ACS Synthetic Biology最新文献_第2页

IF 3.7 2区生物学

ACS Synthetic Biology Pub Date : 2025-07-18

Dun-Ju Wang, Ming-Zhu Ding, Zheng-Jie Hou, Yong Zhang, Wei Shang, Tian-Xu Duan, Qiu-Man Xu* and Jing-Sheng Cheng*,

引用次数: 0

IF 3.7 2区生物学

ACS Synthetic Biology Pub Date : 2025-07-18

Haibin Qin, Junping Zhou, Aiping Pang, Lianggang Huang, Zhiqiang Liu* and Yuguo Zheng,

引用次数: 0

IF 3.7 2区生物学

ACS Synthetic Biology Pub Date : 2025-07-18

Huapeng Sun, Xin Tang, Yingying Zhang, Xiaona Fu, Rongxiang Wang, Muhammad Shahzaib and Fei Qiao*,

引用次数: 0

Engineering and Optimization of the Salidroside Production in Tobacco Cells by Reconstructed Biosynthetic Genes from Rhodiola rosea. 重建红景天生物合成基因在烟草细胞中生产红景天苷的工程与优化。

IF 3.7 2区生物学

ACS Synthetic Biology Pub Date : 2025-07-18 Epub Date: 2025-06-24 DOI: 10.1021/acssynbio.5c00185

Huapeng Sun, Xin Tang, Yingying Zhang, Xiaona Fu, Rongxiang Wang, Muhammad Shahzaib, Fei Qiao

{"title":"Engineering and Optimization of the Salidroside Production in Tobacco Cells by Reconstructed Biosynthetic Genes from Rhodiola rosea.","authors":"Huapeng Sun, Xin Tang, Yingying Zhang, Xiaona Fu, Rongxiang Wang, Muhammad Shahzaib, Fei Qiao","doi":"10.1021/acssynbio.5c00185","DOIUrl":"10.1021/acssynbio.5c00185","url":null,"abstract":"Salidroside, a tyrosine-derived bioactive product, originates from the Rhodiola genus and has various medicinal properties. However, the surge in global demand requires exploration of more efficient and sustainable approaches to produce salidroside. This study reconstructed three functional enzymes in tobacco cells to produce salidroside using endogenous l-tyrosine. Under the optimized two-stage protocol (1% sucrose in the production medium; 11 days of culture), salidroside accumulation reached a maximum of 377.53 μg per gram of HHU cells in fresh weight. Neither precursor feeding (100 mg/L shikimate) nor various elicitors (e.g., MeJA, SA, and ABA) provided any further enhancement. Comparative transcriptomic analysis revealed that two DAHPS transcripts (107797958 and 107817203) were upregulated more than 2-fold, indicating that the reconstructed pathway boosts endogenous l-tyrosine flux, and elicitation and precursor feeding strategies could not enhance salidroside accumulation. Meanwhile, comparative transcriptomic analysis revealed that the reconstructed pathway could upregulate crucial gene expression in endogenous l-tyrosine biosynthesis. This study evaluates tobacco cells as biofactories to produce salidroside and lays the foundation for the biosynthesis engineering of other heterologous metabolites.","PeriodicalId":26,"journal":{"name":"ACS Synthetic Biology","volume":" ","pages":"2788-2796"},"PeriodicalIF":3.7,"publicationDate":"2025-07-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144482541","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

In-Silico Analysis and Engineering of an Aldehyde/Alcohol Dehydrogenase for Alternative Cofactor Utilization and Selective Butanol Production. 替代辅助因子利用和选择性丁醇生产的醛/醇脱氢酶的硅分析与工程。

IF 3.7 2区生物学

ACS Synthetic Biology Pub Date : 2025-07-18 Epub Date: 2025-06-21 DOI: 10.1021/acssynbio.5c00003

