Fungi are morphologically, ecologically,
metabolically, and phylogenetically
diverse. They are known to produce numerous bioactive molecules, which
makes them very useful for natural products researchers in their pursuit
of discovering new chemical diversity with agricultural, industrial,
and pharmaceutical applications. Despite their importance in natural
products chemistry, identification of fungi remains a daunting task
for chemists, especially those who do not work with a trained mycologist.
The purpose of this review is to update natural products researchers
about the tools available for molecular identification of fungi. In
particular, we discuss (1) problems of using morphology alone in the
identification of fungi to the species level; (2) the three nuclear
ribosomal genes most commonly used in fungal identification and the
potential advantages and limitations of the ITS region, which is the
official DNA barcoding marker for species-level identification of
fungi; (3) how to use NCBI-BLAST search for DNA barcoding, with a
cautionary note regarding its limitations; (4) the numerous curated
molecular databases containing fungal sequences; (5) the various protein-coding
genes used to augment or supplant ITS in species-level identification
of certain fungal groups; and (6) methods used in the construction
of phylogenetic trees from DNA sequences to facilitate fungal species
identification. We recommend that, whenever possible, both morphology
and molecular data be used for fungal identification. Our goal is
that this review will provide a set of standardized procedures for
the molecular identification of fungi that can be utilized by the
natural products research community.