Denis Filloux

Affiliations

CIRAD, BGPI, Montpellier, France.
BGPI, INRAE, CIRAD, Institut Agro, Univ Montpellier, Montpellier, France.

Publications (37)

Heterogeneity of the rice microbial community of the Chinese centuries-old Honghe Hani rice terraces system.

Environmental microbiology

Avec: Pascal Alonso , Laurence Blondin , Pierre Gladieux , Frédéric Mahé , Hervé Sanguin , Romain Ferdinand , Denis Filloux , Eric Desmarais , Frédérique Cerqueira , Baihui Jin , Huichuan Huang , Xiahong He , Jean-Benoit Morel , Darren P Martin , Philippe Roumagnac , Christian Vernière

A New Prevalent Densovirus Discovered in

Viruses

Avec: Sarah François , Doriane Mutuel , Alison B Duncan , Leonor R Rodrigues , Celya Danzelle , Sophie Lefevre , Inês Santos , Marie Frayssinet , Emmanuel Fernandez , Denis Filloux , Philippe Roumagnac , Rémy Froissart , Mylène Ogliastro

High-throughput sequencing of complete genomes of ipomoviruses associated with an epidemic of cassava brown streak disease in the Comoros Archipelago.

Archives of virology

Avec: Sarah Scussel , Thierry Candresse , Armelle Marais , Sohini Claverie , Murielle Hoareau , Hamza A Azali , Eric Verdin , Mark Tepfer , Denis Filloux , Emmanuel Fernandez , Philippe Roumagnac , Isabelle Robène , Pierre Lefeuvre , Cyril Jourda , Michel Roux-Cuvelier , Jean-Michel Lett

Complete genome sequence of a novel marafivirus infecting pearl millet in Burkina Faso.

Archives of virology

Avec: Essowè Palanga , Ezechiel Bionimian Tibiri , Martine Bangratz , Denis Filloux , Charlotte Julian , Agnès Pinel-Galzi , Moustapha Koala , James Bouma Néya , Christophe Brugidou , Fidèle Tiendrébéogo , Philippe Roumagnac , Eugénie Hébrard

metaXplor: an interactive viral and microbial metagenomic data manager.

GigaScience

Avec: Guilhem Sempéré , Adrien Pétel , Magsen Abbé , Pierre Lefeuvre , Philippe Roumagnac , Frédéric Mahé , Gaël Baurens , Denis Filloux

Molecular Viral Diagnosis and Sanitation of Yam Genetic Resources: Implications for Safe Yam Germplasm Exchange.

Viruses

Avec: Marie Umber , Denis Filloux , Suzia Gélabale , Rose-Marie Gomez , Armelle Marais , Séverine Gallet , Franciane Gamiette , Claudie Pavis , Pierre-Yves Teycheney

New World Cactaceae Plants Harbor Diverse Geminiviruses.

Viruses

Avec: Rafaela S Fontenele , Andrew M Salywon , Lucas C Majure , Ilaria N Cobb , Amulya Bhaskara , Jesús A Avalos-Calleros , Gerardo R Argüello-Astorga , Kara Schmidlin , Anthony Khalifeh , Kendal Smith , Joshua Schreck , Michael C Lund , Matias Köhler , Martin F Wojciechowski , Wendy C Hodgson , Raul Puente-Martinez , Koenraad Van Doorslaer , Safaa Kumari , Kehinde A Oyeniran , Christian Vernière , Denis Filloux , Philippe Roumagnac , Pierre Lefeuvre , Simone G Ribeiro , Simona P Kraberger , Darren P Martin , Arvind Varsani

Characterisation of the Viral Community Associated with the Alfalfa Weevil (

Viruses

Avec: Sarah François , Aymeric Antoine-Lorquin , Maximilien Kulikowski , Marie Frayssinet , Denis Filloux , Emmanuel Fernandez , Philippe Roumagnac , Rémy Froissart , Mylène Ogliastro

Genome characterization and diversity of trifolium virus 1: identification of a novel legume-infecting capulavirus.

