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Decoupling growth phase dependency and metal ion inhibition: A dual engineering strategy for the high-yield biosynthesis of microcin J25 in Escherichia coli 解耦生长相依赖和金属离子抑制:在大肠杆菌中高产合成微霉素J25的双重工程策略
Pub Date : 2025-12-01 Epub Date: 2025-08-14 DOI: 10.1016/j.engmic.2025.100230
Guangxin Yang , Xinchan Wang , Yunting Zhou , Xiuliang Ding , Jinxiu Huang , Shiyan Qiao , Aihua Deng , Haitao Yu
Microcin J25 (MccJ25) has received substantial attention as a potential solution to the global threat of infection caused by antibiotic-resistant bacteria. However, the industrial fermentation of MccJ25 faces production bottlenecks. It is imperative to further explore the production optimization strategies for MccJ25 to formulate comprehensive approaches for its industrial-scale production and other downstream applications. Here, Fe²⁺ in tap water was identified as a critical inhibitor of MccJ25 biosynthesis, selectively repressing mcjA transcription, which was reversible via 2,2′-bipyridine-mediated chelation. To decouple production from growth phase dependency and Fe²⁺ interference, we engineered Escherichia coli BL21 cells by performing two genetic modifications. First, we replaced the native mcjA promoter with a constitutive promoter (PQ) to allow its mid-log phase expression. Second, we replaced the native mcjBCD promoter with a medium-strength variant (P2223) that delayed production kinetics without affecting final yields. However, the genomic integration of mcjD alleviated plasmid-borne toxicity, increasing the expression timing and doubling the yield to 240 mg/L. Finally, we computationally optimized the mcjA ribosome-binding site (RBS) to enhance translation efficiency. RBS optimization revealed that a moderate translation initiation efficiency (550,584 arbitrary units [au]) maximized production, whereas excessive efficiency (2,019,712 au) impaired growth and output. These interventions synergistically increased the MccJ25 titer 10-fold, reaching 430 mg/L in batch culture. Our findings establish a robust platform for MccJ25 overproduction, highlighting promoter engineering and translational tuning as pivotal strategies for antimicrobial peptide biosynthesis. This study provides insights for overcoming metabolic constraints in microbial fermentation, advancing the development of peptide-based therapeutics against multidrug-resistant pathogens.
miccin J25 (MccJ25)作为一种潜在的解决抗生素耐药菌引起的全球感染威胁的方法受到了广泛关注。然而,MccJ25的工业发酵面临着生产瓶颈。进一步探索MccJ25的生产优化策略,为其工业规模生产和其他下游应用制定综合途径是当务之急。在这里,自来水中的Fe 2 +被鉴定为MccJ25生物合成的关键抑制剂,可以选择性地抑制mcjA的转录,这是通过2,2 ' -联吡啶介导的螯合作用可逆的。为了将生产从生长期依赖和Fe 2 +干扰中解耦,我们通过进行两次基因修饰来设计大肠杆菌BL21细胞。首先,我们用组成启动子(PQ)取代了原生mcjA启动子,以允许其在对数中期表达。其次,我们用中等强度变体(P2223)取代了天然mcjBCD启动子,该变体延迟了生产动力学,但不影响最终产量。然而,mcjD的基因组整合减轻了质粒毒性,增加了表达时间,产量翻了一番,达到240 mg/L。最后,我们通过计算优化mcjA核糖体结合位点(RBS)来提高翻译效率。RBS优化显示,适度的翻译起始效率(550,584任意单位[au])可使产量最大化,而过高的翻译起始效率(2,019,712 au)会损害生长和产量。这些干预措施协同提高MccJ25滴度10倍,在批量培养中达到430 mg/L。我们的研究结果为mcj25的过度生产建立了一个强大的平台,强调启动子工程和翻译调节是抗菌肽生物合成的关键策略。该研究为克服微生物发酵中的代谢限制提供了见解,促进了基于多肽的治疗药物对抗多药耐药病原体的发展。
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引用次数: 0
Unraveling microbial life from a high-altitude hydrothermal system in the Andes plateau and their potential for nitrogen transformations 揭示安第斯高原高海拔热液系统中的微生物生命及其氮转化的潜力
Pub Date : 2025-12-01 Epub Date: 2025-09-29 DOI: 10.1016/j.engmic.2025.100242
Coral Pardo-Esté , Juan Castro-Severyn , Jacqueline Aldridge , Diego Alvarez-Saravia , Lenka Kurte , Polette Aguilar-Muñoz , Pablo Paquis , Vilma Pérez , David Medina , Wade H Jeffrey , Verónica Molina , Martha B Hengst
