Increasing the pyruvate pool by overexpressing phosphoenolpyruvate carboxykinase or triosephosphate isomerase enhances phloroglucinol production in Escherichia coli

Molecular mechanisms by which polyethylene terephthalate (PET) microplastic and PET leachate promote the growth of benthic cyanobacteria

Toxic blooms of benthic cyanobacteria greatly threaten freshwater ecological health and drinking water safety. Meanwhile, microplastic pollution is becoming increasingly severe and microplastics accumulate in large quantities at the bottom of lakes and rivers, widely coexisting with algae. However, impacts of microplastics on benthic cyanobacteria are still unknown. This study investigated effects of microplastic polyethylene terephthalate (PET) - which is commonly found at the bottom of lakes and rivers - and its leachate at environmentally relevant concentration (0.3 mg/L) and high exposure concentration (3.0 mg/L) on typical benthic cyanobacteria (Oscillatoria sp. and Pseudanabaena sp.), and clarified the related molecular mechanisms through transcriptomic analysis. Results show that PET or PET leachate (PET-L) can promote benthic cyanobacterial growth and promotive effect of PET-L is more obvious than that of PET system. Promotion effect of PET or PET-L is more significant at environmentally relevant concentration (39-63 % increase compared with the control) compared with high exposure concentration (21-58 % increase compared with the control). In the presence of PET or PET-L, due to an increase in the number of cyanobacterial cells, concentrations of harmful metabolites (cylindrospermopsin, geosmin, and 2-methylisoborneol) in water also increased. Although PET particles may not be conducive to benthic cyanobacterial growth due to shading effect and mechanical damage, photosynthetic efficiency of algae was improved and dysregulated genes related to photosynthesis and extracellular transport of glycolipid were upregulated according to transcriptome analysis. Moreover, PET decomposition components, such as terephthalic acid and ethylene glycol, may be able to serve as carbon sources for cyanobacterial growth. Upregulation of genes associated with glycolysis, oxidative phosphorylation, and translation revealed that PET can promote the growth of benthic cyanobacteria. This study has important value in evaluating the impact of benthic cyanobacteria on aquatic ecological health and drinking water safety with the coexistence of microplastics.

Harnessing conductive materials for sustainable food waste treatment: Comparative evaluation of biochar and magnetite in volatile fatty acid production

Anaerobic fermentation offers a sustainable and eco-friendly approach to converting food waste (FW) into high-value volatile fatty acids (VFAs). Although both carbon- and metal-based conductive materials can enhance VFAs yields during FW fermentation, a comprehensive comparison of these materials and their underlying mechanisms remains unexplored, limiting their practical selection and application. This study systematically investigated the differences between biochar and magnetite, which are representative carbon- and metal-based conductive materials, in promoting VFAs production during FW fermentation. The results indicated that VFAs yields increased by 106 % and 81.2 % in the presence of biochar and magnetite, respectively, compared to the control, with notable enhancements during critical fermentation stages, including solubilization, hydrolysis, and acidification. Microbial analysis demonstrated that biochar more effectively enriched electroactive bacteria with acid-forming functions (e.g., Clostridium was enriched 1.3-fold more than in the control) compared to magnetite. Additionally, biochar more efficiently upregulated metabolic pathways associated with VFAs biosynthesis, including pyruvate metabolism (e.g., aceE and pckA), acetate production (e.g., pta and acyP), and butyrate production (e.g., ptb and bok). Biochar also enhanced microbial adaptability to external environmental conditions through quorum sensing (e.g., luxS and lsrA) and two-component systems (e.g., phoA and atoA). The enhanced TCA cycle, which provides electrons and energy for VFAs production and environmental adaptability, was more pronounced with biochar, ultimately leading to increased overall VFAs production. This work provides a deeper understanding about the impact of conductive materials on anaerobic fermentation and offers valuable direction for optimizing FW treatment.

Development of a CRISPR activation system for targeted gene upregulation in Synechocystis sp. PCC 6803

The photosynthetic cyanobacterium Synechocystis sp. PCC 6803 offers a promising sustainable solution for simultaneous CO2 fixation and compound bioproduction. While various heterologous products have now been synthesised in Synechocystis, limited genetic tools hinder further strain engineering for efficient production. Here, we present a versatile CRISPR activation (CRISPRa) system for Synechocystis, enabling robust multiplexed activation of both heterologous and endogenous targets. Following tool characterisation, we applied CRISPRa to explore targets influencing biofuel production, specifically isobutanol (IB) and 3-methyl-1-butanol (3M1B), demonstrating a proof-of-concept approach to identify key reactions constraining compound biosynthesis. Notably, individual upregulation of target genes, such as pyk1, resulted in up to 4-fold increase in IB/3M1B formation while synergetic effects from multiplexed targeting further enhanced compound production, highlighting the value of this tool for rapid metabolic mapping. Interestingly, activation efficacy did not consistently predict increases in compound formation, suggesting complex regulatory interactions influencing bioproduction. This work establishes a CRISPRa system for targeted upregulation in cyanobacteria, providing an adaptable platform for high-throughput screening, metabolic pathway optimisation and functional genomics. Our CRISPRa system provides a crucial advance in the genetic toolbox available for Synechocystis and will facilitate innovative applications in both fundamental research and metabolic engineering in cyanobacteria.

