Factors affecting microbial lipids production by Yarrowia lipolytica strains from volatile fatty acids: Effect of co-substrates, operation mode and oxygen

Optimizing longifolene production in Yarrowia lipolytica via metabolic and protein engineering

Longifolene (C15H24) is a tricyclic sesquiterpene widely utilized in the cosmetics and fragrances due to its versatile applications. Traditional extraction methods from plants suffer from low titer and lengthy production cycles, while chemical synthesis is hampered by the compound's complex structure, leading to high costs and insufficient market supply. This study aimed to develop a microbial cell factory for enhanced longifolene production. The strategy involved integrating longifolene synthase from Pinus sylvestris (PsTPS) into Yarrowia lipolytica and employing multiple metabolic engineering approaches. Initially, key genes in the mevalonate (MVA) pathway were overexpressed to enhance longifolene precursor availability for longifolene biosynthesis. Subsequently, protein engineering techniques were applied to optimize PsTPS (tPsTPS) for improved catalytic efficiency. Furthermore, co-expression of molecular chaperones was implemented to enhance the synthesis and secretion of PsTPS. The introduction of the isopentenol utilization pathway (IUP) further augmented the supply of C5 substrate. By optimizing the culture conditions, including a reduction in culture temperature, the efflux of longifolene was increased, and the dissolved oxygen levels were enhanced to promote the growth of the strain. These collective efforts resulted culminated in the engineered strain Z03 achieving a noteworthy production level of 34.67 mg/L of longifolene in shake flasks. This study not only demonstrates the feasibility of enhancing sesquiterpene production in Y. lipolytica but also highlights the potential of microbial platforms in meeting industrial demands for complex natural products.

Turning residues into valuable compounds: organic waste conversion into odd-chain fatty acids via the carboxylate platform by recombinant oleaginous yeast

Environmental concerns are rising the need to find cost-effective alternatives to fossil oils. In this sense, short-chain fatty acids (SCFAs) are proposed as carbon source for microbial oils production that can be converted into oleochemicals. This investigation took advantage of the outstanding traits of recombinant Yarrowia lipolytica strains to assess the conversion of SCFAs derived from real digestates into odd-chain fatty acids (OCFA). High yeast OCFAs content was aimed by using two engineered strains (Y. lipolytica JMY7780 and JMY7782). Batch and two-step batch fermentations were performed, reaching high lipid content (40.8% w/w) and lipid yield (0.07 g/g) with JMY7782, which overexpresses propionyl-CoA synthase. Fed-batch fermentation with an acetic acid pulse after 24 h was also carried out to promote SCFAs consumption and OCFAs production. In this case, SCFAs consumption rate increased and JMY7782 was able to accumulate up to 60.4% OCFAs of the total lipids produced from food waste-derived carbon sources.

Investigation on sweaty off-flavors in small mill sesame oil and its formation mechanism via molecular sensory science, preparative gas chromatography, and microbiomics

The distinctive and enjoyable aroma of small mill sesame oil (SMSO) originates from the aqueous extraction process. However, in the sedimentation stage in industrial production, when the external ambient temperature is elevated, unpleasant sweaty off-flavors may be present from an unknown source. Based on the odor screening and verification strategy, 76 volatile flavor compounds were identified in different SMSOs, and 3 key areas had a sweaty odor via gas chromatography olfactometry (GC-O) analysis. The validation experiment utilizing preparative gas chromatography (pre-GC) confirmed the sweaty off-flavors were butyric acid, 2-methylbutyric acid, and isobutyric acid, with odor activity values ranging from 1 to 100. Furthermore, microbiological investigations on sesame residues gathered during the sedimentation process at various temperatures revealed sweaty off-flavors were mostly attributed to the collaborative interaction of Lactobacillus, Yarrowia lipolytica, and butanoate 1-phosphotransferase. This study offers a fundamental theoretical foundation for enhancing the quality control and flavor of SMSO.

