Publications

Selected publications


Plant holobiont

Vannier N, Mony C, Bittebière A-K, Theis K, Rosenberg E, Vandenkoornhuyse P (2019) Clanal plants as metaholobionts. mSystems 4: e00213-18 - https://msystems.asm.org/content/4/2/e00213-18/article-info

Vannier N, Mony C, Bittebière AK, Michon-Codouel S, Biget M, Vandenkoornhuyse P (2018) A microorganisms’ journey between plant generations. Microbiome 6:79 - https://microbiomejournal.biomedcentral.com/articles/10.1186/s40168-018-0459-7

Vandenkoornhuyse P, Quaiser A, Duhamel M, Le Van A, Dufresne A (2015) The importance of the microbiome of the plant holobiont. New Phytologist 206: 1196-1206

Theis KR, Dheilly NM, Klassen JL, Brucker RM, Baines JF, Bosch TCG, Cryan JF, Gilbert SF, Goodnight CJ, Lloyd EA, Sapp J, Vandenkoornhuyse P, Zilber-Rosenberg I, Rosenberg E, Bordenstein SR (2016) Getting the Hologenome Concept Right: an Eco-Evolutionary Framework for Hosts and Their Microbiomes. MSystems 1: e00028-16

Symbiosis evolution and plant microbiota

Vannier N, Mony C, Bittebière AK, Michon-Codouel S, Biget M, Vandenkoornhuyse P (2018) A microorganisms’ journey between plant generations. Microbiome 6:79 https://microbiomejournal.biomedcentral.com/articles/10.1186/s40168-018-0459-7

Lê Van A, Quaiser A, Duhamel M, Michon-Coudouel S, Dufresne A, Vandenkoornhuyse P (2017) Ecophylogeny of the endospheric root fungal microbiome of co-occurring Agrostis stolonifera. Peer Journal 5:e3454

Vannier N, Bittebiere AK, Vandenkoornhuyse P, Mony C (2016) Arbuscular Mycorhizal fungi patchiness and the clonal growth of Glechoma hederacea in heterogeneous environment. Scientific Reports 6:37852

Mas A, Jamshidi S, Lagadeuc Y, Eveillard D, Vandenkoornhuyse P (2016) Beyond the Black Queen Hypothesis. ISME Journal 10: 2085-2091 doi: 10.1038/ismej.2016.22

Vandenkoornhuyse P, Quaiser A, Duhamel M, Le Van A, Dufresne A (2015) The importance of the microbiome of the plant holobiont. New Phytologist 206: 1196-1206

Jamshidi S, Behm JE, Eveillard D, Kiers ET, Vandenkoornhuyse P (2015) Using hybrid automata modelling to study phenotypic plasticity and allocation strategies in the plant mycorrhizal mutualism. Ecological Modelling 311: 11-19

Duhamel M, Vandenkoornhuyse P 2013 Sustainable agriculture: possible trajectories from mutualistic symbiosis and plant neodomestication. Trends in Plant Science 18:597-600

Duhamel M, Pel R, Ooms A, Bücking H, Jansa J, Ellers J, van Straalen NM Tjiaf Wouda, Vandenkoornhuyse P, Kiers ET 2013. Do fungivores trigger the transfer of protective metabolites from host plants to arbuscular mycorrhizal hyphae? Ecology 94:2009-2029 (link)

Kiers ET, Duhamel M, Beesetty Y, Mensah JA, Franken O, Verbruggen E, Fellbaum CR, Kowalchuk GA, Hart MM, Bago A, Palmer TM, West SA, Vandenkoornhuyse P, Jansa J, Bucking H 2011. Reciprocal Rewards Stabilize Cooperation in the Mycorrhizal Symbiosis Science 333, 880-882.

Faculty of 1000 recommended article

Science, 12 aout 2011 'perspective' paper from Selosse & Rousset : The Plant-Fungal Marketplace p828-829

Nature Reviews Microbiology 9, 698-699 (October 2011)

Vandenkoornhuyse P., S. Mahé, Ineson P., Staddon P., Ostle N., Fitter A.H., Young J.P.W. 2008. Active root-inhabiting microbes identified by rapid incorporation of plant-derived carbon into RNA. Proceedings of the National Academy of Sciences USA 104: 16970-16975

Faculty of 1000 recommended article

Microbial diversity

Ciobanu MC, Burgaud G, Dufresne A, Breuker A, Rédou V, Ben Maamar S, Gaboyer F, Vandenabeele-Trambouze O, Lipp JS, Schippers A, Vandenkoornhuyse P, Barbier G, Jebbar M, Godfroy A, Alain K (2014) Microorganisms persist at record depths in the subseafloor of the Canterbury Basin. ISME Journal, (2014) 8, 1370–1380 (link)

Bougon N, Aquilina L, Molenat J, Marie D, Delettre Y, Chancerel E, Vandenkoornhuyse P 2012. Influence of depth and time on diversity of free-living microbial community in the variably saturated zone of a granitic aquifer. FEMS Microb Ecol 80: 98-113.

Monard C, Vandenkoornhuyse P, Le Bot B, Binet F 2011. Relationship between bacterial diversity and function under biotic control: the soil pesticide degraders as a case study. ISME Journal 5, 1048-1056

Faculty of 1000 recommended article

Le Calvez T., Burgaud G., Mahé S., Barbier G., Vandenkoornhuyse P 2009. Fungal diversity in deep-sea hydrothermal ecosystems. Applied Environmental Microbiology 75:6415-6421.

Review & perspectives

Vannier N, Mony C, Bittebière A-K, Vandenkoornhuyse P (2015) Epigenetic Mechanisms and Microbiota as a Toolbox for Plant Phenotypic Adjustment to Environment. Frontiers in Plant Science 6: 1159 doi: 10.3389/fpls.2015.01159

Vandenkoornhuyse P, Quaiser A, Duhamel M, Le Van A, Dufresne A (2015) The importance of the microbiome of the plant holobiont. New Phytologist 206: 1196-1206

Duhamel M, Vandenkoornhuyse P (2013) Sustainable agriculture: possible trajectories from mutualistic symbiosis and plant neodomestication. Trends in Plant Science 18: 597-600.

Vandenkoornhuyse P, Dufresne A, Quaiser A, Gouesbet G, Binet F, Francez AJ, Mahé S, Bormans M, Lagadeuc Y, Couée I (2010). Integration of molecular functions at the ecosystemic level : breakthroughs and future goals of environmental genomics and post-genomics. Ecology Letters 13:776-791

Resources

Mahe S, Duhamel M, Le Calvez T, Guillot L, Sarbu L, Bretaudeau A, Collin O, Dufresne A, Kiers ET, Vandenkoornhuyse P 2012. PHYMYCO-DB: A Curated Database for Analyses of Fungal Diversity and Evolution. PLoS ONE 7 : e43117 (link)

Bar-Hen A, Madriassou M, Poursat M.A., Vandenkoornhuyse P 2008 Influence functions for robust phylogenetic trees. Mol Biol Evol 25:869-873.

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