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Multisite Cre-lox recombination enables regulatory mechanism elucidation and systematic engineering of echinocandin B biosynthesis in Aspergillus nidulans 多位点Cre-lox重组实现棘球白菌B生物合成调控机制阐明及系统工程
IF 6.8 1区 生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2026-04-01 Epub Date: 2026-01-22 DOI: 10.1016/j.ymben.2026.01.009
Youchu Ma , Yue Zhang , Dongfang Zhang , Yue Tang , Wanyu Zhang , Liyuan Yue , Wenqing Lou , Chao Meng , Yanling Li , Xiulai Chen , Fanglong Zhao
Echinocandin B (ECB), a cyclic lipohexapeptide for synthesizing antifungal drugs, is produced by the nonribosomal peptide synthetase gene cluster in Aspergillus nidulans. However, industrial production remains limited by the inefficiency of production capacity, primarily due to the complexity of the biosynthetic pathway and the absence of multi-gene regulatory tools in filamentous fungi. Here, we established an orthogonal Cre-lox-based platform enabling single-site insertion of up to 30 kb and simultaneous dual-site integration of 10 kb DNA fragments in A. nidulans. Through precursor supplementation and targeted gene overexpression, we identified key enzymatic bottlenecks in the precursor biosynthetic pathway, including the oxygenases AniF, AniK, AniG, and the acyl-AMP ligase AniI. Combinatorial overexpression of these genes acted synergistically to increase ECB titers. We further addressed bottlenecks in natural amino acid biosynthesis by overexpressing feedback-resistant mutants of Hom3 (L-Thr pathway) and LeuC (L-Leu pathway). Additionally, we uncovered a temperature-dependent regulation mechanism whereby low temperature (25 °C) concurrently upregulates both the ECB biosynthetic gene cluster and odeA gene, encoding Δ12-oleic acid desaturase, thereby increasing linoleic acid availability for ECB production. Leveraging our multisite DNA-integration platform to rewire expression of these key genes, we increased ECB production to 3.5 ± 0.2 g/L in a 5-L fed-batch bioreactor, a 2.3-fold improvement that represents the highest titer reported in the literature to date. Our orthogonal dual-site integration strategy and the systematic optimization approach provide a valuable framework for metabolic engineering of complex natural products in filamentous fungi.
棘白菌素B (Echinocandin B, ECB)是一种合成抗真菌药物的环脂六肽,由细粒曲霉非核糖体肽合成酶基因簇产生。然而,工业生产仍然受到生产能力低下的限制,这主要是由于丝状真菌生物合成途径的复杂性和缺乏多基因调控工具。在这里,我们建立了一个基于cre -lox的正交平台,可以在A. nidulans中单位点插入最多30 kb的DNA片段,同时在双位点整合10 kb的DNA片段。通过前体补充和靶向基因过表达,我们确定了前体生物合成途径中的关键酶瓶颈,包括加氧酶AniF、AniK、AniG和酰基- amp连接酶AniI。这些基因的组合过表达协同作用增加了ECB滴度。我们通过过表达Hom3 (L-Thr通路)和LeuC (L-Leu通路)的反馈抗性突变体进一步解决了天然氨基酸生物合成的瓶颈。此外,我们发现了一种温度依赖的调节机制,即低温(25°C)同时上调ECB生物合成基因簇和odeA基因,编码Δ12-oleic酸去饱和酶,从而增加ECB生产的亚油酸可用性。利用我们的多位点dna整合平台重新连接这些关键基因的表达,我们将ECB的产量提高到3.5±0.2 g/L,在5-L进料批式生物反应器中,提高了2.3倍,代表了迄今为止文献报道的最高滴度。我们的正交双位点整合策略和系统优化方法为丝状真菌复杂天然产物的代谢工程提供了一个有价值的框架。
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引用次数: 0
Investigating overflow metabolism in heterotrophic cultures of the green alga Chromochloris zofingiensis zoofingiensis绿绿藻异养培养中溢流代谢的研究
IF 6.8 1区 生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2026-04-01 Epub Date: 2026-01-16 DOI: 10.1016/j.ymben.2026.01.007
Michelle Meagher , Dimitrios J. Camacho , Sean D. Gallaher , Sabeeha S. Merchant , Nanette R. Boyle