Terrestrial hydrothermal systems provide a window for studying the biogeochemical interactions that occur in hot and gas-rich ecosystems resembling the conditions found in early life on Earth. The biogeochemical dynamics of the Andean hydrothermal systems in the Atacama Desert area are still understudied. Thus, we aimed to characterize the taxonomic composition and genomic potential of nitrogen transformations in a microbial community inhabiting a high-altitude hydrothermal system on the Altiplano Plateau of the Chilean Andes. Specifically, we sampled sediment and microbial mats in three ponds with water temperatures ranging from 42 to 64 °C. We found a high prevalence of photoheterotrophs, with differences in taxonomic composition and gene abundance between the microbial communities found in the sediment and microbial mats. Changes in physicochemical conditions, such as temperature and pH, and the concentrations of CO2, CH4 and Mn accounted for the variability in the microbial community structure. Our results indicated an enrichment of N-related genes associated with nitrate reduction, denitrification, and ammonia assimilation, suggesting a metabolically versatile community using nitrate, nitrite, and gaseous nitrogen species to assimilate ammonia into their biomass. This study contributes to our understanding of the taxonomy and functional microbial dynamics in a high-altitude thermal system, where ammonia assimilation is potentially critical for biomass formation, and particular environmental conditions favor adaptations to maintain biogeochemical cycles.
陆地热液系统为研究类似于地球早期生命条件的高温富气生态系统中发生的生物地球化学相互作用提供了一个窗口。阿塔卡马沙漠地区安第斯热液系统的生物地球化学动力学研究尚不充分。因此,我们旨在描述栖息在智利安第斯山脉Altiplano高原高海拔热液系统的微生物群落中氮转化的分类组成和基因组潜力。具体来说,我们在水温为42至64°C的三个池塘中取样了沉积物和微生物垫。我们发现,在沉积物和微生物席中发现的微生物群落在分类组成和基因丰度上存在差异,光异养生物普遍存在。温度、pH等理化条件以及CO2、CH4和Mn浓度的变化是微生物群落结构变化的主要原因。我们的研究结果表明,与硝酸盐还原、反硝化和氨同化相关的n相关基因富集,表明一个代谢多样的群落利用硝酸盐、亚硝酸盐和气态氮物种将氨同化到它们的生物量中。该研究有助于我们了解高海拔热系统中微生物的分类和功能动力学,其中氨同化对生物量的形成具有潜在的关键作用,并且特定的环境条件有利于维持生物地球化学循环。
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引用次数: 0
The role of microbiota dysbiosis in Parkinson’s disease: Pathophysiology and therapeutic opportunities 微生物群失调在帕金森病中的作用:病理生理学和治疗机会
Pub Date : 2025-09-01 Epub Date: 2025-06-28 DOI: 10.1016/j.engmic.2025.100222
Shabnam Santos , Ivonne Salinas , Nicolás Almeida , Andrés Caicedo
Parkinson’s disease (PD) is a chronic, progressive neurodegenerative disorder characterized by debilitating motor and non-motor symptoms. Its etiology is multifactorial, with no single definitive cause identified, although aging is a significant risk factor. Additional risks include genetic predisposition, family history, and environmental factors such as pesticide exposure and Helicobacter pylori infection. Dysbiosis of the gut microbiota, and in particular bacterial imbalances, has been implicated in the disruption of the gut-brain axis, contributing to both systemic and neuroinflammation. Environmental factors such as antibiotic exposure and toxins can precipitate microbial dysregulation, potentially accelerating PD progression. Understanding the mechanisms of the gut-brain axis and identifying strategies to preserve a healthy microbiome are essential for developing novel therapeutic approaches. This review synthesizes current therapeutic strategies and ongoing research focused on restoring gut-brain balance to combat PD. These approaches include fecal microbiota transplantation, dietary interventions, and probiotic therapies, all of which show promise in mitigating both motor and non-motor symptoms. Furthermore, we emphasize the urgent need for continued research into probiotics and innovative therapeutic approaches for gut-brain axis modulation, presenting novel opportunities for effective PD management.
