ACS Synthetic Biology最新文献

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Metabolic Engineering of E. coli for Enhanced Diols Production from Acetate.
IF 3.7 2区 生物学
ACS Synthetic Biology Pub Date : 2025-03-18 DOI: 10.1021/acssynbio.4c00839
Luca Ricci, Xuecong Cen, Yuexuan Zu, Giacomo Antonicelli, Zhen Chen, Debora Fino, Fabrizio C Pirri, Gregory Stephanopoulos, Benjamin M Woolston, Angela Re
{"title":"Metabolic Engineering of <i>E. coli</i> for Enhanced Diols Production from Acetate.","authors":"Luca Ricci, Xuecong Cen, Yuexuan Zu, Giacomo Antonicelli, Zhen Chen, Debora Fino, Fabrizio C Pirri, Gregory Stephanopoulos, Benjamin M Woolston, Angela Re","doi":"10.1021/acssynbio.4c00839","DOIUrl":"https://doi.org/10.1021/acssynbio.4c00839","url":null,"abstract":"<p><p>Effective employment of renewable carbon sources is highly demanded to develop sustainable biobased manufacturing. Here, we developed <i>Escherichia coli</i> strains to produce 2,3-butanediol and acetoin (collectively referred to as diols) using acetate as the sole carbon source by stepwise metabolic engineering. When tested in fed-batch experiments, the strain overexpressing the entire acetate utilization pathway was found to consume acetate at a 15% faster rate (0.78 ± 0.05 g/g/h) and to produce a 35% higher diol titer (1.16 ± 0.01 g/L) than the baseline diols-producing strain. Moreover, singularly overexpressing the genes encoding alternative acetate uptake pathways as well as alternative isoforms of genes in the malate-to-pyruvate pathway unveiled that leveraging <i>ackA-pta</i> and <i>maeA</i> is more effective in enhancing acetate consumption and diols production, compared to <i>acs</i> and <i>maeB</i>. Finally, the increased substrate consumption rate and diol production obtained in flask-based experiments were confirmed in bench-scale bioreactors operated in fed-batch mode. Consequently, the highest titer of 1.56 g/L achieved in this configuration increased by over 30% compared to the only other similar effort carried out so far.</p>","PeriodicalId":26,"journal":{"name":"ACS Synthetic Biology","volume":" ","pages":""},"PeriodicalIF":3.7,"publicationDate":"2025-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143655436","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
Tailoring Bacterial Cellulose through the CRISPR/Cas9-Mediated Gene Editing Tool in Komagataeibacter xylinus.
IF 3.7 2区 生物学
ACS Synthetic Biology Pub Date : 2025-03-18 DOI: 10.1021/acssynbio.4c00785
Longhui Huang, Yiduo Zhou, Yamiao Feng, Shiru Jia, Shujun Wang, Cheng Zhong
{"title":"Tailoring Bacterial Cellulose through the CRISPR/Cas9-Mediated Gene Editing Tool in <i>Komagataeibacter xylinus</i>.","authors":"Longhui Huang, Yiduo Zhou, Yamiao Feng, Shiru Jia, Shujun Wang, Cheng Zhong","doi":"10.1021/acssynbio.4c00785","DOIUrl":"https://doi.org/10.1021/acssynbio.4c00785","url":null,"abstract":"<p><p>Bacterial cellulose (BC) is a nanocellulose produced by bacteria, formed by glucose units linked through β-1,4 glycosidic bonds. It features a three-dimensional network structure, superior water retention capacity, high porosity, and outstanding biocompatibility, among other notable characteristics. <i>Komagataeibacter xylinus</i> was the predominant strain used for BC production. The CRISPR/Cas9 (clustered regularly interspaced short palindromic repeats/CRISPR associate-protein 9)-mediated gene editing tool has been applied in various species; however, its application in <i>K. xylinus</i> has not been reported. To facilitate metabolic pathway engineering in <i>K. xylinus</i>, a CRISPR/Cas9-mediated gene editing tool specific to this strain was developed, achieving a gene editing efficiency exceeding 73%. Upon application of the CRISPR/Cas9-mediated gene editing tool in <i>K. xylinus</i>, the strain's ability to synthesize BC was enhanced by 23.6% (5.75 g/L), and the impact of BC synthase-correlated genes (<i>bcsH</i>, <i>bcsX</i>, <i>bcsY</i>, <i>and bcsZ</i>) on BC structure was investigated. The advancement of CRISPR/Cas9-mediated gene editing tools in <i>K. xylinus</i> is expected to accelerate genetic modification of this organism. This advancement has the potential to significantly improve our understanding of the genetic regulatory mechanisms that govern the structure and production of BC, thereby facilitating cost-effective synthesis of BC with tailored structural properties.</p>","PeriodicalId":26,"journal":{"name":"ACS Synthetic Biology","volume":" ","pages":""},"PeriodicalIF":3.7,"publicationDate":"2025-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143655438","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
Anti-Pdc1p Nanobody as a Genetically Encoded Inhibitor of Ethanol Production Enables Dual Transcriptional and Post-translational Controls of Yeast Fermentations.