Chromochloris zofingiensis is of interest for its ability to perform a reversible trophic switch in the presence of glucose that is characterized by a shutdown of photosynthesis and an accumulation of energy storage metabolites. Previous work has shown that this trophic switch is accompanied by overflow metabolism and the production of lactate in aerobic conditions. This trophic switch is not observed in nutrient replete media. We utilized isotopically assisted metabolic flux analysis to characterize intracellular flux distributions that are associated with different metabolic phenotypes observed in this organism in different media formulations in light and dark conditions. The results of this analysis showed that low iron cultures have no flux through carbon fixation reactions, and that the carbon flux entering the TCA cycle in these cultures is approximately 40 % lower than that in iron replete cultures grown heterotrophically. This analysis was complemented with transcriptomics data collected for C. zofingiensis grown in iron limited conditions to provide further evidence towards the negative impact of iron limitation on both photosynthetic and respiratory activity. Overflow metabolism allows this alga to compensate for the lower energy production that results from iron limitation. This work highlights how nutrient availability can lead to changes in the metabolism of C. zofingiensis.
zoofingiensis因其在葡萄糖存在下进行可逆营养开关的能力而受到关注,其特征是光合作用的关闭和能量储存代谢物的积累。先前的研究表明,在有氧条件下,这种营养转换伴随着溢出代谢和乳酸的产生。在营养丰富的培养基中没有观察到这种营养转换。我们利用同位素辅助代谢通量分析来表征与不同代谢表型相关的细胞内通量分布,这些分布在不同的培养基配方中,在光照和黑暗条件下观察到。分析结果表明,低铁培养物没有碳固定反应的通量,并且在这些培养物中进入TCA循环的碳通量比异养培养的富铁培养物低约40%。该分析与在铁限制条件下生长的zofingiensis的转录组学数据相补充,为铁限制对光合和呼吸活性的负面影响提供了进一步的证据。溢出代谢允许这种藻类补偿由于铁限制而导致的较低的能量生产。这项工作强调了营养的可用性如何导致梭菌代谢的变化。
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引用次数: 0
Reconstruction of arginine deiminase pathway sustains a higher-energy state in mammalian cells 精氨酸脱亚胺酶途径的重建维持了哺乳动物细胞的高能量状态
IF 6.8 1区 生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2026-04-01 Epub Date: 2026-02-10 DOI: 10.1016/j.ymben.2026.02.004
Mauro Torres , Matthew Reaney , Kate Meeson , Devika Kalsi , Leon P. Pybus , Alan J. Dickson
ATP is the universal “energy currency” of the cell, and its supply may represent one of several limiting factors influencing the productivity of mammalian cell factories. Here, we present a novel, mitochondria-independent approach to enhance cellular energy metabolism. We engineered Chinese hamster ovary (CHO) cells to express the bacterial arginine deiminase (ADI) pathway along with two arginine transporters. This system enables the direct, cytosolic conversion of arginine to ATP, effectively generating energy without relying solely on the cell's native metabolic machinery. ADI pathway expression was associated with intracellular ATP and concurrent improvements in culture performance across different CHO cell backgrounds. In contrast, cell lines engineered only for enhanced arginine uptake showed no performance gain, consistent with the hypothesis that de-novo ATP generation may contribute to improve productivity. Metabolic profiling revealed that the ADI pathway affects cellular metabolism. We observed a downshift in glycolysis, characterized by decreased glucose consumption and reduced lactate and alanine production, while amino acid and TCA cycle intermediaries remained broadly unchanged. Adenylate measurements and AMPK signalling analysis confirmed a higher energy state (ATP↑, ADP/ATP↓, p-AMPK/AMPK↓) in engineered cells. Supplementing the cell culture medium with arginine or citrulline was associated with further increases in growth and mAb titres in ADI-expressing cells. These results establish the ADI pathway as a powerful and distinct method for enhancing cellular energy. This mitochondria-independent approach highlights a new paradigm for improving the efficiency of industrial bioprocesses.
