In recent years, production of fatty acid derivatives has attracted much attention because of their wide range of applications in renewable oleochemicals. Microorganisms such as Saccharomyces cerevisiae provided an ideal cell factory for such chemical synthesis. In this study, an efficient strategy for the synthesis of fatty alcohols based on enhanced supply of free fatty acids (FFAs) was constructed. The FAA1 and FAA4 genes encoding two acyl-CoA synthetases in S. cerevisiae were deleted, resulting in the accumulation of FFAs with carbon chain length from C8 to C18. The coexpression of the carboxylic acid reductase gene (car) from Mycobacterium marinum and the phosphopantetheinyl transferase gene (sfp) from Bacillus subtilis successfully converted the accumulated FFAs into fatty alcohols. The concentration of the total fatty alcohols reached 24.3 mg/L, which is in agreement with that of the accumulated FFAs. To further increase the supply of FFAs, the DGAI encoding the acyl-CoA:diacylglycerol acyltransferase involved in the rate-limiting step of triacylglycerols storage was codeleted with FAA1 and FAA4, and the acyl-CoA thioesterase gene (acot) was expressed together with car and sfp, resulting in an enhanced production of fatty alcohols, the content of which increased to 31.2 mg/L. The results herein demonstrated the efficiency of the engineered pathway for the production of fatty acid derivatives using FFAs as precursors.Topics: Carbonyl compounds (organic); Fungi; Pharmacology;

•PVDF modified membranes were designed by grafting PNIPAAm, PHEMA and their copolymer.•Fouling resistance and release property of membrane were both improved after modification.•Bacterial attachment and detachment were investigated to evaluate fouling release property.•Improvement of the antifouling property was justified by surface property analysis.•The copolymer modified membrane exhibited higher performance to release foulant.Thermo-sensitive polymer poly(N-isopropylacrylamide) (PNIPAAm), hydrophilic polymer poly(hydroxyethyl methacrylate) (PHEMA) and copolymer p(hydroxyethyl methacrylate-co-N-isopropylacrylamide) [P(HEMA-co-NIPAAm)] were synthesized onto poly(vinylidene fluoride) (PVDF) membrane via atom transfer radical polymerization (ATRP) in order to improve not only fouling resistance but also fouling release property. The physicochemical properties of membranes including hydrophilicity, morphology and roughness were examined by contact angle analyzer, scanning electron microscopy (SEM), and atomic force microscopy (AFM), respectively. The antifouling property of membranes was improved remarkably after surface modification according to protein and bacterial adhesion testing, and filtration experiment. Minimum protein adsorption and bacterial adhesion were both obtained on PVDF-g-P(HEMA-co-NIPAAm) membrane, with reduction by 44% and 71% respectively compared to the pristine membrane. The minimum bacterial cells after detachment at 25 °C were observed on the PVDF-g-P(HEMA-co-NIPAAm) membrane with the detachment rate of 77%, indicating high fouling release property. The filtration testing indicated that the copolymer modified membrane exhibited high resistance to protein fouling and the foulant on the surface was released and removed easily by washing, suggesting high fouling release and easy-cleaning capacity. This study provides useful insight in the combined “fouling resistance” and “fouling release” property of P(HEMA-co-NIPAAm) for PVDF membrane modification, even for other types of the membrane in wide application.

Brewers’ spent grain (BSG) is a by-product generated from the beer manufacturing industry, which is extremely rich in protein and fiber. Here we use low cost BSG as the raw material for the production of a novel growth media, through a bioconversion process utilizing a food grade fungi to hydrolyze BSG. The novel fermentation media was tested on the yeast Rhodosporidium toruloides, a natural yeast producing carotenoid. The yeast growth was analysed using the growth curve and the production of intracellular fatty acids and carotenoids. Untargeted GCMS based metabolomics was used to analyse the constituents of the different growth media, followed by multivariate data analysis. Growth media prepared using fermented BSG was found to be able to support the growth in R. toruloides (21.4 mg/ml) in comparable levels to YPD media (24.7 mg/ml). Therefore, the fermented BSG media was able to fulfill the requirement as a nitrogen source for R. toruloides growth. This media was able to sustain normal metabolomics activity in yeast, as indicated by the level of fatty acid and carotenoid production. This can be explained by the fact that, in the fermented BSG media metabolites and amino acids were found to be higher than in the unfermented media, and close to the levels in YPD media. Taken together, our study provided evidence of a growth media for yeast using BSG. This should have potential in replacing components in the current yeast culture media in a sustainable and cost effective manner.

