Diagnostic Challenges and Emerging Opportunities for the Clinical Microbiology Laboratory.

PURPOSE OF REVIEW

This review summarises the epidemiology of infection and describes contemporary and emerging diagnostic methods for detection and identification of .

RECENT FINDINGS

A fifth clade has been described. Diagnostic accuracy has improved with development of selective/differential media for . Advances in spectral databases of matrix-associated laser desorption ionisation time-of-flight mass spectrometry (MALDI-TOF MS) systems have reduced misidentification. Direct detection of in clinical specimens using real time PCR is increasingly used, as is whole genome sequencing (WGS) to track nosocomial spread and to study phylogenetic relationships and drug resistance.

SUMMARY

is an important transmissible, nosocomial pathogen. The microbiological laboratory diagnostic capacity has extended beyond culture-based methods to include PCR and WGS. Microbiological techniques on the horizon include the use of MALDI-TOF MS for early echinocandin antifungal susceptibility testing (AST) and expansion of the versatile and information-rich WGS methods for outbreak investigation.