帕金森病(PD)是一种慢性进行性神经退行性疾病,以运动和非运动症状为特征。其病因是多因素的,虽然年龄是一个重要的危险因素,但没有确定的单一确切原因。其他风险包括遗传易感性、家族史和环境因素,如农药暴露和幽门螺杆菌感染。肠道微生物群的生态失调,特别是细菌失衡,与肠-脑轴的破坏有关,导致全身和神经炎症。环境因素,如抗生素暴露和毒素可沉淀微生物失调,潜在地加速PD的进展。了解肠脑轴的机制和确定保护健康微生物组的策略对于开发新的治疗方法至关重要。本文综述了目前的治疗策略和正在进行的研究,重点是恢复肠-脑平衡来对抗PD。这些方法包括粪便微生物群移植、饮食干预和益生菌治疗,所有这些方法都显示出减轻运动和非运动症状的希望。此外,我们强调迫切需要继续研究益生菌和肠-脑轴调节的创新治疗方法,为有效的PD治疗提供新的机会。
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引用次数: 0
Production of dicarboxylates from ω-amino acids using a cofactor- and co-substrate-free in vitro biosynthetic system 利用无辅助因子和无共底物的体外生物合成系统从ω-氨基酸生产二羧酸盐
Pub Date : 2025-09-01 Epub Date: 2025-05-17 DOI: 10.1016/j.engmic.2025.100210
Jinxin Yan , Hui Zhang , Hongxu Zhang , Hairong Yu , Wenjia Tian , Mingyuan Liu , Weikang Sun , Leilei Guo , Xiaoxu Tan , Kaiyu Gao , Tianyi Jiang , Chuanjuan Lü , Qianjin Kang , Wensi Meng , Cuiqing Ma , Chao Gao , Ping Xu
Dicarboxylates are valuable platform compounds with a broad range of applications. The in vitro biosynthetic system used to produce dicarboxylates from ω-amino acids via the natural pathway requires costly cofactors and co-substrates, which restricts its economic feasibility of use. In this study, we designed a cofactor- and co-substrate-free artificial pathway for the production of dicarboxylates from ω-amino acids. Only three enzymes (viz., amine oxidase from Kluyveromyces marxianus DMKU3-1042, xanthine oxidase from bovine milk, and catalase from Aspergillus niger) were required for dicarboxylate production. Succinate (0.79 g g-1), glutarate (0.83 g g-1), and adipate (0.77 g g-1) were produced in high yields from the corresponding ω-amino acids through the in vitro biosynthetic system with the artificial pathway. Glutarate could also be produced from l-lysine by further introducing l-lysine monooxygenase and 5-aminovaleramide amidohydrolase from Pseudomonas putida KT2440 into the in vitro biosynthetic system, with the cofactor- and co-substrate-free system achieving a product yield of 0.63 g g-1. Considering its desirable characteristics, this artificial pathway-based in vitro biosynthetic system may be a promising alternative for dicarboxylate production from biotechnologically produced ω-amino acids.