IF 3.7 2区 生物学
ACS Synthetic Biology Pub Date : 2025-03-17 DOI: 10.1021/acssynbio.4c00617
Allison Y Tang, Christopher L Gonzalez, Krishi A Mantri, Makoto A Lalwani, José L Avalos
{"title":"Anti-Pdc1p Nanobody as a Genetically Encoded Inhibitor of Ethanol Production Enables Dual Transcriptional and Post-translational Controls of Yeast Fermentations.","authors":"Allison Y Tang, Christopher L Gonzalez, Krishi A Mantri, Makoto A Lalwani, José L Avalos","doi":"10.1021/acssynbio.4c00617","DOIUrl":"https://doi.org/10.1021/acssynbio.4c00617","url":null,"abstract":"<p><p>Microbial fermentation provides a sustainable method of producing valuable chemicals. Adding dynamic control to fermentations can significantly improve titers, but most systems rely on transcriptional controls of metabolic enzymes, leaving existing intracellular enzymes unregulated. This limits the ability of transcriptional controls to switch off metabolic pathways, especially when metabolic enzymes have long half-lives. We developed a two-layer transcriptional/post-translational control system for yeast fermentations. Specifically, the system uses blue light to transcriptionally activate the major pyruvate decarboxylase <i>PDC1</i>, required for cell growth and concomitant ethanol production. Switching to darkness transcriptionally inactivates <i>PDC1</i> and instead activates the anti-Pdc1p nanobody, NbJRI, to act as a genetically encoded inhibitor of Pdc1p accumulated during the growth phase. This dual transcriptional/post-translational control improves the production of 2,3-BDO and citramalate by up to 100 and 92% compared to using transcriptional controls alone in dynamic two-phase fermentations. This study establishes the NbJRI nanobody as an effective genetically encoded inhibitor of Pdc1p that can enhance the production of pyruvate-derived chemicals.</p>","PeriodicalId":26,"journal":{"name":"ACS Synthetic Biology","volume":" ","pages":""},"PeriodicalIF":3.7,"publicationDate":"2025-03-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143646481","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
Anti-Pdc1p Nanobody as a Genetically Encoded Inhibitor of Ethanol Production Enables Dual Transcriptional and Post-translational Controls of Yeast Fermentations
IF 3.7 2区 生物学
ACS Synthetic Biology Pub Date : 2025-03-17 DOI: 10.1021/acssynbio.4c0061710.1021/acssynbio.4c00617
Allison Y. Tang, Christopher L. Gonzalez, Krishi A. Mantri, Makoto A. Lalwani and José. L. Avalos*, 
{"title":"Anti-Pdc1p Nanobody as a Genetically Encoded Inhibitor of Ethanol Production Enables Dual Transcriptional and Post-translational Controls of Yeast Fermentations","authors":"Allison Y. Tang,&nbsp;Christopher L. Gonzalez,&nbsp;Krishi A. Mantri,&nbsp;Makoto A. Lalwani and José. L. Avalos*,&nbsp;","doi":"10.1021/acssynbio.4c0061710.1021/acssynbio.4c00617","DOIUrl":"https://doi.org/10.1021/acssynbio.4c00617https://doi.org/10.1021/acssynbio.4c00617","url":null,"abstract":"<p >Microbial fermentation provides a sustainable method of producing valuable chemicals. Adding dynamic control to fermentations can significantly improve titers, but most systems rely on transcriptional controls of metabolic enzymes, leaving existing intracellular enzymes unregulated. This limits the ability of transcriptional controls to switch off metabolic pathways, especially when metabolic enzymes have long half-lives. We developed a two-layer transcriptional/post-translational control system for yeast fermentations. Specifically, the system uses blue light to transcriptionally activate the major pyruvate decarboxylase <i>PDC1</i>, required for cell growth and concomitant ethanol production. Switching to darkness transcriptionally inactivates <i>PDC1</i> and instead activates the anti-Pdc1p nanobody, NbJRI, to act as a genetically encoded inhibitor of Pdc1p accumulated during the growth phase. This dual transcriptional/post-translational control improves the production of 2,3-BDO and citramalate by up to 100 and 92% compared to using transcriptional controls alone in dynamic two-phase fermentations. This study establishes the NbJRI nanobody as an effective genetically encoded inhibitor of Pdc1p that can enhance the production of pyruvate-derived chemicals.