Unité Mixte
de Recherche

Biologie et Génétique
des Interactions Plante-Parasite
 

CIRAD
UMR-BGPI TA A-54/K
Campus International
de Baillarguet
34398 Montpellier Cedex 5
FRANCE


Contact

Copyright © CIRAD 2009
Group 7 : Plant Microbiote and Quarantin (MicroQuar) e

Chef d'équipe : Philippe ROUMAGNAC
philippe.roumagnac@cirad.fr
Tél : 04 99 62 48 29
Secretary : Florence Barthod

 
Staff back to top of page
Researcher/Engineer
Technical staff
PhD
Jean-François Bousquet
Jean-Heinrich Daugrois
Emmanuel Fernandez
Denis Filloux
Serge Galzi (1/2 temps)
Isabelle Guinet-Brial
Isabelle Pieretti
Philippe Roumagnac
Christian Vernière

Romain Ferdinand
Charlotte Julian (CDD - 1/2 temps)
Laurence Blondin (7/10 temps)

Essowé Palanga
Pascal Alonso (2016-2019)

Research interest back to top of page

Research project
We aim at revealing the diversity of microbes associated with both quarantine plants and Mediterranean/tropical agroecosystems. Over the past five years we have developed a viral geo-metagenomics approach, which has enabled the quantitative ecosystem-scale evaluation of spatial variations in the occurrence of plant viruses. In parallel, we have been evaluating future prospects viral metagenomics-based diagnostics in a quarantine context. Starting in 2016, we have begun developing metagenomics-based diagnostic approaches capable of simultaneously detecting multiple viral and bacterial pathogens within quarantined plant material.

Recent results
Plant virus discovery and diagnostics
Within the framework of an ANR project (SafePGR; 2012-2015) and in collaboration with INRA and the Universities of Madeira and Azores, we have compared several viral metagenomics-based approaches to evaluate future prospects for applying these in a quarantine diagnostic context. We have found that at present viral metagenomics-based methods are not yet reliable or inexpensive enough to be routinely used in efficient quarantine diagnostics. However, this methodological study proved very fruitful with respect to the discovery of novel viruses: at least 21 new viruses were discovered among the six vegetative propagated tropical plant species that we have screened. Full characterization of these new viruses and the development of routine diagnostic tests for their presence are underway.

In addition to viral metagenomics, we have developed new diagnostic tests in collaboration with the University of Florida and the Kenyan Agricultural Research Institute using the loop mediated isothermal amplification (LAMP) method to detect two sugarcane pathogens (Sugarcane yellow leaf virus and Xanthomonas albilineans).

Epidemiology and ecology of plant viruses

We have conducted viral geo-metagenomics studies in both the Western Cape region of South Africa and the Camargue region of France in collaboration with the University of Cape Town and The Tour du Vallat. In these studies we determined the spatial distributions of host plants and various groups of both known and previously unknown plant viruses. Notably, for three out of the four sampling surveys carried out in these areas, plant virus community occurrences associated with cultivated areas were found to be significantly greater than those associated with non-cultivated areas. These results emphasize the impacts of human activity on plant virus dynamics at the agro-ecosystem scale.
Besides viral geo-metagenomics studies, molecular genotyping of Sugarcane yellow leaf virus and Sugarcane bacilliform virus from Guadeloupe were performed. Several key-results relating to the epidemiology and ecology of these viruses were published, including the identification of a correlation between aphid dynamics in field environments and Sugarcane yellow leaf virus spread and the polyphyletic structure of Sugarcane bacilliform virus isolates.

Recent results

Plant virus discovery and diagnostics
Within the framework of an ANR project (SafePGR; 2012-2015) and in collaboration with INRA and the Universities of Madeira and Azores, we have compared several viral metagenomics-based approaches to evaluate future prospects for applying these in a quarantine diagnostic context. We have found that at present viral metagenomics-based methods are not yet reliable or inexpensive enough to be routinely used in efficient quarantine diagnostics. However, this methodological study proved very fruitful with respect to the discovery of novel viruses: at least 21 new viruses were discovered among the six vegetative propagated tropical plant species that we have screened. Full characterization of these new viruses and the development of routine diagnostic tests for their presence are underway.

