D.

Abstract

Background The bacterial species Xanthomonas campestris infects a wide range of Brassicaceae. Specific pathovars of this species cause black rot (pv. campestris), bacterial blight of stock (pv. incanae) or bacterial leaf spot (pv. raphani). Results In this study, we extended the genomic coverage of the species by sequencing and annotating the genomes of strains from pathovar incanae (CFBP 1606R and CFBP 2527R), pathovar raphani (CFBP 5828R) and a pathovar formerly named barbareae (CFBP 5825R). While comparative analyses identified a large core ORFeome at the species level, the core type III effectome was limited to only three putative type III effectors (XopP, XopF1 and XopAL1). In Xanthomonas, these effector proteins are injected inside the plant cells by the type III secretion system and contribute collectively to virulence. A deep and strand-specific RNA sequencing strategy was adopted in order to experimentally refine genome annotation for strain CFBP 5828R. This approach also allowed the experimental definition of novel ORFs and non-coding RNA transcripts. Using a constitutively active allele of hrpG, a master regulator of the type III secretion system, a HrpG-dependent regulon of 141 genes co-regulated with the type III secretion system was identified. Importantly, all these genes but seven are positively regulated by HrpG and 56 of those encode components of the Hrp type III secretion system and putative effector proteins. Conclusions This dataset is an important resource to mine for novel type III effector proteins as well as for bacterial genes which could contribute to pathogenicity of X. campestris. (Résumé d'auteur)

Published
2015

39. Genomics and transcriptomics of Xanthomonas campestris species challenge the concept of core type III effectome

Author

Roux, Brice, primary, Bolot, Stéphanie, additional, Guy, Endrick, additional, Denancé, Nicolas, additional, Lautier, Martine, additional, Jardinaud, Marie-Françoise, additional, Fischer-Le Saux, Marion, additional, Portier, Perrine, additional, Jacques, Marie-Agnès, additional, Gagnevin, Lionel, additional, Pruvost, Olivier, additional, Lauber, Emmanuelle, additional, Arlat, Matthieu, additional, Carrère, Sébastien, additional, Koebnik, Ralf, additional, and Noël, Laurent D., additional

Published
2015
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40. The xylan utilization system of Xanthomonas campestris controls epiphytic life and reveals common features with animal gut symbionts

Author

Arlat, Matthieu, Dejean, Guillaume, Blanvillain, Servane, Lauber, Emmanuelle, Unité mixte de recherche interactions plantes-microorganismes, Institut National de la Recherche Agronomique (INRA)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS), Université Toulouse III - Paul Sabatier (UT3), and Université Fédérale Toulouse Midi-Pyrénées

Subjects
xanthomonas campestris, [SDV]Life Sciences [q-bio], [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, ton b dependent receptors
Published
2013

41. The xylan utilization system of the plant pathogen Xanthomonas campestris pv campestris controls epiphytic life and reveals common features with oligotrophic bacteria and animal gut symbionts

Author

Dejean, Guillaume, Blanvillain-Baufume, Servane, Boulanger, Alice, Darrasse, Armelle, Duge De Bernonville, Thomas, Girard, Anne-Laure, Carrere, Sebastien, jamet, Stevie, Zischek, Claudine, Lautier, Martine, Sole, Magali, Buettner, Daniela, Jacques, Marie Agnes, Lauber, Emmanuelle, Arlat, Matthieu, Laboratoire des interactions plantes micro-organismes (LIPM), Centre National de la Recherche Scientifique (CNRS)-Institut National de la Recherche Agronomique (INRA), LIPM, UMR441, Institut National de la Recherche Agronomique (INRA), Institut de Recherche en Horticulture et Semences (IRHS), Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées, Departement Sante des Plantes et Environnement-Institut National de la Recherche Agronomique [2007_0441_02], French Agence Nationale de la Recherche [ANR-08-BAN-0193-01], Institut National de la Recherche Agronomique (INRA)-Centre National de la Recherche Scientifique (CNRS), and 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)

Subjects
xylanase, animal structures, [SDV]Life Sciences [q-bio], BIOFILM FORMATION, D-XYLOSE METABOLISM, food and beverages, ERWINIA-CHRYSANTHEMI, PREVOTELLA-BRYANTII, xylan, UTILIZATION GENE-CLUSTER, FUNCTIONAL-CHARACTERIZATION, epiphytic, ESCHERICHIA-COLI, transport, CAULOBACTER-CRESCENTUS, bacteria, TonB-dependent transporter, gut symbiont, GRAM-NEGATIVE BACTERIA, oligotrophy, DEPENDENT TRANSPORT
Abstract

