Biotechnology Notes最新文献

{"title":"2022 The 1st Western China symposium on the international frontier of synthetic biomanufacturing","authors":"Yaqi Kang,&nbsp;Ruoshi Luo,&nbsp;Dachun Gong,&nbsp;Yongkui Zhang,&nbsp;Dan Wang","doi":"10.1016/j.biotno.2022.12.004","DOIUrl":"10.1016/j.biotno.2022.12.004","url":null,"abstract":"<div><p>The 1st western China symposium on the international frontier of synthetic biomanufacturing was successfully held on July 8–10 in 2022. The conference is firstly launched by Professor Dan Wang in Chongqing University, and will be organized regularly every year by different universities in western China. The aim of this symposium is to show the cutting-edge knowledge of the synthetic biology developed in China and worldwide, provide a chance to meet international colleagues, and also to promote the academic and economic development of western China. Due to COVID-19, the 2022 symposium was masterfully delivered on the combination of online and offline operation, and the organisers must be commended for a really excellent and interactive meeting.</p><p>The content of the conference involves two modules of synthetic biology and green biomanufacturing, covering eight aspects: synthetic biology, metabolic engineering, biological process engineering, industrial microbial breeding, biocatalysis and biotransformation, synthetic bio-materials, bio-medicine and biological separation engineering. More than 400 representatives were invited to gather together to exchange the latest research results and development trends in the field of synthetic biology and biomanufacturing. There was a significant focus on the younger scientists, both in terms of oral reports and posters. There were many excellent invited lectures and sessions beyond the remit of this short summary, including “Pharmaceutical manufacturing by biological methods” by Yuguo Zheng, Academician of the Chinese Academy of Engineering (CAE) Member of China, and a lecture “The third generation of biological manufacturing: preparing chemicals with CO₂ as raw material” by Tianwei Tan, Academician of the CAE Member of China, a lecture on the biotransformation and green separation of natural products by Prof. Huizhou Liu, a lecture of the synthetic biology of Halophilic bacteria by Prof. Guoqiang Chen, a lecture of design principles to engineer yeasts as microbial factories by Ass. Prof. Zengyi Shao in Iowa State University, and a outstanding overview of the development of synthetic biology from basic research to industrialization in China to list just six.</p><p>In this article we will cover some pertinent areas of synthetic biology and biomanufacturing amidst the unavoidable spectra of COVID-19.</p></div>","PeriodicalId":100186,"journal":{"name":"Biotechnology Notes","volume":"3 ","pages":"Pages 113-117"},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2665906922000204/pdfft?md5=923d8f870d395c8dd672cddcd68a7cd3&pid=1-s2.0-S2665906922000204-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"77117058","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Model-based dynamic engineering of Escherichia coli for N-acetylglucosamine overproduction","authors":"Jiangong Lu ,&nbsp;Yaokang Wu ,&nbsp;Chen Deng ,&nbsp;Yanfeng Liu ,&nbsp;Xueqin Lv ,&nbsp;Jianghua Li ,&nbsp;Guocheng Du ,&nbsp;Long Liu","doi":"10.1016/j.biotno.2022.02.001","DOIUrl":"10.1016/j.biotno.2022.02.001","url":null,"abstract":"<div><p>N-acetylglucosamine (GlcNAc), a glucosamine derivative, has a wide range of applications in pharmaceutical fields, and there is an increasing interest in the efficient production of GlcNAc genetic engineered bacteria. In this work, <em>Escherichia coli</em> ATCC 25947 (DE3) strain was engineered by a model-based dynamic regulation strategy achieving GlcNAc overproduction. First, the GlcNAc synthetic pathway was introduced into <em>E. coli</em>, and through flux balance analysis of the genome-scale metabolic network model, metabolic engineering strategies were generated to further increase GlcNAc yield. Knock-out of genes <em>poxB</em> and <em>ldhA,</em> encoding pyruvate oxidase and lactate dehydrogenase, increased GlcNAc titer by 5.1%. Furthermore, knocking out N-acetylmuramic acid 6-phosphate etherase encoded by <em>murQ</em> and enhancing glutamine synthetase encoded by <em>glnA</em> gene further increased GlcNAc titer to 130.8 g/L. Analysis of metabolic flux balance showed that GlcNAc production maximization requires the strict dynamic restriction of the reactions catalyzed by <em>pfkA</em> and <em>zwf</em> to balance cell growth and product synthesis. Hence, a dynamic regulatory system was constructed by combining the CRISPRi (clustered regularly interspaced short palindromic repeats interference) system with the lactose operon <em>lacI</em> and the transcription factor pdhR, allowing the cell to respond to the concentration of pyruvate and IPTG to dynamically repress <em>pfkA</em> and <em>zwf</em> transcription. Finally, the engineered bacteria with the dynamic regulatory system produced 143.8 g/L GlcNAc in a 30-L bioreactor in 55 h with a yield reaching 0.539 g/g glucose. Taken together, this work significantly enhanced the GlcNAc production of <em>E. coli.