Curtis D Moore, Qingke Wang, Geng Wang, Jun Feng, Zhen Qin, Shang-Tian Yang

{"title":"In-Silico Analysis and Engineering of an Aldehyde/Alcohol Dehydrogenase for Alternative Cofactor Utilization and Selective Butanol Production.","authors":"Curtis D Moore, Qingke Wang, Geng Wang, Jun Feng, Zhen Qin, Shang-Tian Yang","doi":"10.1021/acssynbio.5c00003","DOIUrl":"10.1021/acssynbio.5c00003","url":null,"abstract":"Biobutanol production by solventogenic Clostridia is limited by a low butanol titer and yield. To overcome this limitation, Clostridium tyrobutyricum was engineered to overexpress the adhE2 gene encoding a bifunctional aldehyde/alcohol dehydrogenase (AAD) for converting acetyl-CoA/butyryl-CoA to acetaldehyde/butyraldehyde and then to ethanol/butanol. In this study, we aimed to increase butanol biosynthesis in C. tyrobutyricum by engineering AAD targeting on amino acid residues in the enzyme catalytic center that could increase butanol:ethanol ratios and alter cofactor specificity. In silico mutagenesis and analysis via Rosetta analysis showed that several AAD point mutations could increase butanol production and selectivity over ethanol. We then created C. tyrobutyricum strains overexpressing various AAD mutants. Two AAD mutants, D485G and L488A, engineered to utilize NADPH as the cofactor, increased butanol production by over 100% in batch fermentation, with yields of 0.10-0.13 g/g (vs 0.05 g/g glucose for the wild-type AAD). Two additional AAD mutants, P619G and S601A_V608S_P619G, engineered for increased butanol selectivity, also gave higher butanol yields of 0.13-0.15 g/g. Butanol production further increased to 0.23 g/g when methyl viologen was added to the fermentation. This work leveraged in silico analysis to guide rational engineering of AAD with higher selectivity and activity for butanol production.","PeriodicalId":26,"journal":{"name":"ACS Synthetic Biology","volume":" ","pages":"2584-2596"},"PeriodicalIF":3.7,"publicationDate":"2025-07-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144339686","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

Dual-Mode SERS Lateral Flow Aptamer Assay with Machine Learning-Driven Highly Sensitive Interferon-γ Detection. 机器学习驱动的高灵敏度干扰素γ检测双模SERS横向流动适体试验。

IF 3.7 2区生物学

ACS Synthetic Biology Pub Date : 2025-07-18 Epub Date: 2025-07-07 DOI: 10.1021/acssynbio.5c00244

Jiali Jin, Jiaying Hu, Jiliang Yan, Fei Deng, Shaoyue Jin, Danting Yang

{"title":"Dual-Mode SERS Lateral Flow Aptamer Assay with Machine Learning-Driven Highly Sensitive Interferon-γ Detection.","authors":"Jiali Jin, Jiaying Hu, Jiliang Yan, Fei Deng, Shaoyue Jin, Danting Yang","doi":"10.1021/acssynbio.5c00244","DOIUrl":"10.1021/acssynbio.5c00244","url":null,"abstract":"Interferon-γ (IFN-γ), a key pro-inflammatory cytokine, is widely recognized as a critical biomarker for diagnosing and monitoring various immune-related conditions. However, its typically low concentrations in biological fluids─at the picogram-per-milliliter (pg/mL) level─necessitate ultrasensitive detection strategies for early clinical intervention. Here, we report a dual-mode surface-enhanced Raman scattering (SERS) lateral flow aptamer assay that employs a competitive binding mechanism between IFN-γ and its complementary DNA for aptamer recognition. This platform combines visual readout with quantitative SERS detection, enabling accurate measurement over a wide dynamic range (5-2000 pg/mL) with a limit of detection of 2.23 pg/mL. Clinical validation using human serum samples confirmed the assay's ability to distinguish IFN-γ concentration tiers─negative, low, and medium/high─with high diagnostic accuracy, supporting its potential for point-of-care applications. To enhance interpretability and classification performance, the system was integrated with machine learning algorithms, including multinomial logistic regression (MLR), multilayer perceptron, and random forest. Among these, the MLR model achieved the best performance, with an overall accuracy of 94.12% and a macro-average area under the ROC curve of 1.00. It further demonstrated group-specific sensitivities and specificities of 100% for the negative group, 83.33%/100% for the low group, and 100%/90.91% for the medium/high group. This dual-mode, machine learning-assisted biosensing platform offers a robust and practical solution for ultrasensitive cytokine detection, bridging the gap between analytical performance and clinical applicability in precision diagnostics.","PeriodicalId":26,"journal":{"name":"ACS Synthetic Biology","volume":" ","pages":"2845-2853"},"PeriodicalIF":3.7,"publicationDate":"2025-07-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144582618","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

