Critical Reviews in Biotechnology最新文献_第5页

Engineering proteins with catechol chemistry for biotechnological applications. 利用邻苯二酚化学成分改造蛋白质，促进生物技术应用。

IF 8.1 2区工程技术

Critical Reviews in Biotechnology Pub Date : 2024-08-28 DOI: 10.1080/07388551.2024.2387165

Suryalakshmi Pandurangan, Shanmugam Easwaramoorthi, Niraikulam Ayyadurai

{"title":"Engineering proteins with catechol chemistry for biotechnological applications.","authors":"Suryalakshmi Pandurangan, Shanmugam Easwaramoorthi, Niraikulam Ayyadurai","doi":"10.1080/07388551.2024.2387165","DOIUrl":"https://doi.org/10.1080/07388551.2024.2387165","url":null,"abstract":"Developing proteins with increased chemical space by expanding the amino acids alphabet has been an emerging technique to compete for the obstacle encountered by their need in various applications. 3,4-Dihydroxyphenylalanine (L-DOPA) catecholic unnatural amino acid is abundantly present in mussels foot proteins through post-translational modification of tyrosine to give a strong adhesion toward wet rocks. L-DOPA forms: bidentate coordination, H-bonding, metal-ligand complexes, long-ranged electrostatic, and van der Waals interactions via a pair of donor hydroxyl groups. Incorporating catechol in proteins through genetic code expansion paved the way for developing: protein-based bio-sensor, implant coating, bio-conjugation, adhesive bio-materials, biocatalyst, metal interaction and nano-biotechnological applications. The increased chemical spaces boost the protein properties by offering a new chemically active interaction ability to the protein. Here, we review the technique employed to develop a genetically expanded organism with catechol to provide novel properties and functionalities; and we highlight the importance of L-DOPA incorporated proteins in biomedical and industrial fields.","PeriodicalId":10752,"journal":{"name":"Critical Reviews in Biotechnology","volume":" ","pages":"1-19"},"PeriodicalIF":8.1,"publicationDate":"2024-08-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142092501","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Necrophages and necrophiles: a review of their antibacterial defenses and biotechnological potential. 嗜尸菌和嗜尸菌：其抗菌防御能力和生物技术潜力综述。

IF 8.1 2区工程技术

Critical Reviews in Biotechnology Pub Date : 2024-08-28 DOI: 10.1080/07388551.2024.2389175

T P Tim Cushnie, Vijitra Luang-In, Darren W Sexton

{"title":"Necrophages and necrophiles: a review of their antibacterial defenses and biotechnological potential.","authors":"T P Tim Cushnie, Vijitra Luang-In, Darren W Sexton","doi":"10.1080/07388551.2024.2389175","DOIUrl":"https://doi.org/10.1080/07388551.2024.2389175","url":null,"abstract":"With antibiotic resistance on the rise, there is an urgent need for new antibacterial drugs and products to treat or prevent infection. Many such products in current use, for example human and veterinary antibiotics and antimicrobial food preservatives, were discovered and developed from nature. Natural selection acts on all living organisms and the presence of bacterial competitors or pathogens in an environment can favor the evolution of antibacterial adaptations. In this review, we ask if vultures, blow flies and other carrion users might be a good starting point for antibacterial discovery based on the selection pressure they are under from bacterial disease. Dietary details are catalogued for over 600 of these species, bacterial pathogens associated with the diets are described, and an overview of the antibacterial defenses contributing to disease protection is given. Biotechnological applications for these defenses are then discussed, together with challenges facing developers and possible solutions. Examples include use of (a) the antimicrobial peptide (AMP) gene sarcotoxin IA to improve crop resistance to bacterial disease, (b) peptide antibiotics such as serrawettin W2 as antibacterial drug leads, (c) lectins for targeted drug delivery, (d) bioconversion-generated chitin as an antibacterial biomaterial, (e) bacteriocins as antibacterial food preservatives and (f) mutualistic microbiota bacteria as alternatives to antibiotics in animal feed. We show that carrion users encounter a diverse range of bacterial pathogens through their diets and interactions, have evolved many antibacterial defenses, and are a promising source of genes, molecules, and microbes for medical, agricultural, and food industry product development.","PeriodicalId":10752,"journal":{"name":"Critical Reviews in Biotechnology","volume":" ","pages":"1-18"},"PeriodicalIF":8.1,"publicationDate":"2024-08-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142092502","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Precise metabolic modeling in post-omics era: accomplishments and perspectives. 后组学时代的精确代谢建模：成就与展望。

IF 8.1 2区工程技术

Critical Reviews in Biotechnology Pub Date : 2024-08-28 DOI: 10.1080/07388551.2024.2390089