ATP是细胞的通用“能量货币”,其供应可能是影响哺乳动物细胞工厂生产力的几个限制因素之一。在这里,我们提出了一种新的,线粒体独立的方法来增强细胞能量代谢。我们设计了中国仓鼠卵巢(CHO)细胞表达细菌精氨酸脱亚胺酶(ADI)途径以及两种精氨酸转运蛋白。该系统使精氨酸直接胞质转化为ATP,有效地产生能量,而不依赖于细胞的天然代谢机制。在不同的CHO细胞背景下,ADI通路的表达与细胞内ATP和同时改善的培养性能有关。相比之下,仅为增强精氨酸摄取而设计的细胞系没有表现出性能的提高,这与去novo ATP生成可能有助于提高生产力的假设一致。代谢分析显示,ADI通路影响细胞代谢。我们观察到糖酵解的下降,其特征是葡萄糖消耗减少,乳酸和丙氨酸产量减少,而氨基酸和TCA循环中间体基本保持不变。腺苷酸测量和AMPK信号传导分析证实,在工程细胞中存在更高的能量状态(ATP↑,ADP/ATP↓,p-AMPK/AMPK↓)。在细胞培养基中添加精氨酸或瓜氨酸与表达adi的细胞的生长和单克隆抗体滴度的进一步增加有关。这些结果确立了ADI通路是增强细胞能量的一种强大而独特的方法。这种线粒体独立的方法强调了提高工业生物过程效率的新范式。
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引用次数: 0
Metabolic engineering of Escherichia coli for the high-level production of putrescine 大肠杆菌代谢工程高产腐胺的研究。
IF 6.8 1区 生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2026-04-01 Epub Date: 2026-01-16 DOI: 10.1016/j.ymben.2026.01.006
Yoo-Sung Ko , Je Woong Kim , Alisher Nazarbekov , Gi Bae Kim , Sang Yup Lee
Putrescine is an important platform chemical used in the manufacture of engineering plastics. To support the development of a sustainable plastics industry, microbial production of putrescine from renewable resources has attracted increasing attention. In this study, we report the development of an engineered Escherichia coli strain capable of efficiently producing putrescine. To overcome the limitation caused by putrescine toxicity, the previously developed XQ52 strain (a W3110-derived putrescine-producing strain) was subjected to adaptive laboratory evolution, resulting in the AXQ52 strain, which produced 61.7 g/L of putrescine in fed-batch fermentation. This titer surpassed the natural tolerance threshold of E. coli. Genome sequencing of the AXQ52 strain revealed mutations that improved cellular fitness under high putrescine concentrations. Further production improvements were achieved by fine-tuning the expression of phosphoenolpyruvate carboxylase gene, introducing a heterologous ornithine acetyltransferase, and disrupting glutamate decarboxylase. The final engineered strain produced 72.7 g/L of putrescine with a yield of 0.25 g/g glucose and a productivity of 1.28 g/L/h, representing the highest microbial putrescine production reported to date from a simple carbon source.