In our previous study, three types of modified PVDF membranes, PVDF-g-PHEMA, PVDF-g-PNIPAAm, and PVDF-g-P(HEMA-co-NIPAAm), were successfully prepared by grafting the functional polymers PHEMA and PNIPAAm. In this study, bacterial adhesion tests on the original and modified PVDF membranes were performed using two model microbial species, i.e. Gram-negative Escherichia coli and Gram-positive Staphylococcus epidermidis, to investigate the effect of microbial species and membrane properties on the formation and structure of biofouling. The results indicated that less biofouling was found on the modified membranes as compared to that on the original membrane in both mono-species tests and mixed-species tests; this finding confirmed that the hydrophilicity of the membrane significantly affected the formation of biofouling such that the antifouling properties of the PVDF membranes were remarkably enhanced after grafting of the hydrophilic polymers on them. Less biofouling was observed on the modified hydrophilic membranes, with scattered biofouling spots for mono-species, whereas a thin layer structure of biofouling was observed for mixed-species; however, heavy biofouling covered the original membrane with a thick cake layer for both mono-species and mixed-species. This demonstrated that the microbial species significantly affected the formation and structure of biofilms since the species influenced the bacterial adhesion and biofouling behavior of each other based on their type and characteristics; moreover, the hydrophilicity of membrane also displayed an essential effect on the biofouling structure. The novelty of this study is as follows: it demonstrates that the microbial species and membrane properties play an essential role in the biofouling formation and structure as well as how to influence biofouling on different membranes; this study can provide useful insight and indications on how to effectively control and inhibit biofouling in the future.

External resistance is one of the important factors that affect the performance of microbial fuel cells (MFCs). In this study, bioelectrochemical and biofilm characterization was conducted for Shewanella oneidensis MR-1 inoculated MFCs with 250 Ω, 500 Ω, 2 kΩ, 6 kΩ and 22 kΩ resistors. Overall, a smaller external resistance resulted in a higher maximum power density and more riboflavin secretion. A maximum power density of 136.8 ± 3.1 mW m−2 was achieved when MFCs were operated with a 500 Ω resistor, which was 3.7 times that with a 22 kΩ resistor. Electrochemical impedance spectra (EIS) analysis verified an increased internal resistance with a higher external resistance. Meanwhile, more biofilm mass and extracellular polymer substances (EPS) were confirmed on the MFC anode with a higher external resistance.

The aim of this work is to prepare antifouling membrane with low-biofouling property by grafted functional polymer. Surface modification of poly(vinylidene fluoride) (PVDF) membrane was carried out via a modified and simple process by grafted poly(N-isopropylacrylamide) (PNIPAAm). The grafting density of PNIPAAm was significantly improved, up to 0.90 ± 0.38 mg/cm2, thereby improving the properties and performance of the membrane. The chemical composition, thermal stability and surface morphology of pristine and modified membranes had been characterized by attenuated total reflectance fourier-transform infrared spectroscopy (ATR-FTIR), thermo-gravimetric analysis (TGA), scanning electron microscopy (SEM) and atomic force microscope (AFM), respectively. After modification, the hydrophilicity of PVDF membrane was dramatically enhanced due to incorporation of PNIPAAm chains. The results of protein adsorption, microfiltration experiments and bacterial adhesion test demonstrated that the modified membrane exhibited obvious thermo-sensitive property and good antifouling capability. The maximum of flux recovery ratio (FRR), 91.59%, was obtained for the modified membrane. It is evidently believed that protein foulants was removed easily from the modified membrane surface after water washing. In addition, bacterial adhesion test revealed that the attachment of Escherichia coli on the modified membrane was reduced by 75% compared to the original membrane.

