Ribosomal subunit protein typing using matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF MS) for the identification and discrimination of Aspergillus species

• Published in: BMC microbiology Vol. 17; no. 1; pp. 100 - 12
• Main Authors: Nakamura, Sayaka, Sato, Hiroaki, Tanaka, Reiko, Kusuya, Yoko, Takahashi, Hiroki, Yaguchi, Takashi
• Format: Journal Article
• Language: English
• Published: England BioMed Central 26.04.2017; BMC
• Subjects: Amino Acid Sequence; Amino acids; Aspergillus; Aspergillus - classification; Aspergillus - genetics; Aspergillus - isolation & purification; Base Sequence; Biomarkers; Clinical microbiology; Cluster Analysis; Desorption; Evolution, Molecular; Fingerprinting; Fungi; Gene sequencing; Genes, Essential; Genomes; Ionization; Ions; Lasers; Mass spectrometry; Mass spectroscopy; Matrix-assisted laser desorption ionization time-of-flight mass spectrometry; Methodology; Microbiology; Molecular evolution; Molecular Typing; Multilocus sequence typing; Mycological Typing Techniques - methods; Pattern matching; Phylogenetics; Phylogeny; Ribosomal Proteins - genetics; Ribosomal subunit proteins; Species; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization - methods; Spectroscopy; Tubulin; Aspergillus; Matrix-assisted laser desorption ionization time-of-flight mass spectrometry; Ribosomal subunit proteins
• DOI: 10.1186/s12866-017-1009-3
• ISSN: 1471-2180

Accurate identification of Aspergillus species is a very important subject. Mass spectral fingerprinting using matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF MS) is generally employed for the rapid identification of fungal isolates. However, the results are based on simple mass spectral pattern-matching, with no peak assignment and no taxonomic input. We propose here a ribosomal subunit protein (RSP) typing technique using MALDI-TOF MS for the identification and discrimination of Aspergillus species. The results are concluded to be phylogenetic in that they reflect the molecular evolution of housekeeping RSPs. The amino acid sequences of RSPs of genome-sequenced strains of Aspergillus species were first verified and compared to compile a reliable biomarker list for the identification of Aspergillus species. In this process, we revealed that many amino acid sequences of RSPs (about 10-60%, depending on strain) registered in the public protein databases needed to be corrected or newly added. The verified RSPs were allocated to RSP types based on their mass. Peak assignments of RSPs of each sample strain as observed by MALDI-TOF MS were then performed to set RSP type profiles, which were then further processed by means of cluster analysis. The resulting dendrogram based on RSP types showed a relatively good concordance with the tree based on β-tubulin gene sequences. RSP typing was able to further discriminate the strains belonging to Aspergillus section Fumigati. The RSP typing method could be applied to identify Aspergillus species, even for species within section Fumigati. The discrimination power of RSP typing appears to be comparable to conventional β-tubulin gene analysis. This method would therefore be suitable for species identification and discrimination at the strain to species level. Because RSP typing can characterize the strains within section Fumigati, this method has potential as a powerful and reliable tool in the field of clinical microbiology.