New biotechnology最新文献

{"title":"Enhancement of glutathione production in Saccharomyces cerevisiae through inverse metabolic engineering","authors":"Soo Bin Nho ,&nbsp;Sang-Hun Do ,&nbsp;Young-Oh Lee ,&nbsp;Chan-Hong Ahn ,&nbsp;Jong Myoung Park ,&nbsp;Sun-Ki Kim","doi":"10.1016/j.nbt.2025.05.001","DOIUrl":"10.1016/j.nbt.2025.05.001","url":null,"abstract":"<div><div>Glutathione is an important tripeptide with a variety of health-promoting effects. Currently, glutathione is produced industrially through a fermentation process using <em>Saccharomyces cerevisiae</em> with high glutathione content. However, the glutathione production yield and titer are relatively low compared to using bacteria as a host strain. The underlying reason for this limitation is that previous studies have mainly focused on gene targets directly related to glutathione production. To overcome this limitation, we aimed to identify novel gene targets capable of enhancing glutathione production in <em>S. cerevisiae</em>. To this end, the #ACR3–12 mutant, exhibiting 1.8-fold higher glutathione content than the wild-type D452–2 strain, was isolated after two rounds of acrolein resistance-mediated screening. Next, the genes responsible for the increased glutathione production were identified by analyzing mutations that occurred in the #ACR3–12 mutant. Notably, the <em>SSD1</em> and <em>YBL100W-B</em> genes, which encode a translational repressor of cell wall protein synthesis and a <em>Ty2</em> retrotransposon, respectively, played a crucial role in enhancing glutathione production efficiency. In particular, the D452–2 strain overexpressing the <em>YBL100W-B</em> gene exhibited 1.6- and 2.1-fold higher maximum dry cell weight and glutathione concentration than the wild-type D452–2 strain.</div></div>","PeriodicalId":19190,"journal":{"name":"New biotechnology","volume":"88 ","pages":"Pages 142-149"},"PeriodicalIF":4.5,"publicationDate":"2025-05-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144143049","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}

{"title":"Retraction notice to \"Continuous H-B-E fermentation by Clostridium carboxidivorans: CO vs syngas\" [New Biotechnol 1495 2024;81(July):1–9]","authors":"F. Lanzillo ,&nbsp;S. Pisacane ,&nbsp;M. Capilla ,&nbsp;F. Raganati ,&nbsp;M.E. Russo ,&nbsp;P. Salatino ,&nbsp;A. Marzocchella","doi":"10.1016/j.nbt.2025.04.005","DOIUrl":"10.1016/j.nbt.2025.04.005","url":null,"abstract":"","PeriodicalId":19190,"journal":{"name":"New biotechnology","volume":"88 ","pages":"Page 141"},"PeriodicalIF":4.5,"publicationDate":"2025-05-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143942070","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}

{"title":"Value-added utilisation of industrial by-products from bioenergy processes for growth of the PHB synthesising bacterium Cupriavidus necator","authors":"Felix Berthold,&nbsp;York Chiduch,&nbsp;Marco Lederer,&nbsp;Christian Schlenk,&nbsp;Christian Hausmann,&nbsp;Stephanie Christine Stute","doi":"10.1016/j.nbt.2025.04.012","DOIUrl":"10.1016/j.nbt.2025.04.012","url":null,"abstract":"<div><div>The utilisation of low-value by-products derived from the production of bioenergy as nutrient media for microbial growth was investigated using the polyhydroxybutyrate (PHB) synthesising bacterium <em>Cupriavidus necator</em> as a case study. The potentially suitable by-products crude glycerol (derived from biodiesel production as carbon source) and digestate (resulting from biogas production as source for nitrogen and other nutrients) contain significant amounts of nutrients but also dissolved and solid impurities. In order to minimise negative effects such as clogging in bioreactor infrastructure and complications during product recovery in a future industrial production scale, the amount of solids was reduced by filtration and centrifugation. In addition, the treatment of the liquid anaerobic digestate (LAD) included dilution and pH stabilisation in order to reduce growth inhibition due to excessive concentrations of compounds in the digestate and an unsuitable pH. Experiments were carried out in a stirred tank bioreactor comparing growth on a medium consisting only of treated LAD and crude glycerol with growth on a reference media containing crude glycerol but mineral salts instead of LAD. Fermentation with crude glycerol and LAD showed slightly reduced specific growth rates (0.1 1/h) but a similar cell dry weight (8.8 g_CDW/L) compared to the reference media with crude glycerol and mineral salts (0.14 1/h and 9.5 g_CDW/L). As no specific conditions were set to promote PHB accumulation, only low levels of PHA of 5,45w_PHB/w_CDW-% ( ± 1,5) were observed for both medium variations at the end of growth.</div></div>","PeriodicalId":19190,"journal":{"name":"New biotechnology","volume":"88 ","pages":"Pages 132-140"},"PeriodicalIF":4.5,"publicationDate":"2025-05-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143942069","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}