</em> Moreover, it provides a systematic, effective, and universal way to improve the synthetic ability of other engineered strains.</p></div>","PeriodicalId":100186,"journal":{"name":"Biotechnology Notes","volume":"3 ","pages":"Pages 15-24"},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2665906922000010/pdfft?md5=d9ac951ebd53945cab58d872f59424a8&pid=1-s2.0-S2665906922000010-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"85337379","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"MvaT negatively regulates pyocin S5 expression in Pseudomonas aeruginosa","authors":"Ruirui Liu ,&nbsp;Ryan Bartolome De Sotto ,&nbsp;Hua Ling","doi":"10.1016/j.biotno.2022.11.004","DOIUrl":"10.1016/j.biotno.2022.11.004","url":null,"abstract":"<div><p>Regulatory mechanisms that direct the synthesis and release of pyocin S5, a surface-acting bacteriocin produced by <em>Pseudomonas aeruginosa</em>, are relatively unknown. This study aims to identify transcription factors that regulate pyocin S5 expression in <em>P. aeruginosa</em> PAO1. We captured the transcription factor MvaT using the promoter region upstream of <em>S5</em> gene (S5P). Further, we demonstrated specific binding of MvaT and its paralog MvaU to S5P using a gel-shift assay. Lastly, we showed that MvaT negatively regulates the <em>S5</em> gene expression by gene deletion and transcriptomic analysis. Our findings provide valuable insights into the regulation of pyocin S5 production, which paves the way to develop novel therapeutics against <em>P. aeruginosa</em> infections.</p></div>","PeriodicalId":100186,"journal":{"name":"Biotechnology Notes","volume":"3 ","pages":"Pages 102-107"},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2665906922000150/pdfft?md5=373b7766eb2964f70a62ed47ea570647&pid=1-s2.0-S2665906922000150-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"87760472","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Hyperuricemia and the small intestine: Transport mechanisms and co-morbidities","authors":"Yanbo Song ,&nbsp;John March","doi":"10.1016/j.biotno.2022.05.001","DOIUrl":"10.1016/j.biotno.2022.05.001","url":null,"abstract":"<div><p>There is a global increase in cases of hyperuricemia over the last 10 years. A critical component of serum uric acid control is the transport of uric acid to the intestinal lumen, which accounts for 30% of the uric acid eliminated from the serum. This mini review looks at two important aspects of elevated uric acid: the dynamics of intestinal uric acid transport and hyperuricemia co-morbidities. Elevated serum uric acid can lead to gout and it can also impact other diseases such as diabetes, cardiovascular diseases and nervous system diseases. The level of uric acid in the intestine could be related to the potential for uric acid to impact other morbidities. We review the evidence for this and what it would mean for persons with elevated serum uric acid.</p></div>","PeriodicalId":100186,"journal":{"name":"Biotechnology Notes","volume":"3 ","pages":"Pages 32-37"},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2665906922000034/pdfft?md5=d2a2a07e3785f369f41ac114cfc46bb1&pid=1-s2.0-S2665906922000034-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"75090112","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Cell-free synthetic biology: Orchestrating the machinery for biomolecular engineering","authors":"Xiaomei Lin ,&nbsp;Ting Wang ,&nbsp;Yuan Lu","doi":"10.1016/j.biotno.2022.12.002","DOIUrl":"10.1016/j.biotno.2022.12.002","url":null,"abstract":"<div><p>Due to inherent complexity, incompatibility, and variability in living cell systems, biomolecular engineering faces significant obstacles. To find novel solutions to these issues, researchers have turned to cell-free synthetic biology (CFSB), a relatively young field of study. Biochemical processes can be triggered <em>in vitro</em> through cell-free synthesis, providing a wider range of options for biomolecular engineering. Here, we provide a survey of recent advances in cell-free synthesis. These have sparked innovative studies in areas including the synthesis of complex proteins, incorporation of unnatural amino acids, precise post-translational modifications, high-throughput workflow, and synthetic biomolecular network regulation. CFSB has transformed the studies of biological machinery in a profound and practical way for versatile biomolecular engineering applications.