Hasil untuk "Biotechnology"

B. Léllis, Cíntia Zani Fávaro-Polonio, J. Pamphile et al.

Abstract The water is an essential resource for life on the planet and for human development. The textile industry is one of the anthropogenic activities that most consume water and pollute water bodies. Therefore, the present work aims to undertake a review on the main effects of the release of industrial dyes and the essential bioremediation mechanisms. The textile dyes significantly compromise the aesthetic quality of water bodies, increase biochemical and chemical oxygen demand (BOD and COD), impair photosynthesis, inhibit plant growth, enter the food chain, provide recalcitrance and bioaccumulation, and may promote toxicity, mutagenicity and carcinogenicity. In spite of this, the bioremediation of textile dyes, that is, the transformation or mineralization of these contaminants by the enzymatic action of plant, bacteria, extremophiles and fungi biomasses is fully possible. Another option is the adsorption. Despite some disadvantages, the bioremediation is essentially positive and can be progressively enhanced by modern biotechnological techniques that are related to the generation of more degrading and more resistant engineered organisms. This is a sustainable solution that provides a fundamental and innovative contribution to conventional physicochemical treatments. The resources of environmental biotechnology can, therefore, be used as tangible technological solutions for the treatment of textile dye effluents and are related to the ethical imperative of ensuring the minimum necessary for a quality life for the humankind.

B. Vu, Miao Chen, R. Crawford et al.

Extracellular polymeric substances (EPS) produced by microorganisms are a complex mixture of biopolymers primarily consisting of polysaccharides, as well as proteins, nucleic acids, lipids and humic substances. EPS make up the intercellular space of microbial aggregates and form the structure and architecture of the biofilm matrix. The key functions of EPS comprise the mediation of the initial attachment of cells to different substrata and protection against environmental stress and dehydration. The aim of this review is to present a summary of the current status of the research into the role of EPS in bacterial attachment followed by biofilm formation. The latter has a profound impact on an array of biomedical, biotechnology and industrial fields including pharmaceutical and surgical applications, food engineering, bioremediation and biohydrometallurgy. The diverse structural variations of EPS produced by bacteria of different taxonomic lineages, together with examples of biotechnological applications, are discussed. Finally, a range of novel techniques that can be used in studies involving biofilm-specific polysaccharides is discussed.

M. Post, S. Levenberg, D. Kaplan et al.

Cellular agriculture is an emerging branch of biotechnology that aims to address issues associated with the environmental impact, animal welfare and sustainability challenges of conventional animal farming for meat production. Cultured meat can be produced by applying current cell culture practices and biomanufacturing methods and utilizing mammalian cell lines and cell and gene therapy products to generate tissue or nutritional proteins for human consumption. However, significant improvements and modifications are needed for the process to be cost efficient and robust enough to be brought to production at scale for food supply. Here, we review the scientific and social challenges in transforming cultured meat into a viable commercial option, covering aspects from cell selection and medium optimization to biomaterials, tissue engineering, regulation and consumer acceptance. Producing meat without the drawbacks of conventional animal agriculture would greatly contribute to future food and nutrition security. This Review Article covers biological, technological, regulatory and consumer acceptance challenges in this developing field of biotechnology.

S. Rao, Gokare A. Ravishankar

Alyssa C. Frazee, G. Pertea, A. Jaffe et al.

Eduardo Guzman, Francisco Ortega, Ramon G. Rubio

Rhamnolipids are very promising sugar-based biosurfactants, generally produced by bacteria, with a wide range of properties that can be exploited at an industrial and technological level, e.g. in cosmetics, food science, or oil recovery, to provide benefits for human health and the environment. This has led to intensive research into optimizing their production to increase yields and minimize costs, which is challenging because biotechnological methods for rhamnolipid production result in complex product mixtures and require the introduction of complex separation strategies to ensure the purity of the rhamnolipid obtained. This is an important issue for the introduction of rhamnolipids to the market due to the differences that exist between the properties of the different congeners. This review attempts to provide an overview of the interfacial properties, potential applications, and recent advances in understanding the molecular mechanisms that govern the adsorption to interfaces and assembly in solution of rhamnolipids. In addition, the review also discusses some general aspects related to the production and purification methods of rhamnolipids, highlighting the need for further research to fully exploit their potential. It is hoped that this review will contribute to the growing body of knowledge about rhamnolipids and stimulate further research in this field.

Chenxi Han, Chenxi Han, Jiao Jiao et al.