Xylan is a major structural component of plant cell wall and the second most abundant plant polysaccharide in nature. Here, by combining genomic and functional analyses, we provide a comprehensive picture of xylan utilization by Xanthomonas campestris pv campestris (Xcc) and highlight its role in the adaptation of this epiphytic phytopathogen to the phyllosphere. The xylanolytic activity of Xcc depends on xylan-deconstruction enzymes but also on transporters, including two TonB-dependent outer membrane transporters (TBDTs) which belong to operons necessary for efficient growth in the presence of xylo-oligosaccharides and for optimal survival on plant leaves. Genes of this xylan utilization system are specifically induced by xylo-oligosaccharides and repressed by a LacI-family regulator named XylR. Part of the xylanolytic machinery of Xcc, including TBDT genes, displays a high degree of conservation with the xylose-regulon of the oligotrophic aquatic bacterium Caulobacter crescentus. Moreover, it shares common features, including the presence of TBDTs, with the xylan utilization systems of Bacteroides ovatus and Prevotella bryantii, two gut symbionts. These similarities and our results support an important role for TBDTs and xylan utilization systems for bacterial adaptation in the phyllosphere, oligotrophic environments and animal guts.

Published
2013

42. Two ancestral genes shaped the Xanthomonas campestris TAL effector gene repertoire.

Author

Denancé, Nicolas, Szurek, Boris, Doyle, Erin L., Lauber, Emmanuelle, Fontaine‐Bodin, Lisa, Carrère, Sébastien, Guy, Endrick, Hajri, Ahmed, Cerutti, Aude, Boureau, Tristan, Poussier, Stéphane, Arlat, Matthieu, Bogdanove, Adam J., and Noël, Laurent D.

Subjects
NUCLEOTIDE sequence, NUCLEOTIDE sequencing, XANTHOMONAS campestris, GENE expression, PLANT cells & tissues, PHYSIOLOGY
Abstract

Summary: Xanthomonas transcription activator‐like effectors (TALEs) are injected inside plant cells to promote host susceptibility by enhancing transcription of host susceptibility genes. TALE‐encoding (tal) genes were thought to be absent from Brassicaceae‐infecting Xanthomonas campestris (Xc) genomes based on four reference genomic sequences. We discovered tal genes in 26 of 49 Xc strains isolated worldwide and used a combination of single molecule real time (SMRT) and tal amplicon sequencing to yield a near‐complete description of the TALEs found in Xc (Xc TALome). The 53 sequenced tal genes encode 21 distinct DNA binding domains that sort into seven major DNA binding specificities. In silico analysis of the Brassica rapa promoterome identified a repertoire of predicted TALE targets, five of which were experimentally validated using quantitative reverse transcription polymerase chain reaction. The Xc TALome shows multiple signs of DNA rearrangements that probably drove its evolution from two ancestral tal genes. We discovered that Tal12a and Tal15a of Xcc strain Xca5 contribute together in the development of disease symptoms on susceptible B. oleracea var. botrytis cv Clovis. This large and polymorphic repertoire of TALEs opens novel perspectives for elucidating TALE‐mediated susceptibility of Brassicaceae to black rot disease and for understanding the molecular processes underlying TALE evolution. [ABSTRACT FROM AUTHOR]

Published
2018
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43. Genome sequencing of Xanthomonas axonopodis pv. phaseoli CFBP4834-R reveals that flagellar motility is not a general feature of xanthomonads. [Abstract]