二羧酸盐是具有广泛应用价值的平台化合物。通过自然途径从ω-氨基酸生产二羧酸酯的体外生物合成系统需要昂贵的辅因子和共底物,这限制了其经济可行性。在这项研究中,我们设计了一个无辅助因子和共底物的人工途径,用于从ω-氨基酸生产二羧酸盐。二羧酸盐的生产只需要三种酶(即来自马氏克卢维菌DMKU3-1042的胺氧化酶、来自牛乳的黄嘌呤氧化酶和来自黑曲霉的过氧化氢酶)。通过体外人工合成体系,以相应的ω-氨基酸为原料,高产出琥珀酸酯(0.79 g-1)、戊二酸酯(0.83 g-1)和己二酸酯(0.77 g-1)。通过进一步将恶臭假单胞菌KT2440的赖氨酸单加氧酶和5-氨基戊酰胺酰胺水解酶引入体外生物合成体系,也可由赖氨酸生产戊二酸盐,无辅因子和共底物体系的产率为0.63 g-1。考虑到其理想的特性,这种基于人工途径的体外生物合成系统可能是生物技术生产ω-氨基酸生产二羧酸盐的有希望的替代方案。
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引用次数: 0
Genotypic and molecular characterization of a moderately thermophilic cyanobacterium, Gloeocapsa sp. strain BRSZ 中等嗜热蓝藻Gloeocapsa sp.菌株BRSZ的基因型和分子特征
Pub Date : 2025-09-01 Epub Date: 2025-08-05 DOI: 10.1016/j.engmic.2025.100226
Sasiprapa Samsri , Tanwalee Deprom , Chananwat Kortheerakul , Sophon Sirisattha , Stephen B. Pointing , Hakuto Kageyama , Rungaroon Waditee-Sirisattha
A unicellular-colonial cyanobacterium, designated “BRSZ,” was isolated from a neutral-alkaline hot spring in Thailand. Morphological characterization revealed distinctive features consistent with those of the genus Gloeocapsa. Physiological assessments demonstrated that BRSZ is a moderately thermophilic and halotolerant cyanobacterium with the potential for chemoheterotrophic growth in dark conditions. Molecular phylogenetic analysis based on 16S ribosomal RNA (rRNA) gene sequences placed BRSZ within a well-defined Gloeocapsa clade, a finding corroborated by 16S–23S internal transcribed spacer (ITS) rRNA secondary structure analyses. Genome comparisons, including average nucleotide identity (ANI), genome-to-genome distance (GGD), and digital DNA-DNA hybridization (dDDH), between strain BRSZ and closely related taxa showed an ANI value of 95.45 %, near the lower boundary of the species delineation threshold (95–96 %). A GGD of 0.0374 (>0.0258) and dDDH of 69 % (<70 %) further supported genomic differentiation. Genome-based analysis revealed a mycosporine-like amino acid biosynthetic gene cluster likely involved in sunscreen compound production. Cultivation-based production of a UV-absorbing compound confirmed the functional relevance of this gene cluster. These findings expand the described diversity within the Gloeocapsa complex and enhance our understanding of the taxonomy of this group. In addition, they underscored the importance of hot spring environments as sources of novel extremophiles.