{"title":"Phenotypic and genomic characterization of bacteriocin-producing lactic acid bacteria with probiotic and biotechnological potential for pathogen control in animal production","authors":"Pamela Oliveira de Souza de Azevedo ,&nbsp;Mauro de Medeiros Oliveira ,&nbsp;Taís Mayumi Kuniyoshi ,&nbsp;Carlos Emilio Cabrera Matajira ,&nbsp;Elionio Galvão Frota ,&nbsp;Meriellen Dias ,&nbsp;Sebastián Armando Bermúdez-Puga ,&nbsp;Amanda Romana Santos Pessoa ,&nbsp;Anna Carolina Meireles Piazentin ,&nbsp;Carlos Miguel Nóbrega Mendonça ,&nbsp;Wellison Amorim Pereira ,&nbsp;Attilio Converti ,&nbsp;José Manuel Domínguez ,&nbsp;Martin Gierus ,&nbsp;Alessandro M. Varani ,&nbsp;Ricardo Pinheiro de Souza Oliveira","doi":"10.1016/j.nbt.2025.04.008","DOIUrl":"10.1016/j.nbt.2025.04.008","url":null,"abstract":"<div><div>The emergence of antibiotic-resistant pathogens has raised significant concerns in the poultry industry, driving the search for alternatives to antibiotics as growth promoters in animal feed. Probiotics, particularly those belonging to the Lactic Acid Bacteria (LAB) group, represent a promising solution by mitigating the risk of infectious disease. However, a uniform concentration of probiotic LAB is not suitable for feed additives due to varying growth kinetics. Additionally, the genomic and physiological profiles of the LAB strains involved must be thoroughly evaluated. In this study, we provide an analytical framework to comprehensively assess LAB as potential antibiotic alternatives in poultry farming. Three LAB strains – <em>Pediococcus pentosaceus</em> (isolated from corn silage), <em>Ligilactobacillus salivarius</em> (from the poultry gut) and <em>Lactococcus lactis</em> (from the gut of rainbow trout) – were sequenced and characterized, with a focus on evaluating their probiotic potential and safety at the genomic level. The analyses included co-culturing LAB with pathogens, assessing viable cells, and determining the minimum inhibitory concentration of bacteriocin-like inhibitory substances (BLIS). In addition to demonstrating effective antimicrobial activity against avian pathogens (<em>Salmonella</em> spp., <em>Clostridium</em> spp. and <em>Campylobacter coli</em>), the results revealed notable probiotic traits in all three LAB strains, such as tolerance to bile salts and acidic environment and adhesion to intestinal cells. In conclusion, our analytical framework and results highlighted the potential of the tested LAB strains as biotechnological tools for developing zootechnical additives. These probiotics show promise as viable alternatives to antibiotics for enhancing poultry health and productivity.</div></div>","PeriodicalId":19190,"journal":{"name":"New biotechnology","volume":"88 ","pages":"Pages 114-131"},"PeriodicalIF":4.5,"publicationDate":"2025-05-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143936653","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}

