From microbes to human beings, nontargeted
metabolic profiling
by liquid chromatography (LC)–mass spectrometry (MS) has been
commonly used to investigate metabolic alterations. Still, a major
challenge is the annotation of metabolites from thousands of detected
features. The aim of our research was to go beyond coverage of metabolite
annotation in common nontargeted metabolomics studies by an integrated
multistep strategy applying data-dependent acquisition (DDA)-based
ultrahigh-performance liquid chromatography (UHPLC)–high-resolution
mass spectrometry (HRMS) analysis followed by comprehensive neutral
loss matches for characteristic metabolite modifications and database
searches in a successive manner. Using pooled human urine as a model
sample for method establishment, we found 22% of the detected compounds
having modifying structures. Major types of metabolite modifications
in urine were glucuronidation (33%), sulfation (20%), and acetylation
(6%). Among the 383 annotated metabolites, 100 were confirmed by standard
compounds and 50 modified metabolites not present in common databases
such as human metabolite database (HMDB) and Kyoto Encyclopedia of
Genes and Genomes (KEGG) were structurally elucidated. Practicability
was tested by the investigation of urines from pregnant women diagnosed
with gestational diabetes mellitus vs healthy controls. Overall, 83
differential metabolites were annotated and 67% of them were modified
metabolites including five previously unreported compounds. To conclude,
the systematic modifying group-assisted strategy can be taken as a
useful tool to extend the number of annotated metabolites in biological
and biomedical nontargeted studies.