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List of works by Philippe Roumagnac

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High-throughput sequencing provides insights into genome variation and evolution in Salmonella Typhi

scientific article published on 27 July 2008
Yersinia pestis genome sequencing identifies patterns of global phylogenetic diversity

scientific article published in December 2010
Frequent emergence and limited geographic dispersal of methicillin-resistant Staphylococcus aureus

scholarly article
ICTV Virus Taxonomy Profile: Geminiviridae

scientific article
Recombination in eukaryotic single stranded DNA viruses

scientific article
Plant Virus Metagenomics: Advances in Virus Discovery

scientific article
Shifting the paradigm from pathogens to pathobiome: new concepts in the light of meta-omics.

scientific article
Evolution and population structure of Salmonella enterica serovar Newport

scientific article
Capulavirus and Grablovirus: two new genera in the family Geminiviridae

scientific article
Phylogeography and molecular epidemiology of Yersinia pestis in Madagascar

scientific article published on 13 September 2011
High-throughput genotyping of Salmonella enterica serovar Typhi allowing geographical assignment of haplotypes and pathotypes within an urban District of Jakarta, Indonesia

scientific article published on 5 March 2008
Appearances can be deceptive: revealing a hidden viral infection with deep sequencing in a plant quarantine context

scientific article
Diverse circular replication-associated protein encoding viruses circulating in invertebrates within a lake ecosystem

scientific article published on 9 February 2016
Identification and characterisation of a highly divergent geminivirus: evolutionary and taxonomic implications

scientific article
A multiplex single nucleotide polymorphism typing assay for detecting mutations that result in decreased fluoroquinolone susceptibility in Salmonella enterica serovars Typhi and Paratyphi A.

scientific article published on 28 May 2010
Alfalfa Leaf Curl Virus: an Aphid-Transmitted Geminivirus

scientific article
Geometagenomics illuminates the impact of agriculture on the distribution and prevalence of plant viruses at the ecosystem scale

scientific article published on 20 October 2017
Discovery of parvovirus-related sequences in an unexpected broad range of animals

scientific article
Identification of novel Bromus- and Trifolium-associated circular DNA viruses

scientific article published on 21 February 2015
Alphasatellitidae: a new family with two subfamilies for the classification of geminivirus- and nanovirus-associated alphasatellites

Metagenomic-Based Screening and Molecular Characterization of Cowpea-Infecting Viruses in Burkina Faso

scientific article (publication date: 2016)
The genome of African yam (Dioscorea cayenensis-rotundata complex) hosts endogenous sequences from four distinct Badnavirus species.

scientific article published on 15 April 2014
Molecular characterization and prevalence of two capulaviruses: Alfalfa leaf curl virus from France and Euphorbia caput-medusae latent virus from South Africa

scientific article
Genome sequences of a capulavirus infecting Plantago lanceolata in the Åland archipelago of Finland

scientific article published on 10 March 2017
Salmonella enterica Serotype Typhi with nonclassical quinolone resistance phenotype.

scientific article
Evolution and ecology of plant viruses

scientific article published on 16 July 2019
The genomes of many yam species contain transcriptionally active endogenous geminiviral sequences that may be functionally expressed

scientific article
From Spatial Metagenomics to Molecular Characterization of Plant Viruses: A Geminivirus Case Study

Pathology and viral metagenomics, a recent history

scientific article published on 28 May 2013
A Novel Itera-Like Densovirus Isolated by Viral Metagenomics from the Sea Barley Hordeum marinum

scientific article
Metagenomics Approaches Based on Virion-Associated Nucleic Acids (VANA): An Innovative Tool for Assessing Without A Priori Viral Diversity of Plants

scientific article published on January 2015
Diverse and variable virus communities in wild plant populations revealed by metagenomic tools

article
New media for the semiselective isolation and enumeration of Xanthomonas campestris pv. mangiferaeindicae, the causal agent of mango bacterial black spot.

scientific article
Nanovirus-alphasatellite complex identified in Vicia cracca in the Rhône delta region of France

scientific article
Occurrence of a novel mastrevirus in sugarcane germplasm collections in Florida, Guadeloupe and Réunion

scientific article
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

scientific article published on 10 September 2014
Viral Metagenomics Approaches for High-Resolution Screening of Multiplexed Arthropod and Plant Viral Communities

scientific article
Polyphasic characterization of Xanthomonas axonopodis pv. allii associated with outbreaks of bacterial blight on three Allium species in the Mascarene archipelago

scientific article published on August 2008
Exploiting Genetic Information to Trace Plant Virus Dispersal in Landscapes

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

article by Cécile Richet et al published 15 September 2018 in Archives of Virology
Viral Metagenomic-Based Screening of Sugarcane from Florida Reveals Occurrence of Six Sugarcane-Infecting Viruses and High Prevalence of Sugarcane yellow leaf virus

article by D. Filloux et al published November 2018 in Plant Disease
Complete genome sequences of cowpea polerovirus 1 and cowpea polerovirus 2 infecting cowpea plants in Burkina Faso

scientific article published on 23 March 2017
First Report of Alfalfa Leaf Curl Virus from Alfalfa in Iran

The Westward Journey of Alfalfa Leaf Curl Virus

scientific article published on 04 October 2018
Spatial and Temporal Analyses of Bacterial Blight of Onion Caused by Xanthomonas axonopodis pv. allii

scientific article published on 01 February 2004
First Report of Alfalfa Leaf Curl Virus Affecting Alfalfa (Medicago sativa) in Jordan, Lebanon, Syria, and Tunisia

Characterization of alfalfa virus F, a new member of the genus Marafivirus

scientific article published in PLoS ONE
Increase in taxonomic assignment efficiency of viral reads in metagenomic studies

scientific article published on 14 November 2017
Two novel Alphaflexiviridae members revealed by deep sequencing of the Vanilla (Orchidaceae) virome

scientific article published on September 2017
A Novel Divergent Geminivirus Identified in Asymptomatic New World Cactaceae Plants

scientific article published on 03 April 2020

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