Archives of virology

Avec: Yuxin Ma , Laurence Svanella-Dumas , Charlotte Julian , Serge Galzi , Emmanuel Fernandez , Michel Yvon , Elodie Pirolles , Marie Lefebvre , Denis Filloux , Philippe Roumagnac , Thierry Candresse

Molecular diversity of yam virus Y and identification of banana mild mosaic virus isolates infecting yam (Dioscorea spp.).

Archives of virology

Avec: Mame Boucar Diouf , Sébastien Guyader , Marie-Michelle Nopoly , Olyvia Gaspard , Denis Filloux , Thierry Candresse , Armelle Marais , Pierre-Yves Teycheney , Marie Umber

Large-scale survey reveals pervasiveness and potential function of endogenous geminiviral sequences in plants.

Virus evolution

Avec: Vikas Sharma , Pierre Lefeuvre , Philippe Roumagnac , Denis Filloux , Pierre-Yves Teycheney , Darren P Martin , Florian Maumus

Nanopore Sequencing Is a Credible Alternative to Recover Complete Genomes of Geminiviruses.

Microorganisms

Avec: Selim Ben Chehida , Denis Filloux , Emmanuel Fernandez , Oumaima Moubset , Murielle Hoareau , Charlotte Julian , Laurence Blondin , Jean-Michel Lett , Philippe Roumagnac , Pierre Lefeuvre

[From boots on the ground to nucleotides in the sequencer: a century of advances in the study of the plant virus ecology].

Virologie (Montrouge, France)

Avec: François Maclot , Thierry Candresse , Denis Filloux , Philippe Rott , Carolyn Malmstrom , René van der Vlugt , Sébastien Massart , Philippe Roumagnac

Novel Ampeloviruses Infecting Cassava in Central Africa and the South-West Indian Ocean Islands.

Viruses

Avec: Yves Kwibuka , Espoir Bisimwa , Arnaud G Blouin , Claude Bragard , Thierry Candresse , Chantal Faure , Denis Filloux , Jean-Michel Lett , François Maclot , Armelle Marais , Santatra Ravelomanantsoa , Sara Shakir , Hervé Vanderschuren , Sébastien Massart

The genome of a bunyavirus cannot be defined at the level of the viral particle but only at the scale of the viral population.

Proceedings of the National Academy of Sciences of the United States of America

Avec: Michel Yvon , Thomas L German , Diane E Ullman , Ranjit Dasgupta , Maxwell H Parker , Sulley Ben-Mahmoud , Eric Verdin , Patrick Gognalons , Aurélie Ancelin , Joséphine Laï Kee Him , Justine Girard , Marie-Stéphanie Vernerey , Emmanuel Fernandez , Denis Filloux , Philippe Roumagnac , Patrick Bron , Yannis Michalakis , Stéphane Blanc

Sorghum mastrevirus-associated alphasatellites: new geminialphasatellites associated with an African streak mastrevirus infecting wild Poaceae plants on Reunion Island.

Archives of virology

Avec: Sohini Claverie , Arvind Varsani , Murielle Hoareau , Denis Filloux , Philippe Roumagnac , Darren P Martin , Pierre Lefeuvre , Jean-Michel Lett

Identification, molecular and biological characterization of two novel secovirids in wild grass species in Belgium.

Virus research

Avec: François J Maclot , Virginie Debue , Arnaud G Blouin , Núria Fontdevila Pareta , Lucie Tamisier , Denis Filloux , Sébastien Massart

Genetic Diversity of

Viruses

Avec: Issiaka Bagayoko , Marcos Giovanni Celli , Gustavo Romay , Nils Poulicard , Agnès Pinel-Galzi , Charlotte Julian , Denis Filloux , Philippe Roumagnac , Drissa Sérémé , Claude Bragard , Eugénie Hébrard

Comparison of the Virome of Quarantined Sugarcane Varieties and the Virome of Grasses Growing near the Quarantine Station.

Viruses

Avec: Jean H Daugrois , Denis Filloux , Charlotte Julian , Lisa Claude , Romain Ferdinand , Emmanuel Fernandez , Hugo Fontes , Philippe C Rott , Philippe Roumagnac

Identification of a novel vitivirus from pineapple in Reunion Island.