Spinal cord injury (SCI) is a severe condition that frequently leads to permanent disabilities and neurological dysfunction. Its progression is driven by a multifaceted pathophysiology, encompassing direct trauma, secondary injury cascades, and intricate cellular and molecular responses. While current therapies focus on alleviating symptoms and restoring functionality, achieving effective neural regeneration in the spinal cord continues to be a significant challenge. Hydrogels, recognized for their exceptional biocompatibility, conductivity, and injectability, have shown great potential as advanced scaffolds to support neuronal and axonal regeneration. Recently, these materials have attracted significant interest in the field of SCI rehabilitation research. This review concludes recent progress in hydrogel-based strategies for SCI rehabilitation, emphasizing their distinct properties, underlying mechanisms, and integration with bioactive molecules, stem cells, and complementary biomaterials. Hydrogels foster neuronal regeneration by providing a tailored microenvironment, while advanced features such as self-repair, electrical conductivity, and controlled drug release significantly enhance their therapeutic potential in experimental models. This review explores hydrogel technologies and their applications, underscoring their potential to address the challenges of SCI treatment and paving the way for future clinical implementation.

Lijuan Li, Kunkun Li, Yu Mi et al.

ABSTRACT Serratia marcescens is an established pathogen implicated in hospital-acquired infections and is notorious for its propensity to form biofilms on medical devices, leading to persistent environmental contamination and increased infection risks. Addressing this challenge, our study introduces a novel bacteriophage, Weishan phage (WSPA), isolated from the gut of Periplaneta americana L., exhibiting potent activity against multidrug-resistant strains of S. marcescens. Through comprehensive genomic and proteomic characterization, we classified phage WSPA as a member of the genus Muldoonvirus within the class Caudoviricetes. The WSPA phage has a double-stranded DNA genome of 173,655 base pairs and a GC content of 40.09%. Of the 273 open reading frames identified, 124 encode for proteins with recognized functions in the National Center for Biotechnology Information (NCBI) database, while the remaining 149 are of unknown function. Additionally, we identified six tRNA genes and did not identify any virulence or antibiotic resistance genes. However, given the presence of numerous hypothetical genes with unknown functions, this phage may possess certain therapeutic safety potential, though additional research validation is still required. Comparative genomic analysis revealed that WSPA shares 86.92% sequence identity with the known Serratia phage 4S (MW082584.1). We further assessed the phage’s one-step growth characteristics, thermal and pH stability, and determined its host range, which are critical for its application in environmental and clinical settings. Our findings suggest that bacteriophage WSPA could serve as an eco-friendly and effective agent in controlling S. marcescens infections, with promising implications for phage therapy and biocontrol in healthcare environments.IMPORTANCEThis study isolated a novel phage, WSPA, from Periplaneta americana L. gut that specifically targets multidrug-resistant Serratia marcescens. Genomic analysis identified WSPA as a new Muldoonvirus member lacking virulence/resistance genes. With excellent stability and lytic activity, WSPA shows potential for hospital infection control. As the first phage isolated from the cockroach gut, this work expands phage resources and supports medicinal insect phage library development, advancing phage therapy and biocontrol applications.

Xiao Wang, Wenxuan Shi, Yu Jin et al.

Abstract The escalating hazards posed by bacterial infections underscore the imperative for pioneering advancements in next-generation antibacterial modalities and treatments. Present therapeutic methodologies are frequently impeded by the constraints of insufficient biofilm infiltration and the absence of precision in pathogen-specific targeting. In this current study, we have used chlorin e6 (Ce6), zeolitic imidazolate framework-8 (ZIF-8), polydopamine (PDA), and UBI peptide to formulate an innovative nanosystem meticulously engineered to confront bacterial infections and effectually dismantle biofilm architectures through the concerted mechanism of photodynamic therapy (PDT)/photothermal therapy (PTT) therapies, including in-depth research, especially for oral bacteria and oral biofilm. Ce6@ZIF-8-PDA/UBI nanosystem, with effective adhesion and bacteria-targeting, affords a nuanced bacterial targeting strategy and augments penetration depth into oral biofilm matrices. The Ce6@ZIF-8-PDA/UBI nanosystem potentiated bacterial binding and aggregation. Upon exposure to red-light (RL) irradiation, Ce6@ZIF-8-PDA/UBI showed excellent antibacterial effect on S. aureus, E. coli, F. nucleatum, and P. gingivalis and exceptional light-driven antibiofilm activity to P. gingivalis biofilm, which was a result of the efficient bacterial localization mediated by PDA/UBI, as well as the PDT/PTT facilitated by Ce6/PDA interactions. Collectively, these versatile nanoplatforms augur a promising and strategic avenue for controlling infection and biofilm, thereby holding significant potential for future integration into clinical paradigms. The original application of the developed nanosystem in oral biofilms also provides a new strategy for effective oral infection treatment.

