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Sarah François

Principal Investigator (chargé de recherche de classe normale)
Current affiliations
  • 577435
  • 302612
Researcher identifiers
  • IdHAL sarah-francois
  • ORCID 0000-0002-1138-8800
  • Google Scholar :


I am a permanent researcher (CRCN) at the INRAE institute (France). I use metagenomic approaches to study the epidemiology, the ecology and evolution of viruses. Research objectives: (1) Description of the diversity of insect-infecting viruses; (2) Identification of biotic and abiotic factors governing the diversity and distribution of viruses in natural insect populations and in agricultural ecosystems; (3) Evaluation of the contributions of virus communities to pathobiome dynamics, and identification of viral agents of interest for biocontrol. My PhD (2014-2017) research focused on the diversity and on the circulation of viruses in arthropod and plants that originated from agricultural ecosystems. During my postdoc at the University of Oxford (2018-2023), I investigated factors affecting the diversity and abundance of viruses associated with a wild waterbird population. I am also a member of the International Committee on Taxonomy of Viruses (ICTV) Parvoviridae family study group.

Research domains

Life Sciences [q-bio]


viral ecology virology metagenomics microbiota epidemiology


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Characterization of the genomic sequence of a circo-like virus and of three chaphamaparvoviruses detected in mute swan (Cygnus olor)

Sarah François , Sarah C Hill , Christopher M Perrins , Oliver G Pybus
Microbiology Resource Announcements, 2024, 13 (3), ⟨10.1128/mra.01186-23⟩
Journal articles hal-04505155v1
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Genetic diversity, recombination and cross-species transmission of a waterbird gammacoronavirus in the wild

Sarah François , Salik Nazki , Stephen H Vickers , Guillaume Fournié , Christopher M Perrins
Journal of General Virology, 2023, 104 (8), ⟨10.1099/jgv.0.001883⟩
Journal articles hal-04183014v1
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Impact of host age on viral and bacterial communities in a waterbird population

Sarah C Hill , Sarah François , Julien Thézé , Adrian L Smith , Peter Simmonds
The International Society of Microbiologial Ecology Journal, 2023, 17 (2), pp.215-226. ⟨10.1038/s41396-022-01334-4⟩
Journal articles hal-04026520v1
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Virion-associated nucleic acid-based metagenomics: a decade of advances in molecular characterization of plant viruses

Oumaima Moubset , Sarah François , François Maclot , Essowè Palanga , Charlotte Julian
Phytopathology, 2022, 112 (11), pp.2253-2272. ⟨10.1094/PHYTO-03-22-0096-RVW⟩
Journal articles hal-03705057v1
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Infection with a recently discovered gammaherpesvirus variant in european badgers, Meles meles, is associated with higher relative viral loads in blood

Ming-Shan Tsai , Sarah François , Chris Newman , David W. Macdonald , Christina D. Buesching
Pathogens, 2022, 11 (10), pp.1154. ⟨10.3390/pathogens11101154⟩
Journal articles hal-04338414v1
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Seasonal dynamics of the wild rodent faecal virome

Jayna Raghwani , Christina L. Faust , Sarah François , Dung Nguyen , Kirsty Marsh
Molecular Ecology, 2022, 32 (17), pp.4763-4776. ⟨10.1111/mec.16778⟩
Journal articles hal-04338469v1

Total infectomes of 162 SARS-CoV-2 cases using meta-transcriptomic sequencing

Hong Zhou , Cixiu Li , Tao Hu , Ti Liu , Nan Ni
Journal of Infection, 2021, 82 (1), pp.e44-e48. ⟨10.1016/j.jinf.2020.12.004⟩
Journal articles hal-04338901v1
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Patterns of genital tract mustelid gammaherpesvirus 1 (Musghv-1) reactivation are linked to stressors in european badgers (Meles Meles)

Ming-Shan Tsai , Sarah François , Chris Newman , David W. Macdonald , Christina D. Buesching
Biomolecules, 2021, 11 (5), pp.716. ⟨10.3390/biom11050716⟩
Journal articles hal-04338374v1
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Characterisation of the Viral Community Associated with the Alfalfa Weevil (Hypera postica) and Its Host Plant, Alfalfa (Medicago sativa)

Sarah François , Aymeric Antoine-Lorquin , Maximilien Kulikowski , Marie Frayssinet , Denis Filloux
Viruses, 2021, 13 (5), pp.791. ⟨10.3390/v13050791⟩
Journal articles hal-03247676v1
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Towards an understanding of the avian virome