</p>","PeriodicalId":26,"journal":{"name":"ACS Synthetic Biology","volume":"14 4","pages":"1072–1083 1072–1083"},"PeriodicalIF":3.7,"publicationDate":"2025-03-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143842433","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
Intra- and Interbead Communications by an Anchored DNA Structure and Cascaded DNA Reactions. 通过锚定 DNA 结构和级联 DNA 反应实现珠内和珠间通讯。
IF 3.7 2区 生物学
ACS Synthetic Biology Pub Date : 2025-03-14 DOI: 10.1021/acssynbio.4c00709
Ibuki Kawamata, Satoru Yoshizawa, Keita Abe, Masahiro Takinoue, Shin-Ichiro M Nomura, Satoshi Murata
{"title":"Intra- and Interbead Communications by an Anchored DNA Structure and Cascaded DNA Reactions.","authors":"Ibuki Kawamata, Satoru Yoshizawa, Keita Abe, Masahiro Takinoue, Shin-Ichiro M Nomura, Satoshi Murata","doi":"10.1021/acssynbio.4c00709","DOIUrl":"https://doi.org/10.1021/acssynbio.4c00709","url":null,"abstract":"<p><p>In nature, communication between compartments, such as cells and organelles, gives rise to biological complexity. Two types of chemical communication play important roles in achieving this complexity: intra- and intercompartment communication. Building a bioinspired synthetic system that can exhibit such communication is of interest for realizing microscale artificial robots with the complexity of actual cells. In this study, we aimed to demonstrate intra- and interbead communication using microbeads made of hydrogels as compartments. We employed the diffusion and reaction of programmed DNA molecules as a medium for chemical communication. As a result of the reaction-diffusion dynamics of DNA, the spatiotemporal development of fluorophore-labeled DNAs was observed under fluorescence microscopy, showing both intra- and interbead communication. Our simple, robust, and scalable methodology will accelerate the fabrication of synthetic microsystems that may have complex functionalities from various local interactions.</p>","PeriodicalId":26,"journal":{"name":"ACS Synthetic Biology","volume":" ","pages":""},"PeriodicalIF":3.7,"publicationDate":"2025-03-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143629976","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
Intra- and Interbead Communications by an Anchored DNA Structure and Cascaded DNA Reactions
IF 3.7 2区 生物学
ACS Synthetic Biology Pub Date : 2025-03-14 DOI: 10.1021/acssynbio.4c0070910.1021/acssynbio.4c00709
Ibuki Kawamata*, Satoru Yoshizawa, Keita Abe, Masahiro Takinoue, Shin-Ichiro M. Nomura and Satoshi Murata, 
{"title":"Intra- and Interbead Communications by an Anchored DNA Structure and Cascaded DNA Reactions","authors":"Ibuki Kawamata*,&nbsp;Satoru Yoshizawa,&nbsp;Keita Abe,&nbsp;Masahiro Takinoue,&nbsp;Shin-Ichiro M. Nomura and Satoshi Murata,&nbsp;","doi":"10.1021/acssynbio.4c0070910.1021/acssynbio.4c00709","DOIUrl":"https://doi.org/10.1021/acssynbio.4c00709https://doi.org/10.1021/acssynbio.4c00709","url":null,"abstract":"<p >In nature, communication between compartments, such as cells and organelles, gives rise to biological complexity. Two types of chemical communication play important roles in achieving this complexity: intra- and intercompartment communication. Building a bioinspired synthetic system that can exhibit such communication is of interest for realizing microscale artificial robots with the complexity of actual cells. In this study, we aimed to demonstrate intra- and interbead communication using microbeads made of hydrogels as compartments. We employed the diffusion and reaction of programmed DNA molecules as a medium for chemical communication. As a result of the reaction–diffusion dynamics of DNA, the spatiotemporal development of fluorophore-labeled DNAs was observed under fluorescence microscopy, showing both intra- and interbead communication. Our simple, robust, and scalable methodology will accelerate the fabrication of synthetic microsystems that may have complex functionalities from various local interactions.