Related Experiment Video
Updated: Sep 4, 2026

Identification of Rare Bacterial Pathogens by 16S rRNA Gene Sequencing and MALDI-TOF MS
Published on: July 11, 2016
Molecular epidemiology of a Malassezia pachydermatis neonatal unit outbreak
Amin Ilahi1, Inès Hadrich1, Sabrina Goudjil2
1Laboratoire de biologie moléculaire parasitaire et fongique, Faculté de Médecine de Sfax. Rue Magida Boulila, 3029 Sfax - Tunisie.
Abstract:
The non-lipid-dependent yeast Malassezia pachydermatis is predominantly zoophilic but occasionally colonizes the human skin. This yeast caused an outbreak in a neonatal iIntensive care unit (NICU). This study aimed to describe the molecular epidemiology of this M. pachydermatis outbreak. All the M. pachydermatis isolates collected at a French University Hospital from January 2012 to April 2013 were included in the study. M. pachydermatis isolates, sampled from various biological samples sites in 25 patients, were identified via MALDI-TOF mass spectrometry and typed using intergenic-spacer 1 (IGS1) nucleotide sequence polymorphisms analysis. By analyzing 90 IGS1 sequences (including 43 deposited in GenBank), we found that of the 186 M. pachydermatis isolates, 47 were viable for typing and all of them clustered within type 3; 78.7% clustered within the 3D subtype; the remaining clustered within three newly described subtypes: 3E (4.3%), 3F (8.5%) and 3 G (8.5%). No particular subtype was associated with a collection site or a particular time period. This first molecular investigation of a M. pachydermatis outbreak in neonates showed that multiple genotypes can colonize the same neonate patient by. The source of this polyclonal outbreak could not be identified. It stopped after infection control measures, including the prohibition of a lipid-rich moisturizing hand cream used by the health care staff, had been implemented.
Insights
A yeast outbreak in a neonatal intensive care unit (NICU) was investigated using molecular epidemiology. Multiple Malassezia pachydermatis genotypes colonized neonates, suggesting a polyclonal source, and the outbreak ceased after implementing infection control measures.
Area of Science:
- Medical Mycology
- Infectious Disease Epidemiology
- Molecular Biology
Background:
- Malassezia pachydermatis, a non-lipid-dependent yeast, is primarily found on animals but can colonize human skin.
- An outbreak of Malassezia pachydermatis occurred in a neonatal intensive care unit (NICU).
Purpose of the Study:
- To investigate the molecular epidemiology of a Malassezia pachydermatis outbreak in a NICU.
- To characterize the genetic diversity of Malassezia pachydermatis isolates during the outbreak.
Main Methods:
- Isolates were collected from 25 neonates over 16 months at a French University Hospital.
- Yeast identification was performed using MALDI-TOF mass spectrometry.
- Molecular typing utilized intergenic-spacer 1 (IGS1) nucleotide sequence polymorphisms analysis.
Main Results:
- Of 186 isolates, 47 were typed, all belonging to type 3.
- The majority (78.7%) were subtype 3D, with three new subtypes (3E, 3F, 3G) identified.
- No specific subtype was linked to sample site or time; multiple genotypes colonized individual neonates.
Conclusions:
- This study provides the first molecular insight into a Malassezia pachydermatis outbreak in neonates.
- The outbreak was polyclonal, with an unidentified source.
- Infection control measures, including discontinuing a specific hand cream, successfully halted the outbreak.
Related Concept Videos
Development of the Oral Microbiota
Investigation of Disease Outbreaks
Clinical Significance of Antibiotic Resistance

