L’équipe CoMiC étudie les communautés microbiennes des écosystèmes continentaux terrestres et aquatiques dans un cadre interdisciplinaire qui allie la microbiologie, la génomique comparative, la métagénomique, la chimie, l’écologie, la santé, les sciences de l’environnement et les sciences sociales.
Plus précisément, nos recherches portent sur (i) la vulnérabilité des communautés microbiennes aux perturbations et polluants induits par l’activité humaine (ii), les flux et la diversité des pathogènes (des humains ou des plantes) dans l’environnement, (iii) le développement de nouveaux outils de surveillance des écosystèmes aquatiques et de nouvelles approches pour assurer une gestion durable de ces écosystèmes.
Notre travail, structuré autour du concept « one health/ecohealth », se développe sur deux axes principaux :
Biodiversité structurelle et fonctionnelle des communautés microbiennes, leurs interactions et leurs rôles dans la fonction des écosystèmes où nous étudions :
- La relation entre la structure et la composition des communautés microbiennes et les flux de carbone organique et d’azote ou de polluants dans les écosystèmes.
- L’impact des changements locaux et globaux sur la dynamique et la structure des communautés microbiennes et sur les processus microbiens impliqués dans la dynamique des cycles C et N.
- Les conséquences de ces changements dans les communautés microbiennes sur les services écosystémiques rendus par les écosystèmes et sur les usages qui en sont faits.
Qualité écologique des écosystèmes continentaux- (dys)-fonctionnement des communautés microbiennes et risques associés pour la santé humaine et la production végétale où nous étudions :
- La relation entre la qualité écologique des écosystèmes continentaux (matière organique, niveau trophique, structure et composition des communautés microbiennes, …) et la survie et/ou le développement de bactéries pathogènes pour les plantes ou les humains.
- Les proliférations de cyanobactéries dans les écosystèmes aquatiques continentaux et la production de toxines, depuis la compréhension des processus (mise en place, synergie avec les micro-organismes hétérotrophes…) jusqu’à la mise au point d’outils de surveillance de ces proliférations et le développement de nouvelles approches pour la gestion des écosystèmes aquatiques.
- Les risques d’exposition humaine aux pathogènes bactériens et aux toxines des cyanobactéries en relation avec les usages des sols et des milieux aquatiques.
- L’adaptation des pathogènes à l’environnement par des approches de génomique comparative
Dans un contexte de changement global et local présent et futur, les chercheurs de CoMiC visent à :
- placer leur travail dans un cadre théorique et conceptuel solide ;
- apporter des réponses ciblées aux besoins spécifiques de la société et des parties prenantes dans les pays développés, émergents et en développement.
Les membres de l’équipe ont tous une forte implication dans les activités d’enseignement, en particulier à Sorbonne Université, mais aussi dans d’autres Universités (UPEC, Université de Paris) ou dans les écoles agronomiques (Agroparistech, ISARA de Lyon) ainsi que dans les pays du Sud (Côte d’Ivoire, Ouganda, Laos, Niger, Sénégal, Vietnam, Thaïlande) et dans la formation continue des chercheurs et personnels scientifiques des pays du Sud.
Quelques exemples de nos recherches
Les maladies liées à l’eau sont un problème de santé publique majeur ainsi qu’un obstacle au développement dans les pays tropicaux. Dans le nord du Laos, l’expansion rapide des plantations de teck (barres brunes, figure de gauche) a considérablement augmenté le ruissellement des eaux chargées de sédiments, entraînant des inondations (image centrale) qui transportent des eaux très turbides sévèrement contaminées par des bactéries pathogènes (graphique de droite).
References
- Rochelle-Newall E, Viguier M, Thammahacksa C., Silvera N., Latsachack K., Dinh R.P., Naporn P, Sy H.T., Soulileuth B, Hmaimum N., Sisouvanh P., Robain H., Janeau J.-L., Valentin C., Boithias L., Pierret A. (2016) Effect of land use and hydrological processes on Escherichia coli concentrations in streams of tropical, humid headwater catchments. Scientific Reports 6:32974. http://dx.doi.org/10.1038/srep32974
- Lacombe G., Ribolzi O., De Rouw A., Pierret A., Latsachack K., Silvera N., Dinh R.P., Orange D., Janeau J.-L., Soulileuth B., Robain H., Taccoen A., Sengphaathith P., Mouche E., Sengtaheuanghoung O., Duc T.T., Valentin C. (2016). Contradictory hydrological impacts of afforestation in the humid tropics evidenced by long-term field monitoring and simulation modeling. Hydrol. Earth Syst. Sci., 20, 2691–2704. http://dx.doi.org/10.5194/hess-20-2691-2016
- Boithias L., Choisy M., Souliyaseng N., Jourdren M., Quet F., Buisson Y, Thammahacksa C., Silvera N., Latsachack K, Sengtaheuanghoung O., Pierret A., Rochelle-Newall E., Becerra S., Ribolzi O. (2017) Hydrological regime and water shortage as drivers of the seasonal incidence of diarrheal diseases in a tropical montane environment. PLOS Neglected Tropical Diseases http://dx.doi.org/10.1371/journal.pntd.0005195
- Ribolzi O., Evrard O., Huon S., De Rouw A., Silvera N., Latsachack K.O., Soulileuth B., Lefevre I., Pierret A., Lacombe G., Sengtaheuanghoung O., Valentin C. (2017) From shifting cultivation to teak plantation: effect on overland flow and sediment yield in a montane tropical catchment. Scientific Reports – Nature, 2017, 7, p. art. 3987 [12 p.]. ISSN 2045-2322. http://dx.doi.org/10.1038/s41598-017-04385-2
- Lacombe G., Valentin C, Sounyafong P., De Rouw A, Soulileuth B., Silvera N, Pierret A, Sengtaheuanghoung O., Ribolzi O (2018). Linking crop structure, throughfall, soil surface conditions, runoff and soil detachment : 10 land uses analyzed in Northern Laos. Science of the Total Environment, 2018, 616, p. 1330-1338. ISSN 0048-9697. http://dx.doi.org/10.1016/j.scitotenv.2017.10.185
Ribolzi O., Lacombe G., Pierret A., Robain H., Sounyafong P., De Rouw A., Soulileuth B., Mouche E., Huon S., Silvera N., Latxachack K.O., Sengtaheuanghoung O., Valentin C. (2018) Interacting land use and soil surface dynamics control groundwater outflow in a montane catchment of the lower Mekong basin. Agriculture, Ecosystems & Environment, 268: 90-102. https://doi.org/10.1016/j.agee.2018.09.005
Song L., Boithias, L., Sengtaheuanghoung, O., Oeurng C., Valentin C., Souksavath B., Sounyafong P., De Rouw A., Soulileuth B., Silvera N., Lattanavongkhot B., PierretA., Ribolzi O. (2020). Understory limits surface runoff and soil loss in teak tree plantations of Northern Lao PDR. Water,12(9), 2327; https://doi.org/10.3390/w12092327
Nakhle P., Ribolzi O., Boithias L., Rattanavong S., Auda Y., Sayavong S., Zimmermann R.E., Soulileuth B., Pando A., Tammahacksa C., Rochelle-Newall E., Santini W., Martinez J.-M., Gratiot N., Pierret A. (2021) Effects of hydrological regime and land use on in-stream Escherichia coli concentration in the Mekong basin, Lao PDR. Accepted.
Burkholderia pseudomallei est un pathogène environnemental endémique dans les sols et les eaux de l’Asie du Sud-Est, responsable de la mélioïdose, une maladie particulièrement grave dont le taux de mortalité varie entre 20 et 50%. La connaissance de la distribution environnementale de B. pseudomallei est le préalable essentiel pour comprendre son écologie et épidémiologie et ainsi permettre des interventions de santé publique. Au Laos, nous développons depuis 2011 un programme multidisciplinaire pour comprendre les facteurs environnementaux qui déterminent l’occurrence et la propagation hydrologique du pathogène.
Ce programme a ainsi révélé la saisonnalité marquée de la contamination du réseau hydrographique au Laos (stations et rivières positives pour B. pseudomallei (points rouges) et négatives (points noirs) pendant la saison sèche (A) et la saison des pluies (B) ; photo de gauche : Dr Sayaphet Rattanavong échantillonnant des sédiments pour la détection environnementale de B. pseudomallei).
