Establishment of a selectable marker recycling system for iterative gene editing in Fusarium fujikuroi

Gibberellic acid (GA3) is a vital plant growth hormone widely used in agriculture. Currently, GA3 production relies on liquid fermentation by the filamentous fungus Fusarium fujikuroi. However, the lack of an effective selection marker recycling system hampers the application of metabolic engineering technology in F. fujikuroi, as multiple-gene editing and positive-strain screening still rely on a limited number of antibiotics. In this study, we developed a strategy using pyr4-blaster and CRISPR/Cas9 tools for recycling orotidine-5'-phosphate decarboxylase (Pyr4) selection markers. We demonstrated the effectiveness of this method for iterative gene integration and large gene-cluster deletion. We also successfully improved GA3 titers by overexpressing geranylgeranyl pyrophosphate synthase and truncated 3-hydroxy-3-methyl glutaryl coenzyme A reductase, which rewired the GA3 biosynthesis pathway. These results highlight the efficiency of our established system in recycling selection markers during iterative gene editing events. Moreover, the selection marker recycling system lays the foundation for further research on metabolic engineering for GA3 industrial production.

Effects of production temperature on the molecular composition and seed-germination-promoting properties of sludge-based hydrochar-derived dissolved organic matter

Sludge hydrothermal carbonization demonstrates potential for converting sludge into multifunctional carbon materials for soil remediation. However, the influence of dissolved organic matter (DOM) with unclear molecular characteristics in sludge-based hydrothermal carbon on plant growth has not been sufficiently investigated. Herein, the effects of hydrothermal temperature on the molecular transformation pathways and plant-growth-promoting properties of DOM were investigated via FT-ICR MS-based molecular network analyses and seed germination experiments. Results indicated that the highest DOM yield was achieved at 220 °C. During low-temperature (180 °C) hydrothermal treatment, the hydrolysis of biopolymers, as well as the partial condensation and cyclization of small-molecule intermediates, occurred in the sludge. This process produced unsaturated CHNO compounds containing one or two N atoms, which promoted seed germination. Further, the toxicity of DOM to plants increased with rising hydrothermal temperature. This was accompanied by S doping and aromatization reactions, which mitigated the effects of plant growth hormones. This study provides theoretical support for the optimization of sludge hydrothermal treatment and production of plant growth hormones, enhancing the ecological value of sludge-based hydrochar.

RETRACTED ARTICLE: Mutagenesis combined with fermentation optimization to enhance gibberellic acid GA3 yield in Fusarium fujikuroi

Gibberellic acid (GA3) is a plant growth hormone that plays an important role in the production of crops, fruits, and vegetables with a wide market share. Due to intrinsic advantages, liquid fermentation of Fusarium fujikuroi has become the sole method for industrial GA3 production, but the broader application of GA3 is hindered by low titer. In this study, we combined atmospheric and room-temperature plasma (ARTP) with ketoconazole-based screening to obtain the mutant strain 3-6-1 with high yield of GA3. Subsequently, the medium composition and fermentation parameters were systematically optimized to increase the titer of GA3, resulting in a 2.5-fold increase compared with the titer obtained under the initial conditions. Finally, considering that the strain is prone to substrate inhibition and glucose repression, a new strategy of fed-batch fermentation was adopted to increase the titer of GA3 to 575.13 mg/L, which was 13.86% higher than the control. The strategy of random mutagenesis combined with selection and fermentation optimization developed in this study provides a basis for subsequent research on the industrial production of GA3.

The term "caline" in plant developmental biology

In the 1930s, Frits Warmolt Went conducted a number of seminal studies on pea seedlings that had been germinated in the dark and assessed their growth when either the apical parts, cotyledons, or roots were cut off or grafted, to assess whether coplant growth factors assisted auxin in the development of these organs. Went assigned the term "calines" to all auxin-assisting substances, specifically rhizocaline, caulocaline, and phyllocaline in root, shoot (and axillary buds) and leaf development, respectively. Those experiments were based exclusively on growth assays, and no supplementary biochemical or physiological analyses were ever conducted, and additional proof was only provided by Went using pea or tomato. The lack of independent reproducibility by other groups, combined with the fact that the hormonal control of these developmental events in plants is now fairly well-studied event, even at the molecular level, suggests that these growth factors that Went observed 80 years ago either do not exist or are known by some other term in modern plant development. The terms related to "calines" should thus no longer be used in plant developmental biology.

Alternative methods for gibberellic acid production, recovery and formulation: A case study for product cost reduction

The aim of this work was to develop a new production, recovery and formulation process of gibberellic acid (GA₃). Low-cost byproducts - citrus pulp (CP) and soybean hulls (SH) - were employed as substrate for GA₃ production by Gibberella fujikuroi in semisolid fermentation. A CP/SH mixture (70%/30%) promoted high productivities both in bubble column reactor (1.66 mg L/h), and in stirred tank reactor (2.13 mg L/h). GA₃ production medium cost (US$ 6.70/m³) was reduced by 85% when compared to previously reported synthetic media (US$ 44.96/m³). It was described that GA₃ fermented extract has low stability, and that liquid and powder formulation of the fermented extract maintained the biomolecule activity over 6 months. Alginate and alginate/kefiran beads containing GA₃ showed encapsulation efficiency of 70% and 60%, respectively. This work supports good perspectives for GA₃ production using cheap substrates and simple formulation of clarified extract to favour its use in agricultural countries.

Characterization and expression profiles of small heat shock proteins in the marine red alga Pyropia yezoensis

Small heat shock proteins (sHSPs) are found in all three domains of life (Bacteria, Archaea, and Eukarya) and play a critical role in protecting organisms from a range of environmental stresses. However, little is known about their physiological functions in red algae. Therefore, we characterized the sHSPs (PysHSPs) in the red macroalga Pyropia yezoensis, which inhabits the upper intertidal zone where it experiences fluctuating stressful environmental conditions on a daily and seasonal basis, and examined their expression profiles at different developmental stages and under varying environmental conditions. We identified five PysHSPs (PysHSP18.8, 19.1, 19.2, 19.5, and 25.8). Real-time quantitative reverse transcription polymerase chain reaction (qRT-PCR) analysis showed that expression of the genes PysHSP18.8, PysHSP19.5, and PysHSP25.8 was repressed at all the developmental stages under normal conditions, whereas PysHSP19.1 and PysHSP19.2 were overexpressed in mature gametophytes and sporophytes. Exposure of the gametophytes to high temperature, oxidative stress, or copper significantly increased the mRNA transcript levels of all the five genes, while exogenous application of the ethylene precursor 1-aminocylopropane-1-carboxylic acid (ACC) significantly increased the expression levels of PysHSP19.2, PysHSP19.5, and PysHSP25.8. These findings will help to further our understanding of the role of PysHSP genes and provide clues about how Pyropia species can adapt to the stressful conditions encountered in the upper intertidal zone during their life cycle.