M. A. Vishnyakova, R. A. Shaukharov, N. V. Kocherina et al.

Background. Guar (Cyamopsis tetragonoloba (L.) Taub.) is a leguminous crop plant of tropical origin that has gained unprecedented popularity in recent years due to the presence of gum in its seeds. The use of guar gum in the oil and gas industry gives the crop strategic importance. This was the reason for its introduction to the Russian Federation (RF) at the beginning of the 21st century and for the active breeding of domestic cultivars. The demand for the guar collection has increased dramatically, serving as an impetus for its active study.Materials and methods. The materials of the study were guar accessions from the VIR collection: 50 accessions in 2023, and 30 most productive of them in 2024. The accessions were phenotyped for 13 traits important for breeding at Volgograd Experiment Station of VIR. The indicator of early maturity was assessed by indirect methods. Statistical processing of the research results was performed using the Statistica 13.3 software package.Results. Seed productivity of guar accessions was analyzed, its structure and interrelations among its defining characteristics. Differentiation of the guar gene pool for the studied traits was revealed. The most productive accessions were identified. Previously obtained data on the relationship of guar collection accessions to the photoperiod served as a basis for proposing a modified algorithm for determining the photoperiod sensitivity of accessions as an indirect indicator of their earliness.Conclusion. The data obtained for guar accessions from the VIR collection under the conditions of the Russian Federation will make it possible to use this germplasm effectively as source material for breeding domestic cultivars.

Enrico Gugliandolo, Bilal Mghili, Francesca Fabrizi et al.

This study examines the occurrence of bacteria resistant to antibiotics and heavy metals in Terra Nova Bay, a coastal area of the Ross Sea in Antarctica that is increasingly recognised as vulnerable to human influence. During the 37th Italian Antarctic Expedition (2021–2022), researchers collected seawater, sediment, and fish samples from the notothenioid species <i>Trematomus bernacchii</i> to evaluate microbial resistance in an environment once considered largely pristine. Fifty heterotrophic bacterial isolates were obtained and tested against twenty-eight antibiotics, revealing a notable presence of multidrug resistance. These multidrug-resistant isolates were then assessed for their tolerance to eight heavy metal salts to understand whether resistance traits extended beyond antimicrobials. Twelve isolates showing resistance to both antibiotics and metals were selected for further genetic screening, targeting key resistance genes linked to tetracycline, vancomycin, sulphonamides, and other antimicrobial classes. The detection of multiple resistance genes in genera such as <i>Pseudomonas</i>, <i>Pseudoalteromonas</i>, and <i>Psychrobacter</i> indicates that both natural selective pressures and local, human-related contamination may be shaping resistance patterns in this region. Overall, the study demonstrates that even remote Antarctic marine ecosystems can host bacteria with complex resistance profiles. While these ecosystems are largely isolated, human activities such as scientific research, tourism, and the introduction of pollutants may contribute to the dissemination of antibiotic resistance genes, raising important ecological and potential public health considerations regarding the spread of resistance in polar environments.

Eszter Papp, Gabor Vattay

The Anderson metal-insulator transition is a fundamental phenomenon in condensed matter physics, describing the transition from a conducting (metallic) to a non-conducting (insulating) state driven by disorder in a material. At the critical point of the Anderson transition, wave functions exhibit multifractal behavior, and energy levels display a universal distribution, indicating non-trivial correlations in the eigenstates. Recent studies have shown that proteins, traditionally considered insulators, exhibit much higher conductivity than previously assumed. In this paper, we investigate several proteins known for their efficient electron transport properties. We compare their energy level statistics, eigenfunction correlation, and electron return probability to those expected in metallic, insulating, or critical states. Remarkably, these proteins exhibit properties of critically disordered metals in their natural state without any parameter adjustment. Their composition and geometry are self-organized into the critical state of the Anderson transition, and their fractal properties are universal and unique among critical systems. Our findings suggest that proteins' wave functions may fulfill ``holographic'' area laws, since their correlation fractal dimension is \(d_2\approx 2\).

Ana Paula Wives, Isabelli Seiler de Medeiros Mendes, Sofia Turatti dos Santos et al.