Unraveling the Potential of Yarrowia lipolytica to Utilize Waste Motor Oil as a Carbon Source

This study evaluated the potential of Y. lipolytica (CBS 2075 and DSM 8218) to grow in waste motor oil (WMO) and produce valuable compounds, laying the foundation for a sustainable approach to WMO management. Firstly, yeast strains were screened for their growth on WMO (2-10 g·L-1) in microplate cultures. Despite limited growth, the CBS 2075 strain exhibited comparable growth to control conditions (without WMO), while DSM 8218 growth increased 2- and 3-fold at 5 g·L-1 and 10 g·L-1 WMO, respectively. The batch cultures in the bioreactor confirmed the best performance of DSM 8218. A two-stage fed-batch strategy-growth phase in aliphatic hydrocarbons, followed by the addition of WMO (one pulse of 5 g·L-1 or five pulses of 1 g·L-1 WMO), significantly increased biomass production and WMO assimilation by both strains. In experiments with five pulses, CBS 2075 and DSM 8218 strains reached high proteolytic activities (593-628 U·L-1) and accumulated high quantities of intracellular lipids (1.3-1.7 g·L-1). Yeast lipids, mainly composed of oleic and linoleic acids with an unsaturated/saturated fraction > 59%, meet the EU biodiesel standard EN 14214, making them suitable for biodiesel production.

Yarrowia lipolytica growth, lipids, and protease production in medium with higher alkanes and alkenes

Two strains of Yarrowia lipolytica (CBS 2075 and DSM 8218) were first studied in bioreactor batch cultures, under different controlled dissolved oxygen concentrations (DOC), to assess their ability to assimilate aliphatic hydrocarbons (HC) as a carbon source in a mixture containing 2 g·L-1 of each alkane (dodecane and hexadecane), and 2 g·L-1 hexadecene. Both strains grew in the HC mixture without a lag phase, and for both strains, 30 % DOC was sufficient to reach the maximum values of biomass and lipids. To enhance lipid-rich biomass and enzyme production, a pulse fed-batch strategy was tested, for the first time, with the addition of one or three pulses of concentrated HC medium. The addition of three pulses of the HC mixture (total of 24 g·L-1 HC) did not hinder cell proliferation, and high protease (> 3000 U·L-1) and lipids concentrations of 3.4 g·L-1 and 4.3 g·L-1 were achieved in Y. lipolytica CBS 2075 and DSM 8218 cultures, respectively. Lipids from the CBS 2075 strain are rich in C16:0 and C18:1, resembling the composition of palm oil, considered suitable for the biodiesel industry. Lipids from the DSM 8218 strain were predominantly composed of C16:0 and C16:1, the latter being a valuable monounsaturated fatty acid used in the pharmaceutical industry. Y. lipolytica cells exhibited high intrinsic surface hydrophobicity (> 69 %), which increased in the presence of HC. A reduction in surface tension was observed in both Y. lipolytica cultures, suggesting the production of extracellular biosurfactants, even at low amounts. This study marks a significant advancement in the valorization of HC for producing high-value products by exploring the hydrophobic compounds metabolism of Y. lipolytica.

A review of lipid accumulation by oleaginous yeasts: Culture mode

Microbial lipids have attracted considerable interest owing to their favorable environmental sustainability benefits. In laboratory-scale studies, the factors impacting lipid production in oleaginous yeasts, including culture conditions, nutrients, and low-cost substrates, have been extensively studied. However, there were several different modes of microbial lipid cultivation (batch culture, fed-batch culture, continuous culture, and other novel culture modes), making it difficult to comprehensively analyze impacting factors under different cultivation modes on a laboratory scale. And only few cases of microbial lipid production have been conducted at the pilot scale, which requires more technological reliability assessments and environmental benefit evaluations. Thus, this study summarized the different culture modes and cases of scale-up processes, highlighting the role of the nutrient element ratio in regulating culture mode selection and lipid accumulation. The cost distribution and environmental benefits of microbial lipid production by oleaginous yeasts were also investigated. Our results suggested that the continuous culture mode was recommended for the scale-up process because of its stable lipid accumulation. More importantly, exploring the continuous culture mode integrated with other efficient culture modes remained to be further investigated. In research on scale-up processes, low-cost substrate (organic waste) application and optimization of reactor operational parameters were key to increasing environmental benefits and reducing costs.

Biorefinery-centric ethanol and oleochemical production employing Yarrowia lipolytica and Pichia farinosa

The research examined the capabilities of Yarrowia lipolytica (YL) and Pichia farinosa (PF) in converting sugars to ethanol and oleochemicals. Lipid, ethanol, protein yield and gene-expressions were analysed at different substrate concentrations (3 to 30 g/L) with glucose, food waste, and fermentation-effluent. Optimal results were obtained at 20 g/L using both synthetic carbon with 4.6 % of total lipid yield. Lauric and Caprylic acid dominance was noted in total lipid fractions. Protein accumulation (6 g/L) was observed in glucose system (20 g/L) indicating yeast strains potential as single-cell proteins (SCP). Fatty-acid desaturase (FAD12) and alcohol dehydrogenase (ADH) expressions were higher at optimum condition of YL (1.15 × 10-1, 3.8 × 10-2) and PF (5.8 × 10-2, 3.8 × 10-2) respectively. Maximum carbon reduction of 87 % depicted at best condition, aligning with metabolic yield. These findings highlights promising role of yeast as biorefinery biocatalyst.