</p>","PeriodicalId":26,"journal":{"name":"ACS Synthetic Biology","volume":"14 4","pages":"1121–1128 1121–1128"},"PeriodicalIF":3.7,"publicationDate":"2025-03-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143842400","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
Advancing VB12 Production: Insights into Enhancing VB12 Titer in Ensifer adhaerens Casida A through ARTP Mutagenesis and Multiomics Analysis
IF 3.7 2区 生物学
ACS Synthetic Biology Pub Date : 2025-03-13 DOI: 10.1021/acssynbio.4c0088410.1021/acssynbio.4c00884
Qi Wang, Yongheng Liu, Tengteng Zhu, Wei Zhao and Jianyu Su*, 
{"title":"Advancing VB12 Production: Insights into Enhancing VB12 Titer in Ensifer adhaerens Casida A through ARTP Mutagenesis and Multiomics Analysis","authors":"Qi Wang,&nbsp;Yongheng Liu,&nbsp;Tengteng Zhu,&nbsp;Wei Zhao and Jianyu Su*,&nbsp;","doi":"10.1021/acssynbio.4c0088410.1021/acssynbio.4c00884","DOIUrl":"https://doi.org/10.1021/acssynbio.4c00884https://doi.org/10.1021/acssynbio.4c00884","url":null,"abstract":"<p ><i>Ensifer adhaerens</i>, a microorganism recognized for its capacity to synthesize vitamin B<sub>12</sub> (VB<sub>12</sub>), has garnered significant attention in recent years. Nonetheless, its practical application has been limited by low production yields. Atmospheric and room-temperature plasma (ARTP) mutagenesis was utilized to improve VB<sub>12</sub> production and examine the associated mechanisms. Three high-yielding mutant strains─BCA-24, BCB-14, and BCC-27─were isolated through multiple rounds of mutagenesis. The VB<sub>12</sub> titer of the highly productive mutant strain, BCA-24, rose significantly from 65.64 mg/L to 104.54 mg/L. Genome resequencing identified 14 mutated genes, of which seven (<i>atpA</i>, <i>gntR</i>, <i>fusA</i>, <i>cobQ</i>, <i>ribD</i>, <i>cirA</i>, and <i>UP</i>) were functionally validated through overexpression in wild-type strains and found to positively influence VB<sub>12</sub> biosynthesis. Notably, coexpression of the <i>cobQ</i> and <i>UP</i> mutant genes in strain BCA-24 resulted in a VB<sub>12</sub> titer of 163.68 mg/L. Transcriptomic analysis indicated that critical pathways related to energy metabolism, S-adenosylmethionine (SAM), 5-aminolevulinic acid (5-ALA), and riboflavin synthesis were significantly upregulated in BCA-24 relative to the wild type. A multiomics approach clarified the mechanisms through which these mutations increase VB<sub>12</sub> production, including enhanced transcription and translation, optimized energy supply, and improved product efflux. The identification of novel candidate genes in <i>Ensifer adhaerens</i>, which have not been previously studied, provides valuable resources for future genetic engineering aimed at enhancing VB<sub>12</sub> production efficiency. This study offers practical improvements in microbial VB<sub>12</sub> production while also delivering essential insights into the genetic and metabolic regulation of this important biosynthetic pathway.</p>","PeriodicalId":26,"journal":{"name":"ACS Synthetic Biology","volume":"14 4","pages":"1264–1276 1264–1276"},"PeriodicalIF":3.7,"publicationDate":"2025-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143842310","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
Advancing VB12 Production: Insights into Enhancing VB12 Titer in Ensifer adhaerens Casida A through ARTP Mutagenesis and Multiomics Analysis.
