Jean-Luc Bailly

Jean-Luc Bailly
Université Clermont Auvergne | Univ BPC · Faculty of medicine

PhD

About

127
Publications
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2,566
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Publications

Publications (127)
Article
Aim: Molecular characterization of enterovirus A71 (EV-A71) and coxsackievirus A24 (CVA-24) strains isolated during neurological diseases surveillance activities in Tunisian patients. Materials & methods: Specimens were obtained from two Tunisian children and analyzed for enterovirus with quantitative reverse transcription PCR (RT-qPCR). We sequenc...
Article
Full-text available
Coxsackievirus A6 (CVA6) emerged as the most common enterovirus of seasonal outbreaks of hand-foot-and-mouth disease (HFMD). We investigated CVA6 genetic diversity among the clinical phenotypes reported in the paediatric population during sentinel surveillance in France between 2010 and 2018. CVA6 infection was confirmed in 981 children (mean age 1...
Article
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We report a rapid increase in enterovirus D68 (EV-D68) infections, with 139 cases reported from eight European countries between 31 July and 14 October 2021. This upsurge is in line with the seasonality of EV-D68 and was presumably stimulated by the widespread reopening after COVID-19 lockdown. Most cases were identified in September, but more are...
Article
We report a large-scale outbreak of hand, foot and mouth disease (HFMD) in France. As at 28 September 2021, 3,403 cases have been reported (47% higher than in 2018–19). We prospectively analysed 210 clinical samples; 190 (90.5%) were enterovirus-positive. Most children presented with atypical HFMD. Coxsackievirus (CV)A6 (49.5%; 94/190) was predomin...
Article
Full-text available
Background: Non-polio enteroviruses (EVs) and human parechoviruses (PeVs) cause a wide range of human infections. Limited data on their true disease burden exist as standardized European-wide surveillance is lacking. Aims: Our aim is to estimate the disease burden of EV and PeV infections in Europe via establishment of standardized surveillance...
Article
Full-text available
Enterovirus D68 (EV-D68) has emerged as an agent of epidemic respiratory illness and acute flaccid myelitis in the paediatric population but data are lacking in adult patients. We performed a 4.5-year single-centre retrospective study of all patients who tested positive for EV-D68 and analysed full-length EV-D68 genomes of the predominant clades B3...
Article
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In 2018, an upsurge in echovirus 30 (E30) infections was reported in Europe. We conducted a large-scale epidemiologic and evolutionary study of 1,329 E30 strains collected in 22 countries in Europe during 2016-2018. Most E30 cases affected persons 0-4 years of age (29%) and 25-34 years of age (27%). Sequences were divided into 6 genetic clades (G1-...
Article
The aim of the present study was to develop a simple, sensitive, and specific approach to quantifying the SARS-CoV-2 genome in wastewater and to evaluate this approach as a means of epidemiological surveillance. Twelve wastewater samples were collected from a metropolitan area in north-eastern France during April and May 2020. In addition to the qu...
Article
Enterovirus D68 (EV-D68) was detected in 93 patients from five European countries between 1 January 2019 and 15 January 2020, a season with expected low circulation. Patients were primarily children (n = 67, median age: 4 years), 59 patients required hospitalisation and five had severe neurologic manifestations. Phylogenetic analysis revealed two c...
Article
Full-text available
PCR detection has become the gold standard for diagnosis and typing of enterovirus (EVs) and human parechovirus (HPeV) infections. Its effectiveness depends critically on using appropriate sample types and high assay sensitivity since viral loads in cerebrospinal fluid samples from meningitis and sepsis clinical presentation can be extremely low. T...
Article
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In a one-year (October 2014-October 2015) pilot study, we assessed wastewater monitoring with sustained sampling for analysis of global enterovirus (EV) infections in an urban community. Wastewater was analysed by ultra-deep sequencing (UDS) after PCR amplification of the partial VP1 capsid protein gene. The nucleotide sequence analysis showed an u...
Article
Full-text available
In 2016, an upsurge of neurologic disease associated with infection with multirecombinant enterovirus A71 subgenogroup C1 lineage viruses was reported in France. These viruses emerged in the 2000s; 1 recombinant is widespread. This virus lineage has the potential to be associated with a long-term risk for severe disease among children.
Article
Human enteroviruses of species A (EV-A), including EV-A71, are the leading cause of hand-foot-and-mouth disease (HFMD) and may also cause severe neurological manifestations. We investigated the circulation and molecular evolution of EV-A in Madagascar, focusing particularly on the recently described EV-A71 genogroup F. Eight different types, collec...
Article