腐胺是制造工程塑料的重要平台化学品。为了支持可持续塑料工业的发展,利用可再生资源微生物生产腐胺已引起越来越多的关注。在这项研究中,我们报道了一种能够有效生产腐胺的工程大肠杆菌菌株的发展。为了克服腐胺毒性的限制,将之前开发的XQ52菌株(w3110衍生的腐胺产生菌株)进行适应性实验室进化,得到了在分批补料发酵中产生61.7 g/L腐胺的AXQ52菌株。该滴度超过了大肠杆菌的自然耐受阈值。AXQ52菌株的基因组测序揭示了在高腐胺浓度下提高细胞适应性的突变。通过微调磷酸烯醇丙酮酸羧化酶基因的表达、引入异源鸟氨酸乙酰转移酶和破坏谷氨酸脱羧酶,进一步提高了产量。最终的工程菌株产生了72.7 g/L的腐胺,产率为0.25 g/g葡萄糖和1.28 g/L/h,代表了迄今为止报道的从简单碳源产生的最高微生物腐胺产量。
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引用次数: 0
Omics analyses decoding mechanisms underlying the self-flocculating phenotype of yeast cells and stress tolerance for robust production 组学分析了酵母细胞自絮凝表型和抗逆性的解码机制。
IF 6.8 1区 生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2026-04-01 Epub Date: 2026-01-07 DOI: 10.1016/j.ymben.2026.01.003
Xue Zhang , Yang Dai , Xin-Qing Zhao , Chen-Guang Liu , Zhuo Wang , Feng-Wu Bai
A unique self-flocculating yeast strain SPSC01 was developed through protoplast fusion for fuel ethanol production with high product titers. In this study, we conducted comparative multi-omics analyses on SPSC01 to elucidate mechanisms underlying its self-flocculating phenotype and associated stress tolerance, the most desirable merit for robust production in industry. Leveraging two cutting-edge third-generation sequencing technologies, we achieved a gapless high-quality and chromosome-level assembly for the genomes of SPSC01 and its parental strains. Through comprehensive genome analyses, we identified 25 unique genes that are absent in the parental strains, along with 13 novel genes with unknown functions. The self-flocculation of yeast cells is driven by the copy number of genetic variations and significantly upregulated transcription of FLO genes. Mutations in both cis- and trans-regulatory elements contribute to the constitutive expression of FLO1 and its derivative genes, a prerequisite for developing the self-flocculating phenotype. Notably, we discovered a novel small protein G12 that harbors a zinc finger domain, and its overexpression substantially enhanced ethanol production of engineered yeast strains. Furthermore, alterations in metabolic pathways with ergosterol, glutathione, amino acid, and glycerophospholipid are implicated for developing tolerance to ethanol and major inhibitors acetic acid and furfural that are released during the pretreatment of lignocellulosic biomass. The progress provides strategies for engineering yeast cell factories with robustness through rational design to produce biofuels and bio-based chemicals with high product titers and productivities, in particular with the biorefinery of lignocellulosic biomass for sustainable socioeconomic development.
通过原生质体融合培养出一株独特的自絮凝酵母菌SPSC01,用于生产高滴度的燃料乙醇。在这项研究中,我们对SPSC01进行了比较多组学分析,以阐明其自絮凝表型和相关抗逆性的机制,这是工业上健壮生产最理想的优点。利用两种先进的第三代测序技术,我们实现了SPSC01及其亲本菌株基因组的无间隙高质量和染色体水平组装。通过全面的基因组分析,我们鉴定出25个亲本株中缺失的独特基因,以及13个功能未知的新基因。酵母细胞的自絮凝是由遗传变异的拷贝数和FLO基因转录的显著上调驱动的。顺式和反式调控元件的突变有助于FLO1及其衍生基因的组成表达,这是发展自絮凝表型的先决条件。值得注意的是,我们发现了一种含有锌指结构域的新型小蛋白G12,它的过表达大大提高了工程酵母菌株的乙醇产量。此外,麦角甾醇、谷胱甘肽、氨基酸和甘油磷脂代谢途径的改变与对乙醇和主要抑制剂醋酸和糠醛的耐受性有关,这些抑制剂在木质纤维素生物质预处理过程中释放。这一进展为工程酵母细胞工厂提供了策略,通过合理的设计来生产具有高产品滴度和生产率的生物燃料和生物基化学品,特别是木质纤维素生物质的生物炼制,以实现可持续的社会经济发展。