Archives of virology

Avec: Delphine Massé , Denis Filloux , Thierry Candresse , Sébastien Massart , Armelle Marais , Eric Verdin , Nathalie Cassam , Emmanuel Fernandez , Philippe Roumagnac , Pierre-Yves Teycheney , Pierre Lefeuvre , Jean-Michel Lett

Virome release of an invasive exotic plant species in southern France.

Virus evolution

Avec: Oumaima Moubset , Denis Filloux , Hugo Fontes , Charlotte Julian , Emmanuel Fernandez , Serge Galzi , Laurence Blondin , Sélim Ben Chehida , Jean-Michel Lett , François Mesléard , Simona Kraberger , Joy M Custer , Andrew Salywon , Elizabeth Makings , Armelle Marais , Frédéric Chiroleu , Pierre Lefeuvre , Darren P Martin , Thierry Candresse , Arvind Varsani , Virginie Ravigné , Philippe Roumagnac

Diverse genomoviruses representing twenty-nine species identified associated with plants.

Archives of virology

Avec: Rafaela S Fontenele , Philippe Roumagnac , Cécile Richet , Simona Kraberger , Daisy Stainton , Maketalena Aleamotu'a , Denis Filloux , Pauline Bernardo , Gordon W Harkins , James McCarthy , Lachlan S Charles , Natalia S Lamas , Emanuel F M Abreu , Rayane A Abreu , Graciete B Batista , Ana L M Lacerda , Andrew Salywon , Martin F Wojciechowski , Lucas C Majure , Darren P Martin , Simone G Ribeiro , Pierre Lefeuvre , Arvind Varsani

Exploring the diversity of Poaceae-infecting mastreviruses on Reunion Island using a viral metagenomics-based approach.

Scientific reports

Avec: Sohini Claverie , Alassane Ouattara , Murielle Hoareau , Denis Filloux , Arvind Varsani , Philippe Roumagnac , Darren P Martin , Jean-Michel Lett , Pierre Lefeuvre

Emergence of Southern Rice Black-Streaked Dwarf Virus in the Centuries-Old Chinese Yuanyang Agrosystem of Rice Landraces.

Viruses

Avec: Pascal Alonso , Pierre Gladieux , Oumaima Moubset , Pei-Jung Shih , Pierre Mournet , Julien Frouin , Laurence Blondin , Romain Ferdinand , Emmanuel Fernandez , Charlotte Julian , Denis Filloux , Henry Adreit , Elisabeth Fournier , Aurélie Ducasse , Vladimir Grosbois , Jean-Benoit Morel , Huichuan Huang , Baihui Jin , Xiahong He , Darren P Martin , Christian Vernière , Philippe Roumagnac

Illuminating an Ecological Blackbox: Using High Throughput Sequencing to Characterize the Plant Virome Across Scales.

Frontiers in microbiology

Avec: François Maclot , Thierry Candresse , Denis Filloux , Carolyn M Malmstrom , Philippe Roumagnac , René van der Vlugt , Sébastien Massart

Host range and molecular variability of the sadwavirus dioscorea mosaic associated virus.

Archives of virology

Avec: Marie Umber , Denis Filloux , Laurence Svanella-Dumas , Lydiane Bonheur , Isabelle Acina-Mambole , Rose-Marie Gomez , Chantal Faure , Fabiola Anzala , Claudie Pavis , Philippe Roumagnac , Armelle Marais , Sébastien Theil , Thierry Candresse , Pierre-Yves Teycheney

Molecular characterization of Cordyline virus 1 isolates infecting yam (Dioscorea spp).

Archives of virology

Avec: Mame Boucar Diouf , Olyvia Gaspard , Armelle Marais , Denis Filloux , Rose-Marie Gomez , Chantal Faure , Philippe Roumagnac , Thierry Candresse , Sébastien Theil , Sandy Contreras , Pierre-Yves Teycheney , Marie Umber

Long-Term Anthropogenic Management and Associated Loss of Plant Diversity Deeply Impact Virome Richness and Composition of

Microbiology spectrum

Avec: François Maclot , Virginie Debue , Carolyn M Malmstrom , Denis Filloux , Philippe Roumagnac , Mathilde Eck , Lucie Tamisier , Arnaud G Blouin , Thierry Candresse , Sébastien Massart

Diverse and variable virus communities in wild plant populations revealed by metagenomic tools.

