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Antimicrobial film from poly(butylene succinate) and cymophenol as a sustainable approach to food waste reduction: antimicrobial properties and its effects on soil microorganism, brine shrimp (Artemia salina) and fresh strawberry. 聚丁二酸丁二烯和氯苯酚抗菌膜作为可持续减少食物浪费的方法:抗菌性能及其对土壤微生物、卤虾和新鲜草莓的影响。
IF 6.5 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-10-29 DOI: 10.1186/s13036-025-00565-1
Benjatham Sukkaneewat, Kamonchai Cha-Aim, Sirijutaratana Covavisaruch, Phisut Naknaen, Jakkid Sanetuntikul, Nawadon Petchwattana

To develop antimicrobial films for active food packaging applications, poly(butylene succinate) (PBS) was fabricated into films of varying thicknesses (50, 75 and 100 μm) and incorporated with different cymophenol concentrations (0 to 10 wt%). The results demonstrated that cymophenol functioned not only as an antimicrobial agent but also as a plasticizer, enhancing the essential properties required for food packaging films. The films effectively inhibited the growth of Staphylococcus aureus and Escherichia coli at cymophenol concentrations of 6 and 8 wt%, respectively. Both increased cymophenol content and film thickness contributed to improved mechanical properties, particularly by elevating stretchability. Release tests indicated that thicker films exhibited higher cymophenol migration, which correlated with an increased diffusion coefficient. Besides packaging film properties, the PBS/cymophenol plates, particularly at 100 μm thickness, presented an alternative function to enhance the shelf-life extension of strawberries by reducing yeast and mold growth. Soil microorganism vitality tests on sixteen isolated soil microbial strains showed that the antimicrobial films did not hinder the soil microbial population growth, confirming their potential to retain biodegradability. Additionally, the survival rates of brine shrimp after five days were significantly reduced when stored in PBS and PBS/cymophenol. Based on these findings, antimicrobial PBS/cymophenol films are proposed as sustainable, biodegradable active packaging materials that combine strong antimicrobial activity with environmental safety in terrestrial conditions and can be easily integrated into various food containers.

为了开发用于活性食品包装的抗菌薄膜,将聚琥珀酸丁烯(PBS)制成不同厚度的薄膜(50、75和100 μm),并加入不同浓度的氯酚(0 ~ 10 wt%)。结果表明,氯酚不仅可以作为抗菌剂,还可以作为增塑剂,提高食品包装膜的基本性能。在氯酚浓度分别为6%和8%时,该膜能有效抑制金黄色葡萄球菌和大肠杆菌的生长。增加氯酚含量和薄膜厚度都有助于改善机械性能,特别是通过提高拉伸性。释放试验表明,较厚的膜具有较高的氯酚迁移率,这与扩散系数的增加有关。除了包装薄膜的性能外,PBS/ cyphenol板,特别是在100 μm厚度下,还可以通过减少酵母和霉菌的生长来延长草莓的保质期。对16株分离的土壤微生物菌种进行了土壤微生物活力测试,结果表明抗菌膜不会阻碍土壤微生物种群的生长,证实了其保持生物降解性的潜力。另外,PBS和PBS/cymophenol中保存5 d后,盐水对虾的存活率显著降低。基于这些发现,抗菌PBS/氯苯酚薄膜被认为是一种可持续的、可生物降解的活性包装材料,它结合了强大的抗菌活性和在陆地条件下的环境安全性,可以很容易地集成到各种食品容器中。
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引用次数: 0
Correction: Hyperactivation of crosslinked lipases in elastic hydroxyapatite microgel and their properties. 修正:弹性羟基磷灰石微凝胶中交联脂肪酶的过度活化及其性质。
IF 6.5 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-10-20 DOI: 10.1186/s13036-025-00559-z
Hyo Won Jeon, Jun Seop Lee, Chan Hee Lee, Dain Kim, Hye Sun Lee, Ee Taek Hwang
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引用次数: 0
Bioimaging application and growth-promoting behavior of Auxin-derived carbon dots on cancer cell and seed performance. 生长素碳点在肿瘤细胞和种子性能上的生物成像应用和促生长行为。
IF 6.5 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-10-17 DOI: 10.1186/s13036-025-00563-3
Ghasem Noorkhajavi, Meysam Najaflou, Hana Farsinezhad, Afagh Yavari, Sonia Fathi-Karkan, Mehdi Shahgolzari