Yawen Kong, Haiqin Chen, Xinlei Huang, Lulu Chang, Bo Yang, Wei Chen

{"title":"Precise metabolic modeling in post-omics era: accomplishments and perspectives.","authors":"Yawen Kong, Haiqin Chen, Xinlei Huang, Lulu Chang, Bo Yang, Wei Chen","doi":"10.1080/07388551.2024.2390089","DOIUrl":"https://doi.org/10.1080/07388551.2024.2390089","url":null,"abstract":"Microbes have been extensively utilized for their sustainable and scalable properties in synthesizing desired bio-products. However, insufficient knowledge about intracellular metabolism has impeded further microbial applications. The genome-scale metabolic models (GEMs) play a pivotal role in facilitating a global understanding of cellular metabolic mechanisms. These models enable rational modification by exploring metabolic pathways and predicting potential targets in microorganisms, enabling precise cell regulation without experimental costs. Nonetheless, simplified GEM only considers genome information and network stoichiometry while neglecting other important bio-information, such as enzyme functions, thermodynamic properties, and kinetic parameters. Consequently, uncertainties persist particularly when predicting microbial behaviors in complex and fluctuant systems. The advent of the omics era with its massive quantification of genes, proteins, and metabolites under various conditions has led to the flourishing of multi-constrained models and updated algorithms with improved predicting power and broadened dimension. Meanwhile, machine learning (ML) has demonstrated exceptional analytical and predictive capacities when applied to training sets of biological big data. Incorporating the discriminant strength of ML with GEM facilitates mechanistic modeling efficiency and improves predictive accuracy. This paper provides an overview of research innovations in the GEM, including multi-constrained modeling, analytical approaches, and the latest applications of ML, which may contribute comprehensive knowledge toward genetic refinement, strain development, and yield enhancement for a broad range of biomolecules.","PeriodicalId":10752,"journal":{"name":"Critical Reviews in Biotechnology","volume":" ","pages":"1-19"},"PeriodicalIF":8.1,"publicationDate":"2024-08-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142092503","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Advancements in multi-omics for nutraceutical enhancement and traits improvement in buckwheat. 多组学在荞麦营养保健品强化和性状改良方面的进展。

IF 8.1 2区工程技术

Critical Reviews in Biotechnology Pub Date : 2024-08-19 DOI: 10.1080/07388551.2024.2373282

Yingjie Song, Chunlin Long, Ying Wang, Yuxing An, Yinglin Lu

{"title":"Advancements in multi-omics for nutraceutical enhancement and traits improvement in buckwheat.","authors":"Yingjie Song, Chunlin Long, Ying Wang, Yuxing An, Yinglin Lu","doi":"10.1080/07388551.2024.2373282","DOIUrl":"https://doi.org/10.1080/07388551.2024.2373282","url":null,"abstract":"Buckwheat (Fagopyrum spp.) is a typical pseudocereal, valued for its extensive nutraceutical potential as well as its centuries-old cultivation. Tartary buckwheat and common buckwheat have been used globally and become well-known nutritious foods due to their high quantities of: proteins, flavonoids, and minerals. Moreover, its increasing demand makes it critical to improve nutraceutical, traits and yield. In this review, bioactive compounds accumulated in buckwheat were comprehensively evaluated according to their chemical structure, properties, and physiological function. Biosynthetic pathways of flavonoids, phenolic acids, and fagopyrin were methodically summarized, with the regulation of flavonoid biosynthesis. Although there are classic synthesis pathways presented in the previous research, the metabolic flow of how these certain compounds are being synthesized in buckwheat still remains uncovered. The functional genes involved in the biosynthesis of flavonols, stress response, and plant development were identified based on multi-omics research. Furthermore, it delves into the applications of multi-omics in improving buckwheat's agronomic traits, including: yield, nutritional content, stress resilience, and bioactive compounds biosynthesis. While pangenomics combined with other omics to mine elite genes, the regulatory network and mechanism of specific agronomic traits and biosynthetic of bioactive components, and developing a more efficient genetic transformation system for genetic engineering require further investigation for the execution of breeding designs aimed at enhancing desirable traits in buckwheat. This critical review will provide a comprehensive understanding of multi-omics for nutraceutical enhancement and traits improvement in buckwheat.","PeriodicalId":10752,"journal":{"name":"Critical Reviews in Biotechnology","volume":" ","pages":"1-26"},"PeriodicalIF":8.1,"publicationDate":"2024-08-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142003802","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Biotechnological application of Aureobasidium spp. as a promising chassis for biosynthesis of ornithine-urea cycle-derived bioproducts. Aureobasidium spp.作为鸟氨酸-尿素循环衍生生物产品生物合成底盘的生物技术应用。

IF 8.1 2区工程技术

Critical Reviews in Biotechnology Pub Date : 2024-08-19 DOI: 10.1080/07388551.2024.2382954

