Trends in biotechnology最新文献_第4页

Non-viable embryos created with synthetic DNA.

IF 14.3 1区工程技术

Trends in biotechnology Pub Date : 2025-03-24 DOI: 10.1016/j.tibtech.2025.02.021

Adrian Villalba, Anna Smajdor, Iain Brassington, Daniela Cutas

引用次数: 0

Unlocking the potential of stem-cell-derived 'synthetic' embryo models.

IF 14.3 1区工程技术

Trends in biotechnology Pub Date : 2025-03-15 DOI: 10.1016/j.tibtech.2025.02.015

Yanqiong Fu, Qin Fan, Yanru Wu, Min Bao

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From academia to real-life biotech: 'It takes a village'.

IF 14.3 1区工程技术

Trends in biotechnology Pub Date : 2025-03-14 DOI: 10.1016/j.tibtech.2025.02.014

Neta Agmon, Liat Rahamim-Ben Navi, Yosi Shacham-Diamand, Yuval Dorfan, Ilana Kolodkin-Gal

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Streamlined and efficient genome editing in Cupriavidus necator H16 using an optimised SIBR-Cas system. 利用优化的 SIBR-Cas 系统对坏死杯状芽孢杆菌 H16 进行精简高效的基因组编辑。

IF 14.3 1区工程技术

Trends in biotechnology Pub Date : 2025-03-13 DOI: 10.1016/j.tibtech.2025.02.006

Simona Della Valle, Enrico Orsi, Sjoerd C A Creutzburg, Luc F M Jansen, Evangelia-Niki Pentari, Chase L Beisel, Harrison Steel, Pablo I Nikel, Raymond H J Staals, Nico J Claassens, John van der Oost, Wei E Huang, Constantinos Patinios

{"title":"Streamlined and efficient genome editing in Cupriavidus necator H16 using an optimised SIBR-Cas system.","authors":"Simona Della Valle, Enrico Orsi, Sjoerd C A Creutzburg, Luc F M Jansen, Evangelia-Niki Pentari, Chase L Beisel, Harrison Steel, Pablo I Nikel, Raymond H J Staals, Nico J Claassens, John van der Oost, Wei E Huang, Constantinos Patinios","doi":"10.1016/j.tibtech.2025.02.006","DOIUrl":"https://doi.org/10.1016/j.tibtech.2025.02.006","url":null,"abstract":"Cupriavidus necator H16 is a promising microbial platform strain for CO2 valorisation. While C. necator is amenable to genome editing, existing tools are often inefficient or rely on lengthy protocols, hindering its rapid transition to industrial applications. In this study, we simplified and accelerated the genome editing pipeline for C. necator by harnessing the Self-splicing Intron-Based Riboswitch (SIBR) system. We used SIBR to tightly control and delay Cas9-based counterselection, achieving >80% editing efficiency at two genomic loci within 48 h after electroporation. To further increase the versatility of the genome editing toolbox, we upgraded SIBR to SIBR2.0 and used it to regulate the expression of Cas12a. SIBR2.0-Cas12a could mediate gene deletion in C. necator with ~70% editing efficiency. Overall, we streamlined the genome editing pipeline for C. necator, facilitating its potential role in the transition to a bio-based economy.","PeriodicalId":23324,"journal":{"name":"Trends in biotechnology","volume":" ","pages":""},"PeriodicalIF":14.3,"publicationDate":"2025-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143630828","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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

Light-induced programmable solid-liquid phase transition of biomolecular condensates for improved biosynthesis.

IF 14.3 1区工程技术

Trends in biotechnology Pub Date : 2025-03-12 DOI: 10.1016/j.tibtech.2025.02.012

Ke Jin, Wenwen Yu, Yanfeng Liu, Jianghua Li, Guocheng Du, Jian Chen, Long Liu, Xueqin Lv

引用次数: 0

SubtiToolKit: a bioengineering kit for Bacillus subtilis and Gram-positive bacteria.