Auxin-derived carbon dots (Aux-CDs) were synthesized and evaluated for their dual functionality in biomedical and agricultural contexts. One-step hydrothermal synthesis was employed for the first time to produce eco-friendly and cost-effective Aux-CDs. The approach involves introducing a mixture of Auxin and water into the reactor. The fluorescence in the Aux-CDs was initially confirmed using a UV transilluminator. Physicochemical characterizations were evaluated via UV-Vis spectrophotometry (absorbance at 470 nm), zeta potential measurement (-37.8 mV), photoluminescence, scanning electron microscopy (SEM), and Fourier transform infrared (FT-IR). The total quantum yield exhibited was 43%, and the transmission electron microscopy (TEM) showed a size range of approximately 10 nm. In cancer cells, the MTT assay revealed that Aux-CDs demonstrated low cytotoxicity in 4T1 cells up to 10 µg/mL. The fluorescence accumulation indicates the internalization of the Aux-CDs by 4T1 cells. In seed performance, we examined the effects of Aux-CDs on through nanopriming. The wheat seeds (the Drum and Ehsan varieties) were incubated with CDs to check the absorption of Aux-CDs by them. The fluorescence was observed under a UV-transilluminator in the growing parts of seeds, indicating the absorption of Aux-CDs during wheat growth. Cancer cell and wheat imaging showed that fluorescent Aux-CDs could be used as a bioimaging agent. Additionally, Aux-CDs significantly improved seed germination percentage and the performance index in the Drum and Ehsan varieties in low concentration (1 µg/mL) compared to high concentration (10 µg/mL). Consequently, Aux-CDs synthesized via a one-step hydrothermal method exhibit high quantum yield and biocompatibility, and can act as multifunctional nanomaterials for bioimaging and plant growth enhancement in biomedical and agricultural research.

合成了生长素衍生碳点(Aux-CDs),并对其在生物医学和农业领域的双重功能进行了评价。首次采用一步水热合成法制备了环保、经济的Aux-CDs。该方法包括将生长素和水的混合物引入反应器。Aux-CDs中的荧光最初是用紫外透照器确认的。通过紫外-可见分光光度法(470 nm吸光度)、zeta电位测量(-37.8 mV)、光致发光、扫描电子显微镜(SEM)和傅里叶变换红外(FT-IR)对其进行了理化表征。总量子产率为43%,透射电子显微镜(TEM)显示尺寸范围约为10 nm。在癌细胞中,MTT实验显示Aux-CDs在4T1细胞中表现出低细胞毒性,高达10 μ g/mL。荧光积累表明4T1细胞内化了Aux-CDs。在种子性能方面,我们研究了Aux-CDs对通过纳米雾化的影响。用cd孵育小麦种子(Drum和Ehsan品种),考察其对Aux-CDs的吸收。在紫外透照器下,在种子生长部位观察到荧光,表明小麦生长过程中对Aux-CDs的吸收。癌细胞和小麦成像结果表明,荧光Aux-CDs可作为生物显像剂。此外,与高浓度(10µg/mL)相比,低浓度(1µg/mL)的Aux-CDs显著提高了Drum和Ehsan品种的种子发芽率和性能指标。因此,通过一步水热法合成的Aux-CDs具有高量子产率和生物相容性,可以作为生物医学和农业研究中生物成像和植物生长促进的多功能纳米材料。
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引用次数: 0
Quantitative impedance-based characterization of breast cancer cell migration and metastatic potential. 基于阻抗的乳腺癌细胞迁移和转移潜能的定量表征。
IF 6.5 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-10-09 DOI: 10.1186/s13036-025-00561-5
Kyndra S Higgins, Cheryl T Gomillion

Background: Cellular impedance-based assays offer a sensitive, label-free, and non-destructive method to continuously monitor cells in real time, allowing the assessment of both kinetics and degree of migration for breast cancer cells. A scratch assay is one of the most commonly used methods for testing cell migration in a two-dimensional (2D) monolayer culture. Traditional methods to evaluate 2D cancer migration commonly use image analysis to determine the rate of wound closure over a set of timepoints as an indicator of migratory/metastatic potential for cancer cells. An impedance-based assay system was employed towards establishing a modified wound healing assay technique that can measure wound coverage and therefore, 2D cancer migration continuously. This method can also be used to measure a variety of cell characteristics, including proliferation and epithelial barrier integrity.

