Engineering high-level production of fatty alcohols by Saccharomyces cerevisiae from lignocellulosic feedstocks.

Fatty alcohols in the C12-C18 range are used in personal care products, lubricants, and potentially biofuels. These compounds can be produced from the fatty acid pathway by a fatty acid reductase (FAR), yet yields from the preferred industrial host Saccharomyces cerevisiae remain under 2% of the theoretical maximum from glucose. Here we improved titer and yield of fatty alcohols using an approach involving quantitative analysis of protein levels and metabolic flux, engineering enzyme level and localization, pull-push-block engineering of carbon flux, and cofactor balancing. We compared four heterologous FARs, finding highest activity and endoplasmic reticulum localization from a Mus musculus FAR. After screening an additional twenty-one single-gene edits, we identified increasing FAR expression; deleting competing reactions encoded by DGA1, HFD1, and ADH6; overexpressing a mutant acetyl-CoA carboxylase; limiting NADPH and carbon usage by the glutamate dehydrogenase encoded by GDH1; and overexpressing the Δ9-desaturase encoded by OLE1 as successful strategies to improve titer. Our final strain produced 1.2g/L fatty alcohols in shake flasks, and 6.0g/L in fed-batch fermentation, corresponding to ~ 20% of the maximum theoretical yield from glucose, the highest titers and yields reported to date in S. cerevisiae. We further demonstrate high-level production from lignocellulosic feedstocks derived from ionic-liquid treated switchgrass and sorghum, reaching 0.7g/L in shake flasks. Altogether, our work represents progress towards efficient and renewable microbial production of fatty acid-derived products.

Bacterial species metabolic interaction network for deciphering the lignocellulolytic system in fungal cultivating termite gut microbiota.

Fungus-cultivating termite Odontotermes badius developed a mutualistic association with Termitomyces fungi for the plant material decomposition and providing a food source for the host survival. The mutualistic relationship sifted the microbiome composition of the termite gut and Termitomyces fungal comb. Symbiotic bacterial communities in the O. badius gut and fungal comb have been studied extensively to identify abundant bacteria and their lignocellulose degradation capabilities. Despite several metagenomic studies, the species-wide metabolic interaction patterns of bacterial communities in termite gut and fungal comb remains unclear. The bacterial species metabolic interaction network (BSMIN) has been constructed with 230 bacteria identified from the O. badius gut and fungal comb microbiota. The network portrayed the metabolic map of the entire microbiota and highlighted several inter-species biochemical interactions like cross-feeding, metabolic interdependency, and competition. Further, the reconstruction and analysis of the bacterial influence network (BIN) quantified the positive and negative pairwise influences in the termite gut and fungal comb microbial communities. Several key macromolecule degraders and fermentative microbial entities have been identified by analyzing the BIN. The mechanistic interplay between these influential microbial groups and the crucial glycoside hydrolases (GH) enzymes produced by the macromolecule degraders execute the community-wide functionality of lignocellulose degradation and subsequent fermentation. The metabolic interaction pattern between the nine influential microbial species has been determined by considering them growing in a synthetic microbial community. Competition (30%), parasitism (47%), and mutualism (17%) were predicted to be the major mode of metabolic interaction in this synthetic microbial community. Further, the antagonistic metabolic effect was found to be very high in the metabolic-deprived condition, which may disrupt the community functionality. Thus, metabolic interactions of the crucial bacterial species and their GH enzyme cocktail identified from the O. badius gut and fungal comb microbiota may provide essential knowledge for developing a synthetic microcosm with efficient lignocellulolytic machinery.

Understanding the dissolution of softwood lignin in ionic liquid and water mixed solvents.

Lignin is the most abundant heterogeneous aromatic polymer on earth to produce a large number of value-added chemicals. Besides, the separation of lignin from the lignocellulosic biomass is essential for cellulosic biofuel production. For the first time, we report a cosolvent-based approach to understand the dissolution of lignin with 61 guaiacyl subunits at the molecular level. Atomistic molecular dynamics simulations of the lignin were performed in 0%, 20%, 50%, 80%, and 100% 1-Ethyl-3-Methylimidazolium Acetate (EmimOAc) systems. The lignin structure was significantly destabilized in both 50%, and 80% EmimOAc cosolvents, and pure EmimOAc systems leading to the breakdown of intrachain hydrogen bonds. Lignin-OAc and lignin-water hydrogen bonds were formed with increasing EmimOAc concentration, signifying the dissolution process. The OAc anions mostly solvated the alkyl chains and hydroxy groups of lignin. Besides, the imidazolium head of Emim cations contributed to solvation of methoxy groups and hydroxy groups, whereas ethyl tail interacted with the benzene ring of guaiacyl subunits. Effective dissolution was obtained in both the 50% and 80% EmimOAc cosolvent systems. Overall, our study presents a molecular view of the lignin dissolution focusing on the role of both cation and anion, which will help to design efficient cosolvent-based methods for lignin dissolution.