一种被命名为“BRSZ”的单细胞群蓝藻从泰国的一个中性碱性温泉中分离出来。形态特征显示了与Gloeocapsa属一致的特征。生理评估表明,BRSZ是一种中等嗜热和耐盐蓝藻,具有在黑暗条件下化学异养生长的潜力。基于16S核糖体RNA (rRNA)基因序列的分子系统发育分析将BRSZ置于一个定义明确的Gloeocapsa分支中,这一发现得到了16S - 23s内部转录间隔物(ITS) rRNA二级结构分析的证实。BRSZ菌株与近缘类群的平均核苷酸同一性(ANI)、基因组-基因组距离(GGD)和数字DNA-DNA杂交(dDDH)等基因组比较结果显示,ANI值为95.45%,接近物种划分阈值的下限(95 - 96%)。GGD为0.0374 (>0.0258), dDDH为69% (< 70%),进一步支持基因组分化。基于基因组的分析揭示了一个类似霉菌素的氨基酸生物合成基因簇可能参与防晒化合物的生产。以培养为基础的紫外吸收化合物的生产证实了该基因簇的功能相关性。这些发现扩大了Gloeocapsa复合体中已描述的多样性,并增强了我们对该类群分类学的理解。此外,他们强调了温泉环境作为新型极端微生物来源的重要性。
{"title":"Genotypic and molecular characterization of a moderately thermophilic cyanobacterium, Gloeocapsa sp. strain BRSZ","authors":"Sasiprapa Samsri ,&nbsp;Tanwalee Deprom ,&nbsp;Chananwat Kortheerakul ,&nbsp;Sophon Sirisattha ,&nbsp;Stephen B. Pointing ,&nbsp;Hakuto Kageyama ,&nbsp;Rungaroon Waditee-Sirisattha","doi":"10.1016/j.engmic.2025.100226","DOIUrl":"10.1016/j.engmic.2025.100226","url":null,"abstract":"<div><div>A unicellular-colonial cyanobacterium, designated “BRSZ,” was isolated from a neutral-alkaline hot spring in Thailand. Morphological characterization revealed distinctive features consistent with those of the genus <em>Gloeocapsa</em>. Physiological assessments demonstrated that BRSZ is a moderately thermophilic and halotolerant cyanobacterium with the potential for chemoheterotrophic growth in dark conditions. Molecular phylogenetic analysis based on 16S ribosomal RNA (rRNA) gene sequences placed BRSZ within a well-defined <em>Gloeocapsa</em> clade, a finding corroborated by 16S–23S internal transcribed spacer (ITS) rRNA secondary structure analyses. Genome comparisons, including average nucleotide identity (ANI), genome-to-genome distance (GGD), and digital DNA-DNA hybridization (dDDH), between strain BRSZ and closely related taxa showed an ANI value of 95.45 %, near the lower boundary of the species delineation threshold (95–96 %). A GGD of 0.0374 (&gt;0.0258) and dDDH of 69 % (&lt;70 %) further supported genomic differentiation. Genome-based analysis revealed a mycosporine-like amino acid biosynthetic gene cluster likely involved in sunscreen compound production. Cultivation-based production of a UV-absorbing compound confirmed the functional relevance of this gene cluster. These findings expand the described diversity within the <em>Gloeocapsa</em> complex and enhance our understanding of the taxonomy of this group. In addition, they underscored the importance of hot spring environments as sources of novel extremophiles.</div></div>","PeriodicalId":100478,"journal":{"name":"Engineering Microbiology","volume":"5 3","pages":"Article 100226"},"PeriodicalIF":0.0,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144866338","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Screening of molecular elements and improvement of heat resistance in a thermophilic bacterium 一种嗜热细菌分子元件的筛选及耐热性的提高
Pub Date : 2025-09-01 Epub Date: 2025-07-22 DOI: 10.1016/j.engmic.2025.100225
Jie Cui , Caifeng Li , Gongze Cao , Yuxia Wu , Shouying Xu , Youming Zhang , Xiaoying Bian , Qiang Tu , Wentao Zheng