Références
- Knappik M., Dance D., Rattanavong S., Pierret A., Ribolzi O., Davong V., Silisouk J., Vongsouvath M. (2015) Evaluation of molecular methods to improve the detection of Burkholderia pseudomallei in soil and water samples from Laos. Applied and Environmental Microbiology (2015). http://aem.asm.org/content/early/2015/03/23/AEM.04204-14.abstract
- Ribolzi O, Rochelle-Newall E, Dittrich S, Auda Y, Newton PN, Rattanavong S, Knappik M, Soulileuth B, Sengtaheuanghoung O, Dance DAB, Pierret A. (2016) Land use and soil type determine the presence of the pathogen Burkholderia pseudomallei in tropical rivers. Environmental Science and Pollution Research. http://dx.doi.org/10.1007/S11356-015-5943-z
- Manivanh L., Pierret A., Rattanavong S., Kounnavongsa O., Buisson Y., Elliott I., Maeght J.-L., Xayyathip K., Silisouk J., Vongsouvath M., Phetsouvanh R., Newton P.N., Lacombe G., Ribolzi O., Rochelle-Newall E, Dance, D.A.B. (2017) Burkholderia pseudomallei in a lowland rice paddy: seasonal changes and influence of soil depth and physico-chemical properties. Scientific Reports – Nature, 2017, 7, p. art. 3031 [11 p.]. http://dx.doi.org/10.1038/s41598-017-02946-z
- Zimmermann R. E., Ribolzi O., Pierret A, Rattanavong S., Robinson M.T., Newton P.N., Davong V., Auda Y., Zopfi J., Dance D.A.B. (2018) Rivers as carriers and potential sentinels for Burkholderia pseudomallei in Laos. Scientific Reports – Nature, 2018, 8, p. art. 8674 [7p.]. ISSN 2045-2322. http://dx.doi.org/10.1038/s41598-018-26684-y
- Dance D.A.B., Knappik M., Dittrich S., Viengmon D., Silisouk J., Vongsouvath M., Rattanavong S., Pierret A., Newton P.N., Langla S., Limmathurotsakul D. (2018) Evaluation of consensus method for the culture of Burkholderia pseudomallei in soil samples from Laos. Wellcome Open Research. http://dx.doi.org/ 10.12688/wellcomeopenres.14851.2
- Liechti N., Zimmermann R.E., Zopfi J., Robinson M., Pierret A., Ribolzi O., Rattanavong S., Davong V., Newton P.N., Wittwer M., Dance D.A.B. (2021) Whole-genome assemblies of 16 Burkholderia pseudomallei isolates from rivers in Laos. Microbiology Resource Announcements, accepted.
Le projet vise à mieux comprendre la synergie entre la qualité de la matière organique (MO) dissoute (MOD) et particulaire (MOP) issue des blooms de cyanobactéries et les communautés microbiennes hétérotrophes (Figure 1). Les expériences conduites en conditions contrôlées (Figure 2) simulaient une fin de bloom de la cyanobactérie Microcystis aeruginosa (M), de la cyanobactérie Aphanizomenon gracile (A) et du mélange des deux (MA), en comparaison à une situation contrôle (C). Nous avons déterminé la contribution des communautés microbiennes hétérotrophes à la dégradation de la MO cyanobactérienne (Figure 3), et si cette contribution pouvait être affectée par (i) le mode de vie de ces microorganismes (libres et attachés), et (ii) la ou les espèce(s) cyanobactérienne(s) majoritaire(s).
Nous avons déterminé la dynamique des microorganismes, en termes de diversité (Figure 4), fonctions et diversité fonctionnelle, en fonction de la nature et de la complexité de la MO. Le suivi des pools de MO dissoute et particulaire nous ont permis d’étudier l’évolution de leurs quantités et qualités chimiques au cours de leur minéralisation (Figure 5).
Références
- Berg, J.S., Jézéquel, D., Duverger, A., Lamy, D., Laberty-Robert, C., Miot, J. (2019) Microbial diversity involved in iron and cryptic sulfur cycling in the ferruginous, low-sulfate waters of Lake Pavin, PLoS One, 14:e0212787
- Vojvoda, J., Lamy, D., Sintes, E., Garcia, J.A.L, Turk, V., Herndl, G.J. (2014) Seasonal variation in marine-snow-associated and ambient-water prokaryotic communities in the northern Adriatic Sea. Aquatic Microbial Ecology, 73:211-224
- Swan, B.K., Martinez-Garcia, M., Preston, C.M., Sczyrba, A., Woyke, T., Lamy, D., Reinthaler, T., Poulton, N.J., Masland, E.D.P., Lluesma Gomez, M., Sieracki, M.E., DeLong, E.F., Herndl, G.J, Stepanauskas, R. (2011). Ubiquitous dark ocean bacteria fix carbon and contain RuBisCO and sulfur oxidation genes. Science, 333:1296-1300.
- Agogué, H.*, Lamy, D.*, , Neal, P., Sogin, M., Herndl, G. (2011) Bacterial assemblage composition in the North Atlantic Ocean revealed by massively parallel tag sequencing. Molecular Ecology, 20:258-274
- Lamy, D., Obernosterer, I., Laghdass, M., Breton, E., Catala, P., Artigas, L.F., Lebaron, P., Christaki, U. (2009) Seasonal changes in bacterial abundance, activity and community composition in the eastern English Channel: a case study during a Phaeocystis globosa bloom. Aquatic Microbial Ecology, 58: 95-107.
Les bactéries soft rot sont responsables de pourriture sur un grand nombre de plante (Figure 1). Historiquement, leur isolement était restreint aux plantes malades avec une forte prépondérance d’isolement sur pomme de terre, plante d’intérêt économique majeur (Figure 2). L’élargissement de l’échantillonnage aux eaux de surface du bassin versant de la Durance (Figure 3) a mis en évidence des espèces circulantes non encore répertoriée en France ainsi que des nouvelles espèces négligées ou absentes des plantes malades. Les espèces pathogènes agressives sur plantes sont rares dans l’eau suggérant une adaptation au biome d’isolement. La génomique comparative des espèces permettra de mieux comprendre l’adaptation des espèces à leur biome d’origine ainsi que l’évolution de ce groupe de bactérie.
Réferences
- Portier P., Pédron J., Taghouti G., Dutrieux C., Barny MA. (2020) Updated taxonomy of Pectobacterium genus in the CIRM-CFBP bacterial collection: when newly described species reveal “old” endemic population. Microorganism 8 :1441 doi:10.3390/microorganisms8091441
- Portier P., Pédron J., Taghouti G., Fisher-Lesaux M., Caullireau E., Bertrand C., Laurent A., Chawki K., Oulgazi S., Moumni M., Adrivon D., Dutrieux C., Faure D., Helias V., Barny MA. (2019) Elevation of three subspecies of Pectobacterium carotovorum to species level: Pectobacterium brasiliense nov., Pectobacterium actinidiae sp. nov, and Pectobacterium odoriferum sp. nov, emended description of Pectobacterium carotovorum and description of Pectobacterium versatile sp. nov. a novel species isolated in various geographic location from water streams and symptoms on diverse plants.. Int . J. Syst. Evol. Microbiol. 69, pp 3207 – 3216. doi: 10.1099/ijsem.0.003611.
- Pédron J., Bertrand C., Taghouti G., Portier P., Barny MA. (2019) Pectobacterium aquaticum nov, isolated from waterways Int. J. Syst. Evol. Microbiol. 69 :745-751. DOI 10.1099/ijsem.0.003229
- Faye P., Pédron J., Bertrand C., Barny MA. (2018) Draft genomes of ‘Pectobacterium peruviense’ strains isolated from fresh water in France. Short genome report. doi: 10.1186/s40793-018-0332-
Les amendements organiques, utilisés pour palier à la diminution des teneurs en C des sols ont un impact sur la croissance des plantes et les apports de C d’origine végétale au sol. Nous avons comparé l’impact d’amendements produits avec et sans minéraux en présence et en l’absence de vers de terre. Le carbone du sol provenant des racines a pu être suivi grâce à des microcosmes où des plantes étaient cultivées sous atmosphère enrichie en 13CO2, dans des mélanges terre plus compost ou lombricompost. Le C des racines était transféré au sol via des microorganismes situés à quelques micromètres des cellules de la racine. Ces microorganismes avaient incorporé plus de carbone dérivé des racines et étaient de plus grande taille dans le traitement avec lombricompost produit en présence de minéraux, ce qui reflète des conditions favorables à la croissance microbienne. Nous avons ainsi montré que la production d’amendement en présence de minéraux (argiles) avec l’action de vers de terre (Eisenia foetida) augmente la biomasse végétale et le transfert de carbone dans le sol.
