Protein-Rich Biomass Waste as a Resource for Future Biorefineries: State of the Art, Challenges, and Opportunities

An Optimized and Universal Protocol for the Synthesis of Morpholine-2,5-Diones from Natural Hydrophobic Amino Acids and Their Mixture

Morpholine-2,5-diones (MDs) are increasingly attractive compounds that can be produced using amino acid (AA) as a starting material. These compounds can undergo polymerization to produce biodegradable materials, namely, polydepsipeptides, that hold the potential to be used in medicinal applications. In this study, a simplified yet high-yield MD synthesis procedure was developed and applied to produce a range of MDs derived from hydrophobic AAs including Leu, Ile, Val, Phe, Asp(OBzl), Lys(Z), and Ser(tBu). Moreover, using a blend of hydrophobic amino acids (Leu, Ile, Val, and Phe), mixtures of MDs could be synthesized simultaneously. Finally, the polymerization of these MD mixtures was probed and proven successful. The concept investigated herein constitutes a novel path toward the valorization of protein-rich waste by producing renewable and biodegradable materials.

Biological importance of arginine: A comprehensive review of the roles in structure, disorder, and functionality of peptides and proteins

Arginine shows Jekyll and Hyde behavior in several respects. It participates in protein folding via ionic and H-bonds and cation-pi interactions; the charge and hydrophobicity of its side chain make it a disorder-promoting amino acid. Its methylation in histones; RNA binding proteins; chaperones regulates several cellular processes. The arginine-centric modifications are important in oncogenesis and as biomarkers in several cardiovascular diseases. The cross-links involving arginine in collagen and cornea are involved in pathogenesis of tissues but have also been useful in tissue engineering and wound-dressing materials. Arginine is a part of active site of several enzymes such as GTPases, peroxidases, and sulfotransferases. Its metabolic importance is obvious as it is involved in production of urea, NO, ornithine and citrulline. It can form unusual functional structures such as molecular tweezers in vitro and sprockets which engage DNA chains as part of histones in vivo. It has been used in design of cell-penetrating peptides as drugs. Arginine has been used as an excipient in both solid and injectable drug formulations; its role in suppressing opalescence due to liquid-liquid phase separation is particularly very promising. It has been known as a suppressor of protein aggregation during protein refolding. It has proved its usefulness in protein bioseparation processes like ion-exchange, hydrophobic and affinity chromatographies. Arginine is an amino acid, whose importance in biological sciences and biotechnology continues to grow in diverse ways.

Biomass carbon mining to develop nature-inspired materials for a circular economy

A transition from a linear to a circular economy is the only alternative to reduce current pressures in natural resources. Our society must redefine our material sources, rethink our supply chains, improve our waste management, and redesign materials and products. Valorizing extensively available biomass wastes, as new carbon mines, and developing biobased materials that mimic nature's efficiency and wasteless procedures are the most promising avenues to achieve technical solutions for the global challenges ahead. Advances in materials processing, and characterization, as well as the rise of artificial intelligence, and machine learning, are supporting this transition to a new materials' mining. Location, cultural, and social aspects are also factors to consider. This perspective discusses new alternatives for carbon mining in biomass wastes, the valorization of biomass using available processing techniques, and the implementation of computational modeling, artificial intelligence, and machine learning to accelerate material's development and process engineering.

Isolation and Characterisation of Electrogenic Bacteria from Mud Samples

To develop efficient microbial fuel cell systems for green energy production using different waste products, establishing characterised bacterial consortia is necessary. In this study, bacteria with electrogenic potentials were isolated from mud samples and examined to determine biofilm-formation capacities and macromolecule degradation. Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry identifications have revealed that isolates represented 18 known and 4 unknown genuses. They all had the capacities to reduce the Reactive Black 5 stain in the agar medium, and 48 of them were positive in the wolfram nanorod reduction assay. The isolates formed biofilm to different extents on the surfaces of both adhesive and non-adhesive 96-well polystyrene plates and glass. Scanning electron microscopy images revealed the different adhesion potentials of isolates to the surface of carbon tissue fibres. Eight of them (15%) were able to form massive amounts of biofilm in three days at 23 °C. A total of 70% of the isolates produced proteases, while lipase and amylase production was lower, at 38% and 27% respectively. All of the macromolecule-degrading enzymes were produced by 11 isolates, and two isolates of them had the capacity to form a strong biofilm on the carbon tissue one of the most used anodic materials in MFC systems. This study discusses the potential of the isolates for future MFC development applications.