{"title":"Valorization of prosecco wine lees for sustainable polyhydroxyalkanoates production by Cupriavidus necator DSM 545 and Hydrogenophaga pseudoflava DSM 1034","authors":"Viola Caminiti ,&nbsp;Ameya Pankaj Gupte ,&nbsp;Lorenzo Favaro ,&nbsp;Sergio Casella ,&nbsp;Marina Basaglia","doi":"10.1016/j.nbt.2025.04.009","DOIUrl":"10.1016/j.nbt.2025.04.009","url":null,"abstract":"<div><div>Nowadays, in the agricultural and agro-industrial sectors, there is increasing attention on the wine industry. The environmental impact of wine production, particularly in terms of residues generation, is a growing concern. Among generated residues, wine lees, rich in organic matter, phenols compounds, and with low pH, pose environmental challenges due to their disposal requirements. Despite their usage for biogas production and extraction of compounds, such as antioxidants, tartaric acid and ethanol, their potential in bioplastic production, specifically polyhydroxyalkanoates (PHAs), remains largely untapped. This study aims to evaluate the potential use of wine lees as a medium sustaining bacterial growth and PHAs accumulation. Specifically, <em>Cupriavidus necator</em> DSM 545 and <em>Hydrogenophaga pseudoflava</em> DSM 1034, were cultivated in the liquid phase of wine lees obtained from the Prosecco winemaking. On pure distilled wine lees, after mild feedstock pre-treatments, <em>C. necator</em> DSM 545 reached a CDW (cell dry weight) of 2.97 g/L and accumulated PHAs was 1.27 g/L, pair to 42.90 % of CDW. On the same substrate, CDW for <em>H. pseudoflava</em> DSM 1034 was 3.96 g/L and PHAs reached values of 1.60 g/L and 40.42 % CDW. These results obtained on wine lees are similar or even better than those achieved in the control growths of the two strains on pure glucose.</div><div>This is the first approach for the utilization of wine lees for PHAs production, highlighting their potential use in the PHAs industry, and offering a sustainable alternative for both residues management and bioplastic production.</div></div>","PeriodicalId":19190,"journal":{"name":"New biotechnology","volume":"88 ","pages":"Pages 73-82"},"PeriodicalIF":4.5,"publicationDate":"2025-04-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143888060","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}

{"title":"Addressing semantic ambiguity in biotechnology: Proposals from the European research infrastructure IBISBA","authors":"Marie Ancelin ,&nbsp;Vitor A.P. Martins dos Santos ,&nbsp;John P. Morrissey ,&nbsp;Michael J. O’Donohue ,&nbsp;Merja Penttilä ,&nbsp;James C. Philp","doi":"10.1016/j.nbt.2025.04.010","DOIUrl":"10.1016/j.nbt.2025.04.010","url":null,"abstract":"<div><div>Driven by numerous scientific discoveries in biology in the second half of the last century, biotechnology is now set to play an important role as a driver for advanced manufacturing, leveraging the power of living organisms to produce a range of goods and services. Considering this prospect, it is vital that terminology surrounding biotechnology is sufficiently clear to provide a basis for efficient regulation and public buy-in. Despite the apparent clarity of the term biotechnology, its definition is the subject of a longstanding debate and liberal interpretations. Likewise, other more recent terms such as biomanufacturing, synthetic biology and engineering biology also lack consensual definitions despite their use in both scientific and secular circles. Additionally, new terms such as precision fermentation and cellular agriculture, recently introduced in the framework of business-to-business exchanges, appear to call upon imaginaries rather than scientific facts. Herein, we examine the lexical complexity of the biotechnology field and argue that, for the sake of efficient policymaking, it is vital to harmonise the definitions of some core terms, including biotechnology, biomanufacturing, engineering biology and synthetic biology. With this aim in mind, this discussion paper is intended to be useful to policymakers and science communicators, whether in the media or in professional settings.</div></div>","PeriodicalId":19190,"journal":{"name":"New biotechnology","volume":"88 ","pages":"Pages 83-88"},"PeriodicalIF":4.5,"publicationDate":"2025-04-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143890890","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}

