New biotechnology最新文献

Towards polyethylene terephthalate valorisation into PHB using an engineered Comamonas testosteroni strain.

IF 4.5 2区生物学

New biotechnology Pub Date : 2024-12-20 DOI: 10.1016/j.nbt.2024.12.005

Francisco J Molpeceres-García, David Sanz-Mata, Alejandro García-Miro, Alicia Prieto, Jorge Barriuso

{"title":"Towards polyethylene terephthalate valorisation into PHB using an engineered Comamonas testosteroni strain.","authors":"Francisco J Molpeceres-García, David Sanz-Mata, Alejandro García-Miro, Alicia Prieto, Jorge Barriuso","doi":"10.1016/j.nbt.2024.12.005","DOIUrl":"10.1016/j.nbt.2024.12.005","url":null,"abstract":"The abundant production of plastic materials, coupled with their recalcitrant nature, makes plastic waste a major challenge as a pollutant. Polyethylene terephthalate (PET) is a polyester formed by polycondensation of terephthalic acid (TPA) and ethylene glycol (EG). This plastic polymer can be completely depolymerized to its monomers using microbial enzymes. In this study, we verified in silico and in vivo that the bacterium Comamonas testosteroni RW31 is able to assimilate TPA and to produce the bioplastic polyhydroxybutyrate (PHB). This bacterium was engineered to heterologously express a fusion of the PET-degrading enzymes FAST-PETase and IsMHETase. We verified that our strain successfully secretes the enzymes and depolymerize PET both in vitro and in vivo, achieving a weight loss of 37.1 % and 0.83 %, respectively. We also studied its capacity to form biofilm. Furthermore, our strain can employ bis(2-hydroxyethyl) terephthalate (BHET), an intermediate of PET degradation, as feedstock to accumulate PHB up to 12.03 % of its dry weight in 14 h. Our findings highlight C. testosteroni RW31 as a promising chassis for synthetic biology strategies aimed at upcycling PET waste.","PeriodicalId":19190,"journal":{"name":"New biotechnology","volume":" ","pages":"75-83"},"PeriodicalIF":4.5,"publicationDate":"2024-12-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142872484","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Unveiling the fitness of Saccharomyces cerevisiae strains for lignocellulosic bioethanol: a genomic exploration through fermentation stress tests. 揭示木质纤维素生物乙醇的酿酒酵母菌株适应性：通过发酵压力测试进行基因组学探索。

IF 4.5 2区生物学

New biotechnology Pub Date : 2024-12-14 DOI: 10.1016/j.nbt.2024.12.004

Rebecca My, Ameya Pankaj Gupte, Edoardo Bizzotto, Martina Frizzarin, Paolo Antoniali, Stefano Campanaro, Lorenzo Favaro

{"title":"Unveiling the fitness of Saccharomyces cerevisiae strains for lignocellulosic bioethanol: a genomic exploration through fermentation stress tests.","authors":"Rebecca My, Ameya Pankaj Gupte, Edoardo Bizzotto, Martina Frizzarin, Paolo Antoniali, Stefano Campanaro, Lorenzo Favaro","doi":"10.1016/j.nbt.2024.12.004","DOIUrl":"10.1016/j.nbt.2024.12.004","url":null,"abstract":"Lignocellulosic biomass holds significant promise as a substrate for bioethanol production, yet the financial viability of lignocellulosic fermentation poses challenges. The pre-treatment step needed for lignocellulosic substrates generates inhibitors that impede Saccharomyces cerevisiae growth, affecting the fermentation process and overall yield. In modern sugarcane-to-ethanol plants, a rapid succession of yeast strains occurs, with dominant strains prevailing. Therefore, yeast strains with both dominance potential and inhibitor tolerance are crucial towards the development of superior strains with industrial fitness. This study adopted a hybrid approach combining biotechnology and bioinformatics to explore a cluster of 20 S. cerevisiae strains, including industrial and oenological strains exhibiting diverse phenotypic features. In-depth genomic analyses focusing on gene copy number variations (CNVs) and single nucleotide polymorphisms (SNPs) were conducted and compared with results from fermentation tests once inoculated in multiple strains kinetics under stressing conditions such as low nitrogen availability and high formic or acetic acid levels. Some strains showed high resistance to biotic stress and acetic acid. Moreover, four out of 20 strains - namely S. cerevisiae YI30, Fp89, Fp90 and CESPLG05 - displayed promising resistance also to formic acid, the most impactful weak acids in pre-treated lignocellulosic biomass. These strains have the potential to be used for the development of superior S. cerevisiae strains tailored for lignocellulosic bioethanol production.","PeriodicalId":19190,"journal":{"name":"New biotechnology","volume":" ","pages":"63-74"},"PeriodicalIF":4.5,"publicationDate":"2024-12-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142829075","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Is human oversight to AI systems still possible? 人类对人工智能系统的监督还有可能吗？