In addition to viral metagenomics, we have developed new diagnostic tests in collaboration with the University of Florida and the Kenyan Agricultural Research Institute using the loop mediated isothermal amplification (LAMP) method to detect two sugarcane pathogens (Sugarcane yellow leaf virus and Xanthomonas albilineans).

Epidemiology and ecology of plant viruses
We have conducted viral geo-metagenomics studies in both the Western Cape region of South Africa and the Camargue region of France in collaboration with the University of Cape Town and The Tour du Vallat. In these studies we determined the spatial distributions of host plants and various groups of both known and previously unknown plant viruses. Notably, for three out of the four sampling surveys carried out in these areas, plant virus community occurrences associated with cultivated areas were found to be significantly greater than those associated with non-cultivated areas. These results emphasize the impacts of human activity on plant virus dynamics at the agro-ecosystem scale.

Besides viral geo-metagenomics studies, molecular genotyping of Sugarcane yellow leaf virus and Sugarcane bacilliform virus from Guadeloupe were performed. Several key-results relating to the epidemiology and ecology of these viruses were published, including the identification of a correlation between aphid dynamics in field environments and Sugarcane yellow leaf virus spread and the polyphyletic structure of Sugarcane bacilliform virus isolates.

Diversity and evolution of viruses that are integrated into host genomes
Endogenous viral sequences are essentially ‘fossil records’ that can sometimes reveal the genomic features of long extinct virus species. We have characterized two new classes of endogenous plant virus sequences that are apparently derived from ancient Geminiviruses in the genus Begomovirus. These two endogenous Geminivirus-like elements (EGV1 and EGV2) are present in the genomes of many yam species. Interestingly, we show that these two endogenous viral sequences are transcriptionally active and that they may express functionally relevant proteins.

Bioinformatics
We have developed multiple pipelines and metagenomics databases over the last few years. For instance, we have developed an annotation pipeline for 454 pyrosequencing data analysis that yields taxonomic annotations of viral sequences from multiplex sequencing experiments and a pipeline that deals with the in silico screening of publically available expressed sequence tag data (EST).

Outcomes of research
Besides the viral metagenomics that have in the past been routinely carried out in our laboratory, microbial metagenomics, including microbial barcoding and culturomics, will be developed in 2016-2017. Our goals are to improve our quarantine sugarcane viral and bacterial diagnostics and increase our over-all understanding of the diversity and ecological/epidemiological impacts of plant-associated microbiota.
Our studies will focus both on the impacts of plant-associated viruses and bacteria on plant health, and on the emergence/containment of plant diseases at multiple ecological scales (plant, field, landscape). Various working hypotheses relating to these topics will be tested within the context of two PhD projects focusing on two reference crops (black-eyed pea in Burkina Faso and rice in Yunnan, China). In the case of the Chinese project, we will specifically study whether the microbiota of rice from the Yuanyang terraces, an important and highly sustainable heritage agricultural system, is directly or indirectly limiting the occurrence and spread of rice pathogens in the Yuanyang region.

Sugarcane Quarantine (Visacane)
Visacane, the Cirad sugarcane quarantine service, is a hub for safe international sugarcane variety exchanges (100-130 varieties/year). Visacane aims at detecting pathogens present within imported sugarcane varieties, cleaning sugarcanes from these pathogens and ultimately transferring healthy material to our partners. Visacane imports and exports varieties to at least 30 producing countries either sugar estates or breeding centers. Variety breeders’ right are guaranteed by appropriate contract.
Besides producing healthy cane cuttings, the quarantine service is involved in international expertise (plant disease, research and development) and in international training (for example: molecular detection of sugarcane diseases performed in Montpellier).