</p></div>","PeriodicalId":100186,"journal":{"name":"Biotechnology Notes","volume":"3 ","pages":"Pages 97-101"},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2665906922000174/pdfft?md5=7824c6124cf6e4fd4a94be4f33fa47d5&pid=1-s2.0-S2665906922000174-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"74563600","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Synthetic biology landscape and community in Germany","authors":"Nicolas Krink ,&nbsp;Anne C. Löchner ,&nbsp;Hendrik Cooper ,&nbsp;Chase L. Beisel ,&nbsp;Barbara Di Ventura","doi":"10.1016/j.biotno.2021.12.001","DOIUrl":"10.1016/j.biotno.2021.12.001","url":null,"abstract":"<div><p>Despite its start in the early 2000s, synthetic biology is still overall perceived as a young discipline. In some countries, such as the US, synthetic biology is academically and industrially established, while in others, including Germany, it is still an upcoming field of research. Issues with funding schemes, commercial translation of technologies, public perception, and regulations need to be addressed to establish synthetic biology as a key discipline of the 21^st century. This perspective article reviews the German and European synthetic biology landscape and how the German Association for Synthetic Biology (GASB) is addressing the above-mentioned challenges with its events and community-building activities.</p></div>","PeriodicalId":100186,"journal":{"name":"Biotechnology Notes","volume":"3 ","pages":"Pages 8-14"},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2665906921000179/pdfft?md5=5a1ca088e3a91b999c31343581fb76b6&pid=1-s2.0-S2665906921000179-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"75450344","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A SynBio community comes of age: Political, academical, industrial, and societal developments in the Netherlands","authors":"Darshak K. Bhatt ,&nbsp;Marjolein E. Crooijmans ,&nbsp;Jelmer Coenradij ,&nbsp;Alicia Maciá Valero ,&nbsp;Maarten Lubbers ,&nbsp;Enrique Asin-Garcia ,&nbsp;N. Amy Yewdall ,&nbsp;Sarah D'Adamo ,&nbsp;Nico J. Claassens ,&nbsp;Sonja Billerbeck","doi":"10.1016/j.biotno.2022.07.004","DOIUrl":"10.1016/j.biotno.2022.07.004","url":null,"abstract":"<div><p>Synthetic biology (SynBio) is a rapidly growing scientific discipline. In the Netherlands, various universities and companies are tackling a variety of opportunities and challenges within this field. In this perspective article, we review the current synthetic biology landscape in the Netherlands across academia, industry, politics, and society. Especially within Dutch academia there is an active, though only partially connected, research community involved in various domains of SynBio. Mostly supported by governmental funding, academic research is focusing on top-down synthetic biology, involving the engineering of, for example, bacteria and yeast for bioproduction, as well as bottom-up and cell-free synthetic biology aiming to understand life and build synthetic cells. There is also a large number of talented and motivated students interested in the field, exemplified by the participation and success of Dutch teams in the international iGEM synthetic biology competition. Commercial synthetic biology activities are taking place in various large industrial companies, as well as in start-ups and spin-offs, mostly divided over several ‘SynBio hubs’ in the Netherlands. However, the investment, regulatory and public-perception landscape is not yet optimal to stimulate entrepreneurial activities in SynBio. The Dutch and global society can further benefit from the large promise of SynBio through better integration of people active in the Dutch SynBio field, frequent political and public dialogue, and more attention towards regulatory issues. The recently founded Dutch synthetic biology association SynBioNL aims to contribute to realizing a positive impact on society by stimulating advances of the field in the Netherlands and beyond.