Référence
- Vidal A., Lenhart T., Dignac M.-F., Biron P., Höschen C., Barthod J., Vedere C., Vaury V., Bariac T., Rumpel C. 2020. Promoting plant growth and carbon transfer to soil with organic amendments produced with mineral additives. Geoderma 374,114454. doi:10.1016/j.geoderma.2020.114454
Publications de l'équipe
Ne concerne que les publications de 2017 à aujourd’hui. Pour voir toutes les publications dirigez-vous vers la page Publications.
| Référence | Liens | Journal | Equipes et départements impliqués |
|---|---|---|---|
| Le, N. D.`, T. T. H. Hoang`, V. P. Phung`, T. L. Nguyen`, E. Rochelle-Newall*, T. T. Duong`, T. M. H. Pham`, T. X. B. Phung`, T. D. Nguyen`, P. T. Le`, L. A. Pham`, T. A. H. Nguyen` and T. P. Q. Le` (2022). “Evaluation of heavy metal contamination in the coastal aquaculture zone of the Red River Delta (Vietnam).” Chemosphere 303: 134952 | 10.1016/j.chemosphere.2022.134952 | Chemosphere | CoMiC – DCFE |
| Pongmala, K.~, A. Pierret*, P. Oliva, A. Pando*, V. Davong`, S. Rattanavong`, N. Silvera*, M. Luangraj`, L. Boithias, K. Xayyathip` L. Menjot, M. Macouin, E. Rochelle-Newall*, H. Robain*, A. Vongvixay`, A. J. H. Simpson, D. A. B. Dance and O. Ribolzi (2022). “Distribution of Burkholderia pseudomallei within a 300-cm deep soil profile: implications for environmental sampling.” Scientific Reports 12(1): 8674. | 10.1038/s41598-022-12795-0 | Scientific Reports | CoMiC – DCFE ; F2ZC – Sols_ZC ; BioDIS – DCFE |
| Boubacar Moussa, M., A. Abdourhamane Touré`, L. Kergoat, B. Lartiges, E. Rochelle-Newall*, E. Robert, M. Gosset, B. Alkali Tanimoun` and M. Grippa (2022). “Spatio-temporal dynamics of suspended particulate matter in the middle Niger River using in-situ and satellite radiometric measurements.” Journal of Hydrology: Regional Studies 41: 101106. | 10.1016/j.ejrh.2022.101106 | SOIL BIOLOGY & BIOCHEMISTRY | CoMiC – DCFE |
| Trévisan D.*, Janin C., Taillandier P., Sarrazin B. (2022). PSDR4 TIP TOP – Un outil sur les paysages agricoles, l’eau et la transition agroécologique. Innovations Agronomiques 86(2022), 123-135. | Innovations Agronomiques | CoMiC – DCFE |
|
| Fiard M., Cuny P., Hubas C., Jézéquel R., Lamy D.*, Walcker R., El Houssainy A., Heimbürger-Boavida L-E., Robinet T., Bihannic I., Gilbert F., Michaud E., Dirberg G., Militon C. (2022) Mangrove microbiota along the urban-to-rural gradient of the Cayenne estuary (French Guiana, SOuth America) : Drivers and potential bioindicators. Science of The Total Environment, 807, 150667 | 10.1016/j.scitotenv.2021.150667 | Science of the Total Environment | CoMiC – DCFE |
| Le, T. P. Q.`, N. D. Le`, T. T. H. Hoang`, E. Rochelle-Newall*, T. A. H. Nguyen`, L. M. Dinh`, T. T. Duong`, T. M. H. Pham`, T. D. Nguyen`, T. X. B. Phung`, T. Q. T. Nguyen`, T. H. Vu`, P. T. Le` and V. P. Phung` (2022). “Surface sediment quality of the Red River (Vietnam): impacted by anthropogenic and natural factors. International Journal of Environmental Science and Technology | 10.1007/s13762-022-03936-z | “International Journal of Environmental Science and Technology” | CoMiC – DCFE |
| Le H. T.~, Pommier T., Ribolzi O., Soulileuth B.`, Huon S.*, Silvera N.* and Rochelle-Newall E.* (2022) Overland flow during a storm event strongly affects stream water chemistry and bacterial community structure. Aquatic Sciences. 84 :00 1 | 10.1007/s00027-021-00839-y 🔗 HAL | Aquatic Sciences | CoMiC – DCFE ; F2ZC – Sols_ZC |
| Trévisan D.*, Taillandier P., Sarrazin B., Etienne D., Ayari N., Petiqueux C., Quétin P., Janin C. (2022). OPALE: Operational assessment of landscape water ecofunctionnalitities. Environmental Modelling and Software, 148, 105276. | 10.1016/j.envsoft.2021.105276 🔗 HAL | Environmental Modelling and Software | CoMiC – DCFE |
| Hajar Ben Moussa~, Jacques Pédron*, Claire Bertrand°, Amandine Hecquet° and Marie-Anne Barny* (2022) Pectobacterium quasiaquaticum sp. nov., isolated from waterways. International Journal of systematic and evolutionary microbiology | 10.1099/ijsem.0.005042 🔗 HAL | International Journal of systematic and evolutionary microbiology | CoMiC – DCFE |
| Robert E, Grippa M, Nikiema DE` , Kergoat L, Koudougou H`, Auda Y, Rochelle-Newall, E*. (2021) Environmental determinants of E. coli, link with the diarrheal diseases, and indication of vulnerability criteria in tropical West Africa (Kapore, Burkina Faso). PLoS Negl Trop Dis 15(8): e0009634. | 10.1371/journal.pntd.0009634 🔗 HAL | PloS Neglected Tropical Diseases | CoMiC – DCFE |
| Bettarel Y, Boudin E, Halary S, Auguet J, Péronnin J, Bouvier T, Rochelle-Newall E*, Bui V` and Desnues C (2021) The Hungry Snail, the Fragile Coral, and the Friendly Microbe. Front. Young Minds. 9:573856. doi: 10.3389/frym.2021.573856 | 10.3389/frym.2021.573856 | Frontiers for Young Minds | CoMiC – DCFE |
| Nakhle, P.; Boithias, L.; Pando-Bahuon, A*.; Thammahacksa,C.`; Gallion, N.; Sounyafong, P`.; Silvera, N*.; Latsachack, K.`; Soulileuth,B.`; Rochelle-Newall, E.J*.; Marcangeli, Y;* Pierret, A*; Ribolzi, O*. Decay Rate of Escherichia coli in a Mountainous Tropical Headwater Wetland. Water 2021, 13, 2068., https://doi.org/10.3390/w13152068 | 10.3390/w13152068 | Water | BioDIS – DCFE ; CoMiC – DCFE ; EMS – DCFE ; FEST – Sols_ZC |
| Srikanthasamy T.~,Barot S.*,Koffi F.`,Tambosco K^,Marcangeli Y*,Carmignac D.*,N’Dri A. B.`,Gervaix J.,Le Roux X.,Lata J-C.* (2021) Short-term impact of fire on the total soil microbial and nitrifier communities in a wet savanna, Ecology and Evolution | 10.1002/ece3.7661 | Ecology and Evolution | EMS – DCFE ; CoMiC – DCFE |
| Pédron J*, Schaerer S, Kellenberger I, Van Gijsegem F* (20021) Early Emergence of Dickeya solani Revealed by Analysis of Dickeya Diversity of Potato Blackleg and Soft Rot Causing Pathogens in Switzerland. Microorganisms 2021, 9, 1187, | 10.3390/microorganisms9061187 🔗 HAL | Microorganisms | CoMiC – DCFE |
| Riotte, J., Ruiz, L., Audry, S., Baud, B., Bedimo Bedimo, J.-P., Boithias, L., Braun, J.-J., Dupre, B., Faucheux, M., Lagane, C., Marechal, J.-C., Moger, H., Mohan Kumar, M.S.`, Parate, H., Ribolzi, O., Rochelle-Newall, E.*, Sriramulu, B.`, Varma, M.R.R.` and Sekhar, M`. 2021. The Multiscale TROPIcal CatchmentS critical zone observatory M-TROPICS dataset III: hydro-geochemical monitoring of the Mule Hole catchment, south India. 2021. Hydrological Processes, e14196. | 10.1002/hyp.14196 | Hydrological Processes | CoMiC – DCFE |
| Audry, S., H. Ateba Bessa, J.-P. Bedimo Bedimo, J.-L. Boeglin, L. Boithias, J.-J. Braun, B. Dupre, M. Faucheux, C. Lagane, J.-C. Marechal, J. R. Ndam-Ngoupayou`, B. Nka Nnomo`, J. Nlozoa`, J.-C. Ntonga`, O. Ribolzi, J. Riotte, E. Rochelle-Newall* and L. Ruiz (2021). “The Multiscale TROPIcal CatchmentS critical zone observatory M-TROPICS dataset I: The Nyong River Basin, Cameroon.” Hydrological Processes: e14138. | 10.1002/hyp.14138 | Hydrological Processes | CoMiC – DCFE |