Exploring the use of hexadecane by Yarrowia lipolytica: Effect of dissolved oxygen and medium supplementation

This work aimed to evaluate the effect of medium composition and volumetric oxygen transfer coefficient (kLa) on Y. lipolytica growth and production of microbial lipids and enzymes from hexadecane. In the stirred tank bioreactor, increasing kLa from 11 h-1 to 132 h-1 improved the hexadecane assimilation rate, biomass concentration, and lipids synthesis (0.90 g·L-1). A cost-effective hexadecane-based medium supplemented with corn steep liquor and a low amount of ammonium sulfate boosted lipids production up to 2.1 g·L-1, composed of palmitic, palmitoleic, oleic, and linoleic acids. The unsaturated/saturated fraction was dependent on the C/N ratio. Lipids of Y. lipolytica CBS 2075 are promising feedstock for animal feed, food additives, or the biodiesel industry. Simultaneous synthesis of extracellular lipase and protease from hexadecane was observed, which is a new feature that was not previously reported. The highest enzyme activity was obtained at the highest C/N ratio conditions. These results open new perspectives on the application of Y. lipolytica-based cultures for the biotransformation of hexadecane-polluted streams into valuable compounds, fulfilling an interesting strategy towards the circular economy concept.

Integrated fermentative process for lipid and β-carotene production from acetogenic syngas fermentation using an engineered oleaginous Yarrowia lipolytica yeast

An engineered Yarrowia lipolytica strain was successfully employed to produce β-carotene and lipids from acetic acid, a product of syngas fermentation by Clostridium aceticum. The strain showed acetic acid tolerance up to concentrations of 20 g/L. Flask experiments yielded a peak lipid content of 33.7 % and β-carotene concentration of 13.6 mg/g under specific nutrient conditions. The study also investigated pH effects on production in bioreactors, revealing optimal lipid and β-carotene contents at pH 6.0, reaching 22.9 % and 44 mg/g, respectively. Lipid profiles were consistent across experiments, with C18:1 being the dominant compound at approximately 50 %. This research underscores a green revolution in bioprocessing, showing how biocatalysts can convert syngas, a potentially polluting byproduct, into valuable β-carotene and lipids with a Y. lipolytica strain.

Acidogenic fermentation of potato peel waste for volatile fatty acids production: Effect of initial organic load

As a renewable carbon source produced from organic wastes by acidogenic fermentation, volatile fatty acids (VFAs) are important intermediates in chemical and biological fields and beneficial to resource recovery and carbon neutrality. Maximizing VFA production by some strategies without additional chemicals is critical to increasing economic and environmental benefits. In this study, the effects of initial organic load (OL) on the performance of VFA production, variations of intermediate metabolites, and the thermogravimetric properties of potato peel waste (PPW) during batch acidogenic fermentation were studied. The results showed that the concentration of VFAs increased with the increase of initial OL, while the VFA yield decreased with the increase of initial OL. When the initial OL was in the range of 28.4 g VS/L-91.3 g VS/L, the fermentation type of PPW was butyric acid fermentation. The highest butyric acid proportion of 61.3% was achieved with the initial OL of 71.5 g VS/L. With the increase of initial OL, the proportion of acetic acid and the utilization rate of protein in the PPW decreased. VFAs were produced from proteins and carbohydrates in the early stage and mainly produced from carbohydrates in the later stage. The production efficiency of VFA was relatively high with the initial OL of 71.5 g VS/L, because more easily-biodegradable compounds were solubilized. The results showed that suitably increased initial OL could accelerate acidogenesis, reduce hydrolysis time, and increase the proportion of butyric acid. The findings in this work suggest that PPW is a promising feedstock for butyric acid biosynthesis and appropriate initial OL is beneficial to VFA production.