Background Enteroviruses are the most frequent cause of acute meningitis and are seen increasingly in sepsis-like disease and fever without source in the paediatric population. Detection of enterovirus in cerebrospinal fluid (CSF) specimens by PCR is the gold standard diagnostic test. Our aim was to assess a method of detecting enterovirus in blood...
Article
Full-text available
Background Human enteric viruses are resistant in the environment and transmitted via the faecal-oral route. Viral shedding in wastewater gives the opportunity to track emerging pathogens and study the epidemiology of enteric infectious diseases in the community.Aim:The aim of this study was to monitor the circulation of enteric viruses in the popu...
Article
Full-text available
Enteroviruses (EV) can cause severe neurological and respiratory infections, and occasionally lead to devastating outbreaks as previously demonstrated with EV-A71 and EV-D68 in Europe. However, these infections are still often underdiagnosed and EV typing data is not currently collected at European level. In order to improve EV diagnostics, collate...
Article
Since its discovery in 1962, enterovirus D68 (EV-D68) was one of the less frequently detected enteroviruses by the surveillance networks worldwide. In 2014, US pediatric hospitals reported increases in the number of children with severe respiratory illness. Following the alerts from the Center for Disease Control and Prevention, numerous cases of E...
Article
Hand foot and mouth disease (HFMD) is a relatively unreported disease in India. This study was undertaken to characterize the enterovirus type/s associated with two unexpectedly-massive epidemics that occurred in Bangalore, India in 2013 and 2015. Stool samples of 229 children with HFMD living in Northern and Southern areas of Bangalore were tested...
Article
Full-text available
Coxsackievirus A16 (CV-A16; Picornaviridae) is an enterovirus (EV) type associated with hand, foot, and mouth disease (HFMD) in children. To investigate the spatial spread of CV-A16, we used viral sequence data sampled during a prospective sentinel surveillance of HFMD in France (2010 to 2014) and phylogenetic reconstruction. A data set of 168 VP1...
Article
The clinical impact of enteroviruses associated with hand, foot and mouth disease (HFMD) is unknown outside Asia, and the prevalence of enterovirus A71 (EV-A71) in particular might be underestimated. To investigate the prevalence of enterovirus serotypes and the clinical presentations associated with HFMD in France, we conducted prospective ambulat...
Data
Number of sentinel pediatricians and number of children included in surveillance of hand, foot and mouth disease and herpangina, by region, France, April 2014–March 2015.
Article
Full-text available
The enterovirus (EV) types echovirus (E-) 5, E-9, and E-18, and coxsackievirus (CV-) A9 are infrequently reported in human diseases and their epidemiologic features are poorly defined. Virus transmission patterns between countries have been estimated with phylogenetic data derived from the 1D/VP1 and 3CD gene sequences of a sample of 74 strains obt...
Data
Spatial diffusion assessed with the phylogenetic data inferred from the 5' partial 1D/VP1 sequences of four enterovirus types and comparison with the spatial diffusion assessed with other sequence datasets. (DOCX)
Data
Incongruence between tree topologies inferred with the 1D/VP1 and 3CD gene sequences for enterovirus types E-18 (S1A), E-5 (S1B), E-9 (S1C), and CV-A9 (S1D). The phylogenetic clusters in the 1D/VP1 trees (left panels) were traced back to the 3CD tree (right panels) to investigate the involvement of recombination in the evolutionary pathway of each...
Data
Spatial diffusion patterns assessed for echovirus 9 (A), echovirus 18 (B), and coxsackievirus A9 (C). The diffusion patterns were inferred through phylogenetic analyses of sequence samples derived from the 3’ part of the 1D/VP1 gene. The alignments were constructed by selecting the largest number of sequences that shared as many nucleotide position...
Data
Enterovirus samples used in the study. (PDF)
Data
Publicly available sequence data used in the study. (PDF)
Data
Phylogenetic tree inferred with 3CD sequence data of five enterovirus types (E-5, E-6, E-9, E-18, and CV-A9) showing virus transportation events. The phylogeny was estimated with 117 3CD gene sequences by a Bayesian Markov chain Monte Carlo analysis implementing a discrete phylogeographic model. The branches are colored according to the geographic...
Data
General features of the 1D/VP1 gene sequence datasets used in the study. (DOCX)
Article
Acute enterovirus (EV) meningitis is a frequent cause of hospitalisation, and over 100 EV serotypes may be involved. A total of 215 patients of all ages with meningitis signs were investigated in 2 Tunisian hospitals. Their cerebrospinal fluid (CSF) was analysed retrospectively for EVs with a TaqMan real-time RT-qPCR. The virus strains were typed,...
Article
Full-text available
Enterovirus 71 (EV-71) is involved in epidemics of hand, foot, and mouth disease (HFMD) and has been reported to occur with severe neurological complications in eastern and south-east Asia. In other geographical areas, the transmission of this virus is poorly understood. We used large sequence datasets (of the gene encoding the viral protein 1, VP1...