Dissolution of cellulose in ionic liquid and water mixtures as revealed by molecular dynamics simulations.

Increasing population growth and industrialization are continuously oppressing the existing energy resources, elevating the pollution and global fuel demand. Various alternate energy resources can be utilized to cope with these problems in an environment-friendly fashion. Currently, bioethanol (sugarcane, corn-derived) is one of the most widely consumed biofuels in the world. Lignocellulosic biomass is yet another attractive resource for sustainable bioethanol production. Pretreatment step plays a crucial role in the lignocellulose to bioethanol conversion by enhancing cellulose susceptibility to enzymatic hydrolysis. However, economical lignocellulose pretreatment still remains a challenging job. Ionic liquids (ILs), especially 1-ethyl-3-methylimidazolium acetate (EmimAc), is an efficient solvent for cellulose dissolution with improved enzymatic saccharification kinetics. To increase the process efficiency as well as recyclability of IL, water is shown as a compatible cosolvent for lignocellulosic pretreatment. The performance analysis of IL-water mixture based on the molecular level understanding may help to design effective pretreatment solvents. In this study, all-atom molecular dynamics simulation has been performed using EmimAc-water mixtures to understand the behavior of cellulose microcrystal containing eight glucose octamers at room and pretreatment temperatures. High-temperature simulation results show effective cellulose chain separation where cellulose-acetate interaction is found to be the driving force behind dissolution. It is also observed that pretreatment with 50 and 80% IL mixture is efficient in decreasing cellulose crystallinity. At a high IL concentration, water exists in a clustered network which gradually spans into the medium with increasing water fraction leading to loss of its cosolvation activity. Communicated by Ramaswamy H. Sarma.

Species-wide Metabolic Interaction Network for Understanding Natural Lignocellulose Digestion in Termite Gut Microbiota.

The structural complexity of lignocellulosic biomass hinders the extraction of cellulose, and it has remained a challenge for decades in the biofuel production process. However, wood-feeding organisms like termite have developed an efficient natural lignocellulolytic system with the help of specialized gut microbial symbionts. Despite having an enormous amount of high-throughput metagenomic data, specific contributions of each individual microbe to achieve this lignocellulolytic functionality remains unclear. The metabolic cross-communication and interdependence that drives the community structure inside the gut microbiota are yet to be explored. We have contrived a species-wide metabolic interaction network of the termite gut-microbiome to have a system-level understanding of metabolic communication. Metagenomic data of Nasutitermes corniger have been analyzed to identify microbial communities in different gut segments. A comprehensive metabolic cross-feeding network of 205 microbes and 265 metabolites was developed using published experimental data. Reconstruction of inter-species influence network elucidated the role of 37 influential microbes to maintain a stable and functional microbiota. Furthermore, in order to understand the natural lignocellulose digestion inside N. corniger gut, the metabolic functionality of each influencer was assessed, which further elucidated 15 crucial hemicellulolytic microbes and their corresponding enzyme machinery.

Can genotype determine the sports phenotype? A paradigm shift in sports medicine.

In last two decades, there has been an evolution in sports medicine. Several researchers have worked on different domains of sports medicine, like strength, endurance, sports injury, and psychology. Besides this, several groups have explored the changes at cellular and molecular levels during exercise, which has led to the development of the new domain in sports science known as genetic medicine. Genetic medicine deals with the genotypic basis of sports phenotype. In this article, we try to provide an up-to-date review on genetic determinants of sports performance, which will be like a journey from the nostalgic past towards the traditional present and the romantic future of sports medicine. Endurance and power performance are two important domains of athletes. They vary in individuals, even among trained athletes. Researches indicate that the genetic makeup of sportsmen play a vital role in their performance. Several genetic factors are reported to be responsible for endurance, power, susceptibility to injury, and even psychology of the individual. Besides this, proper training, nutrition, and environment are also important in shaping their potential. The aim of this discussion is to understand the influence of the environment and the genetic makeup on the performance of the athletes. There is sufficient evidence to suggest that genotype determines the sports phenotype in an athlete. Choosing the right sports activity based on genetic endowment is the key for achieving excellence in sports.

A simple strategy for charge selective biopolymer sensing.

Polysaccharide-induced protein fluorescence 'turn-on' responses have been studied in the presence of similarly charged micelle at pH ∼3. Quenched protein fluorescence is selectively recovered ('on' state) for bovine serum albumin (BSA) with sodium carboxy methyl cellulose (SCMC) and for pepsin (PS) with chitosan (CS) with starting ultra low concentrations of 0.04 µM and 0.008 µM respectively.

Cu2+-induced micellar charge selective fluorescence response of acridine orange: effect of micellar charge, pH, and mechanism.