| Mathias Koffi Ahoutou, Rosine Yao Djeha, Eric Kouamé Yao, Catherine Quiblier, Julie Niamen-Ebrottié, Sahima Hamlaoui, Kevin Tambosco^, Jean-Louis Perrin, Marc Troussellier, Cécile Bernard, Luc Seguis, Marc Bouvy, Jacques Pédron*, Felix Koffi Konan, Jean-François Humbert*, Julien Kalpy Coulibaly (2021) Assessment of some key indicators of the ecological status of an African freshwater lagoon (Lagoon Aghien, Ivory Coast). Plos One, | 10.1371/journal.pone.0251065 🔗 HAL | PLoS ONE | CoMiC – DCFE |
| Noémie Pascault, Olivier Rué, Valentin Loux, Jacques Pédron*, Véronique Martin, Jennifer Tambosco, Cécile Bernard, Jean‐François Humbert*, Julie Leloup* (2021) Insights into the cyanosphere: capturing the respective metabolisms of cyanobacteria and chemotrophic bacteria in natural conditions? Env. Mic. Reports. | 10.1111/1758-2229.12944 🔗 HAL | Environmental Microbiology Reports | CoMiC – DCFE ; EMS – DCFE |
| Michelet C., Zeppilli, D., Hubas, C., Baldrighi, E., Cuny, P., Dirberg, G., Militon, C., Lamy, D.*, Jézéquel, R., Receveur, J., Gilbert, F., El Houssainy, A., Dufour, A., Heimbürger-Boavida, L-E., Bihannic, I., Sylvi, L., Vivier, B., Michaud, E. (2021) First assessment of the benthic meiofauna sensitivity to low human-impacted mangroves in french Guiana. Forests, 12:338 | 10.3390/f12030338 🔗 HAL | Forests | CoMiC – DCFE |
| Laurie Boithias, Yves Auda, Stéphane Audry, Jean-Pierre Bricquet, Alounsavath Chanhphengxay`, Vincent Chaplot, Anneke de Rouw*, Thierry Henry des Tureaux*, Sylvain Huon*, Jean-Louis Janeau*, Keooudone Latsachack`, Yann Le Troquer*, Guillaume Lestrelin, Jean-Luc Maeght, Pierre Marchand, Pierre Moreau, Andrew Noble, Anne Pando-Bahuon*, Kongkeo Phachomphon`, Khambai Phanthavong`, Alain Pierret*, Olivier Ribolzi, Jean Riotte, Henri Robain*, Emma Rochelle-Newall*, Saysongkham Sayavong`, Oloth Sengtaheuanghoung`, Norbert Silvera*, Nivong Sipaseuth`, Bounsamay Soulileuth`, Xaysatith Souliyavongsa`, Phapvilay Sounyaphong`, Sengkeo Tasaketh`, Chanthamousone Thammahacksa`, Jean-Pierre Thiebaux, Christian Valentin*, Olga Vigiak, Marion Viguier^, Khampaseuth Xayyathip`.(2021) The Multiscale TROPIcal CatchmentS critical zone observatory M-TROPICS dataset II: Land use, hydrology and sediment production monitoring in Houay Pano, northern Lao PDR. Hydrological Processes. 2021;35:e14126. | 10.1002/hyp.14126 🔗 HAL | Hydrological Processes | BioDIS – DCFE ; CoMiC – DCFE ; FEST – Sols_ZC ; F2ZC – Sols_ZC |
| Bedell R., Hassan A, Tinet A.J., Arrieta-Escobar J., Derrien D., Dignac M.F.* , Boly V, Ouvrard S, Pearce J.M. (2021) Open-Source Script for Design and 3D Printing of Porous Structures for Soil Science. Technologies, 9:67 | 10.3390/technologies9030067 🔗 HAL | Technologies | CoMiC – DCFE |
| David, G. M., P. López-García, D. Moreira, B. Alric, P. Deschamps, P. Bertolino, G. Restoux, E. Rochelle-Newall, E. Thébault, M. Simon and L. Jardillier “Small freshwater ecosystems with dissimilar microbial communities exhibit similar temporal patterns.” Molecular Ecology | 10.1111/mec.15864 | Molecular Ecology | CoMiC – DCFE ; EERI – DCFE |
| Mügler, C., O. Ribolzi, M. Viguier, J.-L. Janeau*, E. Jardé, K. Latsachack`, T. Henry-Des-Tureaux*, C. Thammahacksa`, C. Valentin*, O. Sengtaheuanghoung` and E. Rochelle-Newall* (2021). “Experimental and modelling evidence of splash effects on manure borne Escherichia coli washoff.” Environmental Science and Pollution Research: 1-12. | 10.1007/s11356-021-13011-8 🔗 HAL | Environmental Science and Pollution Research | CoMiC – DCFE ; FEST – Sols_ZC ; F2ZC – Sols_ZC |
| Nakhle P., Ribolzi O., Boithias L., Rattanavong S., Auda Y., Sayavong S., Zimmermann R., Soulileuth B., Pando A*., Thammahacksa C., Rochelle-Newall E.J.*, Santini W., Martinez J-M., Gratiot N., Pierret A*.(2021) “Effects of hydrological regime and land use on in-stream Escherichia coli concentration in the Mekong basin, Lao PDR”. Scientific Reports, 11:3460. | 10.1038/s41598-021-82891-0 🔗 HAL | Scientific Reports | BioDIS – DCFE ; CoMiC – DCFE |
| Sisouvanh P’, Trelo-Ges V’., Isarangkool Na Ayutthaya S’., Pierret A.*, Nunan N*., Silvera N.*, Xayyathip K’., Hartmann C*. (2021) Can organic amendments improve soil physical characteristics and increase maize performances in contrasting soil water regimes? Agriculture, 11, 132. | 10.3390/agriculture11020132 | Agriculture | CoMiC – DCFE ; BioDIS – DCFE ; F2ZC – Sols_ZC |
| Nakhle P., Ribolzi O., Boithias L., Rattanavong S.’, Auda Y., Sayavong S.’, Zimmermann R.E., Soulileuth B.’, Pando A*., Tammahacksa C’., Rochelle-Newall E.*, Santinin W., Martinez J.-M., Gratiot N., Pierret A.* (2021) Effects of hydrological regime and land use on in-stream Escherichia coli concentration in the Mekong basin, Lao PDR, Scientific Reports – Nature 11:3460 | 10.1038/s41598-021-82891-0 | Scientific Reports | CoMiC – DCFE ; BioDIS – DCFE |
| David F., Meziane T., Marchand C., Rolland G., Pham A., Thanh-Nho N., Lamy, D.* (2021) Prokaryotic abundance, cell size and extracellular enzymatic acrivity in a human impacted and mangrove dominated tropical estuary (Can Gio, Vietnam). Estuarine, Coastal and Shelf Science, 251: 107253 | 10.1016/j.ecss.2021.107253 🔗 HAL | Estuarine, Coastal and shelf Science | CoMiC – DCFE |
| Liechti N., Zimmermann R.E., Zopfi J., Robinson M., Pierret A*, Ribolzi O., Rattanavong S’., Davong V.’, Newton P.N., Wittwer M., Dance D.A.B. (2021) Whole-genome assemblies of 16 Burkholderia pseudomallei isolates from rivers in Laos. Microbiol Resour Announc 10:e01226-20, | 10.1128/MRA.01226-20 🔗 HAL | Microbiology Resources Announcements | CoMiC – DCFE |
| Boithias, L., O. Ribolzi, G. Lacombe, C. Thammahacksa*, N. Silvera*, K. Latsachack*, B. Soulileuth*, M. Viguier, Y. Auda, E. Robert, O. Evrard, S. Huon*, T. Pommier, C. Zouiten, O. Sengtaheuanghoung` and E. Rochelle-Newall* (2021). “Quantifying the effect of overland flow on Escherichia coli pulses during floods: Use of a tracer-based approach in an erosion-prone tropical catchment.” Journal of Hydrology 594: 125935. | 10.1016/j.jhydrol.2020.125935 🔗 HAL | Journal of Hydrology | CoMiC – DCFE ; F2ZC – Sols_ZC |
| Anh, H. Q., T. P. Q. Le`, N. Da Le, X. X. Lu, T. T. Duong`< /span>, J.Garnier, E. Rochelle-Newall*, S. Zhang, N.-H. Oh, C. Oeurng`, C. Ekkawatpanit, T. D. Nguyen, Q. T. Nguyen, T. D. Nguyen, T. N. Nguyen, T. L. Tran, T. Kunisue, R. Tanoue, S. Takahashi, T. B. Minh, H. T. Le, T. N. M. Pham and T. A. H. Nguyen (2020). “Antibiotics in surface water of East and Southeast Asian countries: A focused review on contamination status, pollution sources, potential risks, and future perspectives.” Science of The Total Environment: 142865 | 10.1016/j.scitotenv.2020.142865 | Science of the Total Environment | CoMiC – DCFE |