{"title":"Omics analyses decoding mechanisms underlying the self-flocculating phenotype of yeast cells and stress tolerance for robust production","authors":"Xue Zhang ,&nbsp;Yang Dai ,&nbsp;Xin-Qing Zhao ,&nbsp;Chen-Guang Liu ,&nbsp;Zhuo Wang ,&nbsp;Feng-Wu Bai","doi":"10.1016/j.ymben.2026.01.003","DOIUrl":"10.1016/j.ymben.2026.01.003","url":null,"abstract":"<div><div>A unique self-flocculating yeast strain SPSC01 was developed through protoplast fusion for fuel ethanol production with high product titers. In this study, we conducted comparative multi-omics analyses on SPSC01 to elucidate mechanisms underlying its self-flocculating phenotype and associated stress tolerance, the most desirable merit for robust production in industry. Leveraging two cutting-edge third-generation sequencing technologies, we achieved a gapless high-quality and chromosome-level assembly for the genomes of SPSC01 and its parental strains. Through comprehensive genome analyses, we identified 25 unique genes that are absent in the parental strains, along with 13 novel genes with unknown functions. The self-flocculation of yeast cells is driven by the copy number of genetic variations and significantly upregulated transcription of <em>FLO</em> genes. Mutations in both <em>cis</em>- and <em>trans</em>-regulatory elements contribute to the constitutive expression of <em>FLO1</em> and its derivative genes, a prerequisite for developing the self-flocculating phenotype. Notably, we discovered a novel small protein G12 that harbors a zinc finger domain, and its overexpression substantially enhanced ethanol production of engineered yeast strains. Furthermore, alterations in metabolic pathways with ergosterol, glutathione, amino acid, and glycerophospholipid are implicated for developing tolerance to ethanol and major inhibitors acetic acid and furfural that are released during the pretreatment of lignocellulosic biomass. The progress provides strategies for engineering yeast cell factories with robustness through rational design to produce biofuels and bio-based chemicals with high product titers and productivities, in particular with the biorefinery of lignocellulosic biomass for sustainable socioeconomic development.</div></div>","PeriodicalId":18483,"journal":{"name":"Metabolic engineering","volume":"95 ","pages":"Pages 77-89"},"PeriodicalIF":6.8,"publicationDate":"2026-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145937781","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Engineering Halomonas bluephagenesis for high-efficiency biosynthesis of pyruvate 丙酮酸高效生物合成的工程产蓝盐单胞菌
IF 6.8 1区 生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2026-04-01 Epub Date: 2026-02-08 DOI: 10.1016/j.ymben.2026.02.003
Kang Wang , Zonghao Zhang , Zhongnan Zhang , Fuqing Wu , Guo-Qiang Chen
Pyruvate, a C3 platform compound, has significant applications across multiple sectors, including bio-based materials (e.g., polylactic acid), pharmaceutical intermediates (such as L-alanine), and food additives. Biomanufacturing via microbial fermentation provides renewable feedstocks and cleaner processes compared to traditional petroleum-based methods. This study explores the extremophilic halophile Halomonas bluephagenesis TD01 as a chassis organism for pyruvate production. To enhance pyruvate synthesis, several engineering strategies were implemented, including blocking the primary carbon consumption pathway, eliminating pyruvate bypass degradation, reducing tricarboxylic acid cycle activity, removing the glycolic acid cycle, regulating transcription factors, and minimizing pyruvate reabsorption and utilization. The engineered H. bluephagenesis TD1.24 produced 39 g/L pyruvate in a 50-h non-sterile fed-batch fermentation. Simultaneously, the high-pyruvate-producing strains showed improved conversion rate of PHB and efficient acetoin synthesis. H. bluephagenesis demonstrated robustness as a chassis for next generation industrial biotechnology (NGIB), enabling the production of both its native and a broader range of biological products.