Results: Using the Maestro Z Live-cell Analysis System by Axion Biosystems, cell spread, related to single cell morphology, and cell proliferation were observed for multiple breast cancer cell lines. A distinct quantifiable difference in the behavior of aggressive triple-negative breast cancer cells (HCC1806, MDA-MB-231), compared to less aggressive luminal MCF7 cells was determined. With an established assay method, cells were then treated with pro-inflammatory cytokine leptin, which plays a crucial role in metabolism and epithelial to mesenchymal transition (EMT), to verify assay sensitivity. The effects of leptin concentration in media were measurable for MCF7 and HCC1806 cells, and cell barrier integrity was significantly higher in the luminal MCF7 cells as compared to the more aggressive triple-negative cell lines. Cell migration to close a physical wound was measured over 36 hours, with the modified wound healing assay providing quantifiable evidence that the more aggressive breast cancer cells migrated to close the gap.

Conclusions: This work validates the use of cellular impedance-based assay systems to evaluate multiple cell characteristics. In a single experiment, cell spread, cell proliferation, cell-cell barrier integrity, and 2D cell migration were able to be quantified. These findings parallel previously published data for cell migration of the specific cell lines used, while highlighting the role of leptin in cancer behavior. Overall, the potential for a bioelectronic impedance assay system was demonstrated and its validity in effectively detecting and quantifying cell behaviors was proven.

背景:基于细胞阻抗的检测提供了一种灵敏、无标记、非破坏性的方法,可以实时连续监测细胞,从而评估乳腺癌细胞的动力学和迁移程度。划痕试验是在二维(2D)单层培养中测试细胞迁移最常用的方法之一。评估二维肿瘤迁移的传统方法通常使用图像分析来确定一组时间点上的伤口愈合率,作为癌细胞迁移/转移潜力的指标。一种基于阻抗的测定系统被用于建立一种改进的伤口愈合测定技术,该技术可以测量伤口覆盖范围,从而连续地进行二维肿瘤迁移。该方法还可用于测量多种细胞特性,包括增殖和上皮屏障完整性。结果:使用Axion Biosystems公司的Maestro Z活细胞分析系统,观察到多种乳腺癌细胞系的细胞扩散、单细胞形态相关及细胞增殖。侵袭性三阴性乳腺癌细胞(HCC1806, MDA-MB-231)与侵袭性较低的腔内MCF7细胞的行为有明显的可量化差异。然后用促炎细胞因子瘦素(leptin)处理细胞,以验证检测方法的敏感性。瘦素在代谢和上皮细胞向间质转化(EMT)中起着至关重要的作用。培养基中瘦素浓度对MCF7和HCC1806细胞的影响是可测量的,与更具侵袭性的三阴性细胞系相比,管腔MCF7细胞的细胞屏障完整性显着更高。在36小时内测量了愈合物理伤口的细胞迁移,改进的伤口愈合试验提供了可量化的证据,表明更具侵袭性的乳腺癌细胞迁移到闭合间隙。结论:这项工作验证了使用基于细胞阻抗的测定系统来评估多种细胞特征。在一个单一的实验中,细胞扩散,细胞增殖,细胞-细胞屏障完整性和二维细胞迁移能够被量化。这些发现与先前发表的特定细胞系的细胞迁移数据相似,同时强调了瘦素在癌症行为中的作用。总的来说,生物电阻抗分析系统的潜力被证明,它在有效地检测和定量细胞行为的有效性被证明。
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引用次数: 0
Insect cell expression system: advances in applications, engineering strategies, and bioprocess development. 昆虫细胞表达系统:应用进展、工程策略和生物工艺发展。
IF 6.5 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-10-06 DOI: 10.1186/s13036-025-00562-4
Nongyu Huang, Yuquan Wei, Jiong Li