Photophysical properties of cationic Acridine Orange (AO) have been studied in different micellar environments [anionic SDS (sodium dodecyl sulfate), nonionic TX (TritonX-100), and cationic CTAB (cetyl trimethyl ammonium bromide)] at different pH, in the presence of a metal ion (Cu(2+)). At pH ∼ 8, addition of Cu(2+) results in AO fluorescence quenching in the presence of SDS micelle, enhancement of the same in the presence of TX micelle, and remaining unaltered in the presence of CTAB micelle. At pH ∼ 2, addition of Cu(2+) results in AO fluorescence quenching only in the presence of SDS micelle, and it remains mostly unaffected in the presence of TX and CTAB. Availability of Cu(2+) toward AO and binding of Cu(2+) with AO at the charged micellar interface are responsible for this pH-dependent Cu(2+)-mediated micellar charge selective fluorescence pattern.

Reversible fluorescence quenching by micelle selective benzophenone-induced interactions between brij micelles and polyacrylic acids: implications for chemical sensors.

The fluorescence response of pyrene has been studied in the presence of nonionic brij micelles and poly(acrylic acid) (PAA) with benzophenone (BP) as a neutral hydrophobic quencher. Pyrene emission is quenched ("off" state) in the presence of BP in brij 35 (polyoxyethylene-23-lauryl ether) and brij 56 (polyoxyethylene-10-cetyl ether) micelles. Quenched pyrene emission is selectively recovered ("on" state) for brij 35 micelles with the addition of PAA (starting conc 2.0 x 10(-5) M). Due to the interaction of PAA and brij 35 micelles and the relatively easier accessibility of PAA polymer chains near the bulky polyoxyethylene chain of brij 35 micelles, the chances of BP partition inside the hydrophobic polymer coil are more compared to brij 56 micelles. The PAA sensing ability of the "brij 35:pyrene:BP" system is dependent on the molecular weight (M) of the polymer. Fluorescence recovery has been observed with PAA (M approximately 150000) and complete recovery has been recorded with high M of PAA (M approximately 450000); however, no fluorescence change is observed in the presence of low M of PAA (M approximately 2000). In solution, such selective reversible fluorescence quenching has the potential for a new class of highly sensitive chemical sensor systems.

pH-Controlled "off-on-off" switch based on Cu(2+)-mediated pyrene fluorescence in a PAA-SDS micelle aggregated supramolecular system.

We report herein the fluorescence response of pyrene in the presence of sodium dodecyl sulfate (SDS) micelle and poly(acrylic acid) (PAA) with Cu(2+) as an ionic quencher. Pyrene present in the PAA-SDS complex is quenched by Cu(2+) at pH approximately 2 ("off" state). Quenched pyrene emission is recovered at pH approximately 8 ("on" state). Due to easy protonation and deprotonation of the PAA chain in aqueous solution, this pH-controlled micellar ternary system exhibits a highly reversible "off-on-off" switch of the pyrene emission.

Metal-promoted aromatic ring amination and deamination reactions at a diazo ligand coordinated to rhodium and ruthenium.

Reactions of MCl(3).3H(2)O (M = Rh and Ru) with the ligand 2-[(2-N-arylamino)phenylazo]pyridine [HL(1); NH(4)C(5)N=NC(6)H(4)N(H)C(6)H(4)(H) (HL(1a)), NH(4)C(5)N=NC(6)H(4)N(H)C(6)H(4)(CH(3)) (HL(1b)), and NH(4)C(5)N=NC(6)H(4)N(H)C(5)H(4)N (HL(1c))] in the presence of dilute NEt(3) afforded multiple products. In the case of rhodium, two green compounds, viz. [Rh(L(1))(2)](+) ([2](+)) and [RhCl(pap)(L(1))](+) ([3](+)), where L(1) and pap stand for the conjugate base of [HL(1)] and 2-(phenylazo)pyridine, respectively, were separated on a preparative thin layer chromatographic plate. The reaction of RuCl(3).3H(2)O, on the other hand, produced two brown compounds, viz. [RuCl(HL(1))(L(1))] (4) and [RuCl(pap)(L(1))] (5), respectively, as the major products. The X-ray structures of the representative complexes are reported. Except for complex 2, and 4, the products are formed due to the cleavage of an otherwise unreactive C(phenyl)-N(amino) bond. In complex 4, one of the tridentate ligands (HL(1)) does not use its maximum denticity and coordinates as a neutral bidentate donor. Plausible reasons for the differences in their modes of coordination of the ligands as in 2 and 4 have been discussed. The ligand pap in the cationic mixed ligand complex [3](+) reacts instantaneously with ArNH(2) to produce an ink-blue compound, [RhCl(HL(2))(L(1))](+) ([6](+)) in a high yield. The ligand HL(2) is formed due to regioselective fusion of ArNH(2) residue at the para carbon of the phenyl ring (with respect to the azo fragment) of pap in [3](+). The above complexes are generally intensely colored and show strong absorptions in the visible region, which are assigned to intraligand charge transfer transitions. These complexes undergo multiple and successive one-electron-transfer processes at the cathodic potentials. Electrogenerated cationic complexes of ruthenium(III), [4](+) and [5](+), showed rhombic EPR spectra at 77 K.