Lipid Modification and Membrane Localization of Proteins in Cell-Free System. 无细胞系统中蛋白质的脂质修饰和膜定位。

IF 3.7 2区生物学

ACS Synthetic Biology Pub Date : 2025-07-18 Epub Date: 2025-06-19 DOI: 10.1021/acssynbio.5c00155

Rena Matsumoto, Tatsuya Niwa, Kaori Kuno, Yasuhiro Shimane, Yutetsu Kuruma, Takashi Kanamori

{"title":"Lipid Modification and Membrane Localization of Proteins in Cell-Free System.","authors":"Rena Matsumoto, Tatsuya Niwa, Kaori Kuno, Yasuhiro Shimane, Yutetsu Kuruma, Takashi Kanamori","doi":"10.1021/acssynbio.5c00155","DOIUrl":"10.1021/acssynbio.5c00155","url":null,"abstract":"Post-translational modifications are an essential process for proper protein function and localization. In particular, lipid modification plays a crucial role in the spatial regulation of proteins functioning on a lipid membrane surface. While cell-free protein synthesis allows rapid protein production, technical advances in lipidation modification are behind. Here, we developed a cell-free system for the myristoylation and palmitoylation of proteins. Based on our previous study, we improved myristoylation efficiency by trimming a precursor nascent peptide, which undergoes lipidation at the N-terminal glycine. We also found that N-myristoyltransferase (NMT) catalyzes both myristoylation and palmitoylation. The localization of lipidated proteins onto liposomes is further aided by the insertion of polyarginine residues downstream of the NMT recognition site. Finally, we demonstrated that lipidation of VHH antibodies and localization onto liposomes resulted in target-specific binding to cancer cells. This system offers a platform for displaying soluble proteins on lipid membranes, with potential applications in developing liposomes for targeted cell binding.","PeriodicalId":26,"journal":{"name":"ACS Synthetic Biology","volume":" ","pages":"2729-2738"},"PeriodicalIF":3.7,"publicationDate":"2025-07-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12281620/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144323824","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

Engineered Marine Biofilms for Ocean Environment Monitoring. 用于海洋环境监测的工程海洋生物膜。

IF 3.7 2区生物学

ACS Synthetic Biology Pub Date : 2025-07-18 Epub Date: 2025-06-22 DOI: 10.1021/acssynbio.5c00192

Guillermo Nevot, Maria Pol Cros, Lorena Toloza, Nil Campamà-Sanz, Maria Artigues-Lleixà, Laura Aguilera, Marc Güell