{"title":"Differential polyamine metabolism in CHO cell lines: Insights into cell growth and antibody quality","authors":"Da Eun Kang ,&nbsp;Deepikka Senthilkumar ,&nbsp;Jae Hong Jeon ,&nbsp;Tejaswini Ganapathy ,&nbsp;Weon-kyoo You ,&nbsp;Meiyappan Lakshmanan ,&nbsp;Jong Kwang Hong","doi":"10.1016/j.nbt.2025.04.007","DOIUrl":"10.1016/j.nbt.2025.04.007","url":null,"abstract":"<div><div>Chinese hamster ovary (CHO) cell lines are widely utilized host cell lines in cell culture bioprocessing. Although they originated from a common ancestor, accumulated genetic mutations have led to significant heterogeneity in their behavior under specific conditions. This study investigates the cell line-specific impact of polyamine (PUT; putrescine) withdrawal on the growth, metabolism, and antibody production among three CHO clones derived from different parental cell lines: CHO-K1, CHO-S, and CHO-DG44. CHO-K1 cells strongly depended on external polyamines, showing a 77 % reduction in viable cell density and an 88 % decrease in growth rate under PUT depletion, although their culture longevity was extended. In contrast, CHO-S and CHO-DG44 cells demonstrated greater resilience, with CHO-DG44 experiencing only a 25 % reduction in cell density. PUT deprivation also impacted antibody production across all cell lines, with CHO-K1 displaying the lowest yield, antibody purity and altered charge heterogeneity. Notably, PUT depletion led to increased galactosylation of antibodies, suggesting that modulating PUT levels in the media could be used as a strategy to tailor the quality of therapeutic antibodies. These findings, together, provide valuable insights in the design of cell line-specific media, thereby optimizing both bioprocess efficiency and product quality in biopharmaceutical production.</div></div>","PeriodicalId":19190,"journal":{"name":"New biotechnology","volume":"88 ","pages":"Pages 100-113"},"PeriodicalIF":4.5,"publicationDate":"2025-04-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143917322","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}

{"title":"Stepwise activation of gene copies results in higher final titers of subclones compared to immediate integration of the full set of active copies","authors":"Víctor Jiménez Lancho ,&nbsp;Peter Eisenhut ,&nbsp;Gerald Klanert ,&nbsp;Daniel Ivansson ,&nbsp;Andreas Jonsson ,&nbsp;Ann Lövgren ,&nbsp;Nicole Borth","doi":"10.1016/j.nbt.2025.04.011","DOIUrl":"10.1016/j.nbt.2025.04.011","url":null,"abstract":"<div><div>The increasing demand for production of therapeutic proteins has encouraged both industrial and academic institutions to pursue the development of mammalian expression platforms with high productivities. While protocols for rapid and efficient integration of multiple transgene copies into the genome are available, they require substantial time and resources for screening numerous clones. A contributing factor is the tendency of high producers to disappear from the selected mini-pools due to the stress caused by high productivity without adequate time for adaptation of cellular capacities. Here, we have developed a strategy to stably activate individual copies within an initially repressed multicopy coding cassette harboring 2 GFP-Fc and 2 BFP-Fc genes, each fused to an Fc region for secretion. This toolbox enables gene activation via CRISPR/Cas9-mediated deletion of the repressor elements. Subsequently, producers can be sorted based on increased GFP or BFP fluorescence and assessed by measuring the secreted total Fc protein. We demonstrate that the stepwise activation of initially repressed genes outperforms a control cell line with the same number of genes active from the outset, as evidenced by higher fluorescence signals from GFP and BFP, increased mRNA levels for BFP, GFP, and Fc genes, and enhanced titer of secreted Fc fusion protein. This study demonstrates the ability of cells to adapt to new challenges by modulating both gene expression patterns and channeling of resources to accommodate high production loads.</div></div>","PeriodicalId":19190,"journal":{"name":"New biotechnology","volume":"88 ","pages":"Pages 89-99"},"PeriodicalIF":4.5,"publicationDate":"2025-04-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143890889","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}

