Evaluation of Bacterial Microcompartment Cofactor Recycling and Permeability with a Model Guided In Vitro Assay
Palmero, B. J.; Catlett, C.; Abrahamson, C.; Shirman, S.; Mills, C.; Jewett, M. C.; Mangan, N.; Tullman-Ercek, D.
Show abstract
Biomanufacturing is a promising strategy for sustainable chemical production. However, challenges such as cofactor competition and low pathway flux prevent competitive titers. Some bacteria address these challenges by encapsulating metabolic pathways in bacterial microcompartments (MCPs), many of which contain dedicated cofactor recycling enzymes. We sought to determine how pathway cofactor recycling and intermediate sequestration in MCPs benefit pathway performance using an in vitro assay and kinetic model of the 1,2-propanediol utilization (Pdu) system. Guided by model simulations, we performed experimental design to characterize permeability, a key and difficult-to-measure property of MCPs. Using our model and measurements of metabolite concentrations over time, we estimate MCP permeability values in the range of 10-5 cm/s. We also demonstrated that NAD+/NADH recycling in the Pdu MCP benefits increased pathway flux. This study integrates experiments and systems modeling to advance our understanding of why pathways are encapsulated and to inform bioengineering applications.
Matching journals
The top 7 journals account for 50% of the predicted probability mass.
Similar papers in this journal
- Non-consecutive enzyme interactions within TCA cycle supramolecular assembly regulate carbon-nitrogen metabolism 97%
- Designing efficient genetic code expansion in Bacillus subtilis to gain biological insights 96%
- Genome-scale metabolic rewiring to achieve predictable titers rates and yield of a non-native product at scale 96%
Similar papers in this journal
Similar papers in this journal
- Resolving phylogenetic and biochemical barriers to functional expression of heterologous iron-sulphur cluster enzymes 94%
- Periplasm homeostatic regulation maintains spatial constraints essential for cell envelope processes and cell viability 94%
- Lytic transglycosylases mitigate periplasmic crowding by degrading soluble cell wall turnover products 94%
Similar papers in this journal
- Tradeoffs in bacterial physiology determine the efficiency of antibiotic killing 94%
- High-Throughput Developability Assays Enable Library-Scale Identification of Producible Protein Scaffold Variants 94%
- Dynamic gene expression and growth underlie cell-to-cell heterogeneity in Escherichia coli stress response 94%
Similar papers in this journal
- Determinants of multiheme cytochrome extracellular electron transfer uncovered by systematic peptide insertion 94%
- Activity Mapping the Acyl Carrier Protein - Elongating Ketosynthase Interaction in Fatty Acid Biosynthesis 93%
- (R)-1-hydroxy-2-aminoethylphosphonate ammonia-lyase, a new PLP-dependent enzyme involved in bacterial phosphonate degradation 93%
"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.