Scientific collaborations and national/international networks
• Plant Virus Ecology Network
• French Network on Xanthomonads
• INRA metaprogram MEM, Pathobiome group
• International Society of Sugar Cane Technologist.
• International Association of Professionals in Sugar and Integrated Technologies

Publications back to top of page

2016
Amata R., Fernandez E., Filloux D., Martin D.P., Rott P.C., Roumagnac P. (2016). Prevalence of Sugarcane yellow leaf virus in sugarcane producing regions in Kenya revealed by reverse transcription loop-mediated isothermal amplification method. Plant Disease. In Press.

Jacques MA, Arlat M, Boulanger A, Boureau T, Carrère S, Cesbron S, Chen NW, Cociancich S, Darrasse A, Denancé N, Fischer-Le Saux M, Gagnevin L, Koebnik R, Lauber E, Noël LD, Pieretti I, Portier P, Pruvost O, Rieux A, Robène I, Royer M, Szurek B, Verdier V, Vernière C. 2016. Using ecology, physiology, and genomics to understand host specificity in Xanthomonas. Annual Review of Phytopathology, 54:163-187.

2015
Roossinck M.J., Martin D.P., Roumagnac P. (2015). Plant Virus Metagenomics: Advances in Virus Discovery. Phytopathology, 105: 716-727.

Kraberger S., Farkas K., Bernardo P., Booker C., Argüello-Astorga G., Mesleard F., Martin D.P., Roumagnac P., Varsani A. (2015). Identification of novel Bromus- and Trifolium-associated circular DNA viruses. Archives of Virology, 160 (5): 1303-1311.

Delaunay A., Dallot S., Filloux D., Dupuy V., Roumagnac P., Jacquot E. 2015. SNaPshot and CE-SSCP: two simple and cost-effective methods to reveal genetic variability within a virus species. In: Lacomme Christophe (ed.). Plant pathology: techniques and protocols. New York: Springer [Etats-Unis], p. 187-206. (Methods in Molecular Biology, 1302). http://dx.doi.org/10.1007/978-1-4939-2620-6_15

Filloux D., Dallot S., Delaunay A., Galzi S., Jacquot E., Roumagnac P. 2015. Metagenomics approaches based on virion-associated nucleic acids (VANA): an innovative tool for assessing without A priori viral diversity of plants. In : Lacomme Christophe (ed.). Plant pathology: techniques and protocols. New York : Springer [Etats-Unis], p. 249-257. (Methods in Molecular Biology, 1302). http://dx.doi.org/10.1007/978-1-4939-2620-6_18

Filloux D., Murrell S., Koohapitagtam M., Golden M., Julian C., Galzi S., Uzest M., Rodier-Goud M., D'Hont A., Vernerey M.S., Wilkin P., Peterschmitt M., Winter S., Murrell B., Martin D.P., Roumagnac P. 2015. The genomes of many yam species contain transcriptionally active endogenous geminiviral sequences that may be functionally expressed. Virus Evolution, 1 (1): 17 p. http://dx.doi.org/10.1093/ve/vev002

Leduc A., Traoré Y.N., Boyer K., Magne M., Grygiel P., Juhasz C.C., Boyer C., Guérin F., Wonni I., Ouédraogo L., Vernière C., Ravigné V., Pruvost O. 2015. Bridgehead invasion of a monomorphic plant pathogenic bacterium: Xanthomonas citri pv. citri, an emerging citrus pathogen in Mali and Burkina Faso. Environmental Microbiology, 17 (11): p. 4429-4442. http://dx.doi.org/10.1111/1462-2920.12876

Mensi I., Daugrois J.H., Pieretti I., Gargani D., Fleites L., Noëll J., Bonnot F., Gabriel D. W., Rott P. 2015. Molecular Plant Pathology, 11 p. Surface polysaccharides and quorum sensing are involved in the attachment and survival of Xanthomonas albilineans on sugarcane leaves. http://dx.doi.org/10.1111/mpp.12276