Engineering microorganisms to withstand extreme temperatures (>80 °C) remains a critical challenge in industrial biotechnology owing to limited genetic tools and poor mechanistic understanding of microbial thermoadaptation. We aimed to develop a novel Geobacillus stearothermophilus strain with remarkable thermal resilience through an integrated approach combining adaptive laboratory evolution and rational genetic engineering. Progressive thermal adaptation (70–80 °C) followed by genome reduction generated a mutant (SL-1–80) with enhanced stability at 80 °C. Subsequent combinatorial overexpression of eight heat-associated genes (murD, cysM, grpE, groES, hsp33, hslO, hrcA, clpE) synergistically extended its survival to 85 °C. Genomic and transcriptomic analyses revealed a triple mechanism: (1) strategic deletion of transposable elements (IS5377/IS4/IS110) reduced genomic instability, (2) co-activation of chaperone systems (GroES-GrpE) and redox homeostasis enzymes (HslOHsp33) enhanced protein folding and oxidative stress resistance, and (3) metabolic plasticity (BglG and HTH-domain transcriptional repressor), motility optimization (FliY), and transcriptional reprogramming (Sigma-D, DUF47-family chaperone and HTH-domain transcriptional repressor) facilitated nutrient acquisition and motility-based environmental navigation under stress. Furthermore, we established the first high-efficiency electroporation protocol (104 transformants/µg DNA) for this genus, enabling ATP-enhanced heterologous protein expression under heat stress. This study provided a robust platform organism for high-temperature bioprocessing and a mechanistic blueprint for engineering microbial thermotolerance, addressing key limitations in applications such as microbial-enhanced oil recovery and industrial enzyme production.
工程微生物承受极端温度(80°C)仍然是工业生物技术的一个关键挑战,因为有限的遗传工具和对微生物热适应机制的了解不足。我们的目标是通过适应性实验室进化和合理基因工程相结合的综合方法,培养一种具有显著热弹性的新型嗜热硬脂地杆菌菌株。渐进式热适应(70-80°C),然后进行基因组还原,产生了在80°C下稳定性增强的突变体(SL-1-80)。随后,8个热相关基因(murD、cysM、grpE、groES、hsp33、hslO、hrcA、clpE)的组合过表达协同延长了其存活至85℃。基因组和转录组学分析揭示了三重机制:(1)转座元件(IS5377/IS4/IS110)的战略性缺失降低了基因组的不稳定性;(2)伴侣系统(GroES-GrpE)和氧化还原稳态酶(HslOHsp33)的共激活增强了蛋白质折叠和氧化应激抗性;(3)代谢可塑性(BglG和hth结构域转录抑制因子)、运动优化(fly)和转录重编程(Sigma-D);duf47(家族伴侣和hth结构域转录抑制因子)促进营养获取和应激下基于运动的环境导航。此外,我们为该属建立了第一个高效电穿孔协议(104个转化子/µg DNA),使atp增强的异种蛋白在热胁迫下表达。该研究为高温生物处理提供了一个强大的生物平台,并为工程微生物耐热性提供了一个机制蓝图,解决了微生物增强采油和工业酶生产等应用中的关键限制。
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引用次数: 0
A novel therapeutic strategy of methicillin-resistant Staphylococcus aureus 耐甲氧西林金黄色葡萄球菌的新治疗策略
Pub Date : 2025-09-01 Epub Date: 2025-08-14 DOI: 10.1016/j.engmic.2025.100231
Ying Wang , Mengyan Xu , Hanne Ingmer
Staphylococcus aureus is a major public health threat, largely due to its remarkable capacity to develop antimicrobial resistance. Zhang et al. recently demonstrated a highly innovative approach to eradicate chronic methicillin-resistant S. aureus infections by inducing bacterial calcification with antibody-polysialic acid conjugates targeting wall teichoic acids, while simultaneously modulating host immune responses via enhanced calprotectin expression and macrophage activation. Despite limitations, this strategy represents a promising and unconventional therapy to combat resistant S. aureus infections.