Carotenoid production from three strains of Rhodosporidium toruloides grown on glycerol was studied. A time-dependent metabolomics approach was used to understand its metabolism on glycerol and mechanism for carotenoid production in three strains during different growth phases (1, 4, 7, and 12 days). Strain CBS 5490 was the highest carotenoid producer (28.5 mg/L) and had a unique metabolic profile. In this strain, metabolites belonging to the TCA cycle and amino acids were produced in lower amounts, as compared to the other strains. On the other hand, it produced the highest amounts of carotenoid and fatty acid metabolites. This indicated that the lower production of the TCA cycle and amino acid metabolites promoted energy and metabolic flux toward the carotenoid and fatty acid synthesis metabolic pathways. This study shows that metabolomic profiling is a useful tool to gain insight into the metabolic pathways in the cell and to shed light on the different molecular mechanisms between strains.

Production of biofuels derived from microbial fatty acids has attracted great attention in recent years owing to their potential to replace petroleum-derived fuels. To be cost competitive with current petroleum fuel, flux toward the direct precursor fatty acids needs to be enhanced to approach high yields. Herein, fatty acyl-CoA metabolism in Saccharomyces cerevisiae was engineered to accumulate more free fatty acids (FFA). For this purpose, firstly, haploid S. cerevisiae double deletion strain △faa1△faa4 was constructed, in which the genes FAA1 and FAA4 encoding two acyl-CoA synthetases were deleted. Then the truncated version of acyl-CoA thioesterase ACOT5 (Acot5s) encoding Mus musculus peroxisomal acyl-CoA thioesterase 5 was expressed in the cytoplasm of the strain △faa1△faa4. The resulting strain △faa1△faa4 [Acot5s] accumulated more extracellular FFA with higher unsaturated fatty acid (UFA) ratio as compared to the wild-type strain and double deletion strain △faa1△faa4. The extracellular total fatty acids (TFA) in the strain △faa1△faa4 [Acot5s] increased to 6.43-fold as compared to the wild-type strain during the stationary phase. UFA accounted for 42 % of TFA in the strain △faa1△faa4 [Acot5s], while no UFA was detected in the wild-type strain. In addition, the expression of Acot5s in △faa1△faa4 restored the growth, which indicates that FFA may not be the reason for growth inhibition in the strain △faa1△faa4. RT-PCR results demonstrated that the de-repression of fatty acid synthesis genes led to the increase of extracellular fatty acids. The study presented here showed that through control of the acyl-CoA metabolism by deleting acyl-CoA synthetase and expressing thioesterase, more FFA could be produced in S. cerevisiae, demonstrating great potential for exploitation in the platform of microbial fatty acid-derived biofuels.

Malonyl-CoA plays an important role in the synthesis and elongation of fatty acids in yeast Saccharomyces cerevisiae. Malonyl-CoA is at a low concentration inside the cell and is produced mainly from acetyl-CoA through the enzyme acetyl-CoA carboxylase. It would be beneficial to find an alternative source of malonyl-CoA to increase its intracellular concentration and overall synthesis of the fatty acids. MatB gene from the bacteria Rhizobium leguminosarium bv. trifolii encodes for a malonyl-CoA synthetase which catalyzes the formation of the malonyl-CoA directly from malonate and CoA. However, results from high-performance liquid chromatography (HPLC) proved that Saccharomyces cerevisiae itself does not contain enough cytoplasmic malonate within them and is unable to uptake exogenously supplied malonate in the form of malonic acid. A dicarboxylic acid plasma membrane transporter with the ability to uptake exogenous malonic acid was identified from another species of yeast known as Schizosaccharomyces pombe and the gene encoding this transporter is identified as the mae1 gene. From the experiments thus far, the mae1 gene had been successfully cloned and transformed into Saccharomyces cerevisiae. The expression and functional ability of the encoded plasma membrane dicarboxylic acid transporter were also demonstrated and verified using specialized technologies such as RT-PCR, yeast immunofluorescence, HPLC, and LC-MS.