{"title":"Engineered Marine Biofilms for Ocean Environment Monitoring.","authors":"Guillermo Nevot, Maria Pol Cros, Lorena Toloza, Nil Campamà-Sanz, Maria Artigues-Lleixà, Laura Aguilera, Marc Güell","doi":"10.1021/acssynbio.5c00192","DOIUrl":"10.1021/acssynbio.5c00192","url":null,"abstract":"Marine bacteria offer a promising alternative for developing Engineered Living Materials (ELMs) tailored to marine applications. We engineered Dinoroseobacter shibae to increase its surface-associated growth and develop biosensors for ocean environment monitoring. By fusing the endogenous extracellular matrix amyloidogenic protein CsgA with mussel foot proteins, we significantly increased D. shibae biofilm formation. Additionally, D. shibae was engineered to express the tyrosinase enzyme to further enhance microbial attachment through post-translational modifications of tyrosine residues. By exploiting D. shibae's natural genetic resources, two environmental biosensors were created to detect temperature and oxygen. These biosensors were coupled with a CRISPR-based recording system to store transient gene expression in stable DNA arrays, enabling long-term environmental monitoring. These engineered strains highlight D. shibae's potential in advancing marine microbiome engineering for innovative biofilm applications, including the development of natural, self-renewing biological adhesives, environmental sensors, and \"sentinel\" cells equipped with CRISPR-recording technology to capture and store environmental signals.","PeriodicalId":26,"journal":{"name":"ACS Synthetic Biology","volume":" ","pages":"2797-2809"},"PeriodicalIF":3.7,"publicationDate":"2025-07-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12281610/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144367629","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

Efficient De Novo Assembly of 100 kb-Scale Human Functional Immunoglobulin Heavy Variable (IGHV) Gene Fragments In Vitro. 100kb人功能性免疫球蛋白重变量（IGHV）基因片段体外高效从头组装

IF 3.7 2区生物学

ACS Synthetic Biology Pub Date : 2025-07-18 Epub Date: 2025-03-26 DOI: 10.1021/acssynbio.5c00011

Haiqiong Li, Shuyao Xu, Yurui Liu, Yongqi Lu, Yunshan Ning

引用次数: 0

Pathway Refactoring for Efficient 7-Dehydrocholesterol Production in Saccharomyces cerevisiae. 酿酒酵母高效生产7-脱氢胆固醇的途径重构

IF 3.7 2区生物学

ACS Synthetic Biology Pub Date : 2025-07-18 Epub Date: 2025-06-27 DOI: 10.1021/acssynbio.5c00032

Yuchen Han, Huayi Gao, Shuo Wang, Haiyan Ju, Ran Ge, Chaoyou Xue, Weidong Liu, Xiaolong Jiang, Wuyuan Zhang

{"title":"Pathway Refactoring for Efficient 7-Dehydrocholesterol Production in Saccharomyces cerevisiae.","authors":"Yuchen Han, Huayi Gao, Shuo Wang, Haiyan Ju, Ran Ge, Chaoyou Xue, Weidong Liu, Xiaolong Jiang, Wuyuan Zhang","doi":"10.1021/acssynbio.5c00032","DOIUrl":"10.1021/acssynbio.5c00032","url":null,"abstract":"7-Dehydrocholesterol (7-DHC) is a subcutaneous sterol and a precursor to various active vitamin D3. Here, a Saccharomyces cerevisiae strain equipped with the de novo biosynthetic pathway for 7-DHC was constructed. 109.0 mg L-1 of 7-DHC was achieved initially by introducing heterologous 24-dehydrocholesterol reductase (DHCR24) and overexpressing vital enzymes. Following these modifications, the dynamic regulation of the ergosterol pathway and multicopy expression of DHCR24 resulted in an 86.3% increase in the 7-DHC titer. Subsequently, the effects of several organic solvents and surfactants on 7-DHC production were also explored. The addition of ε-polylysine increased the titer of 7-DHC by 99.1%. Finally, by assembling the pathway in peroxisomes and rebalancing the redox levels, the 7-DHC titer reached 517.4 mg L-1 in shake flasks. Scale-up fermentation with a 5 L bioreactor demonstrated that 3.26 g L-1 of 7-DHC was produced. The pathway refactoring strategy provides efficient production of 7-DHC in a sustainable manner.","PeriodicalId":26,"journal":{"name":"ACS Synthetic Biology","volume":" ","pages":"2609-2618"},"PeriodicalIF":3.7,"publicationDate":"2025-07-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144504135","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