</p></div>","PeriodicalId":100186,"journal":{"name":"Biotechnology Notes","volume":"3 ","pages":"Pages 62-69"},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2665906922000095/pdfft?md5=2130e0473674ef708fba106b1231e1c5&pid=1-s2.0-S2665906922000095-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"79789986","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Integrated strategy of CRISPR-Cas9 gene editing and small RNA RhyB regulation in Enterobacter aerogenes: A novel protocol for improving biohydrogen production","authors":"Ping Lu ,&nbsp;Yan Wu ,&nbsp;Ruoxuan Bai ,&nbsp;Ke Jiang ,&nbsp;Fangxu Xu ,&nbsp;Hongxin Zhao","doi":"10.1016/j.biotno.2022.10.002","DOIUrl":"10.1016/j.biotno.2022.10.002","url":null,"abstract":"<div><p>Dark fermentation is considered as one of the most practical biological hydrogen production methods. However, current productivity and yield are still not economically viable for industrial applications. This biological process must be improved through multiple strategies, of which screening for more effective microbial strains is an important aspect. Here, based on the hydrogen production pathway of <em>E. aerogenes</em>, we describe three strategies to improve hydrogen production by effectively regulating the anaerobic metabolism of <em>E. aerogenes</em> through genetic modification. This protocol describes in detail how to obtain NADH dehydrogenase-damaged mutants and overexpress Nad synthase genes using the CRISPR-Cas9 gene editing system. In addition, the overexpression of small RNA RyhB was achieved and verified by Northern Blot. This protocol is of great significance for the study of genetic engineering operation in <em>E. aerogenes</em> and other bacteria, and also provides theoretical guidance and technical support for the study of <em>E. aerogenes</em> biological hydrogen production.</p></div>","PeriodicalId":100186,"journal":{"name":"Biotechnology Notes","volume":"3 ","pages":"Pages 79-87"},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2665906922000113/pdfft?md5=cfe1a476b18327f5b9dc844cefa572eb&pid=1-s2.0-S2665906922000113-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"75943766","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Following the organism to map synthetic genomics","authors":"Maya Hey,&nbsp;Erika A. Szymanski","doi":"10.1016/j.biotno.2022.07.001","DOIUrl":"10.1016/j.biotno.2022.07.001","url":null,"abstract":"<div><p>Synthetic genomics, or engineering biology at the level of whole genomes and whole organisms, is an emerging outgrowth of parts-based synthetic biology. This nascent subfield is also diverse and difficult to characterize. As social scientists investigating responsible research and innovation in synthetic genomics, we suggest that focusing on the organism is a fruitful approach to making sense of the diversity it encompasses. Here, we offer a heuristic in the form of a tagging system to organize projects by the roles the engineered organism is asked to perform. We suggest several reasons why this system is useful for understanding the current shape and future directions of the field, especially in light of the need to ask: how does engineering biology contribute to building a future of sustainable relationships with other creatures?</p></div>","PeriodicalId":100186,"journal":{"name":"Biotechnology Notes","volume":"3 ","pages":"Pages 50-53"},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S266590692200006X/pdfft?md5=0dc74f78398b9476599067333e9dd21b&pid=1-s2.0-S266590692200006X-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"87554757","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Exploration on the expression and assembly of virus-like particles","authors":"Junzhu Yang ,&nbsp;Liyuan Zhang ,&nbsp;Cheng Zhang ,&nbsp;Yuan Lu","doi":"10.1016/j.biotno.2021.08.003","DOIUrl":"10.1016/j.biotno.2021.08.003","url":null,"abstract":"<div><p>Virus-like particles (VLPs) have a great application prospect in vaccines and molecule delivery carriers. In this study, in order to solve the problem of low expression and low assembly efficiency of VLPs, the conditions for the assembly and purification of eight representative VLPs (hepatitis B virus core antigen protein particles, Qbeta phage, MS2 phage, P22 phage, cowpea chlorotic mottle virus, tobacco Mosaic virus, ferritin and encapsulin) expressed in <em>Escherichia coli</em> were optimized. The VLPs with high expression, easy assembly and good purification properties were selected as the preferred objects for potential biological applications.</p></div>","PeriodicalId":100186,"journal":{"name":"Biotechnology Notes","volume":"2 ","pages":"Pages 51-58"},"PeriodicalIF":0.0,"publicationDate":"2021-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/j.biotno.2021.08.003","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"88849312","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}