PeerJ

Avec: Hanna Susi , Denis Filloux , Mikko J Frilander , Philippe Roumagnac , Anna-Liisa Laine

Novel circular DNA viruses associated with Apiaceae and Poaceae from South Africa and New Zealand.

Archives of virology

Avec: Cécile Richet , Simona Kraberger , Denis Filloux , Pauline Bernardo , Gordon W Harkins , Darren P Martin , Philippe Roumagnac , Arvind Varsani

A Novel Divergent Geminivirus Identified in Asymptomatic New World Cactaceae Plants.

Viruses

Avec: Rafaela S Fontenele , Andrew M Salywon , Lucas C Majure , Ilaria N Cobb , Amulya Bhaskara , Jesús A Avalos-Calleros , Gerardo R Argüello-Astorga , Kara Schmidlin , Anthony Khalifeh , Kendal Smith , Joshua Schreck , Michael C Lund , Matias Köhler , Martin F Wojciechowski , Wendy C Hodgson , Raul Puente-Martinez , Koenraad Van Doorslaer , Safaa Kumari , Christian Vernière , Denis Filloux , Philippe Roumagnac , Pierre Lefeuvre , Simone G Ribeiro , Simona Kraberger , Darren P Martin , Arvind Varsani

High predation of native sea lamprey during spawning migration.

Scientific reports

Avec: Stéphanie Boulêtreau , Laurent Carry , Elise Meyer , Damien Filloux , Olivier Menchi , Vincent Mataix , Frédéric Santoul

Yam asymptomatic virus 1, a novel virus infecting yams (Dioscorea spp.) with significant prevalence in a germplasm collection.

Archives of virology

Avec: Armelle Marais , Marie Umber , Denis Filloux , Rose-Marie Gomez , Chantal Faure , Claudie Pavis , Charlotte Julian , Philippe Roumagnac , Isabelle Acina-Mambole , Lydiane Bonheur , Sébastien Theil , Sandy Contreras , Thierry Candresse , Pierre-Yves Teycheney

Virion-Associated Nucleic Acid-Based Metagenomics: A Decade of Advances in Molecular Characterization of Plant Viruses.

Phytopathology

Avec: Oumaima Moubset , Sarah François , François Maclot , Essowè Palanga , Charlotte Julian , Lisa Claude , Emmanuel Fernandez , Philippe Rott , Jean-Heinrich Daugrois , Aymeric Antoine-Lorquin , Pauline Bernardo , Arnaud G Blouin , Coline Temple , Simona Kraberger , Rafaela S Fontenele , Gordon W Harkins , Yuxin Ma , Armelle Marais , Thierry Candresse , Sélim Ben Chéhida , Pierre Lefeuvre , Jean-Michel Lett , Arvind Varsani , Sébastien Massart , Mylène Ogliastro , Darren P Martin , Denis Filloux , Philippe Roumagnac

Metagenomics reveals the structure of

Virus evolution

Avec: Sohini Claverie , Murielle Hoareau , Sélim Ben Chéhida , Denis Filloux , Arvind Varsani , Philippe Roumagnac , Darren P Martin , Jean-Michel Lett , Pierre Lefeuvre

Historical Review on Sugarcane Streak Mosaic Virus That Has Recently Emerged in Africa.

Phytopathology

Avec: Jean-Heinrich Daugrois , Philippe Roumagnac , Charlotte Julian , Denis Filloux , Lilik Putra , Dimitre Mollov , Philippe Charles Emile Rott

Characterization of Six Ampeloviruses Infecting Pineapple in Reunion Island Using a Combination of High-Throughput Sequencing Approaches.