Apidaecins refer to a series of proline-rich, 18- to 20-residue antimicrobial peptides produced by insects. Accumulating evidence that proline-rich antimicrobial peptides are not-toxic to human and animal cells makes them potential candidates for the development of novel antibiotic drugs. However, the mechanism of action was not fully understood. In this study, antibacterial mechanism of apidaecins was investigated. iTRAQ-coupled 2-D LC–MS/MS technique was utilized to identify altered cytoplasmic proteins of Escherichia coli incubated with one isoform of apidaecins — apidaecin IB. The production of the chaperonin GroEL and its cofactor GroES, which together form the only essential chaperone system in E. coli cytoplasm under all growth conditions, was decreased in cells incubated with apidaecin IB. The decreasing of the GroEL–GroES chaperone team was further found to be involved in a new antibacterial mechanism of apidaecins. Our findings therefore provide important new insights into the antibacterial mechanism of apidaecins and perhaps, by extension, for other proline-rich antimicrobial peptides.Highlights►Antimicrobial peptides apidaecins. ►Cytoplasmic proteome profile of bacterial cells in response to apidaecins. ►Chaperone proteins GroEL–GroES and apidaecins. ►New antibacterial mechanisms by apidaecins.

Epstein–Barr virus (EBV) has been implicated in the development of nasopharyngeal carcinoma (NPC), a squamous cell carcinoma with high-occurrence in Southeast Asia and southern China. However, the underlying relationship of EBV and NPC squamous cell remains obscure. In this study, we employ a comparative iTRAQ-coupled 2D LC–MS/MS system to analyze the protein profile of NPC cell line upon EBV infection. Based on the proteome data and Western blot validation, 12 proteins were found to be significantly up-regulated and associated with signal transduction, cytoskeleton formation, metabolic pathways and DNA bindings. The interactions among NPC and EBV proteins were further analyzed and protein networks were established. Based on the functions of differentially expressed proteins, a metabolic pathway was proposed to elucidate their relationship in cytoskeleton formation, cell proliferation and apoptosis. Our results suggested a new proteome platform to analyze EBV's role in NPC squamous cell line. And these differentially expressed proteins may hold the promise as potential biomarkers for NPC diagnostics and treatment.Cellular proteome profile in response to EBV Infection.

Warfarin is a commonly prescribed oral anticoagulant with narrow therapeutic index. It achieves anti-coagulating effects by interfering with the vitamin K cycle. Warfarin has two enantiomers, S(−) and R(+) and undergoes stereoselective metabolism, with the S(−) enantiomer being more effective. We reported the intracellular metabolic profile in HepG2 cells incubated with S(−) and R(+) warfarin by GCMS. Chemometric method PCA was applied to analyze the individual samples. A total of 80 metabolites which belong to different categories were identified. Two batches of experiments (with and without the presence of vitamin K) were designed. In samples incubated with S(−) and R(+) warfarin, glucuronic acid showed significantly decreased in cells incubated with R(+) warfarin but not in those incubated with S(−) warfarin. It may partially explain the lower bio-activity of R(+) warfarin. And arachidonic acid showed increased in cells incubated with S(−) warfarin but not in those incubated with R(+) warfarin. In addition, a number of small molecules involved in γ-glutamyl cycle displayed ratio variations. Intracellular glutathione detection further validated the results. Taken together, our findings provided molecular evidence on a comprehensive metabolic profile on warfarin-cell interaction which may shed new lights on future improvement of warfarin therapy.