| Portier P., Pédron J.*, Taghouti G., Dutrieux C., Barny MA.* (2020) Updated taxonomy of Pectobacterium genus in the CIRM-CFBP bacterial collection: when newly described species reveal “old” endemic population. Microorganism 8 :1441 | 10.3390/microorganisms8091441 🔗 HAL | Microorganisms | CoMiC – DCFE |
| Song, L.’, Boithias, L., Sengtaheuanghoung, O.’, Oeurng C.’, Valentin C*., Souksavath B’., Sounyafong P.’, De Rouw A*., Soulileuth B.’, Silvera N.*, Lattanavongkhot B.’, Pierret A*., Ribolzi O. (2020) Understorey vegetation limits surface runoff and soil loss in teak plantation-based systems of Northern Lao PDR. Water | 10.3390/w12092327 | Water | CoMiC – DCFE ; F2ZC – Sols_ZC |
| El Hayany B., El Fels L., Quenea K., Dignac M.-F.*, Rumpel C.*, Gupta V.K., Hafidi M. 2020. Microplastics from lagooning sludge to composts as revealed by Fluorescent staining- Image analysis, Raman spectroscopy and Pyrolysis-GC/MS. Journal of Environmental Management 275 111249. | 10.1016/j.jenvman.2020.111249 🔗 HAL | Journal of Environmental Management | CoMiC – DCFE ; FEST – Sols_ZC |
| Pédron J.*, Guyon L., Lecomte A.°, Blottière L.^, Chandeysson C., Rochelle-Newall E.*, Raynaud X.*, Berge O., Barny MA*. (2020) Comparison of Environmental and Culture-Derived Bacterial Communities through 16S Metabarcoding: A Powerful Tool to Assess Media Selectivity and Detect Rare Taxa. Microorganisms 27:E1129 | 10.3390/microorganisms8081129 🔗 HAL | Microorganisms | CoMiC – DCFE ; EMS – DCFE |
| Panettieri M., Courtier-Murias D., Rumpel C.,* Dignac M.-F.*, Almendros G., Chabbi A. 2020. Land-use perturbations in ley grassland decouple the degradation of ancient soil organic matter from the storage of newly derived carbon inputs. SOIL Discussions, 1-31. | 10.5194/soil-2020-16 🔗 HAL | SOIL Discussions | CoMiC – DCFE ; FEST – Sols_ZC |
| El Hayany B., El Fels L., Dignac M.-F.*, Quenea K., Rumpel C.*, Hafidi M. (2020) Pyrolysis-GCMS as a tool for maturity evaluation of compost from sewage sludge and green waste. Waste and biomass Valorization. | 10.1007/s12649-020-01184-1 🔗 HAL | Waste and Biomass Valorization | CoMiC – DCFE ; FEST – Sols_ZC |
| Le Mer G.~, Barthod J.~, Dignac M.-F.,* Barré P., Baudin F., Rumpel C.* 2020. Inferring earthworms’ impact on the stability of organo-mineral associations by Rock-Eval pyrolysis and 13C NMR spectroscopy. Organic Geochemistry, 104016. | 10.1016/j.orggeochem.2020.104016 🔗 HAL | Organic Geochemistry | CoMiC – DCFE ; FEST – Sols_ZC |
| Arrieta-Escobar J., Derrien D., Ouvrard S., Asadollahi-Yazdi E., Hassan A., Boly V., Tinet A.-J., Dignac M.-F.* 2020. 3D Printing: an emerging opportunity for soil science. Geoderma. 378 114588. | 10.1016/j.geoderma.2020.114588 🔗 HAL | Geoderma | CoMiC – DCFE |
| Vidal A., Lenhart T., Dignac M.F*, Biron P.*, Höschen C., Barthod J., Vedere C., Vaury V.*, Bariac T.*, Rumpel C.* (2020): Promoting plant growth and carbon transfer to soil with with organic amendments produced with mineral additives. Geoderma.Volume 374, 1 September 2020, 114454 | 10.1016/j.geoderma.2020.114454 🔗 HAL | Geoderma | EMS – DCFE ; CoMiC – DCFE ; FEST – Sols_ZC ; F2ZC – Sols_ZC |
| Sayavong, S’., Kaewjampa, N’., Katawatin, R’., Boonthai Iwai C’., Moukomla S.’, Oszwald J., Pierret A*. (2020) Recent Co-occurring Expansion of Rubber Tree Plantations and Land Use/Land Cover Change in Luangnamtha District, Northern Laos. International Journal of Geoinformatics, 16(1), 85-101 | 10.52939/ijg.v16i1.1843 | International Journal of Geoinformatics | CoMiC – DCFE |
| Barthod J.~, Dignac M.-F.*, Le Mer G.~, Bottinelli N.*, Watteau F., Kögel-Knabner I., Rumpel C.* (2020) How do earthworms affect organic matter decomposition in the presence of clay-sized minerals? Soil Biology and Biochemistry | 10.1016/j.soilbio.2020.107730 🔗 HAL | Soil Biology and Biochemistry | CoMiC – DCFE ; FEST – Sols_ZC |
| Thorup-Kistensen K., Halberg N., Nicolaisen M., Eivind-Olsen J., Crews T.E., Hinsinger P., Kirkegaard J. Pierret A*., Bodin-Dresbøll D (2020) Digging Deeper for Agricultural Resources, the Value of Deep Rooting.Trends in Plant Science. | 10.1016/j.tplants.2019.12.007 🔗 HAL | Trends in Plant Science | CoMiC – DCFE |
| Paradelo R., Lerch T.Z.*, Houot S., Dignac M.-F.* (2019) Composting modifies the patterns of incorporation of OC and N from plant residues into soil aggregates. Geoderma, 353: 415-422. | 10.1016/j.geoderma.2019.07.025 🔗 HAL | Geoderma | CoMiC – DCFE ; BioDIS – DCFE |
| Portier P, Pédron J*, Taghouti G`, Fischer-Le Saux M, Caullireau E, Bertrand C^, Laurent A, Chawki K, Oulgazi S`, Moumni M`, Andrivon D, Dutrieux C, Faure D, Hélias V, Barny MA* (2019) Elevation of Pectobacterium carotovorum subsp. odoriferum to species level as Pectobacterium odoriferum sp. nov., proposal of Pectobacterium brasiliense sp. nov. and Pectobacterium actinidiae sp. nov., emended description of Pectobacterium carotovorum and description of Pectobacterium versatile sp. nov.,isolated from streams and symptoms on diverse plants. Int J Syst Evol Microbiol. 69(10):3214-23 | 10.1099/ijsem.0.003611 🔗 HAL | International Journal of Systematic and Evolutionary Microbiology | CoMiC – DCFE |
| Lerch T.Z.*, Dignac M.-F.*, Thevenot M., Mguerchi C.°, Houot S. (2019) Chemical changes during composting of plant residues reduce their mineralisation in soil and cancel the priming effect. Soil Biology and Biochemistry, 136: 107525. | 10.1016/j.soilbio.2019.107525 🔗 HAL | Soil Biology and Biochemistry | CoMiC – DCFE ; BioDIS – DCFE |
| Oulghazi S`, Pédron J*, Cigna J, Lau YY, Moumni M`, Van Gijsegem F*, Chan KG, Faure D (2019) Dickeya undicola sp. nov., a novel species for pectinolytic isolates from surface waters in Europe and Asia. Int J Syst Evol Microbiol. 69(8): 2440-2444 | 10.1099/ijsem.0.003497 🔗 HAL | International Journal of Systematic and Evolutionary Microbiology | CoMiC – DCFE |
| Le H.T.~, Rochelle-Newall E.*, Ribolzi O., Janeau J.L.*, Huon S.*, Latsachack K.`, Pommier T. (2020). Land use strongly influences soil organic carbon and bacterial community loss in runoff in tropical Uplands. Land Degradation Development | 10.1002/ldr.3433 🔗 HAL | Land Degradation & Development | F2ZC – Sols_ZC ; CoMiC – DCFE ; FEST – Sols_ZC |
| Pédron J*, Van Gijsegem F* (2019) Diversity in the Bacterial Genus Dickeya Grouping Plant Pathogens and Waterways Isolates. OBM Genetics 2019, Volume 3, Issue 4. | 10.21926/obm.genet.1904098 | OBM Genetics | CoMiC – DCFE |