Yarrowia lipolytica produces lipid-rich biomass in medium mimicking lignocellulosic biomass hydrolysate

In recent years, lignocellulosic biomass has become an attractive low-cost raw material for microbial bioprocesses aiming the production of biofuels and other valuable chemicals. However, these feedstocks require preliminary pretreatments to increase their utilization by microorganisms, which may lead to the formation of various compounds (acetic acid, formic acid, furfural, 5-hydroxymethylfurfural, p-coumaric acid, vanillin, or benzoic acid) with antimicrobial activity. Batch cultures in microplate wells demonstrated the ability of Yarrowia strains (three of Y. lipolytica and one of Y. divulgata) to grow in media containing each one of these compounds. Cellular growth of Yarrowia lipolytica W29 and NCYC 2904 (chosen strains) was proven in Erlenmeyer flasks and bioreactor experiments where an accumulation of intracellular lipids was also observed in culture medium mimicking lignocellulosic biomass hydrolysate containing glucose, xylose, acetic acid, formic acid, furfural, and 5-HMF. Lipid contents of 35% (w/w) and 42% (w/w) were obtained in bioreactor batch cultures with Y. lipolytica W29 and NCYC 2904, respectively, showing the potential of this oleaginous yeast to use lignocellulosic biomass hydrolysates as feedstock for obtaining valuable compounds, such as microbial lipids that have many industrial applications. KEY POINTS: • Yarrowia strains tolerate compounds found in lignocellulosic biomass hydrolysate • Y. lipolytica consumed compounds found in lignocellulosic biomass hydrolysate • 42% (w/w) of microbial lipids was attained in bioreactor batch cultures.

Economic and environmental evaluation for a closed loop of crude glycerol bioconversion to biodiesel

Crude glycerol, a byproduct of biodiesel production, was utilized as a carbon source to produce microbial lipids by the oleaginous yeast Rhodotorula toruloides in this study. The maximum lipid production and lipid content were 10.56 g/L and 49.52%, respectively, by optimizing fermentation conditions. The obtained biodiesel met the standards of China, the United States, and the European Union. The economic value of biodiesel produced from crude glycerol increased by 48% compared with the sale of crude glycerol. In addition, biodiesel production from crude glycerol could reduce 11,928 tons of carbon dioxide emissions and 55 tons of sulfur dioxide emissions. This study provides a strategy for a closed loop of crude glycerol to biofuel and ensures sustainable and stable development of the biodiesel industries.

Tumor tissue microorganisms are closely associated with tumor immune subtypes

Studies have found that different immune subtypes are present in the same tumor. Different tumor subtypes have different tumor microenvironments (TME). This means that the efficacy of immunotherapy in actual applications will, therefore, have different results. Existing tumor immune subtype studies have mostly focused on immune cells, stromal cells, genes and molecules without considering the presence of microbes. Some studies have shown that microflora can strongly promote many gastrointestinal cancers. The microbiome has, therefore, become an important biomarker and regulatory factor of cancer progression and therapeutic responses. In addition, the presence of microflora can strongly regulate the host immune system, indirectly affecting tumor growth. Taken together, it is important to study the relationships that develop among tumor tissue microorganisms, tumor immune subtype, and the TME. In this study, correlations between microbial abundance, immune cell infiltration, immune gene expression and tumor immune subtype were studied. To accomplish this, tissue microorganisms and immune cell ratios with significant differences between the different cancers were obtained by comparing 203 gastric cancer and intestinal cancer samples. Two immune subtypes of intestinal samples were obtained by K-means clustering algorithm and tissue microorganisms, immune cell ratios and immune-related genes with significant differences between different immune subtypes were screened through Wilcoxon rank sum test. The results showed that Clostridioides difficile, Aspergillus fumigatus, Yarrowia lipolytica, and Fusarium pseudograminearum were all closely associated with the identified tumor immune subtypes. Our open-source software is freely available from GitHub at https://github.com/gutmicrobes/IMM-subtype.git.

Optimization of Solvent Extraction of Lipids from Yarrowia lipolytica towards Industrial Applications

Extraction of intracellular lipids of the oleaginous yeast Yarrowia lipolytica has been systematically studied aiming towards a sustainable extraction process for lipid recovery. Selection of suitable industrial (bulk) solvents and extraction parameters that lead to maximization of lipid recovery are significant issues to be addressed, with industrial applications motivating this study. Biomass from fermentation of Yarrowia lipolytica (MUCL 28849) was used in small laboratory tests to assess different solvent mixtures (i.e., methanol/hexane, isopropanol/hexane, and methanol/ethyl acetate), implementing a systematic design of experiments methodology to identify near-optimum values of key extraction variables (i.e., polar/non-polar ratio, vortex time, dry biomass/solvent ratio) in regard to lipid yield (g lipids/g dry biomass). The methanol/hexane mixture exhibited the highest extraction yield in a wide range of experimental conditions, resulting in the following optimum parameters: polar/non-polar ratio 3/5, vortex time 0.75 h, and dry biomass/solvent ratio 40. Extraction tests on a fifty-times-larger scale (in a Soxhlet apparatus employing the optimal extraction parameters) confirmed the optimization outcome by obtaining up to 27.6% lipids per dry biomass (L/DB), compared to 12.1% L/DB with the reference lipid extraction method employing chloroform/methanol. Assessment of lipid composition showed that unsaturated fatty acid recovery was favored by the methanol/hexane solvent. Fatty acid composition was not affected by the increase in Soxhlet reflux cycles, whilst the lipid yield was notably favored.