Sarah François , Oliver G Pybus
Journal of General Virology, 2020, 101 (8), pp.785-790. ⟨10.1099/jgv.0.001447⟩
Journal articles hal-04338328v1
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Genomic Epidemiology of SARS-CoV-2 in Guangdong Province, China

Jing Lu , Louis Du Plessis , Zhe Liu , Verity Hill , Min Kang
Cell, 2020, 181 (5), pp.997-1003.e9. ⟨10.1016/j.cell.2020.04.023⟩
Journal articles hal-04338734v1
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Evolution and phylogeography of Culex pipiens densovirus

Mine Altinli , Sebastian Lequime , Maxime Courcelle , Sarah François , Fabienne Justy
Virus Evolution, 2019, 5 (2), pp.vez053. ⟨10.1093/ve/vez053⟩
Journal articles hal-02965158v1
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A New Prevalent Densovirus Discovered in Acari. Insight from Metagenomics in Viral Communities Associated with Two-Spotted Mite (Tetranychus urticae) Populations

Sarah François , Doriane Mutuel , Alison Duncan , Leonor Rodrigues , Celya Danzelle
Viruses, 2019, 11 (3), pp.233. ⟨10.3390/v11030233⟩
Journal articles hal-02154545v1
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New evidence for the east–west spread of the highly pathogenic avian influenza H5N1 virus between Central Asian and east Asian-Australasian flyways in China

Weiyue Meng , Qiqi Yang , Bram Vrancken , Zhuo Chen , Dongping Liu
Emerging microbes & infections, 2019, 8 (1), pp.823-826. ⟨10.1080/22221751.2019.1623719⟩
Journal articles hal-04338532v1
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Increase in taxonomic assignment efficiency of viral reads in metagenomic studies

Sarah François , Denis Filloux , Marie Frayssinet , Philippe Roumagnac , D. P. Martin
Virus Research, 2018, 244, pp.230-234. ⟨10.1016/j.virusres.2017.11.011⟩
Journal articles hal-01837312v1
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Characterization of alfalfa virus F, a new member of the genus Marafivirus

Lev G. Nemchinov , Sarah François , Philippe Roumagnac , Marie Helene Ogliastro , Rosemarie W. Hammond
PLoS ONE, 2018, 13 (9), ⟨10.1371/journal.pone.0203477⟩
Journal articles hal-01918048v1
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Discovery of parvovirus-related sequences in an unexpected broad range of animals

Sarah François , Denis Filloux , Philippe Roumagnac , D. Bigot , P. Gayral
Scientific Reports, 2016, 6, 13 p. ⟨10.1038/srep30880⟩
Journal articles hal-01511996v1

Molecular characterization and prevalence of two capulaviruses: Alfalfa leaf curl virus from France and Euphorbia caput-medusae latent virus from South Africa

Pauline Bernardo , Brejnev Muhire , Sarah François , Maelle Deshoux , Penelope Hartnady
Virology, 2016, 493, pp.142-153. ⟨10.1016/j.virol.2016.03.016⟩
Journal articles hal-01837296v1

Les densovirus : une « massive attaque » chez les arthropodes

Anne-Sophie Gosselin Grenet , Fanny Salasc , Sarah François , Doriane Mutuel , Thierry Dupressoir
Virologie, 2015, 19 (1), pp.19-31. ⟨10.1684/vir.2015.0589⟩
Journal articles hal-01837284v1
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A novel itera-like densovirus isolated by viral metagenomics from the sea barley Hordeum marinum

Sarah François , Pauline Bernardo , Denis Filloux , Philippe Roumagnac , N. Yaverkovski
Genome Announcements, 2014, 2 (6), ⟨10.1128/genomeA.01196-14⟩
Journal articles hal-01837275v1

Virus associés à des insectes ravageurs de cultures : diversité et écologie des communautés

Sarah François
17ème Congrès National de la Société Française de Microbiologie, 2022, Montpellier, France
Conference papers hal-04486321v1

Viral Metagenomics Approaches for High-Resolution Screening of Multiplexed Arthropod and Plant Viral Communities

Sarah François , Denis Filloux , Emmanuel Fernandez , Marie Helene Ogliastro , Philippe Roumagnac
Viral Metagenomics: Methods and Protocols, 1746, Humana Press Inc., 217 p., 2018, Methods in Molecular Biology, 978-1-4939-7683-6; 978-1-4939-7682-9. ⟨10.1007/978-1-4939-7683-6_7⟩
Book sections hal-02154687v1