BALF	bronchoalveolar lavage fluid
BCID	Blood Culture Identification
BDG	β-D-glucan
CAP	community-acquired pneumonia
CDR	Candida Drug Resistance
CLIA	Clinical Laboratory Improvement Amendments
CSF	cerebrospinal fluid
Ct	Cycle threshold
DHFR	dihydrofolate reductase
DHPS	dihydropteroate synthetase
DNA	deoxyribonucleic acid
ECMM	European Confederation of Medical Mycology
EORTC	European Organisation for Research and Treatment of Cancer
FFPE	formalin-fixed paraffin-embedded
FPCRI	Fungal PCR Initiative
HRM	high-resolution melt
HS	Hotspot
IA	Invasive aspergillosis
IFD	invasive fungal disease
ISHAM	International Society of Human and Animal Mycology
ITS	internal transcribed spacer
LAMP	loop mediated isothermal amplification
MDR	Multi-Drug Resistance
MIC	minimum inhibitory concentration
mNGS	Metagenomic next-generation sequencing
MSGERC	Mycology Study Group Education and Research Consortium
mtLSU	mitochondrial large subunit
mtSSU	mitchochondrial small subunit
NAAT	Nucleic acid amplification tests
NGS	next-generation sequencing
NPV	negative predictive value
PCP	Pneumocystis jirovecii pneumonia
PCR	polymerase chain reaction
PPV	positive predictive value
qPCR	quantitative polymerase chain reaction
RNA	ribonucleic acid
ROC	receiver operating characteristic
SQLE	squalene epoxidase
TAT	turnaround time
WGS	whole genome sequencing
WNA	whole nucleic acid