{"title":"Open-source antibodies as a path to enhanced research reproducibility and transparency","authors":"Meghan Rego ,&nbsp;Douglas W. Houston ,&nbsp;Melina Fan ,&nbsp;Karl D. Murray ,&nbsp;James S. Trimmer","doi":"10.1016/j.nbt.2025.04.004","DOIUrl":"10.1016/j.nbt.2025.04.004","url":null,"abstract":"<div><div>Antibodies are important tools with diverse uses in biomedical research. However, open access to reliable sources of well-characterized antibodies with unambiguous molecular identities remains an obstacle to research transparency and reproducibility. We propose here a community shift towards open-source antibodies, analogous to open-source computer software. The tenets of such antibodies are that 1) they are available to researchers in a ready to use form, 2) the renewable source of the antibody (<em>e.g.</em>, hybridoma cells or plasmid) is also widely available ensuring reproducible and cost-effective access to the same antibody, and 3) the antibody sequence is publicly available. With these criteria met, the antibody can be widely used with the transparent assurance associated with a molecularly defined reagent, and the code can be edited to generate antibody variants to meet researchers’ specific needs. We (the UC Davis/NIH NeuroMab Facility, the Development Studies Hybridoma Bank, and Addgene) have established a consortium to provide open-source access to a large collection of well characterized antibodies. As open-source software has benefitted both users and developers, we suggest open-source antibodies will have a similar positive impact on antibody based biomedical research. We encourage funding agencies to support initiatives to expand access to open-source antibody resources, and researchers to both utilize and to contribute to them, with a goal of enabling more reliable and cost-effective pursuit of research.</div></div>","PeriodicalId":19190,"journal":{"name":"New biotechnology","volume":"87 ","pages":"Pages 121-129"},"PeriodicalIF":4.5,"publicationDate":"2025-04-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143870713","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}

{"title":"Site-directed antibodies targeting driver mutations of the KRAS protein","authors":"Xiaofeng Li ,&nbsp;Qiana Mendez ,&nbsp;Cassandra Chapados ,&nbsp;Felicity Acca ,&nbsp;Holly Driscoll ,&nbsp;Jason Oliveira ,&nbsp;Jun Liu ,&nbsp;Kezzia Jones ,&nbsp;Mary Ferguson ,&nbsp;Ryan L. Wallace ,&nbsp;Sergei Bibikov ,&nbsp;Troy Lionberger ,&nbsp;Kevin J. Harvey ,&nbsp;Michael P. Weiner ,&nbsp;Greg Mirando","doi":"10.1016/j.nbt.2025.04.003","DOIUrl":"10.1016/j.nbt.2025.04.003","url":null,"abstract":"<div><div>Kirsten rat sarcoma viral oncogene homolog (KRAS) is the most mutated oncogene in human cancers, found in approximately 30 % of tumors. These mutations primarily consist of single-base missense alterations in codon G12. While extensive efforts have focused on developing allele-specific inhibitors for KRAS mutations, mutation-specific antibodies (Abs) remain largely unexplored, with only a few research-use-only catalog Abs available. In this study, we employed the proprietary Epivolve technology to develop site-directed monoclonal Abs (mAbs) that target KRAS oncogenic driver mutation KRAS G12D. These site-directed mAbs demonstrate high binding affinity, with equilibrium dissociation constants (K_D) in the nanomolar range, showing over 1,000-fold greater affinity for KRAS G12D compared to wild-type KRAS. Western blot analyses using both purified KRAS protein variants and tumor cell lines harboring G12D mutations confirmed the high specificity of these mAbs. Furthermore, immunocytochemistry analysis revealed co-localization of the site-directed mAbs with endogenously expressed KRAS in cancer cells bearing G12D mutations. The validated high affinity and specificity of these site-directed mAbs highlight their potential for diagnostic applications and therapeutic development targeting KRAS driver mutations.</div></div>","PeriodicalId":19190,"journal":{"name":"New biotechnology","volume":"87 ","pages":"Pages 112-120"},"PeriodicalIF":4.5,"publicationDate":"2025-04-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143870714","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}