Flux control-based design of furfural-resistance strains of Saccharomyces cerevisiae for lignocellulosic biorefinery

RNA sequencing reveals metabolic and regulatory changes leading to more robust fermentation performance during short-term adaptation of Saccharomyces cerevisiae to lignocellulosic inhibitors

BACKGROUND

The limited tolerance of Saccharomyces cerevisiae to inhibitors is a major challenge in second-generation bioethanol production, and our understanding of the molecular mechanisms providing tolerance to inhibitor-rich lignocellulosic hydrolysates is incomplete. Short-term adaptation of the yeast in the presence of dilute hydrolysate can improve its robustness and productivity during subsequent fermentation.

RESULTS

We utilized RNA sequencing to investigate differential gene expression in the industrial yeast strain CR01 during short-term adaptation, mimicking industrial conditions for cell propagation. In this first transcriptomic study of short-term adaption of S. cerevisiae to lignocellulosic hydrolysate, we found that cultures respond by fine-tuned up- and down-regulation of a subset of general stress response genes. Furthermore, time-resolved RNA sequencing allowed for identification of genes that were differentially expressed at 2 or more sampling points, revealing the importance of oxidative stress response, thiamin and biotin biosynthesis. furan-aldehyde reductases and specific drug:H⁺ antiporters, as well as the down-regulation of certain transporter genes.

CONCLUSIONS

These findings provide a better understanding of the molecular mechanisms governing short-term adaptation of S. cerevisiae to lignocellulosic hydrolysate, and suggest new genetic targets for improving fermentation robustness.

Deletions of the Idh1, Eco1, Rom2, and Taf10 Genes Differently Control the Hyphal Growth, Drug Tolerance, and Virulence of Candida albicans

The most recent genome-editing system called CRISPR-Cas9 (clustered regularly interspaced short palindromic repeat system with associated protein 9-nuclease) was employed to delete four non-essential genes (i.e., Caeco1, Caidh1, Carom2, and Cataf10) individually to establish their gene functionality annotations in pathogen Candida albicans. The biological roles of these genes were investigated with respect to the cell wall integrity and biogenesis, calcium/calcineurin pathways, susceptibility of mutants towards temperature, drugs and salts. All the mutants showed increased vulnerability compared to the wild-type background strain towards the cell wall-perturbing agents, (antifungal) drugs and salts. All the mutants also exhibited repressed and defective hyphal growth and smaller colony size than control CA14. The cell cycle of all the mutants decreased enormously except for those with Carom2 deletion. The budding index and budding size also increased for all mutants with altered bud shape. The disposition of the mutants towards cell wall-perturbing enzymes disclosed lower survival and more rapid cell wall lysis events than in wild types. The pathogenicity and virulence of the mutants was checked by adhesion assay, and strains lacking rom2 and eco1 were found to possess the least adhesion capacity, which is synonymous to their decreased pathogenicity and virulence.

Chemoenzymatic Synthesis of Furfuryl Alcohol from Biomass in Tandem Reaction System

In this study, chemoenzymatic synthesis of furfuryl alcohol from biomass (e.g., corncob, bamboo shoot shell, and rice straw) was attempted by the tandem catalysis with Lewis acid (SnCl₄ or solid acid SO₄^2-/SnO₂-bentonite) and biocatalyst in one-pot manner. Compared with SnCl₄, solid acid SO₄^2-/SnO₂-bentonite had higher catalytic activity for converting biomass into furfural, which could be biologically converted into furfuryl alcohol with Escherichia coli CCZU-H15 whole-cell harboring reductase activity. Sequential catalysis of biomass into furfural with SO₄^2-/SnO₂-bentonite (3.0 wt%) at 170 °C for 0.5 h and bioreduction of furfural with whole cells at 30 °C for 4.5 h were used for the effective synthesis of furfuryl alcohol in one-pot media. Corncob, bamboo shoot shell, and rice straw (3.0 g, dry weight) could be converted into 65.7, 50.3, and 58.5 mM furfuryl alcohol with the yields of 0.26, 0.25, and 0.23 g furfuryl alcohol/(g xylan in biomass) in 40 mL reaction media. Finally, an efficient process of recycling and reusing of SO₄^2-/SnO₂-bentonite catalyst and immobilized whole-cell biocatalyst was developed for the chemoenzymatic synthesis of furfuryl alcohol from biomass in the one-pot reaction system.

Resistance mechanisms and reprogramming of microorganisms for efficient biorefinery under multiple environmental stresses

In the fermentation process of biorefinery, industrial strains are normally subjected to adverse environmental stresses, which leads to their slow growth, yield decline, a substantial increase in energy consumption, and other negative consequences, which ultimately seriously hamper the development of biorefinery. How to minimize the impact of stress on microorganisms is of great significance. This review not only reveals the damaging effects of different environmental stresses on microbial strains but also introduces commonly used strategies to improve microbial tolerance, including adaptive evolution, reprogramming of the industrial host based on genetic circuits, global transcription machinery engineering (gTME) and bioprocess integration. Furthermore, by integrating the advantages of these strategies and reducing the cost of system operation, the tolerance of industrial strains, combined with production efficiency and process stability, will be greatly improved, and the development prospects of biorefinery will be more widespread.