The x protein of HBV (HBx) has been involved in the development of hepatocellular carcinoma (HCC), with a possible link to individual genotypes. Nevertheless, the underlying mechanism remains obscure. In this study, we aim to identify the HBx-induced protein profile in HepG2 cells by LC-MS/MS proteomics analysis. Our results indicated that proteins were differentially expressed in HepG2 cells transfected by HBx of various genotypes. Proteins associated with cytoskeleton were found to be either up-regulated (MACF1, HMGB1, Annexin A2) or down-regulated (Lamin A/C). These may in turn result in the decrease of focal adhesion and increase of cell migration in response to HBx. Levels of other cellular proteins with reported impact on the function of extracellular matrix (ECM) proteins and cell migration, including Ca2+-binding proteins (S100A11, S100A6, and S100A4) and proteasome protein (PSMA3), were affected by HBx. The differential protein profile identified in this study was also supported by our functional assay which indicated that cell migration was enhanced by HBx. Our preliminary study provided a new platform to establish a comprehensive cellular protein profile by LC-MS/MS proteomics analysis. Further downstream functional assays, including our reported cell migration assay, should provide new insights in the association between HCC and HBx.LC-MS-MS analysis reveals new cellular signalling elements associated with HBx.

The development of hepatocellular carcinoma (HCC) can be considered as an end-stage outcome of chronic hepatitis B virus (HBV) infection. Early prognostic markers are needed to allow effective treatments and prevent HCC from developing. Proteomics analysis has been used to identify markers from clinical samples from HCC patients. This approach can be further improved by identifying early biomarkers before the onset of HCC. One way would be to use the cell-based HBV replication system, which is reflective of the early stage of virus infection and thus secreted proteins identified at this stage may have relevance in HCC prognosis. In this review, we focus the discussion on the current status of proteomics analysis of cellular proteins and HCC biomarker identification, with a special highlight on the potential of the cell-based HBV replication system for the identification of prognostic HCC biomarkers.Cell-based proteomics platform for analysis of mechanisms of liver diseases and identification of prognostic biomarkers. For example, new approach in identifying targets involved in HBV-mediated epigenetic gene regulation.n1number of proteins down-regulated in HBV-producing HepG2.2.15 as compared with HepG2n2number of proteins reactivated in HepG2.2.15 after the 5-Aza-dC treatment.Nnumber of proteins involved in HBV-mediated epigenetic gene regulation

Carvedilol is a third-generation β-blocker, with the S-enantiomer being more active than the R-enantiomer. Clinically, it has been used in the treatment of hypertension, congestive heart failure and angina pectoris. Each enantiomer of Carvedilol exhibits differential pharmacological effects. However, the cellular effects of individual enantiomer are not well understood. To gain insights into how each enantiomer affects cells, we analysed differential protein expression levels in vascular smooth muscle cells (A7r5) incubated separately with S- and R-Carvedilol by iTRAQ-coupled 2-D LC–MS/MS approach. Thirteen proteins were identified with statistically significant changes in cells incubated with S-Carvedilol, while the changes of most proteins incubated with R-Carvedilol were less significant. Among these proteins, actin in aortic smooth muscle (ACTA2), calmodulin, S100-A6, S100-A10, S100-A11, thioredoxin, lactadherin and heat-shock protein 105 kDa were found to be closely relevant with the clinical effects of Carvedilol. Furthermore, the changes in protein levels were validated by Western blot. Our findings thus provided molecular evidence on a comprehensive protein profile on Carvedilol–cell interaction, which may shed new light in molecular events underlying Carvedilol treatment.Differentially expressed proteins in A7r5 cells incubated with S-Carvedilol. The up arrow indicates the increased level of proteins, while the down arrow indicates the decreased level of proteins.