Pruvost O., Goodarzi T., Boyer K., Soltaninejad H., Escalon A., Alavi S.M., Javegny S., Boyer C., Cottyn B., Gagnevin L., Vernière C. 2015. Genetic structure analysis of strains causing citrus canker in Iran reveals the presence of two different lineages of Xanthomonas citri pv. citri pathotype A*. Plant Pathology, 64 (4): p. 776-784. http://dx.doi.org/10.1111/ppa.12324

Roumagnac P., Granier M., Bernardo P., Deshoux M., Ferdinand R., Galzi S., Fernandez E., Julian C., Abt I., Filloux D., Mesleard F., Varsani A., Blanc S., Martin D.P., Peterschmitt M. 2015. Alfalfa leaf curl virus: an aphid-transmitted geminivirus. Journal of Virology, 89 (18) : p. 9683-9688. http://dx.doi.org/10.1128/JVI.00453-15

Wang N., Jin T., Trivedi P., Setubal J.C., Tang J., Machado M.A., Triplett E., Coletta-Filho H.D., Cubero J., Deng X., Wang X., Zhou C., Ancona V., Lu Z., Dutt M., Borneman J., Rolshausen P.E., Roper C., Vidalakis G., Capote N., Catara V., Pietersen G., Al-Sadi A.M., Srivastava A.K., Graham J.H., Leveau J., Ghimire S.R., Vernière C., Zhang Y. 2015. Announcement of the international citrus microbiome (phytobiome) consortium. Journal of Citrus Pathology, 2 (1): p. 1-2. http://escholarship.org/uc/item/5xp3v2rc#page-1

2014
Acina Manbole I.N., Bonheur L., Svanella-Dumas L., Filloux D., Gomez R.M., Faure C., Lange D., Anzala F., Pavis C., Marais A., Roumagnac P., Candresse T., Teycheney P.Y. 2014. Molecular characterization of yam virus X, a new potexvirus infecting yams (Dioscorea spp) and evidence for the existence of at least three distinct potexviruses infecting yams. Archives of virology, 159 (12) : 3421-3426. http://dx.doi.org/10.1007/s00705-014-2211-3

Candresse T., Filloux D., Muhire B., Julian C., Galzi S., Fort G., Bernardo P., Daugrois J.H., Fernandez E., Martin D.P., Varsani A., Roumagnac P. 2014. Appearances can be deceptive: Revealing a hidden viral infection with deep sequencing in a plant quarantine Context. PLoS One, 9 (7) : e102945 (13 p.). http://dx.doi.org/10.1371/journal.pone.0102945

Daugrois J.H., Boisne-Noc R., Rott P. 2014. Leaf surface colonization of sugarcane by Xanthomonas albilineans and subsequent disease progress vary according to the host cultivar. Plant disease, 98 (2) : 191-196. http://dx.doi.org/10.1094/PDIS-02-13-0195-RE

Débibakas S., Rocher S., Garsmeur O., Toubi L., Roques D., D'Hont A., Hoarau J.Y., Daugrois J.H. 2014. Prospecting sugarcane resistance to Sugarcane yellow leaf virus by genome-wide association. Theoretical and applied genetics, 127 (8) : 1719-1732. http://dx.doi.org/10.1007/s00122-014-2334-7

François S., Bernardo P., Filloux D., Roumagnac P., Yaverkovski N., Froissart R., Ogliastro M. 2014. A novel itera-like densovirus isolated by viral metagenomics from the sea barley Hordeum marinum. Genome Announcements, 2 (6) : e01196 (2 p.). http://dx.doi.org/10.1128/genomeA.01196-14

Frouin J., Filloux D., Taillebois J.E., Grenier C., Montes F., De Lamotte F., Verdeil J.L., Courtois B., Ahmadi N. 2014. Positional cloning of the rice male sterility gene ms-IR36, widely used in the inter-crossing phase of recurrent selection schemes. Molecular breeding, 33 (3) : 555-567. http://dx.doi.org/10.1007/s11032-013-9972-3

Girard J.C., Noëll J., Larbre F., Roumagnac P., Rott P. 2014. First report of Acidovorax avenae subsp. avenae causing sugarcane red stripe in Gabon. Plant disease, 98 (5) : 684. http://dx.doi.org/10.1094/PDIS-09-13-0914-PDN