Khin Myo Myo Tint, Xin Wei, Peng Wang, Guang-Lei Liu, Mei Zhang, Zhen-Ming Chi, Zhe Chi

{"title":"Biotechnological application of Aureobasidium spp. as a promising chassis for biosynthesis of ornithine-urea cycle-derived bioproducts.","authors":"Khin Myo Myo Tint, Xin Wei, Peng Wang, Guang-Lei Liu, Mei Zhang, Zhen-Ming Chi, Zhe Chi","doi":"10.1080/07388551.2024.2382954","DOIUrl":"https://doi.org/10.1080/07388551.2024.2382954","url":null,"abstract":"The ornithine-urea cycle (OUC) in fungal cells has biotechnological importance and many physiological functions and is closely related to the acetyl glutamate cycle (AGC). Fumarate can be released from argininosuccinate under the catalysis of argininosuccinate lyase in OUC which is regulated by the Ca2+ signaling pathway and over 93.9 ± 0.8 g/L fumarate can be yielded by the engineered strain of Aureobasidium pullulans var. aubasidani in the presence of CaCO3. Furthermore, 2.1 ± 0.02 mg of L-ornithine (L-Orn)/mg of the protein also can be synthesized via OUC by the engineered strains of Aureobasidum melanogenum. Fumarate can be transformed into many drugs and amino acids and L-Orn can be converted into siderophores (1.7 g/L), putrescine (33.4 g/L) and L-piperazic acid (L-Piz) (3.0 g/L), by different recombinant strains of A. melanogenum. All the fumarate, L-Orn, siderophore, putrescine and L-Piz have many applications. As the yeast-like fungi and the promising chassis, Aureobasidium spp, have many advantages over any other fungal strains. Further genetic manipulation and bioengineering will enhance the biosynthesis of fumarate and L-Orn and their derivates.","PeriodicalId":10752,"journal":{"name":"Critical Reviews in Biotechnology","volume":" ","pages":"1-15"},"PeriodicalIF":8.1,"publicationDate":"2024-08-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142003803","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Algae: the game-changers in biohydrogen sector. 藻类：生物氢领域的游戏规则改变者。

IF 8.1 2区工程技术

Critical Reviews in Biotechnology Pub Date : 2024-08-14 DOI: 10.1080/07388551.2024.2387176

Thummala Chandrasekhar, Puli Chandra Obul Reddy, Battana Swapna, Lebaka Veeranjaneya Reddy, Vankara Anuprasanna, Lomada Dakshayani, Pamuru Ramachandra Reddy, Madhava C Reddy

{"title":"Algae: the game-changers in biohydrogen sector.","authors":"Thummala Chandrasekhar, Puli Chandra Obul Reddy, Battana Swapna, Lebaka Veeranjaneya Reddy, Vankara Anuprasanna, Lomada Dakshayani, Pamuru Ramachandra Reddy, Madhava C Reddy","doi":"10.1080/07388551.2024.2387176","DOIUrl":"https://doi.org/10.1080/07388551.2024.2387176","url":null,"abstract":"Biohydrogen (H2) is an efficient form of renewable energy generated from various biological organisms. Specifically, primitive plants such as algae which are photosynthetic organisms can produce several commercial products, including biofuels due to their simple form, short life span, efficient photosynthetic capacity, and ability to grow in non-potable water sources. But these algae are often neglected and considered waste. Several studies have revealed the importance and role of algal species in generating biofuels, especially biohydrogen. Considerable research has been conducted in order to understand hydrogen production from algal sources. This review emphasizes the photolysis of water-based hydrogen production in algae apart from the metabolites fermentation process. The influence of physico-chemical factors, including oxygen scavengers, nanoparticles, and hydrogenases, was highlighted in this review to enhance H2 production from algal species. Also, several algal species used for hydrogen production are summarized in detail. Overall, this review intends to summarize the developments in hydrogen production from algal species keeping in view of excellent prospects. This knowledge certainly would provide a good opportunity for the industrial production of hydrogen using algal species, which is one of the most concerned areas in the energy sector.","PeriodicalId":10752,"journal":{"name":"Critical Reviews in Biotechnology","volume":" ","pages":"1-21"},"PeriodicalIF":8.1,"publicationDate":"2024-08-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141981915","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Insulin fibrillation under physicochemical parameters of bioprocessing and intervention by peptides and surface-active agents. 生物加工理化参数下的胰岛素纤维化以及肽和表面活性物质的干预。

IF 8.1 2区工程技术

Critical Reviews in Biotechnology Pub Date : 2024-08-14 DOI: 10.1080/07388551.2024.2387167