Author

Darrasse, Armelle, Carrere, Sébastien, Barbe, Valérie, Bourreau, Tristan, Bernal, Adriana, Bonneau, Sophie, Brin, Chrystelle, Cociancich, Stéphane, Durand, Karine, Fouteau, Stéphanie, Gagnevin, Lionel, Gouzy, Jerome, Guérin, Fabien, Guy, Endrick, Indiana, Arnaud, Koebnik, Ralf, Lauber, Emmanuelle, Munoz, Alejandra, Noel, Laurent D., Pieretti, Isabelle, Poussier, Stéphane, Pruvost, Olivier, Robene-Soustrade, Isabelle, Rott, Philippe, Royer, Monique, Szurek, Boris, van Sluys, Marie-Anne, Verdier, Valérie, Vernière, Christian, Arlat, Mathieu, Institut de Recherche en Horticulture et Semences (IRHS), AGROCAMPUS OUEST-Institut National de la Recherche Agronomique (INRA)-Université d'Angers (UA), Laboratoire des interactions plantes micro-organismes (LIPM), Centre National de la Recherche Scientifique (CNRS)-Institut National de la Recherche Agronomique (INRA), Genoscope - Centre national de séquençage [Evry] (GENOSCOPE), Université Paris-Saclay-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA), Universidad de Los Andes [Venezuela] (ULA), Pathologie Végétale (PaVé), Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, Biologie et Génétique des Interactions Plante-Parasite (UMR BGPI), 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)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Peuplements végétaux et bioagresseurs en milieu tropical (UMR PVBMT), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD)-Institut National de la Recherche Agronomique (INRA)-Université de La Réunion (UR), Institut de Recherche pour le Développement (IRD), Résistance des plantes aux bio-agresseurs (UMR RPB), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Université Montpellier 2 - Sciences et Techniques (UM2), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées, Manceau, Charles and Jacques, Marie-Agnès and Arlat, Mathieu and Lauber, Emmanuelle and Noel, Laurent D. and Gagnevin, Lionel and Pruvost, Olivier and Rott, Philippe and Royer, Monique and Koebnik, Ralf and Verdier, Valérie, Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, 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), Institut National de la Recherche Agronomique (INRA)-Centre National de la Recherche Scientifique (CNRS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-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)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro), Université Montpellier 2 - Sciences et Techniques (UM2)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Universidad de Los Andes [Mérida, Venezuela] (ULA), and Université de Toulouse (UT)

Subjects
[SDV.BV]Life Sciences [q-bio]/Vegetal Biology
Abstract

International audience; Xanthomonads are plant-associated bacteria that establish neutral, commensal or pathogenic relationships with plants. The list of common characteristics shared by all members of the genus Xanthomonas is now well established based on the entire genome sequences that are currently available and that represent various species, numerous pathovars of X. axonopodis (sensu Vauterin et al., 2000), X. oryzae and X. campestris, and many strains within some pathovars. These ?-proteobacteria are motile by a single polar flagellum. Motility is an important feature involved in biofilm formation, plant colonization and hence considered as a pathogenicity factor. X. axonopodis pv. phaseoli var. fuscans (Xapf) is one of the causal agents of common bacterial blight of bean and 4834-R is a highly aggressive strain of this pathogen that was isolated from a seed-borne epidemic in France in 1998. We obtained a high quality assembled sequence of the genome of this strain with 454-Solexa and 2X Sanger sequencing. Housekeeping functions are conserved in this genome that shares core characteristics with genomes of other xanthomonads: the six secretion systems which have been described so far in Gram negative bacteria are all present, as well as their ubiquitous substrates or effectors and a rather usual number of mobile elements. Elements devoted to the adaptation to the environment constitute an important part of the genome with a chemotaxis island and dispersed MCPs, numerous two-component systems, and numerous TonB dependent transporters. Furthermore, numerous multidrug efflux systems and functions dedicated to biofilm formation that confer resistance to stresses are also present. An intriguing feature revealed by genome analysis is a long deletion of 35 genes (33 kbp) involved in flagellar biosynthesis. This deletion is replaced by an insertion sequence called ISXapf2. Genes such as flgB to flgL and fliC to fleQ which are involved in the flagellar structure (rod, P- and L-ring, hook, cap and filament) are absent in the genome of strain 4834-R that is not motile. Primers were designed to detect this deletion by PCR in a collection of more than 300 strains representing different species and pathovars of Xanthomonas, and less than 5% of the tested xanthomonads strains were found nonmotile because of a deletion in the flagellum gene cluster. We observed that half of the Xapf strains isolated from the same epidemic than strain 4834-R was non-motile and that this ratio was conserved in the strains colonizing the next bean seed generation. Isolation of such variants in a natural epidemic reveals that either flagellar motility is not a key function for fitness or that some complementation occurs within the bacterial population. (Résumé d'auteur)

Published
2012

44. Genome sequencing of Xanthomonas axonopodis pv. phaseoli CFBP4834-R reveals that flagellar motility is not a general feature of xanthomonads