IF 3.7 2区 生物学
ACS Synthetic Biology Pub Date : 2025-03-13 DOI: 10.1021/acssynbio.4c00884
Qi Wang, Yongheng Liu, Tengteng Zhu, Wei Zhao, Jianyu Su
{"title":"Advancing VB<sub>12</sub> Production: Insights into Enhancing VB<sub>12</sub> Titer in <i>Ensifer adhaerens</i> Casida A through ARTP Mutagenesis and Multiomics Analysis.","authors":"Qi Wang, Yongheng Liu, Tengteng Zhu, Wei Zhao, Jianyu Su","doi":"10.1021/acssynbio.4c00884","DOIUrl":"https://doi.org/10.1021/acssynbio.4c00884","url":null,"abstract":"<p><p><i>Ensifer adhaerens</i>, a microorganism recognized for its capacity to synthesize vitamin B<sub>12</sub> (VB<sub>12</sub>), has garnered significant attention in recent years. Nonetheless, its practical application has been limited by low production yields. Atmospheric and room-temperature plasma (ARTP) mutagenesis was utilized to improve VB<sub>12</sub> production and examine the associated mechanisms. Three high-yielding mutant strains─BCA-24, BCB-14, and BCC-27─were isolated through multiple rounds of mutagenesis. The VB<sub>12</sub> titer of the highly productive mutant strain, BCA-24, rose significantly from 65.64 mg/L to 104.54 mg/L. Genome resequencing identified 14 mutated genes, of which seven (<i>atpA</i>, <i>gntR</i>, <i>fusA</i>, <i>cobQ</i>, <i>ribD</i>, <i>cirA</i>, and <i>UP</i>) were functionally validated through overexpression in wild-type strains and found to positively influence VB<sub>12</sub> biosynthesis. Notably, coexpression of the <i>cobQ</i> and <i>UP</i> mutant genes in strain BCA-24 resulted in a VB<sub>12</sub> titer of 163.68 mg/L. Transcriptomic analysis indicated that critical pathways related to energy metabolism, S-adenosylmethionine (SAM), 5-aminolevulinic acid (5-ALA), and riboflavin synthesis were significantly upregulated in BCA-24 relative to the wild type. A multiomics approach clarified the mechanisms through which these mutations increase VB<sub>12</sub> production, including enhanced transcription and translation, optimized energy supply, and improved product efflux. The identification of novel candidate genes in <i>Ensifer adhaerens</i>, which have not been previously studied, provides valuable resources for future genetic engineering aimed at enhancing VB<sub>12</sub> production efficiency. This study offers practical improvements in microbial VB<sub>12</sub> production while also delivering essential insights into the genetic and metabolic regulation of this important biosynthetic pathway.</p>","PeriodicalId":26,"journal":{"name":"ACS Synthetic Biology","volume":" ","pages":""},"PeriodicalIF":3.7,"publicationDate":"2025-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143622841","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
XanthoMoClo─A Robust Modular Cloning Genetic Toolkit for the Genera Xanthobacter and Roseixanthobacter.
IF 3.7 2区 生物学
ACS Synthetic Biology Pub Date : 2025-03-13 DOI: 10.1021/acssynbio.4c00806
Maximillian P M Soltysiak, Audrey L H Ory, Andrew D Lee, Caroline E Christophersen, Amogh P Jalihal, Michael Springer
{"title":"XanthoMoClo─A Robust Modular Cloning Genetic Toolkit for the Genera <i>Xanthobacter</i> and <i>Roseixanthobacter</i>.","authors":"Maximillian P M Soltysiak, Audrey L H Ory, Andrew D Lee, Caroline E Christophersen, Amogh P Jalihal, Michael Springer","doi":"10.1021/acssynbio.4c00806","DOIUrl":"https://doi.org/10.1021/acssynbio.4c00806","url":null,"abstract":"<p><p>Interest in <i>Xanthobacter</i> species is increasing due to their unique metabolic capabilities. They can grow in both heterotrophic and fully autotrophic environments, including carbon dioxide, dinitrogen gas, and hydrogen as the sole carbon, nitrogen, and energy sources, respectively. Academic and industrial groups looking to leverage these metabolic properties are already using <i>Xanthobacter</i> strains for the sustainable production of food and commodities. However, only a handful of genetic parts and protocols exist in scattered genetic backgrounds, and there is an unmet need for reliable genetic engineering tools to manipulate <i>Xanthobacter</i> species. Here, we developed XanthoMoClo, a robust modular cloning genetic toolkit for <i>Xanthobacter</i> and <i>Roseixanthobacter</i> species and strains, providing extensive tools to transform them, manipulate their metabolism, and express genes of interest. The toolkit contains plasmid parts, such as replication