| Duong, T. T.`, T. T. H. Hoang`, T. K. Nguyen`, T. P. Q. Le`, N. D. Le`, D. K. Dang`, X. Lu`, M. H. Bui`, Q. H. Trinh`, T. H. V. Dinh`, T. D. Pham` & E. Rochelle-newall, 2019. Factors structuring phytoplankton community in a large tropical river: Case study in the Red River (Vietnam). Limnologica 76:82-93 | 10.1016/j.limno.2019.04.003 🔗 HAL | Limnologica | CoMiC – DCFE |
| Clement, C~., Pierret A*., Maeght JL., Hartmann C*., Xayyathip K’., Soulileuth B’., Sounyafong P.’, Latsachack K’., Thammahacksa C’., Sengtaheuanghoung O’. (2019) Linking tree‐rooting pro les to leaf phenology: a first attempt on Tectona Grandis Linn F. Trees 33, pages 1491–1504 (2019). | 10.1007/s00468-019-01876-9 🔗 HAL | Trees | CoMiC – DCFE ; BioDIS – DCFE |
| Zeitoun V., Auetrakulvit P’., Zazzo A., Pierret A*., Frere S., Forestier H. (2019) Discovery of an outstanding Hoabinhian site from the Late Pleistocene at Doi Pha Kan (Lampang province, northern Thailand), Archaeological Research in Asia, 18, 1-16, | 10.1016/j.ara.2019.01.002 🔗 HAL | Archaeological Research in Asia | CoMiC – DCFE |
| Daviere A, Sotomski M, Audibert A, Carol P*, Hubert S, Lebreton S*, Louvet-Vallee S, Pedron J, PuyaubertJ, Kraepiel Y, Lacoste J.(2019) Synergistic toxicity between glyphosate and 2,4-dinitrophenol on budding yeast is not due to H2O2-mediated oxidative stress. Matters 5 (4), e201903000030 | 10.19185/matters.201903000030 | Matters | APCE – IPE ; EMS – DCFE ; CoMiC – DCFE |
| Mugler, C., Ribolzi, O., Janeau, J.L.*, Rochelle-Newall, E.*, Latsachack, K.`, Thammahacksa, C.`, Viguier, M., Jarde, E., Henri-Des-Tureaux*, T., Sengtaheuanghoung, O.`, Valentin, C.*, 2019. Experimental and modelling evidence of short-term effect of raindrop impact on hydraulic conductivity and overland flow intensity. Journal of Hydrology 570, 401-410. | 10.1016/j.jhydrol.2018.12.046 🔗 HAL | Journal of Hydrology | FEST – Sols_ZC ; F2ZC – Sols_ZC ; CoMiC – DCFE |
| Berg, J.S., Jézéquel, D., Duverger, A., Lamy, D.*, Laberty-Robert, C., Miot, J. (2019) Microbial diversity involved in iron and cryptic sulfur cycling in the ferruginous, low-sulfate waters of Lake Pavin. PlosOne, 14:e0212787 | 10.1371/journal.pone.0212787 🔗 HAL | PLoS ONE | CoMiC – DCFE |
| Barot, S*., L. Abbadie*, A. Auclerc, C. Barthélémy, E. Bérille, P. Billet, P. Clergeau, J.-N. Consales, M. Deschamp-Cottin, A. David~, C. Devigne, V. Dham, Y. Dusza~, A. Gaillard, E. Gonzalez, M. Hédont, D. Labarraque, A.-M. Le Bastard, J.-L. Morel, Y. Petit-Berghem, E. Rémy, E. Rochelle-Newall* & M. Veyrières, 2019. Urban ecology, stakeholders and the future of ecology. Science of The Total Environment 667:475-484 | 10.1016/j.scitotenv.2019.02.410 🔗 HAL | Science of the Total Environment | CoMiC – DCFE ; EMS – DCFE |
| Pédron J*, Bertrand C^, Taghouti G, Portier P, Barny MA*. (2019) Pectobacterium aquaticum sp. nov., isolated from waterways. Int J Syst Evol Microbiol. 69(3): 745-751 | 10.1099/ijsem.0.003229 🔗 HAL | International Journal of Systematic and Evolutionary Microbiology | CoMiC – DCFE |
| Zeitoun V., Bourdon E., Latsachack K.O.’, Pierret A*, Singthong S’, Baills H., Forestier H. (2019) Discovery of a new open-air Hoabinhian site in Luang Prabang province (Lao PDR). Dating and technological study of the lithic assemblage. Comptes Rendus Palevol, 18, 142-157. | 10.1016/j.crpv.2018.05.003 🔗 HAL | Comptes rendus Palevol | CoMiC – DCFE |
| Essarts YR des, Pédron J*, Blin P, Dijk EV, Faure D, Gijsegem FV* (2019) Common and distinctive adaptive traits expressed in Dickeya dianthicola and Dickeya solani pathogens when exploiting potato plant host. Environmental Microbiology.21(3), 1004–1018 | 10.1111/1462-2920.14519 🔗 HAL | Environmental Microbiology | CoMiC – DCFE |
| Alič Š, Pédron J*, Dreo T, Van Gijsegem F* (2019) Genomic characterisation of the new Dickeya fangzhongdai species regrouping plant pathogens and environmental isolates. BMC Genomics. 20(1): 34 | 10.1186/s12864-018-5332-3 🔗 HAL | BMC Genomics | CoMiC – DCFE |
| Watteau F., Dignac M.-F.*, Bouchard A., Revallier A., Houot S. 2018. Microplastic detection in soil amended with municipal solid waste composts as revealed by transmission electronic microscopy and Pyrolysis/GC/MS. Frontiers in Sustainable Food Systems, 2: 81 | 10.3389/fsufs.2018.00081 🔗 HAL | Frontiers in Sustainable Food Systems | CoMiC – DCFE |
| Ribolzi, O., Lacombe, G., Pierret, A.*, Robain, H.*, Sounyafong, P.`, de Rouw, A.*, Soulileuth, B.`, Mouche, E., Huon, S.*, Silvera, N.*, Latxachak, K.O.`, Sengtaheuanghoung, O.`, Valentin, C.* Interacting land use and soil surface dynamics control groundwater outflow in a montane catchment of the lower Mekong basin. Agric. Ecosyst. Environ. 268, 90–102 | 10.1016/j.agee.2018.09.005 🔗 HAL | Agriculture Ecosystems & Environment | F2ZC – Sols_ZC ; CoMiC – DCFE |
| Dance D.A.B., Knappik M., Dittrich S., Viengmon D., Silisouk J.’, Vongsouvath M.’, Rattanavong S.,’ Pierret A.*, Newton P.N., Amornchai P’, Vanaporn Wuthiekanun’, Langla S., Limmathurotsakul D’. (2018) Evaluation of consensus method for the culture of Burkholderia pseudomallei in soil samples from Laos. Wellcome Open Research. | 10.12688/wellcomeopenres.14851.2 🔗 HAL | Wellcome Open Research | CoMiC – DCFE |
| Le H.T.~, Rochelle-Newall E.*, Auda Y., Ribolzi O., Sengtaheuanghoung O.’, Thébault E.*, Soulileuth B.’, Pommier T. (2018) Vicinal land use change strongly drives stream bacterial community in a tropical montane catchment. FEMS microbiology ecology, 94, fiy155. | 10.1093/femsec/fiy155 🔗 HAL | FEMS Microbiology Ecology | EERI – DCFE ; CoMiC – DCFE |
| Faye P`, Bertrand C^, Pédron J*, Barny MA* (2018) Draft genomes of “Pectobacterium peruviense” strains isolated from fresh water in France. Stand Genomic Sci. 13: 27 | 10.1186/s40793-018-0332-0 🔗 HAL | Standards in Genomic Sciences | CoMiC – DCFE |
| Barthod J.~, Rumpel C.*, Calabi-Floody M., Mora M-L., Bolan N., Dignac M-F.* (2018) Adding worms during composting with red mud and fly ash reduces CO2 emissions and increases plant available nutrient contents. Journal of Environmental Management, 222: 207-215 | 10.1016/j.jenvman.2018.05.079 🔗 HAL | Journal of Environmental Management | CoMiC – DCFE ; FEST – Sols_ZC |
| Van Gijsegem F*, Bitton F, Laborie A-L, Kraepiel Y*, Pédron J* (2018) Characterization of the early response of Arabidopsis thaliana to Dickeya dadantii infection using expression profiling. bioRxiv 415380; | 10.1101/415380 🔗 HAL | BioRxiv | CoMiC – DCFE ; EMS – DCFE |