Author

Darrasse, Armelle, Carrère, Sébastien, Barbe, Valérie, Bourreau, Tristan, Bernal, Adriana, Bonneau, Sophie, Brin, Christelle, Cociancich, Stéphane, Durand, Karine, Fouteau, Stéphanie, Gagnevin, Lionel, Gouzy, Jérôme, Guérin, Fabien, Guy, Endrick, Indiana, Arnaud, Koebnik, Ralf, Lauber, Emmanuelle, Munoz, Alejandra, Noel, Laurent D., Pieretti, Isabelle, Poussier, Stéphane, Pruvost, Olivier, Robène-Soustrade, Isabelle, Rott, Philippe, Royer, Monique, Szurek, Boris, Van Sluys, Marie-Anne, Verdier, Valérie, Vernière, Christian, Arlat, Mathieu, Manceau, Charles, and Jacques, Marie Agnès

Subjects
H20 - Maladies des plantes
Abstract

Xanthomonads are plant-associated bacteria that establish neutral, commensal or pathogenic relationships with plants. The list of common characteristics shared by all members of the genus Xanthomonas is now well established based on the entire genome sequences that are currently available and that represent various species, numerous pathovars of X. axonopodis (sensu Vauterin et al., 2000), X. oryzae and X. campestris, and many strains within some pathovars. These ?-proteobacteria are motile by a single polar flagellum. Motility is an important feature involved in biofilm formation, plant colonization and hence considered as a pathogenicity factor. X. axonopodis pv. phaseoli var. fuscans (Xapf) is one of the causal agents of common bacterial blight of bean and 4834-R is a highly aggressive strain of this pathogen that was isolated from a seed-borne epidemic in France in 1998. We obtained a high quality assembled sequence of the genome of this strain with 454-Solexa and 2X Sanger sequencing. Housekeeping functions are conserved in this genome that shares core characteristics with genomes of other xanthomonads: the six secretion systems which have been described so far in Gram negative bacteria are all present, as well as their ubiquitous substrates or effectors and a rather usual number of mobile elements. Elements devoted to the adaptation to the environment constitute an important part of the genome with a chemotaxis island and dispersed MCPs, numerous two-component systems, and numerous TonB dependent transporters. Furthermore, numerous multidrug efflux systems and functions dedicated to biofilm formation that confer resistance to stresses are also present. An intriguing feature revealed by genome analysis is a long deletion of 35 genes (33 kbp) involved in flagellar biosynthesis. This deletion is replaced by an insertion sequence called ISXapf2. Genes such as flgB to flgL and fliC to fleQ which are involved in the flagellar structure (rod, P- and L-ring, hook, cap and filament) are absent in the genome of strain 4834-R that is not motile. Primers were designed to detect this deletion by PCR in a collection of more than 300 strains representing different species and pathovars of Xanthomonas, and less than 5% of the tested xanthomonads strains were found nonmotile because of a deletion in the flagellum gene cluster. We observed that half of the Xapf strains isolated from the same epidemic than strain 4834-R was non-motile and that this ratio was conserved in the strains colonizing the next bean seed generation. Isolation of such variants in a natural epidemic reveals that either flagellar motility is not a key function for fitness or that some complementation occurs within the bacterial population.

Published
2012

45. 4th Xanthomonas genomics conference, Angers, France, july 9-12, 2012 : Book of abstracts

Author

Manceau, Charles (ed.), Jacques, Marie Agnès (ed.), Arlat, Mathieu (ed.), Lauber, Emmanuelle (ed.), Noel, Laurent D. (ed.), Gagnevin, Lionel (ed.), Pruvost, Olivier (ed.), Rott, Philippe (ed.), Royer, Monique (ed.), Koebnik, Ralf (ed.), and Verdier, Valérie (ed.)

Subjects
Xanthomonas, Génome, Relation hôte pathogène, Résistance aux maladies, F30 - Génétique et amélioration des plantes, Variation génétique, Maladie des plantes, H20 - Maladies des plantes
Published
2012

46. Implication des facteurs sigma dans la conservation des bactéries sur des graines d'Arabidopsis thaliana

Author

Pochon, Stéphanie, Boulanger, Alice, Lauber, Emmanuelle, Arlat, Matthieu, Darrasse, Armelle, Jacques, Marie-Agnès, Institut de Recherche en Horticulture et Semences (IRHS), Université d'Angers (UA)-AGROCAMPUS OUEST, 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)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Unité mixte de recherche interactions plantes-microorganismes, Centre National de la Recherche Scientifique (CNRS)-Institut National de la Recherche Agronomique (INRA)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées, Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées, Laboratoire des interactions plantes micro-organismes (LIPM), and Institut National de la Recherche Agronomique (INRA)-Centre National de la Recherche Scientifique (CNRS)