D-xylose is the second most abundant monosaccharide found in lignocellulose and is of biotechnological importance for producing second-generation ethanol and other high-value chemical compounds. D-xylose conversion to ethanol is promoted by microbial fermentation, mainly by bacteria, yeasts, or filamentous fungi. Considering yeasts, species belonging to the CTG(Ser1) or CTG(Ala) clade display a remarkable ability to ferment D-xylose to ethanol and other compounds; however, these yeasts are not employed on an industrial scale due to the poor fermentative performance compared to conventional yeasts, like Saccharomyces cerevisiae, and also due to the lack of a molecular toolbox for development of new strains tailored to fermentation stress tolerance and performance. Thus, the purpose of this review is to evaluate the major molecular tools (e.g., transformation markers and techniques, vectors, regulatory sequences, and gene editing techniques) available for the most studied yeasts of CTG(Ser1) clade, like Scheffersomyces, Spathaspora, Candida and Yamadazyma species, and the CTG(Ala) clade representative Pachysolen tannophilus. Furthermore, we synthesized the current state-of-the-art molecular developments and perspectives for D-xylose fermenting yeast strain design.

Valencia V. Ndlangamandla, Adeola Salawu-Rotimi, Vuyiswa S. Bushula-Njah et al.

<i>Cannabis sativa</i> L. is a monotypic genus belonging to the family Cannabaceae. It is one of the oldest species cultivated by humans, believed to have originated in Central Asia. In pivotal judgements in 2016 and 2018, the South African Constitutional Court legalised the use of <i>Cannabis</i> within the country for medicinal and recreational purposes, respectively. These decrees opened opportunities for in-depth research where previously there had been varying sentiments for research to be conducted on the plant. This review seeks to examine the history, genetic diversity, and chemical profile of <i>Cannabis</i>. The cultivation of <i>Cannabis</i> by indigenous people of southern Africa dates back to the eighteenth century. Indigenous rural communities have been supporting their livelihoods through <i>Cannabis</i> farming even before its legalisation. However, there are limited studies on the plant’s diversity, both morphologically and genetically, and its chemical composition. Also, there is a lack of proper documentation of <i>Cannabis</i> varieties in southern Africa. Currently, the National Centre for Biotechnology Information (NCBI) has 15 genome assemblies of <i>Cannabis</i> obtained from hemp and drug cultivars; however, none of these are representatives of African samples. More studies are needed to explore the species’ knowledge gaps on genetic diversity and chemical profiles to develop the <i>Cannabis</i> sector in southern Africa.

Chunran Ma, Shiquan Li, Yuqi Zeng et al.

The rise of DNA nanotechnology has driven the development of DNA-based molecular machines, which are capable of performing specific operations and tasks at the nanoscale. Benefitting from the programmability of DNA molecules and the predictability of DNA hybridization and strand displacement, DNA-based molecular machines can be designed with various structures and dynamic behaviors and have been implemented for wide applications in the field of biosensing due to their unique advantages. This review summarizes the reported controlling mechanisms of DNA-based molecular machines and introduces biosensing applications of DNA-based molecular machines in amplified detection, multiplex detection, real-time monitoring, spatial recognition detection, and single-molecule detection of biomarkers. The challenges and future directions of DNA-based molecular machines in biosensing are also discussed.

Francesca Larosa, Jaroslav Mysiak, Marco Molinari et al.

Innovation is a key component to equip our society with tools to adapt to new climatic conditions. The development of research-action interfaces shifts useful ideas into operationalized knowledge allowing innovation to flourish. In this paper we quantify the existing gap between climate research and innovation action in Europe using a novel framework that combines artificial intelligence (AI) methods and network science. We compute the distance between key topics of research interest from peer review publications and core issues tackled by innovation projects funded by the most recent European framework programmes. Our findings reveal significant differences exist between and within the two layers. Economic incentives, agricultural and industrial processes are differently connected to adaptation and mitigation priorities. We also find a loose research-action connection in bioproducts, biotechnologies and risk assessment practices, where applications are still too few compared to the research insights. Our analysis supports policy-makers to measure and track how research funding result in innovation action, and to adjust decisions if stated priorities are not achieved.

Yizheng Wang, Yixiao Zhai, Yijie Ding et al.

Proteins play a pivotal role in biological systems. The use of machine learning algorithms for protein classification can assist and even guide biological experiments, offering crucial insights for biotechnological applications. We introduce the Support Bio-Sequence Machine for Proteins (SBSM-Pro), a model purpose-built for the classification of biological sequences. This model starts with raw sequences and groups amino acids based on their physicochemical properties. It incorporates sequence alignment to measure the similarities between proteins and uses a novel multiple kernel learning (MKL) approach to integrate various types of information, utilizing support vector machines for classification prediction. The results indicate that our model demonstrates commendable performance across ten datasets in terms of the identification of protein function and posttranslational modification. This research not only exemplifies state-of-the-art work in protein classification but also paves avenues for new directions in this domain, representing a beneficial endeavor in the development of platforms tailored for the classification of biological sequences. SBSM-Pro is available for access at http://lab.malab.cn/soft/SBSM-Pro/.