As technology and regulatory guidelines continue improve, insect cell expression system has gained increasing attention as promising and versatile platforms for production of biopharmaceuticals. This review provides a comprehensive overview of recent advances in this platform, with a focus on their applications in human and veterinary vaccines, therapeutic proteins, and structurally complex proteins for biomedical research. Special emphasis is placed on emerging strategies such as larval expression systems, baculovirus-mediated antigen displaying technologies, and the development of gene therapy vectors. Despite their growing utility, insect cell systems face critical technical bottlenecks that limit scalability, productivity, and regulatory compliance. We discuss recent innovations aimed at addressing these challenges, including improvements in baculovirus infection dynamics, the genome engineering, and bioprocess optimization at both upstream and downstream levels. By synthesizing current knowledge and technological trends, this review outlines future directions for unlocking the full potential of insect cell platforms in next generation biomanufacturing.

随着技术和法规的不断完善,昆虫细胞表达系统作为一种前景广阔、用途广泛的生物制药生产平台受到越来越多的关注。本文综述了该平台的最新进展,重点介绍了其在人畜疫苗、治疗性蛋白和生物医学研究结构复杂蛋白中的应用。特别强调的是新兴的策略,如幼虫表达系统,杆状病毒介导的抗原展示技术,以及基因治疗载体的发展。尽管昆虫细胞系统的效用越来越大,但它们仍面临着限制可扩展性、生产力和法规遵从性的关键技术瓶颈。我们讨论了旨在解决这些挑战的最新创新,包括杆状病毒感染动力学的改进,基因组工程和上游和下游水平的生物过程优化。通过综合当前的知识和技术趋势,本文概述了在下一代生物制造中释放昆虫细胞平台的全部潜力的未来方向。
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引用次数: 0
Sustainable valorization of fish head wastes into nitrogen-based nutrients: a comparative life cycle assessment. 鱼头废物转化为氮基营养物的可持续增值:一个比较生命周期评估。
IF 6.5 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-10-06 DOI: 10.1186/s13036-025-00560-6
Somyong Lee, Soeon Ahn, Jin Ho Zong, Chulhong Oh, Sangwon Suh, Dong Soo Hwang
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引用次数: 0
Bioengineered injectable HAMA/GelMA hydrogel encapsulating exosomes loaded lycopene mitigates deoxynivalenol-induced testicular injury via apoptotic pathway modulation. 生物工程可注射的HAMA/GelMA水凝胶包被装载番茄红素的外泌体,通过凋亡通路调节减轻脱氧雪梨酚诱导的睾丸损伤。
IF 6.5 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-10-01 DOI: 10.1186/s13036-025-00555-3
Feng Ru, Ramaiyan Velmurugan, Chunfeng Li, Ying Mu, Haiyan Tian, Lina Zhou, Xiaoming Cao

Deoxynivalenol (Dex), a widespread mycotoxin found in contaminated cereals, induces testicular dysfunction primarily through oxidative stress, inflammation, and activation of apoptotic pathways. Lycopene (Lyc), a natural antioxidant, offers cytoprotective potential but is limited by poor aqueous solubility and instability. To address these limitations, we developed a bioengineered injectable hydrogel system composed of hyaluronic acid and gelatin methacrylate, both natural biopolymers, to encapsulate exosomes preloaded with lycopene (HAMA-GelMA@Exo-Lyc) for controlled, localized delivery. Comprehensive characterization demonstrated successful integration of HAMA-GelMA@Exo-Lyc hydrogel, evidenced by a shifted amide I band at 1643.67 cm⁻¹ and a uniform porous network of 50-150 μm. The modified hydrogel exhibited improved mechanical strength (21.8 ± 1.6 kPa), faster gelation (95 ± 8 s), and enhanced water retention (85.7 ± 3.1%) compared to the unmodified HAMA/GelMA system. In vitro, GC-1 spg cells treated with HAMA-GelMA@Exo-Lyc hydrogel exhibited enhanced viability, maintaining over 79.0 ± 0.30% cell survival at 150 µg/mL after 24 h, alongside reduced ROS levels and improved proliferative capacity compared to free Lyc. In a Dex-induced testicular injury model, HAMA/GelMA@Exo-Lyc treatment restored serum testosterone levels, improved spermatogenic architecture, and significantly reduced oxidative stress markers. Elevated levels of GSH and CAT indicated an enhanced antioxidant defense, whereas reductions were noted in inflammatory mediators TNF-α and IL-1β, as well as in mitochondrial apoptosis-associated proteins, such as Cyt-c, Bax, and Caspase-3. Meanwhile, Bcl-2 expression rose, suggesting anti-apoptotic effects. These results suggest that HAMA-GelMA@Exo-Lyc represents a promising bioengineered platform for mitigating Dex-induced testicular damage by suppressing oxidative stress and modulating the apoptosis pathway.