Seal S., Turaki A., Muller E., Lava Kumar P., Kenyon L., Filloux D., Galzi S., Lopez-Montes A., Iskra Caruana M.L. 2014. The prevalence of badnaviruses in West African yams (Dioscorea cayenensis-rotundata) and evidence of endogenous pararetrovirus sequences in their genomes. Virus research, 186 : 144-145. International Plant Virus Epidemiology Symposium. 12, 2013-01-28/2013-02-01, Arusha, Tanzanie. http://dx.doi.org/10.1016/j.virusres.2014.01.007

Umber M., Filloux D., Muller E., Laboureau N., Galzi S., Roumagnac P., Iskra Caruana M.L., Pavis C., Teycheney P.Y., Seal S. 2014. The genome of African yam (Dioscorea cayenensis-rotundata complex) hosts endogenous sequences from four distinct badnavirus species. Molecular plant pathology, 15 (8) : 790-801. http://dx.doi.org/10.1111/mpp.12137

Vayssier-Taussat M., Albina E., Citti C., Cosson J.F., Jacques M.A., Lebrun M.H., Le Loir Y., Ogliastro M., Petit M.A., Roumagnac P., Candresse T. 2014. Shifting the paradigm from pathogens to pathobiome: new concepts in the light of meta-omics. Frontiers in Cellular and Infection Microbiology, 4 (29) : 7 p. http://dx.doi.org/10.3389/fcimb.2014.00029

2013
Bernardo P., Albina E., Eloit M., Roumagnac P. 2013. Métagénomique virale et pathologie. MS-Médecine Sciences, 29 (5): 501-508. <URL: http://dx.doi.org/10.1051/medsci/2013295013>

Bernardo P., Golden M., Akram M., Naimuddin, Nadarajan N., Fernandez E., Granier M., Rebelo A., Peterschmitt M., Martin D.P., Roumagnac P. 2013. Identification and characterisation of a highly divergent geminivirus: Evolutionary and taxonomic implications. Virus Research, 177 (1): 35-45. <URL: http://dx.doi.org/10.1016/j.virusres.2013.07.006>

Gouy M., Rousselle Y., Bastianelli D., Lecomte P., Bonnal L., Roques D., Efile J.C., Rocher S., Daugrois J.H., Toubi L., Nabeneza S., Hervouet C., Telismart H., Denis M., Thong-Chane A., Glaszmann J.C., Hoarau J.Y., Nibouche S., Costet L. 2013. Experimental assessment of the accuracy of genomic selection in sugarcane. Theoretical and Applied Genetics, 126 (10): 2575-2586. <URL: http://dx.doi.org/10.1007/s00122-013-2156-z>

Guinet-Brial I., Girard J.C., Roumagnac P., Daugrois J.H., Fernandez E., Rott P. 2013. Visacane: an innovative quarantine tool for the exchange of pest and disease-free sugarcane germplasm. In : Proceedings of the XXVIII ISSCT Congress, São Paulo, Brazil 2013 june 24-27. S.l. : D.M. HOGARTH. Proc. Int. Soc. Sugar Cane Technol., Vol. 28 pp 1150-1162

Mensi I., Girard J.C., Pieretti I., Larbre F., Roumagnac P., Royer M., Rott P. 2013. First report of Sugarcane leaf scald in Gabon caused by a highly virulent and aggressive strain of Xanthomonas albilineans. Plant Disease, 97 (7): 988. <URL: http://dx.doi.org/10.1094/PDIS-01-13-0044-PDN>

Rott P., Fleites L., Mensi I., Sheppard L., Daugrois J.H., Dow J.M., Gabriel D.W. 2013. The RpfCG two-component system negatively regulates the colonization of sugarcane stalks by Xanthomonas albilineans. Microbiology-SGM, 159 (6): 1149-1159. <URL: http://dx.doi.org/10.1099/mic.0.0657480>

2012
Daugrois J.H., Boisne-Noc R., Champoiseau P., Rott P. 2012. The revisited infection cycle of Xanthomonas albilineans, the causal sgent of leaf scald of sugarcane. Functional Plant Science and Biotechnology, 6 (2 special issue): 91-97.