IF 4.5 2区生物学

New biotechnology Pub Date : 2024-12-13 DOI: 10.1016/j.nbt.2024.12.003

Andreas Holzinger, Kurt Zatloukal, Heimo Müller

{"title":"Is human oversight to AI systems still possible?","authors":"Andreas Holzinger, Kurt Zatloukal, Heimo Müller","doi":"10.1016/j.nbt.2024.12.003","DOIUrl":"10.1016/j.nbt.2024.12.003","url":null,"abstract":"The rapid proliferation of artificial intelligence (AI) systems across diverse domains raises critical questions about the feasibility of meaningful human oversight, particularly in high-stakes domains such as new biotechnology. As AI systems grow increasingly complex, opaque, and autonomous, ensuring responsible use becomes a formidable challenge. During our editorial work for the special issue \"Artificial Intelligence for Life Sciences\", we placed increasing emphasis on the topic of \"human oversight\". Consequently, in this editorial we briefly discuss the evolving role of human oversight in AI governance, focusing on the practical, technical, and ethical dimensions of maintaining control. It examines how the complexity of contemporary AI architectures, such as large-scale neural networks and generative AI applications, undermine human understanding and decision-making capabilities. Furthermore, it evaluates emerging approaches-such as explainable AI (XAI), human-in-the-loop systems, and regulatory frameworks-that aim to enable oversight while acknowledging their limitations. Through a comprehensive analysis, the picture emerged while complete oversight may no longer be viable in certain contexts, strategic interventions leveraging human-AI collaboration and trustworthy AI design principles can preserve accountability and safety. The discussion highlights the urgent need for interdisciplinary efforts to rethink oversight mechanisms in an era where AI may outpace human comprehension.","PeriodicalId":19190,"journal":{"name":"New biotechnology","volume":" ","pages":"59-62"},"PeriodicalIF":4.5,"publicationDate":"2024-12-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142828959","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Development of Komagataella phaffii as a cell factory for efficient de novo production of β-caryophyllene.

IF 4.5 2区生物学

New biotechnology Pub Date : 2024-12-07 DOI: 10.1016/j.nbt.2024.12.002

Jintao Cheng, Jiali Chen, Dingfeng Chen, Baoxian Li, Zhengshun Wen, Yuanxiang Jin, Chenfan Sun, Guiling Yang

{"title":"Development of Komagataella phaffii as a cell factory for efficient de novo production of β-caryophyllene.","authors":"Jintao Cheng, Jiali Chen, Dingfeng Chen, Baoxian Li, Zhengshun Wen, Yuanxiang Jin, Chenfan Sun, Guiling Yang","doi":"10.1016/j.nbt.2024.12.002","DOIUrl":"10.1016/j.nbt.2024.12.002","url":null,"abstract":"β-Caryophyllene is a natural bicyclic sesquiterpene found in a large number of plants around the world. It has anti-inflammatory, anticancer and analgesic biological activities associated with its important medicinal value, and has also attracted attention in the field of bioenergy with high energy density. Due to the low amount of β-caryophyllene in plants and complex purification process, microbial biosynthesis is considered as a promising alternative for the industrial development of β-caryophyllene. Komagataella phaffii has a robust transcriptional regulatory system and has many advantages in protein expression, high-density culture, making it suitable for large-scale industrial production. However, there are no systematic studies on the efficient biosynthesis of β-caryophyllene in K. phaffii. In this study, firstly, farnesyl diphosphate synthase ERG20 and β-caryophyllene synthase AaCPS were fused and expressed with different linkers. Secondly, we enhanced the mevalonate pathway and inhibited the branch pathway. At last, the copy number of ERG20-(PA)5-AaCPS were adjusted for the biosynthesis of β-caryophyllene, a highly efficient β-caryophyllene production strain AaCPS16 was constructed. AaCPS16 could produce 136.4 mg/L β-caryophyllene in shake flask level, which was 37 times higher than the initial strain AaCPS1. To the best of our knowledge, this is the first report of caryophyllene biosynthesis in Komagataella phaffii. This established a good foundation for the synthesis of sesquiterpenes in K. phaffii.","PeriodicalId":19190,"journal":{"name":"New biotechnology","volume":" ","pages":"52-58"},"PeriodicalIF":4.5,"publicationDate":"2024-12-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142801835","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

A rapid CAT transformation protocol and nuclear transgene expression tools for metabolic engineering in Cyanidioschyzon merolae 10D.

