[HTML][HTML] A familiar ring to it: biosynthesis of plant benzoic acids

JR Widhalm, N Dudareva - Molecular plant, 2015 - cell.com
Plant benzoic acids (BAs) are building blocks or important structural elements for numerous
primary and specialized metabolites, including plant hormones, cofactors, defense …

'Democratized'genomic enzymology web tools for functional assignment

R Zallot, NO Oberg, JA Gerlt - Current opinion in chemical biology, 2018 - Elsevier
The protein databases contain an exponentially growing number of sequences as a result of
the recent increase in ease and decrease in cost of genome sequencing. The rate of data …

Identifying metabolites by integrating metabolome databases with mass spectrometry cheminformatics

Z Lai, H Tsugawa, G Wohlgemuth, S Mehta… - Nature …, 2018 - nature.com
Novel metabolites distinct from canonical pathways can be identified through the integration
of three cheminformatics tools: BinVestigate, which queries the BinBase gas …

Discovery of novel carbohydrate-active enzymes through the rational exploration of the protein sequences space

W Helbert, L Poulet, S Drouillard… - Proceedings of the …, 2019 - National Acad Sciences
Over the last two decades, the number of gene/protein sequences gleaned from sequencing
projects of individual genomes and environmental DNA has grown exponentially. Only a tiny …

High-throughput cryo-ET structural pattern mining by unsupervised deep iterative subtomogram clustering

X Zeng, A Kahng, L Xue, J Mahamid… - Proceedings of the …, 2023 - National Acad Sciences
Cryoelectron tomography directly visualizes heterogeneous macromolecular structures in
their native and complex cellular environments. However, existing computer-assisted …

A scalable strategy for high-throughput GFP tagging of endogenous human proteins

MD Leonetti, S Sekine, D Kamiyama… - Proceedings of the …, 2016 - National Acad Sciences
A central challenge of the postgenomic era is to comprehensively characterize the cellular
role of the∼ 20,000 proteins encoded in the human genome. To systematically study protein …

Nontargeted in vitro metabolomics for high-throughput identification of novel enzymes in Escherichia coli

DC Sévin, T Fuhrer, N Zamboni, U Sauer - Nature methods, 2017 - nature.com
Our understanding of metabolism is limited by a lack of knowledge about the functions of
many enzymes. Here, we develop a high-throughput mass spectrometry approach to …

Folate biosynthesis, turnover, and transport in plants

AD Hanson, JF Gregory III - Annual review of plant biology, 2011 - annualreviews.org
Folates are essential cofactors for one-carbon transfer reactions and are needed in the diets
of humans and animals. Because plants are major sources of dietary folate, plant folate …

Current knowledge and recent advances in understanding metabolism of the model cyanobacterium Synechocystis sp. PCC 6803

LA Mills, AJ McCormick, DJ Lea-Smith - Bioscience reports, 2020 - portlandpress.com
Cyanobacteria are key organisms in the global ecosystem, useful models for studying
metabolic and physiological processes conserved in photosynthetic organisms, and …

Genomewide landscape of gene–metabolome associations in Escherichia coli

T Fuhrer, M Zampieri, DC Sévin, U Sauer… - Molecular Systems …, 2017 - embopress.org
Metabolism is one of the best‐understood cellular processes whose network topology of
enzymatic reactions is determined by an organism's genome. The influence of genes on …