IF 14.3 1区工程技术

Trends in biotechnology Pub Date : 2025-03-11 DOI: 10.1016/j.tibtech.2025.02.004

Joaquin Caro-Astorga, Matt Rogan, Koray Malcı, Hia Ming, Erika Debenedictis, Paul James, Tom Ellis

{"title":"SubtiToolKit: a bioengineering kit for Bacillus subtilis and Gram-positive bacteria.","authors":"Joaquin Caro-Astorga, Matt Rogan, Koray Malcı, Hia Ming, Erika Debenedictis, Paul James, Tom Ellis","doi":"10.1016/j.tibtech.2025.02.004","DOIUrl":"https://doi.org/10.1016/j.tibtech.2025.02.004","url":null,"abstract":"Building DNA constructs of increasing complexity is key to synthetic biology. Golden Gate (GG) methods led to the creation of cloning toolkits - collections of modular standardized DNA parts hosted on hierarchic plasmids, developed for yeast, plants, Gram-negative bacteria, and human cells. However, Gram-positive bacteria have been neglected. Bacillus subtilis is a Gram-positive model organism and a workhorse in the bioindustry. Here, we present the SubtiToolKit (STK), a high-efficiency cloning toolkit for B. subtilis and Gram-positive bacteria. Its design permits DNA constructs for transcriptional units (TUs), operons, and knockin and knockout applications. The STK contains libraries of promoters, ribosome-binding site (RBSs), fluorescent proteins, protein tags, terminators, genome integration parts, a no-leakage genetic device to control the expression of toxic products during Escherichia coli assembly, and a toolbox for industrially relevant strains of Geobacillus and Parageobacillus as an example of the STK versatility for other Gram-positive bacteria and its future perspective as a reference toolkit.","PeriodicalId":23324,"journal":{"name":"Trends in biotechnology","volume":" ","pages":""},"PeriodicalIF":14.3,"publicationDate":"2025-03-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143617449","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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

Inducible regulating homologous recombination enables precise genome editing in Pichia pastoris without perturbing cellular fitness.

IF 14.3 1区工程技术

Trends in biotechnology Pub Date : 2025-03-11 DOI: 10.1016/j.tibtech.2025.02.005

Fan Bai, Peng Cai, Lun Yao, Yiwei Shen, Yunxia Li, Yongjin J Zhou

{"title":"Inducible regulating homologous recombination enables precise genome editing in Pichia pastoris without perturbing cellular fitness.","authors":"Fan Bai, Peng Cai, Lun Yao, Yiwei Shen, Yunxia Li, Yongjin J Zhou","doi":"10.1016/j.tibtech.2025.02.005","DOIUrl":"https://doi.org/10.1016/j.tibtech.2025.02.005","url":null,"abstract":"The methylotrophic yeast Pichia pastoris (also known as Komagataella pastoris) is an ideal host for producing proteins and natural products. Enhancing homologous recombination (HR) is helpful for improving the precision of genome editing, but results in stress to cellular fitness and is harmful for industrial applications. To overcome these challenges, we developed a tetracycline repressor protein (TetR)/tetO2 inducible system to dynamically regulate the HR-related gene RAD52 in P. pastoris. This approach significantly improved the positivity rate of single gene deletion to 81%. Furthermore, inducible overexpression of endogenous MUS81-MMS4 resulted in high-efficiency (81%) genome assembly of multiple genes. This inducible system had no adverse effect on cell growth in different media and resulted in greater fatty alcohol production from methanol compared with a strain constitutively overexpressing HR-related genes. We anticipate that this inducible regulation is applicable for enhancing HR for precise genome editing in P. pastoris and other non-conventional microbes without compromising cellular fitness.","PeriodicalId":23324,"journal":{"name":"Trends in biotechnology","volume":" ","pages":""},"PeriodicalIF":14.3,"publicationDate":"2025-03-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143617429","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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

OMEGA-guided DNA polymerases enable random mutagenesis in a tunable window.

