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Jean-Marc Collard

Jean-Marc Collard
Institut Pasteur of Shanghai/Chinese Academy of Sciences · Experimental bacterilogy laboratory

PhD

About

190
Publications
19,722
Reads
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4,017
Citations
Introduction
I am a senior scientist (PhD) with experience in bacteriology, molecular biology and public health. I headed several National Reference Centers in Brussels. I extended my expertise in the field of bacterial meningitis in Africa. I have worked in multi-centric studies in Madagascar addressing the incidence of community-acquired neonatal infections and the spread of multi-drug resistant bacteria. Currently I am investigating the stepwise construction of the gut bacterial ecosystem.
Additional affiliations
September 2014 - present
The Pasteur Institute of Madagascar
Position
  • Head of the Unit of Experimental Bacteriology
March 2008 - present
Centre for Medical Research and Health
Centre for Medical Research and Health
Position
  • Medical
Description
  • In charge of the NRC for bacterial meningitis, along with flu, rotavirus, whooping cough. PI in Niger for MenAfriCar and PAGe Consortia
March 2008 - February 2013
Institut Pasteur International Network
Position
  • Head of the Biology Unit

Publications

Publications (190)
Article
Full-text available
Background: Globally one out of four children under 5 years is affected by linear growth delay (stunting). This syndrome has severe long-term sequelae including increased risk of illness and mortality and delayed psychomotor development. Stunting is a syndrome that is linked to poor nutrition and repeated infections. To date, the treatment of stun...
Article
Full-text available
Background: The Sahel region of West Africa has the highest bacterial meningitis attack and case fatality rate in the world. The effect of climatic factors on patterns of invasive respiratory bacterial disease is not well documented. Objective: We aimed to assess the link between climatic factors and occurrence of invasive respiratory bacterial...
Article
Full-text available
Serotype 1 Streptococcus pneumoniae is a leading cause of invasive pneumococcal disease (IPD) worldwide, with the highest burden in developing countries. We report the whole-genome sequencing analysis of 448 serotype 1 isolates from 27 countries worldwide (including 11 African). The global serotype 1 population shows a strong phylogeographic struct...
Article
Full-text available
The epidemiology of pneumococcal meningitis in the African 'meningitis belt' is poorly studied. In order to ensure an effective vaccination strategy and post-vaccination surveillance, we examined the serotype distribution patterns of pneumococcal meningitis in Niger over the period 2003-2011. Cerebrospinal fluid (CSF) samples were collected from di...
Article
Meningococcocal meningitis represents an important cause of mortality and morbidity in sub-Saharan countries. Confirmatory bacteriological or molecular diagnosis is essential for patient management/treatment and meningitis surveillance, but many laboratory tests are expensive and rarely available for low-income countries. A rapid diagnostic test (R...
Article
Introduction: Data regarding the acquisition of extended-spectrum beta-lactamase-producing Enterobacteriaceae (ESBL-PE) in neonates at the community level are scarce in low-income and middle-income countries (LMICs), where the burden of neonatal sepsis is high.Our study aims at identifying and quantifying the role of the different routes of ESBL-P...
Article
Full-text available
Environmental enteric dysfunction (EED) is an elusive, inflammatory syndrome of the small intestine thought to be associated with enterocyte loss and gut leakiness and lead to stunted child growth. To date, the gold standard for diagnosis is small intestine biopsy followed by histology. Several putative biomarkers for EED have been proposed and are...
Article
Full-text available
Background Anaemia occurs in children when the haemoglobin level in the blood is less than the normal (11 g/dL), the consequence is the decrease of oxygen quantity in the tissues. It is a prevalent public health problem in many low-income countries, including Madagascar, and data on risk factors are lacking. We used existing data collected within t...
Article
Full-text available
Background: In Southeast-Asia, where many conditions associated with dissemination of ESBL-producing Enterobacterales (ESBL-E) in the community are met, data from the community are scarce but show high ESBL-E carriage prevalence. Maternal ESBL-E colonization is considered a risk factor for neonatal colonization, which is the first step towards dev...
Article
Full-text available
Environmental Enteric Dysfunction (EED) refers to an incompletely defined syndrome of inflammation, reduced absorptive capacity, and reduced barrier function in the small intestine. It is widespread among children and adults in low- and middle-income countries and is also associated with poor sanitation and certain gut infections possibly resulting...
Article
Full-text available
Klebsiella pneumoniae can lead to a wide range of diseases including pneumonia, bloodstream and urinary tract infections. During a short period of a pulmonary plague epidemic in October 2017 in Madagascar, 12 K. pneumoniae isolates were identified in ten sputum and two buboes aspirate samples. These isolates were from 12 patients suspected of plagu...