Hepatitis B virus (HBV) infection remains a major health concern with more than 350 million carriers in the world. It is associated with acute and chronic liver diseases including hepatocellular carcinoma (HCC). The early detection of severe liver diseases related to HBV is crucial for the effective treatment. This work aims to investigate the secreted proteins in our recently established cell-based HBV replication system, using isobaric tags for relative and absolute quantitation (iTRAQ)-coupled 2D LC–MS/MS proteomics approach. Such proteins are reflective of early events of HBV infection and thus may have potential as prognostic biomarkers for development of liver diseases.

The chiralities of chiral drugs have been investigated extensively with the purpose of enlightening the role of chirality in drug action. Proteomics, though in its infancy, has recently emerged as the foremost technology in drug development research, possessing the advantage of providing more useful information about an organism than genomics, as it directly addresses the level of genome products and their interactions. In this review, we will discuss the background of chiral drug investigation from which contemporary drug chirality research has emerged, the techniques involved in proteomics technology, the application of proteomics in this exciting area, and the perspectives in future applications of this field.

HBV remains one of the major pathogens of liver diseases but the outcomes as inflammation, cirrhosis and cancer of the liver are greatly related to different viral genotypes. The aim of this study was to assess the pro-apoptotic effect of HBSP from three HBV genotypes on liver derived cells. HepG2 cells were applied in our system and transfected by HBV genotype A, B, and C. Cells were observed under phase contrast microscope, stained by apoptosis marker and analyzed by flow cytometre. HBSP expression was detected by western blot assay. BH3 sequences were aligned and analyzed by Vector NTI. HBV genotypes A, B, and C transfected cells displayed evidence of cell death which was further proved as apoptosis. Natural expression of a pro-apoptotic protein HBSP was detected during genomes transfection. The different apoptotic effects were correlated to the HBSP expression from each genome. Alignment and analysis of the BH3 domains from the three genomes revealed slight variance which might also contribute to the result. Our results suggested that variant HBSP expression and BH3 sequence of HBV genotypes may be involved in differential apoptotic effect in transfected cells. Detailed analysis of the role of HBV genotypes in cellular apoptotic process should provide molecular information on the reported clinical outcome of infection by different HBV genotypes.

Epigenetics has been implicated in human cancer development. Epigenetic factors include HBx protein, which is able to induce hypermethylation and suppresses tumor suppressor genes. One of such tumor suppressor genes, GSTP1, shows reduced expression in many human cancers. Hypermethylation of GSTP1 is the most studied mechanism of its silence. In the present study, we reported that GSTP1 expression was completely depleted in HBV integrated HepG2.2.15 cells due to the hypermethylation in its promoter region. And it was HBx, especially HBx genotype D, that played the key role in repressing GSTP1 expression. Further functional studies like ROS assay and apoptosis detection were also used to confirm this repression. Our findings should facilitate the understanding of HBV and their influences on the epigenetic modulations for epigenetic tumorigenesis during HBV-mediated hepatocellular carcinogenesis.

•Recent progress in metabolic engineering for enhanced fatty acid production.•Regulation of acetyl-CoA, NADPH pathway for fatty acid synthesis.•Regulation of elongation and catabolic pathway to strength fatty acid synthesis.•Enhanced production of activated precursors for fatty acid derivatives production.Fatty acid-derived fuels and chemicals have attracted a great deal of attention in recent decades, due to their following properties of high compatibility to gasoline-based fuels and existing infrastructure for their direct utilization, storage and distribution. The yeast Saccharomyces cerevisiae is the ideal biofuel producing candidate, based on the wealth of available genetic information and versatile tools designed to manipulate its metabolic pathways. Engineering the fatty acid metabolic pathways in S. cerevisiae is an effective strategy to increase its fatty acid biosynthesis and provide more pathway precursors for production of targeted products. This review summarizes the recent progress in metabolic engineering of yeast cells for fatty acids and fatty acid derivatives production, including the regulation of acetyl-CoA biosynthesis, NADPH production, fatty acid elongation, and the accumulation of activated precursors of fatty acids for converting enzymes. By introducing specific enzymes in the engineered strains, a powerful platform with a scalable, controllable and economic route for advanced biofuel production has been established.