Viruses

Avec: Delphine Massé , Thierry Candresse , Denis Filloux , Sébastien Massart , Nathalie Cassam , Bruno Hostachy , Armelle Marais , Emmanuel Fernandez , Philippe Roumagnac , Eric Verdin , Pierre-Yves Teycheney , Jean-Michel Lett , Pierre Lefeuvre

Réseau de co-auteurs

Philippe Roumagnac 32 collaborations

Thierry Candresse 14 collaborations

Pierre Lefeuvre 14 collaborations

Darren P Martin 12 collaborations

Emmanuel Fernandez 12 collaborations

Armelle Marais 11 collaborations

Jean-Michel Lett 10 collaborations

Charlotte Julian 10 collaborations

Arvind Varsani 9 collaborations

Pierre-Yves Teycheney 8 collaborations

Sébastien Massart 8 collaborations

Murielle Hoareau 5 collaborations

Marie Umber 5 collaborations

François Maclot 5 collaborations

Simona Kraberger 5 collaborations

Laurence Blondin 4 collaborations

Christian Vernière 4 collaborations

Sohini Claverie 4 collaborations

Eric Verdin 4 collaborations

Rose-Marie Gomez 4 collaborations

Rafaela S Fontenele 4 collaborations

Oumaima Moubset 4 collaborations

Arnaud G Blouin 4 collaborations

Chantal Faure 4 collaborations

Romain Ferdinand 3 collaborations

Sarah François 3 collaborations

Mylène Ogliastro 3 collaborations

Claudie Pavis 3 collaborations

Lucas C Majure 3 collaborations

Martin F Wojciechowski 3 collaborations

Simone G Ribeiro 3 collaborations

Pauline Bernardo 3 collaborations

Gordon W Harkins 3 collaborations

Sébastien Theil 3 collaborations

Pascal Alonso 2 collaborations

Pierre Gladieux 2 collaborations

Frédéric Mahé 2 collaborations

Baihui Jin 2 collaborations

Huichuan Huang 2 collaborations

Xiahong He 2 collaborations

Jean-Benoit Morel 2 collaborations

Marie Frayssinet 2 collaborations

Rémy Froissart 2 collaborations

Essowè Palanga 2 collaborations

Agnès Pinel-Galzi 2 collaborations

Eugénie Hébrard 2 collaborations

Andrew M Salywon 2 collaborations

Ilaria N Cobb 2 collaborations

Amulya Bhaskara 2 collaborations

Jesús A Avalos-Calleros 2 collaborations

Gerardo R Argüello-Astorga 2 collaborations

Kara Schmidlin 2 collaborations

Anthony Khalifeh 2 collaborations

Kendal Smith 2 collaborations

Joshua Schreck 2 collaborations

Michael C Lund 2 collaborations

Matias Köhler 2 collaborations

Wendy C Hodgson 2 collaborations

Raul Puente-Martinez 2 collaborations

Koenraad Van Doorslaer 2 collaborations

Safaa Kumari 2 collaborations

Aymeric Antoine-Lorquin 2 collaborations

Yuxin Ma 2 collaborations

Laurence Svanella-Dumas 2 collaborations

Serge Galzi 2 collaborations

Michel Yvon 2 collaborations

Mame Boucar Diouf 2 collaborations

Olyvia Gaspard 2 collaborations

Philippe Rott 2 collaborations

René van der Vlugt 2 collaborations

Claude Bragard 2 collaborations

Virginie Debue 2 collaborations

Lucie Tamisier 2 collaborations

Lisa Claude 2 collaborations

Hugo Fontes 2 collaborations

Delphine Massé 2 collaborations

Nathalie Cassam 2 collaborations

Andrew Salywon 2 collaborations

Cécile Richet 2 collaborations

Carolyn M Malmstrom 2 collaborations

Lydiane Bonheur 2 collaborations

Isabelle Acina-Mambole 2 collaborations

Sandy Contreras 2 collaborations

Jean-Heinrich Daugrois 2 collaborations

Sélim Ben Chéhida 2 collaborations

Hervé Sanguin 1 collaboration

Eric Desmarais 1 collaboration

Frédérique Cerqueira 1 collaboration

Doriane Mutuel 1 collaboration

Alison B Duncan 1 collaboration