IF 14.3 1区工程技术

Trends in biotechnology Pub Date : 2025-03-11 DOI: 10.1016/j.tibtech.2025.02.011

Li-Hua Liu, Wei Lei, Zhiqian Zhang, Shijing Lai, Bo Xu, Qijun Ge, Jiawen Luo, Min Yang, Yang Zhang, Jinde Chen, Qiuru Zhong, Yi-Rui Wu, Ao Jiang

{"title":"OMEGA-guided DNA polymerases enable random mutagenesis in a tunable window.","authors":"Li-Hua Liu, Wei Lei, Zhiqian Zhang, Shijing Lai, Bo Xu, Qijun Ge, Jiawen Luo, Min Yang, Yang Zhang, Jinde Chen, Qiuru Zhong, Yi-Rui Wu, Ao Jiang","doi":"10.1016/j.tibtech.2025.02.011","DOIUrl":"https://doi.org/10.1016/j.tibtech.2025.02.011","url":null,"abstract":"Targeted random mutagenesis is crucial for breeding, directed evolution, and gene function studies, yet efficient tools remain scarce. Here, we present obligate mobile element guided activity (OMEGA)-R, an innovative targeted random mutagenesis system that integrates SpyCatcher-enIscB and PolI3M-TBD-SpyTag, outperforming existing state-of-the-art technologies in key metrics, such as protein size, mutagenesis efficiency, window length, and continuity. OMEGA-R achieves a dramatic enhancement of on-target mutagenesis, reaching a rate of 1.4 × 10-5 base pairs (bp) per generation (bpg), with minimal off-target effects, in both Escherichia coli and Bacillus subtilis. The system also demonstrates exceptional compatibility with high-throughput screening (HTS) technologies, including fluorescence-activated droplet sorting (FADS) and phage-assisted continuous evolution (PACE). Utilizing OMEGA-R, we successfully identified a series of effective mutations within the T7 promoter (pT7), ribosome-binding site (RBS), superfolder GFP (sfGFP), and autocyclizing ribozyme (AR), which are invaluable for the development of high-performance biotechnology tools. These findings underscore the high efficiency and broad application potential of OMEGA-R.","PeriodicalId":23324,"journal":{"name":"Trends in biotechnology","volume":" ","pages":""},"PeriodicalIF":14.3,"publicationDate":"2025-03-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143617438","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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

Engineering biological curvatures.

IF 14.3 1区工程技术

Trends in biotechnology Pub Date : 2025-03-10 DOI: 10.1016/j.tibtech.2025.02.013

Jiaxing Gong, Kejie Lu, Ying Qian, Yu Shrike Zhang, Mengfei Yu

引用次数: 0

Protein-based molecular imprinting: gelatin nanotraps for interleukin-6 sequestration in inflammation cell models.

IF 14.3 1区工程技术

Trends in biotechnology Pub Date : 2025-03-06 DOI: 10.1016/j.tibtech.2025.02.002

Alessandra Maria Bossi, Sofia Casella, Chiara Stranieri, Alice Marinangeli, Alessio Bucciarelli, Anna Maria Fratta Pasini, Devid Maniglio

{"title":"Protein-based molecular imprinting: gelatin nanotraps for interleukin-6 sequestration in inflammation cell models.","authors":"Alessandra Maria Bossi, Sofia Casella, Chiara Stranieri, Alice Marinangeli, Alessio Bucciarelli, Anna Maria Fratta Pasini, Devid Maniglio","doi":"10.1016/j.tibtech.2025.02.002","DOIUrl":"https://doi.org/10.1016/j.tibtech.2025.02.002","url":null,"abstract":"Protein-derived biomaterials are currently underrated as building blocks in molecular imprinting, even though they offer several benefits, such as biocompatibility and safe biodegradability. Gelatin is a biopolymer that can be easily modified with pendant double bonds for polymerization, making it suitable for tissue engineering and biofabrication. In this study, we used gelatin methacryloyl (GelMA) as a building block combined with molecular imprinting technology to create an original class of bioinspired nanotraps specifically capable of sequestering the proinflammatory cytokine interleukin-6 (IL-6). The stability in solution, biocompatibility, and biodegradability of the nanotraps were assessed. The nanotraps were selective and specific for IL-6, showing nanomolar affinity and, when tested in vitro on an inflammation cell model, sequestered IL-6 with a dose-response relationship. Overall, our study shows that protein chemistry-driven molecular imprinting could become more widely used to devise biocompatible functional nanomaterials.","PeriodicalId":23324,"journal":{"name":"Trends in biotechnology","volume":" ","pages":""},"PeriodicalIF":14.3,"publicationDate":"2025-03-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143587187","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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