Girard J.C., Fernandez E., Daugrois J.H., Roques D., Roumagnac P., Rott P. 2012. Genetic diversity of Sugarcane yellow leaf disease in a sugarcane selection plot in Guadeloupe (FWI). International Sugar Journal, 114 (1358): 96-100.

Roumagnac P., Richaud P., Barakat M., Ortet P., Roncato M.A., Heulin T., Peltier G., Achouak W., Cournac L. 2012. Reversible oxygen-tolerant hydrogenase carried by free-living N2-fixing bacteria isolated from the rhizospheres of rice, maize, and wheat. [Open Access]. MicrobiologyOpen, 1 (4): 349-361. <URL: http://dx.doi.org/10.1002/mbo3.37>

2011
Accou-Demartin M., Gaborieau V., Song Y., Roumagnac P., Marchou B., Achtman M., Weill F.-X. 2011. Salmonella enterica serotype typhi with nonclassical quinolone resistance phenotype. [Open Access]. Emerging Infectious Diseases, 17 (6): 1091-1094. <URL: http://dx.doi.org/10.3201/eid1706.101242>

Daugrois J.H., Edon-Jock C., Bonotto S., Vaillant J., Rott P. 2011. Spread of Sugarcane yellow leaf virus in initially disease-free sugarcane is linked to rainfall and host resistance in the humid tropical environment of Guadeloupe. European Journal of Plant Pathology, 129 (1): 71-80. <URL: http://dx.doi.org/10.1007/s10658-010-9693-y>

Martin D.P., Biagini P., Lefeuvre P., Golden M., Roumagnac P., Varsani A. 2011. Recombination in Eukaryotic single stranded DNA viruses. [Open Access]. Viruses, 3 (9): 1699-1738. <URL: http://dx.doi.org/10.3390/v3091699>

Muller E., Dupuy V., Blondin L., Bauffe F., Daugrois J.H., Laboureau N., Iskra Caruana M.L. 2011. High molecular variability of sugarcane bacilliform viruses in Guadeloupe implying the existence of at least three new species. Virus Research, 160 (01-févr): 414-419. <URL: http://dx.doi.org/10.1016/j.virusres.2011.06.016>

Saumtally A.S., Viremouneix T.R., Ahondokpê B., Girard J.C., Castlebury L.A., Dixon L., Glynn N.C., Comstock J.C. 2011. First report of orange rust of sugarcane caused by Puccinia kuehnii in Ivory Coast and Cameroon. Plant Disease, 95 (3): 357. <URL: http://dx.doi.org/10.1094/PDIS-09-10-0690>

Vaillant J., Puggioni G., Waller L.A., Daugrois J.H. 2011. A spatio-temporal analysis of the spread of Sugarcane yellow leaf disease. Journal of Time Series Analysis, 32 (4): 396-406. <URL: http://dx.doi.org/10.1111/j.1467-9892.2011.00730.x>

Vogler A.J., Chan F., Wagner D.M., Roumagnac P., Lee J., Nera R., Eppinger M., Ravel J., Rahalison L., Rasoamanana B.W., Beckstrom-Sternberg S.M., Achtman M., Chanteau S., Keim P. 2011. Phylogeography and molecular epidemiology of Yersinia pestis in Madagascar. [Open Access]. PLoS Neglected Tropical Diseases, 5 (9): e1319 [11 p.]. <URL: http://dx.doi.org/10.1371/journal.pntd.0001319>

2010
Côte F., Galzi S., Folliot M., Lamagnère Y., Teycheney P.Y., Iskra Caruana M.L. 2010. Micropropagation by tissue culture triggers differential expression of infectious endogenous Banana streak virus sequences (eBSV) present in the B genome of natural and synthetic interspecific banana plantains. Molecular Plant Pathology, 11 (1): 137-144. <URL: http://dx.doi.org/10.1111/J.1364-3703.2009.00583.X>