Leonor R Rodrigues 1 collaboration

Celya Danzelle 1 collaboration

Sophie Lefevre 1 collaboration

Inês Santos 1 collaboration

Sarah Scussel 1 collaboration

Hamza A Azali 1 collaboration

Mark Tepfer 1 collaboration

Isabelle Robène 1 collaboration

Cyril Jourda 1 collaboration

Michel Roux-Cuvelier 1 collaboration

Ezechiel Bionimian Tibiri 1 collaboration

Martine Bangratz 1 collaboration

Moustapha Koala 1 collaboration

James Bouma Néya 1 collaboration

Christophe Brugidou 1 collaboration

Fidèle Tiendrébéogo 1 collaboration

Guilhem Sempéré 1 collaboration

Adrien Pétel 1 collaboration

Magsen Abbé 1 collaboration

Gaël Baurens 1 collaboration

Suzia Gélabale 1 collaboration

Séverine Gallet 1 collaboration

Franciane Gamiette 1 collaboration

Kehinde A Oyeniran 1 collaboration

Simona P Kraberger 1 collaboration

Maximilien Kulikowski 1 collaboration

Elodie Pirolles 1 collaboration

Marie Lefebvre 1 collaboration

Sébastien Guyader 1 collaboration

Marie-Michelle Nopoly 1 collaboration

Vikas Sharma 1 collaboration

Florian Maumus 1 collaboration

Selim Ben Chehida 1 collaboration

Carolyn Malmstrom 1 collaboration

Yves Kwibuka 1 collaboration

Espoir Bisimwa 1 collaboration

Santatra Ravelomanantsoa 1 collaboration

Sara Shakir 1 collaboration

Hervé Vanderschuren 1 collaboration

Thomas L German 1 collaboration

Diane E Ullman 1 collaboration

Ranjit Dasgupta 1 collaboration

Maxwell H Parker 1 collaboration

Sulley Ben-Mahmoud 1 collaboration

Patrick Gognalons 1 collaboration

Aurélie Ancelin 1 collaboration

Joséphine Laï Kee Him 1 collaboration

Justine Girard 1 collaboration

Marie-Stéphanie Vernerey 1 collaboration

Patrick Bron 1 collaboration

Yannis Michalakis 1 collaboration

Stéphane Blanc 1 collaboration

François J Maclot 1 collaboration

Núria Fontdevila Pareta 1 collaboration

Issiaka Bagayoko 1 collaboration

Marcos Giovanni Celli 1 collaboration

Gustavo Romay 1 collaboration

Nils Poulicard 1 collaboration

Drissa Sérémé 1 collaboration

Jean H Daugrois 1 collaboration

Philippe C Rott 1 collaboration

Sélim Ben Chehida 1 collaboration

François Mesléard 1 collaboration

Joy M Custer 1 collaboration

Elizabeth Makings 1 collaboration

Frédéric Chiroleu 1 collaboration

Virginie Ravigné 1 collaboration

Daisy Stainton 1 collaboration

Maketalena Aleamotu'a 1 collaboration

James McCarthy 1 collaboration

Lachlan S Charles 1 collaboration

Natalia S Lamas 1 collaboration

Emanuel F M Abreu 1 collaboration

Rayane A Abreu 1 collaboration

Graciete B Batista 1 collaboration

Ana L M Lacerda 1 collaboration

Alassane Ouattara 1 collaboration

Pei-Jung Shih 1 collaboration

Pierre Mournet 1 collaboration

Julien Frouin 1 collaboration

Henry Adreit 1 collaboration

Elisabeth Fournier 1 collaboration

Aurélie Ducasse 1 collaboration

Vladimir Grosbois 1 collaboration

Fabiola Anzala 1 collaboration

Mathilde Eck 1 collaboration

Hanna Susi 1 collaboration

Mikko J Frilander 1 collaboration

Anna-Liisa Laine 1 collaboration

Stéphanie Boulêtreau 1 collaboration

Laurent Carry 1 collaboration

Elise Meyer 1 collaboration

Damien Filloux 1 collaboration

Olivier Menchi 1 collaboration

Vincent Mataix 1 collaboration

Frédéric Santoul 1 collaboration

Coline Temple 1 collaboration

Lilik Putra 1 collaboration

Dimitre Mollov 1 collaboration

Philippe Charles Emile Rott 1 collaboration

Bruno Hostachy 1 collaboration