Subjects
[SDV]Life Sciences [q-bio], ComputingMilieux_MISCELLANEOUS
Abstract

National audience

Published
2012

47. The complete genome sequence of Xanthomonas albilineans provides insights into pathogenicity of this sugarcane pathogen and allows further assessments of the large diversity within this species

Author

Pieretti, Isabelle, Cociancich, Stéphane, Barbe, Valerie, Carrere, Sébastien, Koebnik, Ralf, Champoiseau, P., Couloux, Arnaud, Darrasse, Armelle, Gouzy, Jerome, Jacques, Marie-Agnès, Lauber, Emmanuelle, Manceau, Charles, Mangenot, Sophie, Marguerettaz, Mélanie, Poussier, Stéphane, Segurens, Béatrice, Szurek, Boris, Verdier, Valérie, Arlat, Mathieu, Gabriel, Dean W., Rott, Philippe, Royer, Monique, Biologie et Génétique des Interactions Plante-Parasite (UMR BGPI), 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)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut de Génomique d'Evry (IG), Institut de Biologie François JACOB (JACOB), Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay, Genoscope - Centre national de séquençage [Evry] (GENOSCOPE), Université Paris-Saclay-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA), Laboratoire des interactions plantes micro-organismes (LIPM), Centre National de la Recherche Scientifique (CNRS)-Institut National de la Recherche Agronomique (INRA), Laboratoire Génome et développement des plantes (LGDP), Université de Perpignan Via Domitia (UPVD)-Centre National de la Recherche Scientifique (CNRS), Institut de Recherche pour le Développement (IRD), Pathologie Végétale (PaVé), Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, Centre IRD de Montpellier, Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées, Université Paris-Saclay-Institut de Biologie François JACOB (JACOB), Institut National de la Recherche Agronomique (INRA)-Centre National de la Recherche Scientifique (CNRS), Université de Toulouse (UT), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-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)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro), and 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)

Subjects
Xylella fastidiosa, Saccharum officinarum, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, Xanthomonas albilineans, ComputingMilieux_MISCELLANEOUS, H20 - Maladies des plantes
Abstract

Objectives: Xanthomonas albilineans is a xylem-invading pathogen that causes leaf scald, one of the major diseases of sugarcane. Previous studies revealed that i/ two important genomic features differentiate X. albilineans from other sequenced species of Xanthomonas: genome erosion and the presence of a type III secretion system (T3SS) of the SPI-1 family (1-2), and ii/ large variability exists among strains of X. albilineans and all strains involved in outbreaks of sugarcane leaf scald disease since the late 1980s belong to the same genetic group called PFGE-B (3). In the present study, we used the genome sequence of X. albilineans strain GPE PC73 to describe all pathogenicity-related features either shared with all species of Xanthomonas or specific to X. albilineans, and to further investigate the large diversity of this species. Results Among the major virulence factors described so far in Xanthomonads, most of them are conserved in X. albilineans, except the T3SS of the Hrp family and the gum gene clusters, and Hrp T3SS effectors. The genome of X. albilineans also encodes specific pathogenicity-related factors including twelve non ribosomal peptide synthetases and five enzymes harboring a specific cellulose binding domain. Several DNA fragments present in PFGE-B strains and absent in other strains of the pathogen were isolated by suppression subtractive hybridization (SSH). Additionally, occurrence of methylation of genomic DNA by a specific Dam methyltransferase in PFGE-B strains, but not in other strains, was experimentally demonstrated. Large inter-strain variability in X. albilineans was confirmed using multi locus sequence analysis (MLSA), clustered regularly interspaced short palindromic repeats (CRISPR) and SSH markers. Conclusions This study allowed us to identify several new candidate pathogenicity genes. In-depth functional analyses are now necessary to explore the role of these genes in the successful invasion of the sugarcane xylem vessels by X. albilineans.

Published
2011

48. The complete genome sequence of Xanthomonas albilineans provides new insights into the reductive genome of the xylem-limited Xanthomonadaceae

Author

Pieretti, Isabelle, Royer, Monique, Barbe, Valérie, Carrere, Sebastien, Koebnik, Ralf, Cociancich, Stéphane, Couloux, Arnaud, Darrasse, Armelle, Gouzy, Jérôme, Marie-Agnes Jacques, Lauber, Emmanuelle, Manceau, Charles, Mangenot, Sophie, Stephane Poussier, Ségurens, Béatrice, Szurek Boris, Verdier, Valerie, Arlat, Matthieu, and Rott, Philippe

