The intrinsic value of biodiversity extends beyond species diversity, genetic heritage, ecosystem variability and ecological services, such as climate regulation, water quality, nutrient cycling and the provision of reproductive habitats it is also an inexhaustible source of molecules and products beneficial to human well-being. To uncover the chemistry of Brazilian natural products, the Nuclei of Bioassays, Ecophysiology and Biosynthesis of Natural Products Database (NuBBEDB) was created as the first natural product library from Brazilian biodiversity. Since its launch in 2013, the NuBBEDB has proven to be an important resource for new drug design and dereplication studies. Consequently, continuous efforts have been made to expand its contents and include a greater diversity of natural sources to establish it as a comprehensive compendium of available biogeochemical information about Brazilian biodiversity. The content in the NuBBEDB is freely accessible online (https://nubbe.iq.unesp.br/portal/nubbedb.html) and provides validated multidisciplinary information, chemical descriptors, species sources, geographic locations, spectroscopic data (NMR) and pharmacological properties. Herein, we report the latest advancements concerning the interface, content and functionality of the NuBBEDB. We also present a preliminary study on the current profile of the compounds present in Brazilian territory.
Flavonoids
represent an important class of natural products with
a central role in plant physiology and human health. Their accurate
annotation using untargeted mass spectrometry analysis still relies
on differentiating similar chemical scaffolds through spectral matching
to reference library spectra. In this work, we combined molecular
network analysis with rules for fragment reactions and chemotaxonomy
to enhance the annotation of similar flavonoid glyconjugates. Molecular
network topology progressively propagated the flavonoid chemical functionalization
according to collision-induced dissociation (CID) reactions, as the
following chemical attributes: aglycone nature, saccharide type and
number, and presence of methoxy substituents. This structure-based
distribution across the spectral networks revealed the chemical composition
of flavonoids across intra- and interspecies and guided the putatively
assignment of 64 isomers and isobars in the Chrysobalanaceae plant
species, most of which are not accurately annotated by automated untargeted
MS2 matching. These proof of concept results demonstrate
how molecular networking progressively grouped structurally related
molecules according to their product ion scans, abundances, and ratios.
The approach can be extrapolated to other classes of metabolites sharing
similar structures and diagnostic fragments from tandem mass spectrometry.
AbstractStructure elucidation is an important and sometimes time-consuming step for natural products research. This step has evolved in the past few years to a faster and more automated process due to the development of several computational programs and analytical techniques. In this paper, the topics of NMR prediction and CASE programs are addressed. Furthermore, the elucidation of natural peptides is discussed.
This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
The MCR-ALS method is shown to be a powerful tool to solve problems of chromatographic band overlapping from complex mixtures such as natural crude samples.
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