Green Biomass-Based Protein for Sustainable Feed and Food Supply: An Overview of Current and Future Prospective

It is necessary to develop and deploy novel protein production to allow the establishment of a sustainable supply for both humans and animals, given the ongoing expansion of protein demand to meet the future needs of the increased world population and high living standards. In addition to plant seeds, green biomass from dedicated crops or green agricultural waste is also available as an alternative source to fulfill the protein and nutrient needs of humans and animals. The development of extraction and precipitation methods (such as microwave coagulation) for chloroplast and cytoplasmic proteins, which constitute the bulk of leaf protein, will allow the production of leaf protein concentrates (LPC) and protein isolates (LPI). Obtained LPC serves as a sustainable alternative source of animal-based protein besides being an important source of many vital phytochemicals, including vitamins and substances with nutritional and pharmacological effects. Along with it, the production of LPC, directly or indirectly, supports sustainability and circular economy concepts. However, the quantity and quality of LPC largely depend on several factors, including plant species, extraction and precipitation techniques, harvest time, and growing season. This paper provides an overview of the history of green biomass-derived protein from the early green fodder mill concept by Károly Ereky to the state-of-art of green-based protein utilization. It highlights potential approaches for enhancing LPC production, including dedicated plant species, associated extraction methods, selection of optimal technologies, and best combination approaches for improving leaf protein isolation.

Biorefineries: Achievements and challenges for a bio-based economy

Climate change, socioeconomical pressures, and new policy and legislation are driving a decarbonization process across industries, with a critical shift from a fossil-based economy toward a biomass-based one. This new paradigm implies not only a gradual phasing out of fossil fuels as a source of energy but also a move away from crude oil as a source of platform chemicals, polymers, drugs, solvents and many other critical materials, and consumer goods that are ubiquitous in our everyday life. If we are to achieve the United Nations' Sustainable Development Goals, crude oil must be substituted by renewable sources, and in this evolution, biorefineries arise as the critical alternative to traditional refineries for producing fuels, chemical building blocks, and materials out of non-edible biomass and biomass waste. State-of-the-art biorefineries already produce cost-competitive chemicals and materials, but other products remain challenging from the economic point of view, or their scaled-up production processes are still not sufficiently developed. In particular, lignin's depolymerization is a required milestone for the success of integrated biorefineries, and better catalysts and processes must be improved to prepare bio-based aromatic simple molecules. This review summarizes current challenges in biorefinery systems, while it suggests possible directions and goals for sustainable development in the years to come.

In-situ sulphide control in the anaerobic co-digestion of residual biomass from the production of penicillin and cystine

This study was focused on the anaerobic digestion of residual biomass from the production of penicillin and l-cystine. The biogas potential tests of individual substrates and their mixture showed good anaerobic biodegradability. The highest measured specific biogas production was 712 l/kg volatile solids (VS) for penicillin biomass and 676 l/ kg VS for cystine biomass. The biogas potential tests were performed at different inoculum-to-substrate ratios (ISR) and showed that high concentrations of nitrogen and sulphur present in residual biomass have a major impact on the anaerobic processes. The long-term operation of the laboratory anaerobic reactor showed that the mono-digestion of the penicillin biomass was stable at an OLR of 1 kg/(m³.d). When co-digestion of penicillin and cystine biomass at a ratio of 0.9:0.1 (on a VS basis) and at the same OLR was enhanced, the operation of the laboratory model turned unstable. During this phase of the operation, the course of anaerobic processes was affected by ammonia and especially sulphide inhibition. Sulphide inhibition was effectively reduced by direct dosing of FeCl₂ (in-situ sulphide control), at a molar iron-to-sulphur ratio of β = 1 (mol Fe/mol S). When suppressing sulphide inhibition, the operation of the laboratory model became stable even at a co-digestion ratio of 0.5:0.5 (VS basis). The results of this work open a new scope for future applications in the anaerobic digestion of waste biomass with high sulfur content, coming from industrial fermentation processes.

Ultrasound and Microwave-assisted Extraction of Proteins from Coffee Green Beans: Effects of Process Variables on the Protein Integrity

The demand for proteins is constantly increasing and green extraction methodologies are needed to achieve environmental sustainability goals. The recovery of the by-products of the agri-food chain has also become a priority from a circular economy perspective. Some by-products are still little exploited for the extraction of proteins, such as coffee by-products. In this work, various innovative extraction technologies were applied to recover the protein fraction from the non-compliant coffee green beans (CGB), using a methodological approach that allowed to correlate the process parameters with the final quality of the extracted proteins. The ultrasound-assisted extraction (UAE) technique has been shown to have a minor impact on the quality of the proteins, thanks to the possibility of refrigerating the system, while the microwave-assisted extraction (MAE) shows a certain degree of degradation due to the high temperatures reached. The results indicate that strict temperature control is required during alkaline extraction to preserve the quality of the protein fraction.