origins, antibiotic selection markers, fluorescent proteins, constitutive and inducible promoters, a standardized framework to incorporate novel components into the toolkit, and a conjugation donor to transform <i>Xanthobacter</i> and <i>Roseixanthobacter</i> strains easily with no or minimal optimization. We validated these plasmid components in depth in three of the most commonly studied <i>Xanthobacter</i> strains: <i>X. versatilis</i> Py2, <i>X. autotrophicus</i> GZ29, and <i>X. flavus</i> GJ10, as well as in <i>R. finlandensis</i> VTT E-85241. Finally, we demonstrate robust toolkit functionality across 21 different species of <i>Xanthobacter</i> and <i>Roseixanthobacter</i>, comprising 23 strains in total. The XanthoMoClo genetic toolkit is available to the research community (through AddGene) and will help accelerate the genetic engineering of <i>Xanthobacter</i> to further their applications in sustainability and bioremediation efforts.</p>","PeriodicalId":26,"journal":{"name":"ACS Synthetic Biology","volume":" ","pages":""},"PeriodicalIF":3.7,"publicationDate":"2025-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143622844","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
XanthoMoClo─A Robust Modular Cloning Genetic Toolkit for the Genera Xanthobacter and Roseixanthobacter
IF 3.7 2区 生物学
ACS Synthetic Biology Pub Date : 2025-03-13 DOI: 10.1021/acssynbio.4c0080610.1021/acssynbio.4c00806
Maximillian P. M. Soltysiak*, Audrey L. H. Ory, Andrew D. Lee, Caroline E. Christophersen, Amogh P. Jalihal and Michael Springer*, 
{"title":"XanthoMoClo─A Robust Modular Cloning Genetic Toolkit for the Genera Xanthobacter and Roseixanthobacter","authors":"Maximillian P. M. Soltysiak*,&nbsp;Audrey L. H. Ory,&nbsp;Andrew D. Lee,&nbsp;Caroline E. Christophersen,&nbsp;Amogh P. Jalihal and Michael Springer*,&nbsp;","doi":"10.1021/acssynbio.4c0080610.1021/acssynbio.4c00806","DOIUrl":"https://doi.org/10.1021/acssynbio.4c00806https://doi.org/10.1021/acssynbio.4c00806","url":null,"abstract":"<p >Interest in <i>Xanthobacter</i> species is increasing due to their unique metabolic capabilities. They can grow in both heterotrophic and fully autotrophic environments, including carbon dioxide, dinitrogen gas, and hydrogen as the sole carbon, nitrogen, and energy sources, respectively. Academic and industrial groups looking to leverage these metabolic properties are already using <i>Xanthobacter</i> strains for the sustainable production of food and commodities. However, only a handful of genetic parts and protocols exist in scattered genetic backgrounds, and there is an unmet need for reliable genetic engineering tools to manipulate <i>Xanthobacter</i> species. Here, we developed XanthoMoClo, a robust modular cloning genetic toolkit for <i>Xanthobacter</i> and <i>Roseixanthobacter</i> species and strains, providing extensive tools to transform them, manipulate their metabolism, and express genes of interest. The toolkit contains plasmid parts, such as replication origins, antibiotic selection markers, fluorescent proteins, constitutive and inducible promoters, a standardized framework to incorporate novel components into the toolkit, and a conjugation donor to transform <i>Xanthobacter</i> and <i>Roseixanthobacter</i> strains easily with no or minimal optimization. We validated these plasmid components in depth in three of the most commonly studied <i>Xanthobacter</i> strains: <i>X. versatilis</i> Py2, <i>X. autotrophicus</i> GZ29, and <i>X. flavus</i> GJ10, as well as in <i>R. finlandensis</i> VTT E-85241. Finally, we demonstrate robust toolkit functionality across 21 different species of <i>Xanthobacter</i> and <i>Roseixanthobacter</i>, comprising 23 strains in total. The XanthoMoClo genetic toolkit is available to the research community (through AddGene) and will help accelerate the genetic engineering of <i>Xanthobacter</i> to further their applications in sustainability and bioremediation efforts.</p>","PeriodicalId":26,"journal":{"name":"ACS Synthetic Biology","volume":"14 4","pages":"1173–1190 1173–1190"},"PeriodicalIF":3.7,"publicationDate":"2025-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://pubs.acs.org/doi/epdf/10.1021/acssynbio.4c00806","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143842359","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
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