Accumulation of lipids by the oleaginous yeast Yarrowia lipolytica grown on carboxylic acids simulating syngas and carbon dioxide fermentation

Volatile fatty acids (VFAs) can be considered as low-cost carbon substrates for lipid accumulation by oleaginous yeasts. This study demonstrates that a common mixture of VFAs, typically obtained from the anaerobic fermentation of C1-gases by some acetogenic bacteria, can be used in a second aerobic fermentation with the yeast Yarrowia lipolytica to obtain lipids as precursors of biodiesel. In the batch experiments, the preference of Yarrowia lipolytica W29 for acetic acid over butyric and caproic acids was demonstrated, with the highest consumption rate reaching 0.664 g/L·h. In the bioreactor experiments, the amount initial biomass inoculated, as well as the initial acid concentration, were found to have a significant influence on the process. Though the lipid content was relatively low, it can be optimized and further improved. Oleic, linoleic and palmitic acids accounted for about 80 % of the fatty acids in the lipids, which makes them suitable for biodiesel.

Bio-oil production for biodiesel industry by Yarrowia lipolytica from volatile fatty acids in two-stage batch culture

Microbial lipids-derived biodiesel is garnering much attention owing to its potential to substitute diesel fuel. In this study, lipid accumulation by Yarrowia lipolytica from volatile fatty acids (VFAs) was studied in a lab-scale stirred tank bioreactor. In batch cultures, Y. lipolytica NCYC 2904 was able to grow in 18 g·L^-1 of VFAs (acetate, propionate, and butyrate), and the addition of a co-substrate (glucose) led to a fivefold improvement in lipid concentration. Furthermore, the two-stage batch culture (growth phase in glucose (1st stage) followed by a lipogenic phase in VFAs (2nd stage)) was the best strategy to obtain the highest lipid content in the cells (37%, w/w), with aeration conditions that kept dissolved oxygen concentration between 40% and 50% of saturation during the lipogenic phase. The estimated fuel properties of biodiesel produced from Y. lipolytica NCYC 2904 lipids are comparable with those of the biodiesel produced from vegetable oils and are in accordance with the international standards (EN 14214 and ASTM D6751). The cultivation strategies herein devised enable a sustainable, eco-friendly, and economical production of microbial lipids, based on feedstocks such as VFAs that can be derived from the acidogenic fermentation of organic wastes. KEY POINTS: • Addition of glucose to VFAs enhances lipids in Y. lipolytica in batch cultures • Two-stage batch culture - growth in glucose followed by VFAs pulse - rises lipids • Dissolved oxygen of 40-50% of saturation is crucial at the lipogenic phase.

Increased Lipid Production in Yarrowia lipolytica from Acetate through Metabolic Engineering and Cosubstrate Fermentation

Bioconversion of acetate, a byproduct generated in industrial processes, into microbial lipids using oleaginous yeasts offers a promising alternative for the economic utilization of acetate-containing waste streams. However, high acetate concentrations will inhibit microbial growth and metabolism. In this study, the acetate utilization capability of Yarrowia lipolytica PO1f was successively improved by overexpressing the key enzyme of acetyl-CoA synthetase (ACS), which resulted in an accumulation of 9.2% microbial lipids from acetate in shake flask fermentation. By further overexpressing the second key enzymes of acetyl-CoA carboxylase (ACC1) and fatty acid synthase (FAS) in Y. lipolytica, the lipid content was increased to 25.7% from acetate. Finally, the maximum OD₆₀₀ of 29.2 and a lipid content of 41.7% were obtained with the engineered strain by the adoption of cosubstrate (glycerol and acetate) fed-batch fermentation, which corresponded to an increase of 68 and 95%, respectively. These results presented a promising strategy for economic and efficient microbial lipid production from the waste acetate.