丙酮酸是一种C3平台化合物,在多个领域都有重要的应用,包括生物基材料(如聚乳酸)、医药中间体(如l -丙氨酸)和食品添加剂。与传统的基于石油的方法相比,通过微生物发酵的生物制造提供了可再生的原料和更清洁的过程。本研究探讨了极端嗜盐菌嗜蓝嗜盐盐单胞菌TD01作为丙酮酸生产的基础生物。为了提高丙酮酸的合成,研究人员实施了几种工程策略,包括阻断初级碳消耗途径、消除丙酮酸旁路降解、降低三羧酸循环活性、去除乙醇酸循环、调节转录因子、减少丙酮酸的重吸收和利用。经过工程改造的蓝芽胞杆菌TD1.24在50小时的非无菌分批补料发酵中产生39 g/L的丙酮酸。同时,高丙酮酸产菌PHB转化率提高,乙酰素合成效率提高。H. bluephagenesis表现出作为下一代工业生物技术(NGIB)的坚实基础,能够生产其原生和更广泛的生物产品。
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引用次数: 0
Engineering xylose catabolism in the yeast Komagataella phaffii 法菲黑马酵母木糖分解代谢的工程研究
IF 6.8 1区 生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2026-04-01 Epub Date: 2026-02-06 DOI: 10.1016/j.ymben.2026.02.001
Kun Zhang , Xin Ni , Peng Cai , Yongjin J. Zhou
Efficient xylose utilization is crucial for biomass hydrolysate valorization. However, Komagataella phaffii cannot efficiently utilize xylose. Here, we constructed xylose isomerase (XI)-xylulokinase (XK) pathway, nonoxidative pentose phosphate pathway (PPP), and nonoxidative glycolysis (NOG) pathway in K. phaffii to increase cell growth on xylose. Additionally, the bypass pathway of xylose metabolism, the high osmolarity glycerol/mitogen-activated protein kinase (HOG-MAPK) signaling pathway, and possible negative transcription factors were blocked to further promote xylose catabolism. Moreover, adaptive laboratory evolution (ALE) dramatically improved xylose utilization, and six potential targets were identified through multiomics and reverse engineering. The engineered strain exhibited the highest reported specific growth rate μmax of up to 0.042 h−1 and lag time of 25.0 h with a biomass yield of 0.366 g dry cell weight/g from sole xylose in minimal media. This strain also showed faster metabolite turnover, efficient free fatty acid (FFA) production and partial amelioration of glucose repression effect from xylose alone. The engineered metabolic plasticity described here will facilitate the regulation of xylose catabolism in other nonnative xylose-consuming yeasts.
木糖的高效利用是生物质水解液增值的关键。然而,棕菲草不能有效地利用木糖。本研究通过构建木糖异构酶(XI)-木糖激酶(XK)途径、非氧化戊糖磷酸途径(PPP)和非氧化糖酵解(NOG)途径来促进菲氏K. phaffii细胞对木糖的生长。此外,木糖代谢的旁路通路、高渗透压甘油/丝裂原活化蛋白激酶(HOG-MAPK)信号通路和可能的负转录因子被阻断,进一步促进木糖分解代谢。此外,适应性实验室进化(ALE)显著提高了木糖的利用率,并通过多组学和逆向工程确定了6个潜在靶点。在最小培养基条件下,该菌株的特定生长速率μmax可达0.042 h−1,滞后时间为25.0 h,单株木糖的生物量为0.366 g干细胞重/g。该菌株还表现出更快的代谢物转换,有效的游离脂肪酸(FFA)产生和木糖单独部分改善葡萄糖抑制作用。这里描述的工程代谢可塑性将促进其他非原生木糖消耗酵母木糖分解代谢的调节。
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引用次数: 0
Systematic study of genomic loci in Escherichia coli B and K12 for genomic integration: application in plasmid-free astaxanthin production. 大肠杆菌B和K12基因组位点的系统研究及其在无质粒虾青素生产中的应用。
IF 8.4 1区 生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2026-03-24 DOI: 10.1016/j.ymben.2026.03.013
Ngoc-Phuong-Thao Nguyen,Leonard Ong,Congqiang Zhang
Escherichia coli is a major workhorse for industrial biotechnology, yet reliance on plasmids is hindered by intrinsic instability. While genomic integration offers superior stability, it remains challenging for integrating large DNA fragments, particularly in difficult-to-engineer B strains (e.g., BL21) compared to K12 strains like MG1655. Moreover, a systematic study comparing genomic expression across B and K12 strains and different loci is absent. To address these issues, we firstly refined a CRISPR methodology that achieved unprecedented integration efficiencies in both strains: 40% for single-step insertion of a 17.5-kbp fragment in BL21 and 100% for a 9.5-kbp fragment in MG1655. Using this updated workflow, we rationally screened and compared 10 genomic loci in BL21 and MG1655 across varying media. The results demonstrated that host strain and genomic locus selection are more critical for expression than carbon source or medium composition. Although BL21 generally exhibits higher gene expression than MG1655, expression at certain loci can be very low. Therefore, we highlight the need for greater caution in locus selection for BL21 due to its higher variability. We leverage our validated loci for the scarless and marker-less integration of the astaxanthin synthesis pathway (23 genes, including multi-copy key genes, crtY, crtZ, crtW, crtE, crtB, and crtI) into the BL21 chromosome. The resulting plasmid-free strain produced 426 mg/L astaxanthin in glucose defined medium, showcasing a robust and generalizable strategy for complex pathway integration and optimization in challenging host strains.