Morelli G., Song Y., Mazzoni C.J., Eppinger M., Roumagnac P., Wagner D.M., Feldkamp M., Kusecek B., Vogler A.J., Li Y., Cui Y., Thomson N.R., Jombart T., Leblois R., Lichtner P., Rahalison L., Petersen J.M., Balloux F., Keim P., Wirth T., Ravel J., Yang R., Carniel E., Achtman M. 2010. Yersinia pestis genome sequencing identifies patterns of global phylogenetic diversity. Nature Genetics, 42 (12): 1140-1143. <URL: http://dx.doi.org/10.1038/ng.705>

Sangal V., Harbottle H., Mazzoni C.J., Helmuth R., Guerra B., Didelot X., Paglietti B., Rabsch W., Brisse S., Weill F.-X., Roumagnac P., Achtman M. 2010. Evolution and population structure of Salmonella enterica serovar Newport. Journal of Bacteriology, 192 (4): 6465-6476. <URL: http://dx.doi.org/10.1128/JB.00969-10>

Song Y., Roumagnac P., Weill F.-X., Wain J., Dolecek C., Mazzoni C.J., Holt K.E., Achtman M. 2010. A multiplex single nucleotide polymorphism typing assay for detecting mutations that result in decreased fluoroquinolone susceptibility in Salmonella enterica serovars Typhi and Paratyphi A. Journal of Antimicrobial Chemotherapy, 65 (8): 1631-1641. <URL: http://dx.doi.org/10.1093/jac/dkq175>

Chimard F., Vaillant J., Daugrois J.H., 2010. Modélisation de répartitions d’occurrences-spatio-temporelles et épidémiologie végétale. 9ème rencontre ThéoQuant 2009, ISSN : 1769-6895 http://thema.univ-fcomte.fr/theoq/fr/publications.php?menus=publications

 


PhD back to top of page

Pascal Alonso : 2016-2019
Etude du virome et du microbiote d'un système rizicole séculairement durable en Chine

Carolina FLORES MARQUEZ
: 2014-2017
Characterization of cassava bacterial blight in Venezuela: population diversity of Xanthomonas axonopodis pv. manihotis and its talome / Caractérisation du dépérissement bactérien du manioc au Vénézuela : diversité des populations de Xanthomonas axonopodis pv. manihotis et de son Talome.

Leidy RACHE : 2014 -2017
Genetic diversity and molecular epidemiology of Xanthomonas axonopodis pv. manihotis agent of cassava bacterial blight in Columbia / Diversité génétique et épidémiologie moléculaire de Xanthomonas axonopodis pv. manihotis agent du dépérissement bactérien du manioc en Colombie.

Essowé Palanga : 2013-2016
Amélioration de la lutte contre les maladies virales du niébé au Togo et au Burkina Faso par une caractérisation génétique et pathologique du phytovirome et par la recherche chez la plante de sources de résistance. (Financement : SCAC)

Pauline BERNARDO : 2011-2014
La géo-métagénomique : déchiffrer les dynamiques spatiales, démographiques et évolutives des phytovirus associés à deux agro-écosystèmes à climat méditerranéen

Sarah DEBIBAKAS : 2009-2012
Impact de la diversité génétique du SCYLV sur les déterminismes de résistance de la canne à sucre à la maladie de la feuille jaune

asques et ascospores de Magnaporthe orizae - copyright : JL Notteghem spores Magnaporthe oryzae - copyright : JL Notteghem bactéries Xanthomonas pseudoalbilineans (gauche) et Xanthomonas albilineans (droite). Les deux produisent l'antibiotique albicidine (structure en haut de la photo - copyright : S. Cociancich/A. Mainz
  champignon Magnaporthe (vert) en train d'attaquer une feuille de riz - copyright : A. Delteil/JB Morel test d'anticorps sur puceron (Mysus persicae) - copyright : MS Vernerey/M. van Munster/M. Uzest