金黄色葡萄球菌是一种主要的公共卫生威胁,主要是由于其产生抗微生物药物耐药性的显著能力。Zhang等人最近展示了一种高度创新的方法,通过靶向壁壁壁酸的抗体-聚唾液酸偶联物诱导细菌钙化,同时通过增强钙保护蛋白表达和巨噬细胞激活来调节宿主免疫反应,从而根除慢性耐甲氧西林金黄色葡萄球菌感染。尽管有局限性,这种策略代表了一种有希望的和非传统的治疗方法来对抗耐药金黄色葡萄球菌感染。
{"title":"A novel therapeutic strategy of methicillin-resistant Staphylococcus aureus","authors":"Ying Wang ,&nbsp;Mengyan Xu ,&nbsp;Hanne Ingmer","doi":"10.1016/j.engmic.2025.100231","DOIUrl":"10.1016/j.engmic.2025.100231","url":null,"abstract":"<div><div><em>Staphylococcus aureus</em> is a major public health threat, largely due to its remarkable capacity to develop antimicrobial resistance. Zhang <em>et al.</em> recently demonstrated a highly innovative approach to eradicate chronic methicillin-resistant <em>S. aureus</em> infections by inducing bacterial calcification with antibody-polysialic acid conjugates targeting wall teichoic acids, while simultaneously modulating host immune responses via enhanced calprotectin expression and macrophage activation. Despite limitations, this strategy represents a promising and unconventional therapy to combat resistant <em>S. aureus</em> infections.</div></div>","PeriodicalId":100478,"journal":{"name":"Engineering Microbiology","volume":"5 3","pages":"Article 100231"},"PeriodicalIF":0.0,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144885416","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Analysis of single-cell RNA sequencing data to examine the gastric inflammation-to-cancer transition and evaluation of the effect of probiotic on precancerous lesions 单细胞RNA测序数据分析胃炎症-癌转化及益生菌对癌前病变影响的评价
Pub Date : 2025-09-01 Epub Date: 2025-05-09 DOI: 10.1016/j.engmic.2025.100208
Minmin Hu , Shiyang Xu , Ruofei Xu , Xiangjie Qi , Xiaofeng Yu , Jinqi Wang , Yige Li , Yangyang Liu , Guiran Xi , Junbao Yu , Mei Shi
Gastric cancer (GC) is the fifth most prevalent malignancy globally. However, its heterogeneity and asymptomatic early-stage development hinder timely diagnosis and effective treatment. Here, we employed single-cell RNA sequencing to delineate the transitional features of pit mucous cells (PMCs) during the gastritis-to-cancer transition and identified 100 core genes. Characterization of the gene set revealed the role of ribosomal protein small subunit and ribosomal protein large subunit in inflammation-to-cancer transition, which promoted ribonucleoprotein complex biogenesis and cytoplasmic translation. External validation using independent cohorts confirmed that this core gene set discriminated disease progression (AUC > 0.7) and was significantly enriched in GC tissues (p < 0.01). Moreover, we evaluated the therapeutic intervention effects of C. butyricum and synbiotics (Weichanghao®) using a rat model of gastritis and demonstrated the targeted suppression of inflammation-to-cancer transition genes. Our findings establish the basis for early diagnosis of GC through PMC-driven molecular dynamics. Additionally, we propose microbiota-based strategies to prevent the inflammation-to-cancer transition in preneoplastic stages. Furthermore, our results highlight that dysbiosis of the gastric microbiome can be addressed using probiotic supplementations and the core gene set may provide labeling for the evaluation of probiotics-based treatment.