Michel Brueck, Bork A. Berghoff, Daniel Schindler

Small regulatory RNAs (sRNAs) are short non-coding RNAs in bacteria capable of post-transcriptional regulation. sRNAs have recently gained attention as tools in basic and applied sciences for example to fine-tune genetic circuits or biotechnological processes. Even though sRNAs often have a rather simple and modular structure, the design of functional synthetic sRNAs is not necessarily trivial. This protocol outlines how to use computational predictions and synthetic biology approaches to design, construct and validate synthetic sRNA functionality for their application in bacteria. The computational tool, SEEDling, matches the optimal seed region with the user-selected sRNA scaffold for repression of target mRNAs. The synthetic sRNAs are assembled using Golden Gate cloning and their functionality is subsequently validated. The protocol uses the acrA mRNA as an exemplary proof-of-concept target in Escherichia coli. Since AcrA is part of a multidrug efflux pump, acrA repression can be revealed by assessing oxacillin susceptibility in a phenotypic screen. However, in case target repression does not result in a screenable phenotype, an alternative validation of synthetic sRNA functionality based on a fluorescence reporter is described.

Zainab Jan, Anupriya M. Geethakumari, Kabir H. Biswas et al.

Background: SARS-CoV-2 variants continue to spread throughout the world and cause waves of COVID-19 infections. It is important to find effective antiviral drugs to combat SARS-CoV-2 and its variants. The main protease (Mpro) of SARS-CoV-2 is a promising therapeutic target due to its crucial role in viral replication and its conservation in all the variants. Therefore, the aim of this work was to identify an effective inhibitor of Mpro. Methods: We studied around 200 antimicrobial peptides using in silico methods including molecular docking and allergenicity and toxicity prediction. One selected antiviral peptide was studied experimentally using a Bioluminescence Resonance Energy Transfer (BRET)-based Mpro biosensor, which reports Mpro activity through a decrease in energy transfer. Results: Molecular docking identified one natural antimicrobial peptide, Protegrin-2, with high binding affinity and stable interactions with Mpro allosteric residues. Furthermore, free energy calculations and molecular dynamics simulation illustrated a high affinity interaction between the two. We also determined the impact of the binding of Protegrin-2 to Mpro using a BRET-based assay, showing that it inhibits the proteolytic cleavage activity of Mpro. Conclusions: Our in silico and experimental studies identified Protegrin-2 as a potent inhibitor of Mpro that could be pursued further towards drug development against COVID-19 infection.

Arpit Arunkumar Bana, Nithin Sajeev, Sabyasachi Halder et al.

Bevacizumab (Bvz) is the most preferred recombinant humanized monoclonal antibody in biosimilar development due to its prominence as a standard treatment in the oncology space. Therapeutic monoclonal antibodies are typically more complex and unlikely to produce a replica. As a result, regulatory agencies allow approval of biosimilars that differ structurally and functionally from their reference product, but these differences should not have any clinical significance. To identify these significant discrepancies, it is essential to perform a thorough characterization of critical product attributes both in real-time and after storage until the product's expiration. In the present study, two Bvz biosimilar brands (Bio-1 and Bio-2) marketed in India were evaluated and compared with the reference product Avastin® to assess their degree of similarity. A comprehensive physicochemical characterization of biosimilars and reference product was performed using orthogonal techniques including LC-ESI-QTOF, MALDI-TOF, FTIR-ATR, iCIEF, rCE, nrCE, UV280, and RP-HPLC. Furthermore, Bvz formulations under study were subjected to various stress conditions of thermal (elevated temperature 50 ± 2 °C), chemical (acidic pH 3.0 ± 0.2, neutral pH 7.0 ± 0.2, and basic pH 10.0 ± 0.2), and mechanical (agitation 200 rpm) for comparative stability evaluation. Any alteration in the secondary structure of the native protein was detected and quantified using far-UV circular dichroism (CD), indicating an average of 15% and 11% loss in native antiparallel β-sheet conformation respectively in Bio-1 and Bio-2 upon exposure to elevated temperature and high pH. Additionally, covalent or non-covalent aggregates formed as a function of elevated temperature and agitation were quantified using SEC-MALS.