Article
Background Children in low- and middle-income countries are particularly vulnerable in the months following an initial health event (IHE), with increased risk of mortality caused mostly by infectious diseases. Due to exposure to a wide range of environmental stressors, hospitalization in itself might increase child vulnerability at discharge. The g...
Article
Full-text available
In 2019, the world faced a serious health challenge, the rapid spreading of a life-threatening viral pneumonia, coronavirus disease 2019 (COVID-19) caused by a betacoronavirus severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). As of January 2022 WHO statistics shows more than 5.6 million death and about 350 million infection by SARS-CoV-...
Article
Full-text available
Diphtheria is a potentially devastating disease whose epidemiology remains poorly described in many settings, including Madagascar. Diphtheria vaccination is delivered in combination with pertussis and tetanus antigens and coverage of this vaccine is often used as a core measure of health system functioning. However, coverage is challenging to esti...
Preprint
Full-text available
Microorganisms could be used as efficient tools to protect high value therapeutic plants against overexploitation and climate change. This work aimed to isolate alkaloids producing endophytic and rhizospheric soil actinomycetes and fungi of Catharanthus roseus . From a total of eleven actinomycetes and eight fungi strains isolated by dilution and p...
Article
Full-text available
Background Timely and accurate identification of uropathogens and determination of their antimicrobial susceptibility is paramount to the management of urinary tract infections (UTIs). The main objective of this study was to develop an assay using LAMP (Loop mediated isothermal amplification) technology for simple, rapid and sensitive detection of...
Article
Full-text available
Objectives With a fourth of all under-five children affected, stunting remains one of the biggest health challenges worldwide. Even though the main underlying factors are known, the exact pathways to stunting varying in affected regions, and interventions thus need to be tailored to the local contexts. This study aimed assessing and comparing facto...
Article
Full-text available
Background Severe bacterial infections (SBIs) are a leading cause of neonatal deaths in low- and middle-income countries (LMICs). However, most data came from hospitals, which do not include neonates who did not seek care or were treated outside the hospital. Studies from the community are scarce, and few among those available were conducted with h...
Article
Maternal group B Streptococcus (GBS) colonization is a major risk factor for neonatal GBS infection. However, data on GBS are scarce in low- and middle-income countries. Using sociodemographic data and vaginal swabs collected from an international cohort of mothers and newborns, this study aimed to estimate the prevalence of GBS colonization among...
Preprint
Full-text available
Background: Timely and accurate identification of uropathogens and determination of their antimicrobial susceptibility is paramount to the management of urinary tract infections (UTIs). The main objective of this study was to develop an assay using LAMP (Loop mediated isothermal amplification) technology for simple, rapid and sensitive detection of...
Preprint
Full-text available
Klebsiella pneumoniae can lead to a wide range of diseases including pneumonia, bloodstream, and urinary tract infections. During a short period of a plague epidemic in October 2017 in Madagascar, 12 K. pneumoniae isolates were identified in ten sputum and two buboes aspirate samples. These isolates were from 12 patients suspected of plague, withou...
Article
Full-text available
Background This study aimed to compare the prevalence of intestinal parasite infestations (IPIs) in stunted children, compared to control children, in Ankasina and Andranomanalina Isotry (two disadvantaged neighborhoods of Antananarivo, Madagascar), to characterize associated risk factors and to compare IPI detection by real-time PCR and standard m...
Article
Our gut microbiota is known as an efficient barrier for infection; however, the physiological processes involved are poorly understood. Stacy et al. recently shed light on the key contribution of taurine to the trainable resistance of the gut microbiota to infection. This represents a groundbreaking advance for future microbiota-based therapeutics.
Article
Full-text available
Pertussis is a highly contagious infectious disease and remains an important cause of mortality and morbidity worldwide. Over the last decade, vaccination has greatly reduced the burden of pertussis. Yet, uncertainty in individual vaccination coverage and ineffective case surveillance systems make it difficult to estimate burden and the related qua...
Article
Full-text available
Hyper-virulent Streptococcus pneumoniae serotype 1 strains are endemic in Sub-Saharan Africa and frequently cause lethal meningitis outbreaks. It remains unknown whether genetic variation in serotype 1 strains modulates tropism into cerebrospinal fluid to cause central nervous system (CNS) infections, particularly meningitis. Here, we address this...
Article
Full-text available
Background: Child undernutrition is a global health issue that is associated with poor sanitation and an altered intestinal microbiota. Immunoglobulin (Ig) A mediates host-microbial homeostasis in the intestine, and acutely undernourished children have been shown to have altered IgA recognition of the fecal microbiota. We sought to determine wheth...
Article
Full-text available
Background Klebsiella pneumoniae (hereafter, Kp) is a major public health threat responsible for high levels of multidrug resistant (MDR) human infections. Besides, Kp also causes severe infections in the community, especially in Asia and Africa. Although most Kp infections are caused by endogenous intestinal carriage, little is known about the pre...