| Sengtaheuanghoung O., Ribolzi O., Rochelle-Newall E. J.*, Boithias L., Evrard O., Henri-des-Tureaux T.*, Huon S.*, Janeau J.-L*., Latsachack K*., Lefèvre I., Mouche E., Robain H.*, de Rouw A.*, Xayyathip K.*, Silvera N.*, Sisouvanh P~., Soulileuth B.*, Sounyafong P*., Thammahacksa C*., Viguier M., Lacombe G., Valentin C. & Pierret. A.*, Interactions between land use, fluxes of water and sediments, and the spread of bacterial contaminants in the uplands of northern Lao PDR. In: Nations, F. A. O. (ed) Proceedings of the Global Symposium on Soil Pollution 2018, Rome, Italy, 2018. FAO, p 976. | FAO Editions | CoMiC – DCFE ; BioDIS – DCFE ; F2ZC – Sols_ZC ; FEST – Sols_ZC | |
| Nkwain Y.F., Demyan M. S., Rasche F., Dignac M.-F.*, Schulz E., Kätterer T., Müller T., Cadisch G. (2018) Coupling pyrolysis with mid-infrared spectroscopy (Py-MIRS) to fingerprint biochemical quality of soil organic matter. Journal of Analytical and Applied Pyrolysis, 133: 176-184 | 10.1016/j.jaap.2018.04.004 🔗 HAL | Journal of Analytical and Applied Pyrolysis | CoMiC – DCFE |
| Riera, E., Lamy, D.*, Goulard, C.,Francour, P.,Hubas, C. (2018) Biofilm monitoring as a tool to assess the efficiency of artificial reefs as substrates : Toward 3D printed reefs. Ecological Engineering, 120:230-237 | 10.1016/j.ecoleng.2018.06.005 🔗 HAL | Ecological Engineering | CoMiC – DCFE |
| Le, T. P. Q., N. D. Le, V. N. Dao, E. Rochelle-Newall*, T. M. H. Nguyen~, C. Marchand, T. T. Duong & T. X. B. Phung, 2018. Change in carbon flux (1960–2015) of the Red River (Vietnam). Environmental Earth Sciences 77(18):658 | 10.1007/s12665-018-7851-2 🔗 HAL | Environmental Earth Sciences | CoMiC – DCFE |
| Fouilland, E., A. Trottet, C. Alves-de-Souza, D. Bonnet, T. Bouvier, M. Bouvy, S. Boyer, L. Guillou, E. Hatey, H. Jing, C. Leboulanger, E. Le Floc’h, H. Liu, S. Mas, B. Mostajir, J. Nouguier, D. Pecqueur, E. Rochelle-Newall*, C. Roques, C. Salles, M.-G. Tournoud, C. Vasseur & F. Vidussi, 2017. Significant Change in Marine Plankton Structure and Carbon Production After the Addition of River Water in a Mesocosm Experiment. Microbial Ecology 74(2):289-301 | 10.1007/s00248-017-0962-6 🔗 HAL | Microbial Ecology | CoMiC – DCFE |
| Zimmermann R. E., Ribolzi O., Pierret A,* Rattanavong S.’, Robinson M. T., Newton P. N., Davong V.’, Auda Y., Zopfi J., Dance D. A. B. (2018) Rivers as carriers and potential sentinels for Burkholderia pseudomallei in Laos. Scientific Reports – Nature, 2018, 8, p. art. 8674 [7p.]. ISSN 2045-2322. | 10.1038/s41598-018-26684-y 🔗 HAL | Scientific Reports | CoMiC – DCFE |
| Alic S, Van Gijsegem F, Pédron J*, Ravnikar M and Dreo T (2018) Diversity within the novel Dickeya fangzhongdai sp., isolated from infected orchids, water and pears. Plant Pathology 67: 1612-1620. | 10.1111/ppa.12866 🔗 HAL | Plant Pathology | CoMiC – DCFE |
| Rochelle-Newall E.*, Niboyet A.*, Jardillier L., Fiorini S., Chollet S., Llavata M., de Santis E., Barot S.*, Lacroix G.* (2018)Impacts of elevated atmospheric CO2 concentration on terrestrial-aquatic carbon transfer and a downstream aquatic microbial community. Aquatic Sciences, 80, Article Number: 27 | 10.1007/s00027-018-0577-0 🔗 HAL | Aquatic Sciences | EERI – DCFE ; CoMiC – DCFE ; EMS – DCFE |
| Nguyen, T. M. H.~, G. Billen, J. Garnier, T. P. Q. Le, Q. L. Pham, S. Huon* & E. Rochelle Newall*, 2018. Organic carbon transfers in the subtropical Red River system (Viet Nam): insights on CO2 sources and sinks. Biogeochemistry 138(3):277-295. | 10.1007/s10533-018-0446-x 🔗 HAL | Biogeochemistry | CoMiC – DCFE ; F2ZC – Sols_ZC |
| Barthod J.~, Rumpel C.*, Dignac M-F.* (2018) Improving the environmental footprint and properties of compost and vermicomposts through mineral, organic and biological additives. A review. Agronomy for Sustainable Development, 38:17 | 10.1007/s13593-018-0491-9 🔗 HAL | Agronomy for Sustainable Development | CoMiC – DCFE ; FEST – Sols_ZC |
| Pédron J*, Chapelle E, Alunni B, Van Gijsegem F* (2018) Transcriptome analysis of the Dickeya dadantii PecS regulon during the early stages of interaction with Arabidopsis thaliana. Mol Plant Pathol. 19(3): 647-663 | 10.1111/mpp.12549 🔗 HAL | Molecular Plant Pathology | CoMiC – DCFE |
| Lacombe G., Valentin C*, Sounyafong P.’, De Rouw A*, Soulileuth B.’, Silvera N*, Pierret A*, Sengtaheuanghoung O.’, Ribolzi O (2018). Linking crop structure, throughfall, soil surface conditions, runoff and soil detachment : 10 land uses analyzed in Northern Laos. Science of the Total Environment, 2018, 616, p. 1330-1338. ISSN 0048-9697. | 10.1016/j.scitotenv.2017.10.185 🔗 HAL | Science of the Total Environment | CoMiC – DCFE ; CoMiC – DCFE ; F2ZC – Sols_ZC |
| Pierret A.*, Lacombe G. (2018) Hydrologic regulation of plant rooting depth : breakthrough or observational conundrum ?. Proceedings of the National Academy of Sciences of the United States of America, 2018, 115 (12), p. E2669-E2670. ISSN 0027-8424. | 10.1073/pnas.1801721115 | Proceeding of the National Academy of Sciences of the United States of America – PNAS | CoMiC – DCFE |
| Toussaint A., Van Gijsegem F.* (2017) Extension of the transposable bacterial virus family: two genomic organisations among phages and prophages with a Tn552-related transposase. Research in Microbiology, 169: 9 | 10.1016/j.resmic.2017.11.002 🔗 HAL | Research in Microbiology | CoMiC – DCFE |
| Pengerud A., Dignac M.-F.*, Certini G., Strand L.T., Forte C., Rasse D.P. (2017) Soil organic matter molecular composition and state of decomposition in three locations of the European Arctic. Biogeochemistry 135: 277–292. | 10.1007/s10533-017-0373-2 🔗 HAL | Biogeochemistry | CoMiC – DCFE |
| Rochelle Newall, E*., L. Boithias, C. Bouet*, O. Malam-Issa*, A. Pierret*, O. Ribolzi & E. Roberts, 2017. Accès à l’eau, usage des terres et dégradation des sols: un triptyque qui favorise l’émergence des maladies diarrhéiques. In Loireau, M. & N. Ben Khatra (eds) Désertification et Système Terre, de la (re)connaissance à l’action//Liason Energie-Francophonie. vol 106. Institut de la Francophonie pour le Developpement Durable et l’Organisation International de la Francophonie, Quebec, Canada, 83-85. | 🔗 HAL | Liason Energie-Francophonie | F2ZC – Sols_ZC ; CoMiC – DCFE |
| Morris C., Barny MA.*, Berge O., Kinkel LL., and Lacroix C.(2017) Frontiers for research on the ecology of plant pathogenic bacteria: Fundamentals for sustainability. Mol plant pathol : 18(2) | 10.1111/mpp.12508 🔗 HAL | Molecular Plant Pathology | CoMiC – DCFE |
| Ribolzi O., Evrard O., Huon S.*, de Rouw A.*, Silvera N.*, Latsachack K.O.`, Soulileuth B.`, Lefèvre I., Pierret A.*, Lacombe G., Sengtaheuanghoung O.`, Valentin C.* (2017) From shifting cultivation to teak plantation: effect on overland flow and sediment yield in a montane tropical catchment. Scientific Reports, 7: 3987 | 10.1038/s41598-017-04385-2 🔗 HAL | Scientific Reports | F2ZC – Sols_ZC ; CoMiC – DCFE ; FEST – Sols_ZC |