IF 4.5 2区生物学

New biotechnology Pub Date : 2024-12-03 DOI: 10.1016/j.nbt.2024.12.001

Melany Villegas-Valencia, Martha R Stark, Mark Seger, Gordon B Wellman, Sebastian Overmans, Peter J Lammers, Stephen D Rader, Kyle J Lauersen

{"title":"A rapid CAT transformation protocol and nuclear transgene expression tools for metabolic engineering in Cyanidioschyzon merolae 10D.","authors":"Melany Villegas-Valencia, Martha R Stark, Mark Seger, Gordon B Wellman, Sebastian Overmans, Peter J Lammers, Stephen D Rader, Kyle J Lauersen","doi":"10.1016/j.nbt.2024.12.001","DOIUrl":"10.1016/j.nbt.2024.12.001","url":null,"abstract":"The eukaryotic red alga Cyanidioschyzon merolae 10D is an emerging algal host for synthetic biology and metabolic engineering. Its small nuclear genome (16.5 Mb; 4775 genes), low intron content (39), stable transgene expression, and capacity for homologous recombination into its nuclear genome make it ideal for genetic and metabolic engineering endeavors. Here, we present an optimized transformation and selection protocol, which yields single chloramphenicol-resistant transformants in under two weeks. Transformation dynamics and a synthetic modular plasmid toolkit are reported, including several new fluorescent reporters. Techniques for fluorescence reporter imaging and analysis at different scales are presented to facilitate high-throughput screening of C. merolae transformants. We use this plasmid toolkit to overexpress the Ipomoea batatas isoprene synthase and demonstrate the dynamics of engineered volatile isoprene production during different light regimes using multi-port headspace analysis coupled to parallel photobioreactors. This work seeks to promote C. merolae as an algal system for metabolic engineering and future sustainable biotechnological production.","PeriodicalId":19190,"journal":{"name":"New biotechnology","volume":" ","pages":"39-51"},"PeriodicalIF":4.5,"publicationDate":"2024-12-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142786284","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

An industrial-grade Nicotiana benthamiana line for the production of glycoproteins carrying fucose-free galactosylated N-glycans.

IF 4.5 2区生物学

New biotechnology Pub Date : 2024-11-28 DOI: 10.1016/j.nbt.2024.11.007

Benjamin Kogelmann, Stanislav Melnik, Tahereh Keshvari, Michaela Bogner, Pierre-Olivier Lavoie, Marc-Andre D Aoust, Antonia Hermle, Anja Lux, Richard Strasser, Eva Stöger, Herta Steinkellner

{"title":"An industrial-grade Nicotiana benthamiana line for the production of glycoproteins carrying fucose-free galactosylated N-glycans.","authors":"Benjamin Kogelmann, Stanislav Melnik, Tahereh Keshvari, Michaela Bogner, Pierre-Olivier Lavoie, Marc-Andre D Aoust, Antonia Hermle, Anja Lux, Richard Strasser, Eva Stöger, Herta Steinkellner","doi":"10.1016/j.nbt.2024.11.007","DOIUrl":"10.1016/j.nbt.2024.11.007","url":null,"abstract":"β1,4-galactosylation is a typical human N-glycan formation with functional impact on proteins, particularly known for IgGs. Therefore, the expression of recombinant proteins with controlled galactosylation is an important quality parameter in the biotech industry. Here we describe the establishment of a plant-based expression platform for the manufacturing of recombinant proteins carrying β1,4-galactosylated N-glycans. A genome-edited Nicotiana benthamiana glycosylation mutant (NbXF-KO) that synthesizes conserved eukaryotic GnGn structures served as a template for further elongation toward β1,4-galactosylated N-glycans. A hybrid β1,4-galactosyltransferase gene that targets the enzyme to a post-Golgi compartment was introduced into the NbXF-KO genome without any additional foreign DNA sequence. The efficient generation of \"marker-free\" transgenic lines (NbXF-KOGal) was achieved by using a dual-vector strategy and visual screening procedures. Of note, a monoclonal antibody expressed in NbXF-KOGal exhibited up to 70 % galactosylated, fucose/xylose-free N-glycans, in a batch-to-batch consistent manner. Given recent findings attributing anti-inflammatory activities to nonfucosylated, galactosylated IgG, our results gain new significance.","PeriodicalId":19190,"journal":{"name":"New biotechnology","volume":" ","pages":"23-30"},"PeriodicalIF":4.5,"publicationDate":"2024-11-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142754951","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Increased accumulation of fatty acids in engineered Saccharomyces cerevisiae by co-overexpression of interorganelle tethering protein and lipases