Article
Full-text available
Objectives: To define characteristics of Klebsiella pneumoniae isolated from carriage and infections in mothers and their neonates belonging to a paediatric cohort in Madagascar. Methods: A total of 2000 mothers and their 2001 neonates were included. For each mother, vaginal and stool samples were collected at the birth. Additionally, upon suspi...
Article
Full-text available
We report here the draft genome sequence of a Chryseobacterium indologenes strain, isolated from a blood culture of a 2.2-year-old child admitted to the hospital for vomiting and coughing. The genome was composed of 5,063,674 bp and had 37.04% GC content. We detected 4,796 genes with predicted protein-coding functions, including those associated wi...
Preprint
Full-text available
Stenotrophomonas maltophilia has been recognized as an emerging multidrug resistant organism in hospital settings due to its resistance to a broad range of antimicrobial agents. These include β-lactams and aminoglycosides, afforded by the existence of intrinsic and acquired resistance mechanisms. Trimethoprim/sulfamethoxazole (SXT) is recommended a...
Article
Full-text available
Objectives: A molecular analysis was performed of two Providencia rettgeri (P. rettgeri) strains (Pr 297 and Pr 269) collected in 2007 and 2009 from wound swabs of patients admitted to the intensive care units at Joseph Ravoangy Andrianavalona hospital and the Military Hospital in Antananarivo, Madagascar. Methods: The two P. rettgeri isolates w...
Conference Paper
Full-text available
Madagascar est un hotspot d'antibiorésistance dans l'océan Indien. Des prévalences élevées d'Entérobactéries productrices de bêta-lactamases à spectre étendu (EBLSE) étaient estimées chez les hommes et les animaux de ce territoire. Des gènes, conférant la résistance aux céphalosporines de 3 e génération (C3G), de type blaCTX-M-15 ont été identifiés...
Article
Full-text available
The diffusion of extended-spectrum beta-lactamase (E-ESBL)-producing Enterobacteriaceae is a major concern worldwide, especially in low-income countries, where they may lead to therapeutic failures. In hospitals, where colonization is the highest, E-ESBL transmission is poorly understood, limiting the possibility of establishing effective control m...
Article
Full-text available
Objective To investigate potential risk factors for acquisition in seven countries of the meningitis belt. Methods Households were followed up every 2 weeks for 2 months, then monthly for a further 4 months. Pharyngeal swabs were collected from all available household members at each visit and questionnaires completed. Risks of acquisition over the...
Article
Full-text available
Background The present study aimed to perform a deep phenotypic and genotypic analysis of 15 clinical carbapenem-resistant Acinetobacter baumannii (CRAb) strains isolated in Madagascar between 2008 and 2016 from diverse sources. Methods CRAb isolates collected from the Clinical Biology Centre of the Institut Pasteur of Madagascar, from the neonata...
Article
Full-text available
Objective To investigate potential risk factors for acquisition in seven countries of the meningitis belt. Methods Households were followed up every 2 weeks for 2 months, then monthly for a further 4 months. Pharyngeal swabs were collected from all available household members at each visit and questionnaires completed. Risks of acquisition over th...
Conference Paper
Full-text available
Madagascar is a hotspot of antibiotic resistance in Indian ocean with high prevalence of Extended Spectrum Beta-Lactamase (ESBL)-producing Enterobacteriacae reported both in humans (i.e. 18.5% of colonization in women at delivery) and animals. In 2016-2017, prevalence in semi-intensive breeding farms (beef cattle, poultry and pigs) ranged from 66.7...
Article
Full-text available
Improved methods for the detection and characterization of carried Neisseria meningitidis isolates are needed. We evaluated a multiplex PCR algorithm for the detection of a variety of carriage strains in the meningitis belt. To further improve the sensitivity and specificity of the existing PCR assays, primers for gel-based PCR assays (sodC, H, Z)...
Poster
Full-text available
Madagascar is located South East of Africa. High prevalence of Extended Spectrum Beta-Lactamase-. producing Enterobacteriacae (ESBL-E) reported [1-2]: ESBL-E carriage in community and family farming livestock was poorly addressed. Patterns of ESBL-producing Escherichia coli between humans and animals in low income country were unknown. Study object...
Article
This study presents a triplex real-time PCR assay that allows for the direct detection of Streptococcus pneumoniae, Neisseria meningitidis, and Haemophilus influenzae in one reaction without DNA extraction, with similar sensitivity and specificity to singleplex assays. This approach saves time, specimen volume and reagents while achieving a higher...
Article
Full-text available
Linear growth delay (stunting) affects roughly 155 million children under the age of 5 years worldwide. Treatment has been limited by a lack of understanding of the underlying pathophysiological mechanisms. Stunting is most likely associated with changes in the microbial community of the small intestine, a compartment vital for digestion and nutrie...