Sustainable production of photosynthetic isobutanol and 3-methyl-1-butanol in the cyanobacterium Synechocystis sp. PCC 6803

BACKGROUND

Cyanobacteria are emerging as green cell factories for sustainable biofuel and chemical production, due to their photosynthetic ability to use solar energy, carbon dioxide and water in a direct process. The model cyanobacterial strain Synechocystis sp. PCC 6803 has been engineered for the isobutanol and 3-methyl-1-butanol production by introducing a synthetic 2-keto acid pathway. However, the achieved productions still remained low. In the present study, diverse metabolic engineering strategies were implemented in Synechocystis sp. PCC 6803 for further enhanced photosynthetic isobutanol and 3-methyl-1-butanol production.

RESULTS

Long-term cultivation was performed on two selected strains resulting in maximum cumulative isobutanol and 3-methyl-1-butanol titers of 1247 mg L-1 and 389 mg L-1, on day 58 and day 48, respectively. Novel Synechocystis strain integrated with a native 2-keto acid pathway was generated and showed a production of 98 mg isobutanol L-1 in short-term screening experiments. Enhanced isobutanol and 3-methyl-1-butanol production was observed when increasing the kivdS286T copy number from three to four. Isobutanol and 3-methyl-1-butanol production was effectively improved when overexpressing selected genes of the central carbon metabolism. Identified genes are potential metabolic engineering targets to further enhance productivity of pyruvate-derived bioproducts in cyanobacteria.

CONCLUSIONS

Enhanced isobutanol and 3-methyl-1-butanol production was successfully achieved in Synechocystis sp. PCC 6803 strains through diverse metabolic engineering strategies. The maximum cumulative isobutanol and 3-methyl-1-butanol titers, 1247 mg L-1 and 389 mg L-1, respectively, represent the current highest value reported. The significantly enhanced isobutanol and 3-methyl-1-butanol production in this study further pave the way for an industrial application of photosynthetic cyanobacteria-based biofuel and chemical synthesis from CO2.

Application of cofactors in the regulation of microbial metabolism: A state of the art review

Cofactors are crucial chemicals that maintain cellular redox balance and drive the cell to do synthetic and catabolic reactions. They are involved in practically all enzymatic activities that occur in live cells. It has been a hot research topic in recent years to manage their concentrations and forms in microbial cells by using appropriate techniques to obtain more high-quality target products. In this review, we first summarize the physiological functions of common cofactors, and give a brief overview of common cofactors acetyl coenzyme A, NAD(P)H/NAD(P)+, and ATP/ADP; then we provide a detailed introduction of intracellular cofactor regeneration pathways, review the regulation of cofactor forms and concentrations by molecular biological means, and review the existing regulatory strategies of microbial cellular cofactors and their application progress, to maximize and rapidly direct the metabolic flux to target metabolites. Finally, we speculate on the future of cofactor engineering applications in cell factories. Graphical Abstract.

Comparative Transcriptomic and Metabolomic Analyses Reveal the Regulatory Effect and Mechanism of Tea Extracts on the Biosynthesis of Monascus Pigments

Monascus pigments (MPs) are natural edible pigments with high safety and strong function, which have been widely used in food and health products. In this study, different types of tea extracts (rich in polyphenols) were used to regulate the biosynthesis of MPs. The results showed that 15% ethanol extract of pu-erh tea (T11) could significantly increase MPs production in liquid fermentation of Monaco's purpureus M3. Comparative transcriptomic and metabolomic analyses combined with reverse transcription-quantitative polymerase chain reaction (RT-qPCR) were used to further explore the regulatory mechanism of T11 on the biosynthesis of MPs. Comparative transcriptomic analysis showed that there were 1503 differentially expressed genes (DEGs) between the Con group and the T11 group, which were mainly distributed in carbohydrate metabolism, amino acid metabolism, energy metabolism, lipid metabolism, metabolism of terpenoids and polyketides, etc. A total of 115 differential metabolites (DMs) identified by metabolomics between the Con and T11 groups were mainly enriched in glutathione metabolism, starch and sucrose metabolism, alanine, aspartic acid and glutamate metabolism and glycine, serine and threonine metabolism, etc. The results of metabolomics were basically consistent with those of gene transcriptomics, indicating that the regulatory effect of T11 on the biosynthesis of MPs is mainly achieved through affecting the primary metabolic pathway, providing sufficient energy and more biosynthetic precursors for secondary metabolism. In this study, tea extracts with low economic value and easy access were used as promoters of MPs biosynthesis, which may be conducive to the application of MPs in large-scale industrial production. At the same time, a more systematic understanding of the molecular regulatory mechanism of Monascus metabolism was obtained through multi-omics analysis.