| MANIVANH, L.’, PIERRET A.*, RATTANAVONG, S.’, KOUNNAVONGSA, O.’, BUISSON, Y., ELLIOTT, I., MAEGHT, J.-L.*, XAYYATHIP, K., SILISOUK, J.’, VONGSOUVATH, M.’, PHETSOUVANH, R.’, NEWTON, P.N., LACOMBE, G., RIBOLZI, O., ROCHELLE-NEWALL*, E., DANCE, D.A.B. (2017) Burkholderia pseudomallei in a lowland rice paddy: seasonal changes and influence of soil depth and physico-chemical properties. Scientific Reports – Nature, 2017, 7, p. art. 3031 [11 p.]. | 10.1038/s41598-017-02946-z 🔗 HAL | Scientific Reports | CoMiC – DCFE |
| Lerch T.Z.*, Chenu C., Dignac M.-F.*, Barriuso E., Mariotti A. (2017) Biofilm vs planktonic lifestyle: consequences on pesticide 2,4-D biodegradation by Cupriavidus necator JMP134. Frontiers in Microbiology 8 : 90 | 10.3389/fmicb.2017.00904 🔗 HAL | Frontiers in Microbiology | BioDIS – DCFE ; CoMiC – DCFE |
| Manivanh, L`., A. Pierret*, S. Rattanavong`, O. Kounnavongsa, Y`. Buisson, I. Elliott, J.-L. Maeght*, K. Xayyathip`, J. Silisouk`, M. Vongsouvath`, R. Phetsouvanh`, P. N. Newton, G. Lacombe, O. Ribolzi, E. Rochelle-Newall* & D. A. B. Dance, 2017. Burkholderia pseudomallei in a lowland rice paddy: seasonal changes and influence of soil depth and physico-chemical properties. Scientific Reports 7:3031 | 10.1038/s41598-017-02946-z 🔗 HAL | Scientific Reports | CoMiC – DCFE ; F2ZC – Sols_ZC |
| Le, T. P. Q., V. N. Dao°, E. Rochelle-Newall*, J. Garnier, X. Lu, G. Billen, T. T. Duong, C. T. Ho, H. Etcheber, T. M. H. Nguyen~, T. B. N. Nguyen, B. T. Nguyen, N. Da Le & Q. L. Pham, 2017. Total organic carbon fluxes of the Red River system (Vietnam). Earth Surface Processes and Landforms 42:1329-1341 | 10.1002/esp.4107 | Earth Surface Processes and Landforms | CoMiC – DCFE |
| Kim, M.`, L. Boithias, K. H. Cho`, N. Silvera, C. Thammahacksa, K. Latsachack*, E. Rochelle-Newall*, O. Sengtaheuanghoung, A. Pierret*, Y. A. Pachepsky & O. Ribolzi, 2017. Hydrological modeling of Fecal Indicator Bacteria in a tropical mountain catchment. Water Research 119:102-113 | 10.1016/j.watres.2017.04.038 🔗 HAL | Water Research | CoMiC – DCFE ; F2ZC – Sols_ZC |
| IMDIRAKPHOL S.’, ZAZZO A., AUETRAKULVIT P.’, TIAMTINKRIT C.’, PIERRET A.*, FORESTIER H., ZEITOUN V. (2017) The perforated stones of the Doi Pha Kan burials (Northern Thailand): A Mesolithic singularity? Comptes rendus Palevol (2017) Volume 16, Issue 3, April–May 2017, Pages 351-361 | 10.1016/j.crpv.2016.12.003 🔗 HAL | Comptes rendus Palevol | CoMiC – DCFE |
| KIM, J.H., FOURCAUD, T., JOURDAN, C., MAEGHT*, J.-L., MAO, Z., METAYER, J., MEYLAN, L., PIERRET A*., RAPIDEL, B., ROUPSARD, O., de ROUW, A.*, VILLATORO SANCHEZ, M., WANG, Y., STOKES, A. (2017) Vegetation drives slope stability and its variability through hydrological impacts. Geophys. Res. Lett., 44: 4897-4907. | 10.1002/2017gl073174 🔗 HAL | Geophysical Research Letters | CoMiC – DCFE ; F2ZC – Sols_ZC |
| Van Gijsegem F.*, Pédron J.*, Patrit O., Simond-Côte E., Maia-Grondard A., Pétriacq P., Gonzalez R., Blottière L.^, Kraepiel Y.* (2017) Manipulation of ABA content in Arabidopsis thaliana modifies sensitivity and oxidative stress response to Dickeya dadantii and influences peroxidase activity. Front. Plant Sci.: 8 : 456 | 10.3389/fpls.2017.00456 🔗 HAL | Frontiers in Plant Science | EMS – DCFE ; CoMiC – DCFE |
| Pancrace P., Barny MA.*, Ueoka R., Calteau A., Scalvenzi T., Pédron J.*, Barbe V., Piel J., Humbert JF.*, Gugger M (2017) Insights into the Planktothrix genus: Genomic and metabolic comparison of benthic and planktic strains. Scientific reports.7, 41181 | 10.1038/srep41181 🔗 HAL | Scientific Reports | CoMiC – DCFE |
| Vojvoda, J., Lamy, D.*, Sintes, E., Garcia, J.A.L, Turk, V., Herndl, G.J. (2014) Seasonal variation in marine-snow-associated and ambient-water prokaryotic communities in the northern Adriatic Sea. Aquatic Microbial Ecology, 73:211-224. | Aquatic Microbial Ecology | CoMiC – DCFE | |
| Swan, B.K., Martinez-Garcia, M., Preston, C.M., Sczyrba, A., Woyke, T., Lamy, D.*, Reinthaler, T., Poulton, N.J., Masland, E.D.P., Lluesma Gomez, M., Sieracki, M.E., DeLong, E.F., Herndl, G.J, Stepanauskas, R. (2011).Ubiquitous dark ocean bacteria fix carbon and contain RuBisCO and sulfur oxidation genes. Science, 333:1296-1300 | Science | CoMiC – DCFE |
Membres de l'équipe
| Nom Prénom | Corps | Employeur / Etablissement d’inscription | Département et Équipe | Adresse | Téléphone | Mél |
|---|---|---|---|---|---|---|
| BARNY Marie-Anne | DR | INRAE | Équipe CoMiC du Département DCFE | Campus Pierre et Marie Curie – Paris 5e Tour 44-45 – 4 étage – bureau : 408 | (+33) 01-44-27-32-94 | marie-anne.barny@upmc.fr |
| BEN MOUSSA Hajar | PhD | S-U | Équipe CoMiC du Département DCFE | Campus Pierre et Marie Curie – Paris 5e Tour 44-45 – 4e étage – bureau : 413 | (+33) 01-44-27-23-49 | hajar.ben_moussa@etu.upmc.fr |
| COLOMBINI Gabin | Post-doc | S-U | Équipe CoMiC du Département DCFE ; Équipe FEST du Département Sols_ZC | Campus Pierre et Marie Curie – Paris 5e Tour 44-34 – 5e étage – bureau : 510 | (+33) 01-44-27-34-03 | gabin.colombini@sorbonne-universite.fr |
| DIGNAC Marie-France | DR | INRAE | Équipe CoMiC du Département DCFE | Campus Pierre et Marie Curie – Paris 5e Tour 44-34 – 5e étage – bureau : 504 | (+33) 01-44-27-51-71 | marie-france.dignac@inrae.fr |
| GASQUE Mégane | PhD | S-U | Équipe CoMiC du Département DCFE | Campus Pierre et Marie Curie – Paris 5e Tour 44-45 – 4e étage – bureau : 0 | megane.gasque@ird.fr | |
| GUERNIER Vanina | CR | IRD | Équipe CoMiC du Département DCFE | Campus Pierre et Marie Curie – Paris 5e Tour 44-45 – 4e étage – bureau : 408 | (+33) 01-44-27-32-94 | vanina.guernier@ird.fr |
| HUMBERT Jean-François | DR | INRAE | Équipe CoMiC du Département DCFE | Campus Pierre et Marie Curie – Paris 5e Tour 44-45 – 4e étage – bureau : 511 | (+33) 01-44-27-41-67 | jean-francois.humbert@upmc.fr |
| KARAMBIRI Yasmina | PhD | S-U | Équipe CoMiC du Département DCFE | |||
| LAMY Dominique | MC | S-U | Équipe CoMiC du Département DCFE | Campus Pierre et Marie Curie – Paris 5e Tour 44-45 – 4e étage – bureau : 408 | (+33) 01-44-27-41-67 | dominique.lamy@sorbonne-universite.fr |
| PEDRON Jacques | MC | S-U | Équipe CoMiC du Département DCFE | Campus Pierre et Marie Curie – Paris 5e Tour 44-45 – 4e étage – bureau : 410 | (+33) 01-44-27-41-67 | jacques.pedron@upmc.fr |
| ROCHELLE-NEWALL Emma | DR | IRD | Équipe CoMiC du Département DCFE | Campus Pierre et Marie Curie – Paris 5e Tour 44-45 – 4e étage – bureau : 404 | (+33) 01-44-27-38-26 | emma.rochelle-newall@ird.fr |
| TREVISAN Dominique | IR | INRAE | Équipe CoMiC du Département DCFE | Campus Pierre et Marie Curie – Paris 5e Tour 44-45 – 4e étage – bureau : 1 | (+33) 01-44-27-32-11 | dominique.trevisan@inrae.fr |
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