Research
Pascale Vonaesch, Evan Morien, Lova Andrianonimiadana, Hugues Sanke, Jean-Robert Mbecko, Kelsey E. Huus, Tanteliniaina Naharimanananirina, Bolmbaye Privat Gondje, Synthia Nazita Nigatoloum, Sonia Sandrine Vondo, Jepthé Estimé Kaleb Kandou, Rindra Randremanana, Maheninasy Rakotondrainipiana, Florent Mazel, Serge Ghislain Djorie, Jean-Chrysostome God...
Article
Full-text available
Background The prevalence of bacteria producing CTX-M Extended-Spectrum β-lactamases (ESBLs) has increased around the world and some of them became a major cause of infections such as bloodstream or urinary tract infections (UTI). We developed a loop-mediated isothermal amplification (LAMP) assay for a simple, rapid and sensitive detection of the f...
Data
Optimization of MgSO4 concentration for LAMP CTX-M group 1 assay. 7mM and 8mM MgSO4 concentrations were used in the LAMP reaction. Betaine concentration was maintained at 0.8M and the reaction was performed at 65°C– 1H. The reaction products were loaded onto a 2% agarose gel for analysis. (JPG)
Data
Determination of the optimal reaction temperature for LAMP CTX-M group 9 assay. With 0.8M of betaine, MgSO4 at 7mM and amplification for 1H, the LAMP reaction was performed at 59, 61, 63, 65 and 67°C. The products were loaded onto a 2% gel for analysis. (JPG)
Data
Optimization of betaine concentration for LAMP CTX-M group 2 assay. Various betaine concentrations (0.6M, 0.8M, 1M and 1.2M) were used in the LAMP reaction. MgSO4 concentration was maintained at 7mM and the reaction was performed at 65°C– 1H. The reaction products were loaded onto a 2% agarose gel for analysis. (JPG)
Data
Optimization of betaine concentration for LAMP CTX-M group 8 assay. Various betaine concentrations (0.6M, 0.8M, 1M and 1.2M) were used in the LAMP reaction. MgSO4 concentration was maintained at 7mM and the reaction was performed at 65°C– 1H. The reaction products were loaded onto a 2% agarose gel for analysis. (JPG)
Data
Optimization of betaine concentration for LAMP CTX-M group 9 assay. Various betaine concentrations (0.6M, 0.8M, 1M and 1.2M) were used in the LAMP reaction. MgSO4 concentration was maintained at 7mM and the reaction was performed at 65°C– 1H. The reaction products were loaded onto a 2% agarose gel for analysis. (JPG)
Data
Optimization of MgSO4 concentration for LAMP CTX-M group 1 assay. 4mM and 6mM MgSO4 concentrations were used in the LAMP reaction. Betaine concentration was maintained at 0.8M and the reaction was performed at 65°C– 1H. The reaction products were loaded onto a 2% agarose gel for analysis. (JPG)
Data
Determination of the optimal reaction temperature for LAMP CTX-M group 1 assay. With 0.8M of betaine, MgSO4 at 7mM and amplification for 1H, the LAMP reaction was performed at 59, 61, 63, 65 and 67°C. The reaction products were visualized after coloration with the Sybr Green I dye. (JPG)
Data
Determination of the optimal reaction temperature for LAMP CTX-M group 8 assay. With 0.8M of betaine, MgSO4 at 7mM and amplification for 1H, the LAMP reaction was performed at 59, 61, 63, 65 and 67°C. The reaction products were visualized after coloration with the Sybr Green I dye. (JPG)
Data
Determination of the optimal reaction time of LAMP CTX-M group 2 assay. Betaine concentration maintained at 0.8M, MgSO4 at 7mM, amplification temperature at 63°C for 1H, the LAMP reaction was performed during 30, 45 and 60min. The reaction products were loaded onto a 2% agarose gel for analysis. (JPG)
Data
Detection limit of PCR CTX-M group 8 assay. Various amount of template DNA (1, 0.1, 0.05 and 0.01ng/μl) were used. Conventional PCR products were analyzed on agarose gel. (JPG)
Data
Detection limit of PCR CTX-M group 9 assay. Various amount of template DNA (1, 0.1, 0.05 and 0.01ng/μl) were used. Conventional PCR products were analyzed on agarose gel. (JPG)
Data
Optimization of betaine concentration for LAMP CTX-M group 1 assay. Various betaine concentrations (0.6M, 0.8M, 1M and 1.2M) were used in the LAMP reaction. MgSO4 concentration was maintained at 7mM and the reaction was performed at 65°C– 1H. The reaction products were loaded onto a 2% agarose gel for analysis. (JPG)