Protein by-products: Composition, extraction, and biomedical applications

Significant upsurge in animal by-products such as skin, bones, wool, hides, feathers, and fats has become a global challenge and, if not properly disposed of, can spread contamination and viral diseases. Animal by-products are rich in proteins, which can be used as nutritional, pharmacologically functional ingredients, and biomedical materials. Therefore, recycling these abundant and renewable by-products and extracting high value-added components from them is a sustainable approach to reclaim animal by-products while addressing scarce landfill resources. This article appraises the most recent studies conducted in the last five years on animal-derived proteins' separation and biomedical application. The effort encompasses an introduction about the composition, an overview of the extraction and purification methods, and the broad range of biomedical applications of these ensuing proteins.

Selective Biocatalytic Defunctionalization of Raw Materials

Biobased raw materials, such as carbohydrates, amino acids, nucleotides, or lipids contain valuable functional groups with oxygen and nitrogen atoms. An abundance of many functional groups of the same type, such as primary or secondary hydroxy groups in carbohydrates, however, limits the synthetic usefulness if similar reactivities cannot be differentiated. Therefore, selective defunctionalization of highly functionalized biobased starting materials to differentially functionalized compounds can provide a sustainable access to chiral synthons, even in case of products with fewer functional groups. Selective defunctionalization reactions, without affecting other functional groups of the same type, are of fundamental interest for biocatalytic reactions. Controlled biocatalytic defunctionalizations of biobased raw materials are attractive for obtaining valuable platform chemicals and building blocks. The biocatalytic removal of functional groups, an important feature of natural metabolic pathways, can also be utilized in a systemic strategy for sustainable metabolite synthesis.

Highly efficient synthesis of novel bio-based pentamethylene dicarbamate via carbonylation of pentanediamine with ethyl carbamate over well-defined titanium oxide catalysts

Highly efficient synthesis of bio-based pentamethylene dicarbamate from pentanediamine and ethyl carbamate was successfully achieved over the well-defined TiO2 catalysts, which provides a green and sustainable way for the production of bio-based isocyanates or polyurethane.

Molecular mechanisms of interaction between enzymes and Maillard reaction products formed from thermal hydrolysis pretreatment of waste activated sludge

Thermal hydrolysis pretreatment (THP) is often used to improve the anaerobic digestion performance of waste activated sludge (WAS) in wastewater treatment plants (WWTPs). During the THP process, the proteins and polysaccharides in the biomass will undergo hydrolysis and Maillard reaction, producing biorefractory organic substances, such as recalcitrant dissolved organic nitrogen (rDON) and melanoidins. In this study, a series of spectroscopy methods were used to quantitatively analyze the Maillard reaction of glucose and lysine, and the interaction mechanisms of the Maillard reaction products (MRPs) and lysozyme were investigated. Results showed that the typical aromatic heterocyclic structures in MRPs, such as pyrazine and furan, were found to quench molecular fluorescence of lysozyme, resulting in an unfolding of standard protein structure and increase in lysozyme hydrophobicity. Significant loss of enzyme activity was detected during this process. Thermodynamic parameters obtained from isothermal titration calorimetry (ITC) confirmed that the interaction between MRPs and lysozyme occurred both exothermically and spontaneously. Density functional theory (DFT) calculations suggested that the molecular interactions of MRPs and protein included parallel dislocation aromatic stacking, T-shaped vertical aromatic stacking, H-bond and H-bond coupled to aromatic stacking.

Exploiting Nature's Most Abundant Polymers: Developing New Pathways for the Conversion of Cellulose, Hemicellulose, Lignin and Chitin into Platform Molecules (and Beyond)

The four most prominent forms of biomass are cellulose, hemicellulose, lignin and chitin. In efforts to develop sustainable sources of platform molecules there has been an increasing focus on examining how these biopolymers could be exploited as feedstocks that support the chemical supply chain, including in the production of fine chemicals. Many different approaches are possible and some of the ones being developed in the authors' laboratories are emphasised.

Enone-promoted decarboxylation of trans-4-hydroxy-l-proline in flow: a side-by-side comparison to batch

An efficient and scalable enone-promoted method for the decarboxylation of trans-4-hydroxy-proline has been developed in flow to provide access to (R)-pyrrolidin-3-ol hydrochloride using biomass-derived isophorone.

The Forgotten Pyrazines: Exploring the Dakin-West Reaction

Pyrazines are an underreported class of N-heterocycles available from nitrogen-rich biomass presenting an interesting functional alternative for current aromatics. In this work, access to pyrazines obtained from amino acids by using the 90 year old Dakin-West reaction was explored. After a qualitative screening several functional proteinogenic amino acids proved good substrates for this reaction, which were successfully scaled to multigram scale synthesis of the corresponding intermediate α-acetamido ketones. Subsequently, the conditions towards pyrazine formation using δ-amino-levulinic acid were optimized, and these were employed to synthesize a relevant set of five functional dimethylpyrazines in high purity. These pyrazines can be considered a versatile toolbox of aromatic building blocks for a wide range of applications, such as in the synthesis of polymers or metal-organic frameworks.