Chinmaya Panda, Sachin Kumar, Sharad Gupta, Lalit M Pandey

{"title":"Insulin fibrillation under physicochemical parameters of bioprocessing and intervention by peptides and surface-active agents.","authors":"Chinmaya Panda, Sachin Kumar, Sharad Gupta, Lalit M Pandey","doi":"10.1080/07388551.2024.2387167","DOIUrl":"https://doi.org/10.1080/07388551.2024.2387167","url":null,"abstract":"Even after the centenary celebration of insulin discovery, there prevail challenges concerning insulin aggregation, not only after repeated administration but also during industrial production, storage, transport, and delivery, significantly impacting protein quality, efficacy, and effectiveness. The aggregation reduces insulin bioavailability, increasing the risk of heightened immunogenicity, posing a threat to patient health, and creating a dent in the golden success story of insulin therapy. Insulin experiences various physicochemical and mechanical stresses due to modulations in pH, temperature, ionic strength, agitation, shear, and surface chemistry, during the upstream and downstream bioprocessing, resulting in insulin unfolding and subsequent fibrillation. This has fueled research in the pharmaceutical industry and academia to unveil the mechanistic insights of insulin aggregation in an attempt to devise rational strategies to regulate this unwanted phenomenon. The present review briefly describes the impacts of environmental factors of bioprocessing on the stability of insulin and correlates with various intermolecular interactions, particularly hydrophobic and electrostatic forces. The aggregation-prone regions of insulin are identified and interrelated with biophysical changes during stress conditions. The quest for novel additives, surface-active agents, and bioderived peptides in decelerating insulin aggregation, which results in overall structural stability, is described. We hope this review will help tackle the real-world challenges of insulin aggregation encountered during bioprocessing, ensuring safer, stable, and globally accessible insulin for efficient management of diabetes.","PeriodicalId":10752,"journal":{"name":"Critical Reviews in Biotechnology","volume":" ","pages":"1-22"},"PeriodicalIF":8.1,"publicationDate":"2024-08-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141981916","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Strategic approaches for designing yeast strains as protein secretion and display platforms. 设计酵母菌株作为蛋白质分泌和展示平台的战略方法。

IF 8.1 2区工程技术

Critical Reviews in Biotechnology Pub Date : 2024-08-13 DOI: 10.1080/07388551.2024.2385996

Luping Xu, Xingjian Bai, Eun Joong Oh

引用次数: 0

Application of protein engineering to ene-reductase for the synthesis of chiral compounds through asymmetric reaction. 将蛋白质工程学应用于烯还原酶，通过不对称反应合成手性化合物。

IF 8.1 2区工程技术

Critical Reviews in Biotechnology Pub Date : 2024-08-12 DOI: 10.1080/07388551.2024.2382957

Jiacheng Feng, Huiru Ye, Changxin Lu, Linyan Pan, Hanchi Chen, Linjiang Zhu, Xiaolong Chen

{"title":"Application of protein engineering to ene-reductase for the synthesis of chiral compounds through asymmetric reaction.","authors":"Jiacheng Feng, Huiru Ye, Changxin Lu, Linyan Pan, Hanchi Chen, Linjiang Zhu, Xiaolong Chen","doi":"10.1080/07388551.2024.2382957","DOIUrl":"https://doi.org/10.1080/07388551.2024.2382957","url":null,"abstract":"Ene-reductase (ER) has been widely applied for asymmetrical synthesis of chiral intermediates due to its substrate promiscuity, photoexcited reactivity, and excellent property with producing two chiral centers at a time. Natural ERs often exhibit the same stereoselectivity, and they need to be engineered for opposite configuration of chiral compounds. The hydrogenation process toward activated alkenes by ERs is composed of reductive half reaction and oxidative half reaction, which are dependent upon two cofactors NAD(P)H and flavin mononucleotide. The catalytic activity of ERs will be affected by the size of the substrate, the activating strength of the electron-withdrawing groups, redox potential of cofactors, and the loop flexibility around catalytic cavity. Currently, protein engineering to ERs has been successfully employed to enhance various catalytic properties, including photoexcited asymmetric synthesis. This review summarizes the approaches to reverse the stereoselectivity and enhance catalytic activity of ERs and new applications of the engineered ERs in photobiocatalytic asymmetric synthesis, besides the discussion with the existing molecular mechanisms of mutants regarding the improved catalytic performance.","PeriodicalId":10752,"journal":{"name":"Critical Reviews in Biotechnology","volume":" ","pages":"1-18"},"PeriodicalIF":8.1,"publicationDate":"2024-08-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141970750","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Recent advances in genome mining and synthetic biology for discovery and biosynthesis of natural products. 基因组挖掘和合成生物学在天然产品的发现和生物合成方面的最新进展。

IF 8.1 2区工程技术

Critical Reviews in Biotechnology Pub Date : 2024-08-12 DOI: 10.1080/07388551.2024.2383754

Mingpeng Wang, Lei Chen, Zhaojie Zhang, Qinhong Wang

引用次数: 0