IF 4.5 2区生物学

New biotechnology Pub Date : 2024-11-28 DOI: 10.1016/j.nbt.2024.11.005

Guoli Wang , Mingkai Li , Mengyu Ma , Zhenke Wu, Xiqin Liang, Qiusheng Zheng, Defang Li, Tianyue An

{"title":"Increased accumulation of fatty acids in engineered Saccharomyces cerevisiae by co-overexpression of interorganelle tethering protein and lipases","authors":"Guoli Wang , Mingkai Li , Mengyu Ma , Zhenke Wu, Xiqin Liang, Qiusheng Zheng, Defang Li, Tianyue An","doi":"10.1016/j.nbt.2024.11.005","DOIUrl":"10.1016/j.nbt.2024.11.005","url":null,"abstract":"<div><div>Fatty acids (FAs) and their derivatives are versatile chemicals widely used in various industries. Synthetic biology, using microbial cell factories, emerges as a promising alternative technology for FA production. To enhance the production capacity of these microbial chassis, additional engineering strategies are imperative. Based on the comparison of the morphological changes of lipid droplets (LDs) between oleaginous and non-oleaginous yeasts, we developed a new engineering strategy to increase the accumulation of FAs in Saccharomyces cerevisiae through manipulation of regulation factor and lipases related to LD. The increased biogenesis of LDs, achieved by overexpressing the interorganelle tethering protein Mdm1, coupled with the accelerated degradation of LDs through upregulated lipases, resulted in a 10.70-fold increase in total FAs production. Co-overexpression of Mdm1 and selected lipases significantly improved the biosynthesis of FAs and linoleic acid in the engineered S. cerevisiae. The efficient LD-based metabolic engineering strategy presented in this study holds the potential to advance the high-level production of FAs and their derivatives in microbial cell factories.</div></div>","PeriodicalId":19190,"journal":{"name":"New biotechnology","volume":"85 ","pages":"Pages 1-8"},"PeriodicalIF":4.5,"publicationDate":"2024-11-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142743581","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Strategic improvement of Shewanella oneidensis for biocatalysis: Approach to media refinement and scalable application in a microbial electrochemical system.

IF 4.5 2区生物学

New biotechnology Pub Date : 2024-11-28 DOI: 10.1016/j.nbt.2024.11.006

Nikolai Juergensen, Janek R Weiler, Melanie T Knoll, Johannes Gescher, Miriam Edel

{"title":"Strategic improvement of Shewanella oneidensis for biocatalysis: Approach to media refinement and scalable application in a microbial electrochemical system.","authors":"Nikolai Juergensen, Janek R Weiler, Melanie T Knoll, Johannes Gescher, Miriam Edel","doi":"10.1016/j.nbt.2024.11.006","DOIUrl":"10.1016/j.nbt.2024.11.006","url":null,"abstract":"Microbial electrochemical systems offer a sustainable method for the conversion of chemical energy into electrical energy or hydrogen and the production of valuable compounds, contributing to the development of a bio-based economy. This study aimed to enhance the performance of anodic bioelectrochemical systems by improving the current density of Shewanella oneidensis as a biocatalyst through strain modification and medium refinement. The genetic modification, combining the prophage deletion and overexpression of the speC gene, resulted in a 4.2-fold increase in current density compared to the wild type. Furthermore, medium refinement and incorporating riboflavin, led to an additional 5.7-fold increase in current density. The application of the modified strain and medium in a scalable microbial electrolysis cell resulted in a current density of 1.2 A m-², similar to what was achieved previously with an S. oneidensis and Geobacter sulfurreducens co-culture, substantiating the substantial performance increase for a pure culture of S. oneidensis. Furthermore, S. oneidensis was shown to grow in medium containing up to 500 mM sodium chloride and increasing the salt concentration to 400 mM had a minor influence on growth but significantly lowered the cell voltage of the MEC system.","PeriodicalId":19190,"journal":{"name":"New biotechnology","volume":" ","pages":"31-38"},"PeriodicalIF":4.5,"publicationDate":"2024-11-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142754961","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

MAGMA: Microbial and Algal Growth Modeling Application MAGMA：微生物和藻类生长模型应用。

IF 4.5 2区生物学

New biotechnology Pub Date : 2024-11-26 DOI: 10.1016/j.nbt.2024.11.004

Vincent A. Xu, Hakyung Lee, Bin Long, Joshua Yuan, Yinjie J. Tang

引用次数: 0

Functionalisation of polyhydroxybutyrate for diagnostic uses 用于诊断的聚羟基丁酸酯的功能化。

IF 4.5 2区生物学

New biotechnology Pub Date : 2024-11-15 DOI: 10.1016/j.nbt.2024.11.002

Gayathri Sam , Shuxiong Chen , Bernd H.A. Rehm

引用次数: 0