Published
2009
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49. La séquence du génome de Xanthomonas albilineans dévoile des particularités surprenantes chez cette bactérie pathogène de la canne à sucre

Author

Pieretti, Isabelle, Royer, Monique, Barbe, Valérie, Carrère, Sébastien, Koebnik, Ralf, Cociancich, Stéphane, Couloux, Arnaud, Darrasse, Armelle, Gouzy, Jérôme, Jacques, Marie Agnès, Lauber, Emmanuelle, Manceau, Charles, Mangenot, Sophie, Poussier, Stéphane, Segurens, Béatrice, Szurek, Boris, Verdier, Véronique, Arlat, Mathieu, Rott, Philippe, Biologie et Génétique des Interactions Plante-Parasite (UMR BGPI), 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)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Genoscope - Centre national de séquençage [Evry] (GENOSCOPE), Université Paris-Saclay-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA), Laboratoire des interactions plantes micro-organismes (LIPM), Centre National de la Recherche Scientifique (CNRS)-Institut National de la Recherche Agronomique (INRA), Institut de Recherche pour le Développement (IRD), Pathologie Végétale (PaVé), Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, Laboratoire Génome et développement des plantes (LGDP), Université de Perpignan Via Domitia (UPVD)-Centre National de la Recherche Scientifique (CNRS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-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)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro), Institut National de la Recherche Agronomique (INRA)-Centre National de la Recherche Scientifique (CNRS), and 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)

Subjects
[SDV.BV]Life Sciences [q-bio]/Vegetal Biology, Xanthomonas albilineans, ComputingMilieux_MISCELLANEOUS, H20 - Maladies des plantes, Saccharum
Abstract

Xanthomonas albilineans est l'agent causal de I'échaudure des feuilles de la canne à sucre. Cette bactérie produit une toxine particulière et spécifique, appelée albicidine, qui joue un rôle clé dans l'apparition des symptômes foliaires. Le génome de la souche PC73 (= CFBP7063) de X. albilineans, originaire de Guadeloupe, a été séquencé et annoté. Il comprend un chromosome circulaire de 3,7 Mb et trois plasmides (25, 27 et 32 kb). Cette taille du génome est nettement inférieure à celle des autres espèces de Xanthomonas (environ 5 Mb) séquencées à ce jour. Contrairement aux autres Xanthomonas, X. albilineans ne possède pas d'injectisome (ou système de sécrétion de type III de la famille Hrp2) impliqué dans les interactions avec la plante hôte. L'analyse de la séquence du génome de la souche PC73 de X. albilineans révèle que X. albilineans se distingue des autres bactéries phytopathogènes par sa capacité à produire des métabolites secondaires. En effet cette souche possède, en plus du groupement de gènes impliqués dans la biosynthèse de l'albicidine, trois autres groupements de gènes de la famille des peptides synthétases non ribosomales (NRPS). Les analyses in silico ont permis de montrer que les peptides synthétisés par ces trois nouveaux groupements de gènes NRPS ne ressemblent à aucun autre peptide décrit à ce jour. L'implication de métabolites secondaires dans la pathogenèse de X. albilineans pourrait expliquer l'absence d'injectisome Hrp2. En effet, ces métabolites secondaires, qui n'ont besoin que de pompes pour sortir de la bactérie et pour entrer dans la cellule végétale, pourraient agir comme des effecteurs. Le groupement de gènes rpf ("regulation of pathogenicity factors") impliqué dans la biosynthèse et la perception du DSF ("diffusible signal factor") qui est présent dans le génome des autres Xanthomonas phytopathogènes est conservé dans le génome de la souche PC73. La taille réduite du génome de X. albilineans et ses autres particularités suggèrent que cette espèce est un intermédiaire au cours de l'évolution du genre Xanthomonas.

Published
2008

50. Plant carbohydrate scavenging through TonB-dependent receptors by the phytopathogenic bacterium Xanthomonas campestris pv. Campestris

Author

Blanvillain, Servane, Meyer, Damien, Dejean, Guillaume, Boulanger, Alice, Lautier, Martine, Guynet, Catherine, Denancé, Nicolas, Vasse, Jacques, Lauber, Emmanuelle, and Arlat, Mathieu

Subjects
Pouvoir pathogène, Pathologie végétale, Relation hôte pathogène, Facteur du milieu, Xanthomonas campestris, F60 - Physiologie et biochimie végétales, Maladie des plantes, Expression des gènes, Glucide, Adaptation, H20 - Maladies des plantes
Published
2008

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