大肠杆菌是工业生物技术的主要主力,但对质粒的依赖受到内在不稳定性的阻碍。虽然基因组整合提供了优越的稳定性,但与MG1655等K12菌株相比,整合大片段DNA仍然具有挑战性,特别是在难以工程的B菌株(例如BL21)中。此外,还没有系统的研究比较B和K12菌株和不同位点的基因组表达。为了解决这些问题,我们首先改进了一种CRISPR方法,该方法在两种菌株中实现了前所未有的整合效率:BL21中17.5 kbp片段的单步插入率为40%,MG1655中9.5 kbp片段的单步插入率为100%。利用这一更新的工作流程,我们合理地筛选和比较了BL21和MG1655在不同介质中的10个基因组位点。结果表明,寄主菌株和基因组位点的选择比碳源或培养基组成更重要。虽然BL21普遍表现出比MG1655更高的基因表达,但某些位点的表达可能非常低。因此,我们强调,由于BL21的高变异性,在基因座选择时需要更加谨慎。我们利用我们验证的基因座将虾青素合成途径(23个基因,包括多拷贝关键基因,crtY, crtZ, crtW, crtE, crtB和crtI)无疤痕和无标记地整合到BL21染色体上。得到的无质粒菌株在葡萄糖培养基中产生426 mg/L虾青素,在具有挑战性的宿主菌株中展示了复杂途径整合和优化的强大且可推广的策略。
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引用次数: 0
Metabolic Engineering of Microbial Pathways for 5-Aminolevulinic Acid Biosynthesis: Recent Advances and Biotechnological Applications 5-氨基乙酰丙酸生物合成微生物途径的代谢工程:最新进展及生物技术应用
IF 8.4 1区 生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2026-03-23 DOI: 10.1016/j.ymben.2026.03.012
Shahid Mahmood, Abdullah Arsalan, Muhammad Shoaib, Shengli Yang
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引用次数: 0
Expression of the extracellular electron transfer pathway of Acidithiobacillus ferrooxidans enabling Fe(III)-citrate reduction and anodic respiration in Escherichia coli 酸性氧化亚铁硫杆菌胞外电子传递途径在大肠杆菌中的表达,使铁(III)-柠檬酸还原和阳极呼吸
IF 8.4 1区 生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2026-03-23 DOI: 10.1016/j.ymben.2026.03.011
Helena Fuchs, Charlotte Ashworth-Güth, Gero Frisch, Sabrina Hedrich
{"title":"Expression of the extracellular electron transfer pathway of Acidithiobacillus ferrooxidans enabling Fe(III)-citrate reduction and anodic respiration in Escherichia coli","authors":"Helena Fuchs, Charlotte Ashworth-Güth, Gero Frisch, Sabrina Hedrich","doi":"10.1016/j.ymben.2026.03.011","DOIUrl":"https://doi.org/10.1016/j.ymben.2026.03.011","url":null,"abstract":"","PeriodicalId":18483,"journal":{"name":"Metabolic engineering","volume":"17 1","pages":""},"PeriodicalIF":8.4,"publicationDate":"2026-03-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147501754","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
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Metabolic engineering
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