Research
Full-text available
Enterovirus 71 (EV-71) is involved in epidemics of hand, foot, and mouth disease (HFMD) with severe neurological complications in the Asia-Pacific region. The transmission of this virus is poorly understood in other geographic areas. We used large sequence datasets (gene encoding the viral protein 1, VP1) and Bayesian phylogenetic procedure to comp...
Article
Full-text available
Human cerebral microvascular endothelial cells (hCMEC/D3 cell line) form a steady polarized barrier when cultured in vitro on a permeable membrane. Their susceptibility to enterovirus (EV) strains was analysed to investigate how these viruses may cross the blood-brain barrier. A sample of 88 virus strains was selected on phylogenetic features among...
Article
Full-text available
In France during 2012, human enterovirus 71 (EV-A71) subgenogroup C4 strains were detected in 4 children hospitalized for neonatal fever or meningitis. Phylogenetic analysis showed novel and independent EV-A71 introductions, presumably from China, and suggested circulation of C4 strains throughout France. This observation emphasizes the need for mo...
Data
Full-text available
Dated phylogeny inferred by using 97 enterovirus 71 1D gene sequences encoding the VP1 capsid proteins; taxon names of the strains selected for the phylogenetic analyses are shown.
Article
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Several picornaviruses (Picornaviridae) are currently attracting interest without the need of being "emergent". The Parechovirus genus, validated 40 years after the discovery of the first two members ("echoviruses 22 and 23") includes neurotropic viruses whose molecular diagnosis demonstrated the involvement in infant meningitis and newborn sepsis,...
Article
Full-text available
Background: Acute enterovirus (EV) meningitis is a major cause of hospitalization among adults and children. It is caused by multiple EV genotypes assigned to 4 species (EV-A, EV-B, EV-C, and EV-D). Methods: We determined viral loads in the cerebrospinal fluid (CSF) of 156 patients of all ages with EV meningitis during a 5-year observational pro...
Conference Paper
Full-text available
Human enteroviruses (EV) are characterized by a large genetic variability with a hundred of geno(sero)types divided in several genogroups. The most vexing syndromes caused by EVs are seen in patients with neurological diseases. EV infections are related to clinical symptoms of a broad range of illnesses including for instance frequent acute meningi...
Conference Paper
Full-text available
Human enteroviruses (EV) are characterized by a large genetic variability with a hundred of geno(sero)types divided in several genogroups. The most vexing syndromes caused by EVs are seen in patients with neurological diseases. EV infections are related to clinical symptoms of a broad range of illnesses including for instance frequent acute meningi...
Conference Paper
Full-text available
Enteroviruses (EVs) are the most common cause of viral meningitis in the pediatric population and are not uncommon in adults [1]. Diagnosis of EV infection in patients with suspected meningitis relies on examining cerebrospinal fluid (CSF) with rapid nucleic acid amplification tests, a procedure that avoids unnecessary investigations and antimicrob...
Article
Full-text available
Most circulating strains of Human enterovirus 71 (EV-A71) have been classified primarily into three genogroups (A to C) on the basis of genetic divergence between the 1D gene, which encodes the VP1 capsid protein. The aim of the present study was to provide further insights into the diversity of the EV-A71 genogroups following the recent descriptio...
Article
Full-text available
The aim of this study was to gain insights into the tempo and mode of the evolutionary processes that sustain genetic diversity in coxsackievirus B5 (CVB5) and into the interplay with virus transmission. We estimated phylodynamic patterns with a large sample of virus strains collected in Europe with Bayesian statistical methods, reconstructed ances...
Article
Full-text available
Enteroviruses (EVs) are a major cause of aseptic meningitis, and RNA detection using molecular assay is the gold standard diagnostic test. The aim of this study was to assess the impact of an EV positive diagnosis on the clinical management of patients admitted for meningitis over the course of two observational study periods (2005 and 2008-09) in...
Data
Full-text available
Clinical characteristics of patients on admission over the two study periods (2005 vs 2008–09). (PDF)
Data
Background Human enterovirus 71 (EV-71) emerged as a significant pathogen able to cause large outbreaks involving severe neurological cases and children fatalities in Asia.
Article
Human enteroviruses are the most frequent cause of aseptic meningitis and are involved in other neurological infections. Qualitative detection of enterovirus genomes in cerebrospinal fluid is a prerequisite in diagnosing neurological diseases. The pathogenesis of these infections is not well understood and research in this domain would benefit from...