In silico Proteomic Analysis Provides Insights Into Phylogenomics and Plant Biomass Deconstruction Potentials of the Tremelalles

Basidiomycetes populate a wide range of ecological niches but unlike ascomycetes, their capabilities to decay plant polymers and their potential for biotechnological approaches receive less attention. Particularly, identification and isolation of CAZymes is of biotechnological relevance and has the potential to improve the cache of currently available commercial enzyme cocktails toward enhanced plant biomass utilization. The order Tremellales comprises phylogenetically diverse fungi living as human pathogens, mycoparasites, saprophytes or associated with insects. Here, we have employed comparative genomics approaches to highlight the phylogenomic relationships among thirty-five Tremellales and to identify putative enzymes of biotechnological interest encoded on their genomes. Evaluation of the predicted proteomes of the thirty-five Tremellales revealed 6,918 putative carbohydrate-active enzymes (CAZYmes) and 7,066 peptidases. Two soil isolates, Saitozyma podzolica DSM 27192 and Cryptococcus sp. JCM 24511, show higher numbers harboring an average of 317 compared to a range of 267-121 CAZYmes for the rest of the strains. Similarly, the proteomes of the two soil isolates along with two plant associated strains contain higher number of peptidases sharing an average of 234 peptidases compared to a range of 226-167 for the rest of the strains. Despite these huge differences and the apparent enrichment of these enzymes among the soil isolates, the data revealed a diversity of the various enzyme families that does not reflect specific habitat type. Growth experiment on various carbohydrates to validate the predictions provides support for this view. Overall, the data indicates that the Tremellales could serve as a rich source of both CAZYmes and peptidases with wide range of potential biotechnological relevance.

Innovation and strategic orientations for the development of advanced biorefineries

Advanced biorefineries, which aim at valorizing biomass (from agriculture, forestry, aquaculture, among others) into a wide spectrum of products and bioenergy, are seen today as key to implement a sustainable biobased economy. Although different concepts of biorefinery are currently under development, further research and improvement are still required to obtain environmentally friendly and economically feasible commercial scale biorefineries. Valorization of all biomass components and integration of different disciplines are some of the strategies that have been considered to improve the economic and environmental performance. This paper summarizes and discusses the most recent innovations and strategic orientations for the development of advanced biorefineries. Focus is given on the valorization of non-carbohydrate components of biomass (protein, acetic acid and lignin), on-site and tailor-made production of enzymes, big data analytics, and interdisciplinary efforts. The idea is to provide new insights and directions to support the development and large-scale implementation of biorefineries.

Utilization of Amino Acid-Rich Wastes for Microbial Lipid Production

To produce microbial lipids for biofuel production, carbohydrates and related compounds from biomass have been routinely utilized, yet amino acids (AA) from protein-rich wastes have been overlooked so far. We use the oleaginous yeast Cryptococcus curvatus ATCC 20509 as a lipid producer and evaluate the capacity for lipid production on proteinogenic AA individually or in designated blends under two-staged culture conditions. It was found that cellular lipid contents reached 48.8%, 44.5% and 29.0% when yeast cells were cultivated in media-contained AA blends with compositional profiles similar to those of sheep viscera, meat industry by-products and fish muscle, respectively, and that lipid coefficients were more than 0.10 g g^-1. Furthermore, cellular lipid contents were higher than 20% when most AA were used individually. High lipid coefficients of over 0.23 g g^-1 were observed when Pro, Trp or Leu were used as a substrate. Results also indicated that higher initial media pH or reduced phosphate concentration was beneficial for lipid production on AA. This work demonstrated the potential to use AA and related wastes as substrates for microbial lipid production by the yeast C. curvatus, which fit well with the protein-based biorefinery concept. Further efforts should be devoted to recognizing the metabolic features, identifying more robust lipid producer and optimizing lipid production processes.

Metabolic engineering advances and prospects for amino acid production

Amino acid fermentation is one of the major pillars of industrial biotechnology. The multi-billion USD amino acid market is rising steadily and is diversifying. Metabolic engineering is no longer focused solely on strain development for the bulk amino acids L-glutamate and L-lysine that are produced at the million-ton scale, but targets specialty amino acids. These demands are met by the development and application of new metabolic engineering tools including CRISPR and biosensor technologies as well as production processes by enabling a flexible feedstock concept, co-production and co-cultivation schemes. Metabolic engineering advances are exemplified for specialty proteinogenic amino acids, cyclic amino acids, omega-amino acids, and amino acids functionalized by hydroxylation, halogenation and N-methylation.