胃癌是全球第五大最常见的恶性肿瘤。然而,其异质性和无症状的早期发展阻碍了及时诊断和有效治疗。在这里,我们使用单细胞RNA测序来描绘胃炎到癌症过渡过程中pit mucous细胞(PMCs)的过渡特征,并鉴定了100个核心基因。该基因组的特征揭示了核糖体蛋白小亚基和核糖体蛋白大亚基在炎症向癌症转化过程中的作用,促进了核糖核蛋白复合物的生物发生和细胞质翻译。使用独立队列的外部验证证实了该核心基因集区分疾病进展(AUC >;0.7),在GC组织中显著富集(p <;0.01)。此外,我们利用大鼠胃炎模型评估了丁酸梭菌和合成制剂(胃肠好®)的治疗干预效果,并证明了其对炎症-癌症过渡基因的靶向抑制。我们的研究结果为通过pmc驱动的分子动力学早期诊断GC奠定了基础。此外,我们提出了基于微生物群的策略来防止肿瘤前阶段的炎症到癌症的转变。此外,我们的研究结果强调,胃微生物群的生态失调可以通过补充益生菌来解决,核心基因集可以为益生菌治疗的评估提供标签。
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引用次数: 0
Production of cycloastragenol in metabolically engineered yeast 代谢工程酵母中环黄芪醇的生产
Pub Date : 2025-09-01 Epub Date: 2025-07-23 DOI: 10.1016/j.engmic.2025.100227
Jingxian Zhang , Peng Xu , Yongjun Wei
Cycloastragenol is a bioactive, high-value triterpenoid derived from Astragalus membranaceus. Conventional plant-based extraction and chemical synthesis methods are expensive. To our knowledge, this is the first report on the de novo biosynthesis of cycloastragenol in yeast. The mevalonate pathway was reconstituted in yeast peroxisomes, and the engineered yeast produced 656.55 mg/L squalene. Further introduction of heterologous enzymes led the engineered yeast to produce 1.04 mg/L cycloastragenol, which demonstrated the yeast production of value-added medicinal molecules.
环黄芪醇是一种从黄芪中提取的具有生物活性的高价值三萜。传统的植物提取和化学合成方法是昂贵的。据我们所知,这是关于酵母中环黄芪醇从头合成的第一篇报道。在酵母过氧化物酶体中重建甲羟戊酸途径,重组酵母产鲨烯656.55 mg/L。进一步引入外源酶,使工程酵母产生1.04 mg/L的环黄芪醇,证明了酵母生产增值药物分子的能力。
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引用次数: 0
Carbon sequestration pathways in microorganisms: Advances, strategies, and applications 微生物中的碳固存途径:进展、策略和应用
Pub Date : 2025-06-01 Epub Date: 2025-03-08 DOI: 10.1016/j.engmic.2025.100196
Shupeng Ruan , Yuchen Jiang , Aoxue Wang , Xinying Zhang , Ying Lin , Shuli Liang
In recent years, industrial activities have significantly increased atmospheric CO2 levels, exacerbating global warming. Carbon reduction involves implementing measures to minimize CO2 emissions from human activities and achieve a balance between carbon absorption and emissions. Therefore, effective reduction of CO2 emissions is crucial. Conventional physical and chemical methods for CO₂ fixation frequently cause secondary environmental pollution. As a result, utilizing microorganisms for CO2 fixation has gained considerable interest. This review provides an overview of the natural pathways for microbial CO2 fixation, recent advancements in artificial CO2 fixation, and strategies for enhancing the efficiency of microbial CO2 fixation. We also discuss the conversion of CO2 into diverse metabolic products and high-value chemicals. By identifying efficient carbon fixation pathways for microorganisms, this review aims to lay the foundation for the biological production of high-value chemicals using CO2 as a raw material.
近年来,工业活动显著增加了大气中的二氧化碳水平,加剧了全球变暖。碳减排涉及采取措施,尽量减少人类活动产生的二氧化碳排放,实现碳吸收和排放之间的平衡。因此,有效减少二氧化碳排放至关重要。传统的物理和化学固定CO₂的方法经常造成二次环境污染。因此,利用微生物固定二氧化碳已经引起了相当大的兴趣。本文综述了微生物固定CO2的自然途径、人工固定CO2的最新进展以及提高微生物固定CO2效率的策略。我们还讨论了二氧化碳转化为各种代谢产物和高价值化学品的问题。通过确定微生物的高效固碳途径,为以二氧化碳为原料的高价值化学品的生物生产奠定基础。
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引用次数: 0
期刊
Engineering Microbiology
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