脱氧雪腐菌烯醇(Dex)是一种广泛存在于受污染谷物中的霉菌毒素,主要通过氧化应激、炎症和细胞凋亡途径的激活引起睾丸功能障碍。番茄红素(Lyc)是一种天然抗氧化剂,具有细胞保护潜力,但其水溶性差和不稳定性受到限制。为了解决这些限制,我们开发了一种由透明质酸和甲基丙烯酸明胶组成的生物工程可注射水凝胶系统,这两种天然生物聚合物都可以包裹预载番茄红素的外泌体(HAMA-GelMA@Exo-Lyc),用于控制局部递送。综合表征表明HAMA-GelMA@Exo-Lyc水凝胶的成功整合,在1643.67 cm(⁻¹)处有一个移位的酰胺I带和一个50-150 μm的均匀多孔网络。与未改性的HAMA/GelMA体系相比,改性后的水凝胶具有更高的机械强度(21.8±1.6 kPa)、更快的凝胶化(95±8 s)和更高的保水性(85.7±3.1%)。与游离Lyc相比,HAMA-GelMA@Exo-Lyc水凝胶处理的GC-1 spg细胞在体外表现出增强的活力,在150µg/mL条件下,24小时后细胞存活率保持在79.0±0.30%以上,同时ROS水平降低,增殖能力提高。在dex诱导的睾丸损伤模型中,HAMA/GelMA@Exo-Lyc治疗可恢复血清睾酮水平,改善生精结构,并显著降低氧化应激标志物。GSH和CAT水平升高表明抗氧化防御增强,而炎症介质TNF-α和IL-1β以及线粒体凋亡相关蛋白(如Cyt-c, Bax和Caspase-3)的水平降低。同时,Bcl-2表达升高,提示抗凋亡作用。这些结果表明HAMA-GelMA@Exo-Lyc是一个很有前途的生物工程平台,可以通过抑制氧化应激和调节细胞凋亡途径来减轻dex诱导的睾丸损伤。
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引用次数: 0
Systemic versus local delivery of mesenchymal stem cells to improve the early stages of fracture healing in a polytrauma model. 在多发创伤模型中,全身或局部间充质干细胞递送改善骨折早期愈合。
IF 6.5 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-09-30 DOI: 10.1186/s13036-025-00554-4
Augustine Mark Saiz, Maryam Rahmati, Soren David Johnson, Aneesh Satish Bhat, Tony Daniel Baldini, Øystein Øvrebø, Liebert Parreiras Nogueira, Thaqif El Khassawna, Sabine Stötzel, Fernando A Fierro, Mark A Lee, J Kent Leach, Håvard Jostein Haugen

Fracture healing complications, including nonunion, are common in polytrauma patients partly due to systemic inflammatory dysregulation. Although mesenchymal stem cells (MSCs) have been widely explored for their regenerative properties, their therapeutic potential in polytrauma patients remains uncertain. Given the clinical interest in both systemic and localized stem cell therapies, understanding how delivery route influences MSCs biodistribution, inflammatory modulation, and therapeutic efficacy is critical for optimizing treatment strategies in polytrauma. Hence, we compared systemic versus local MSCs delivery in a polytrauma model. We evaluated inflammatory responses and bone formation in a C57BL/6J murine model across four groups: (1) isolated fracture, (2) polytrauma (femur fracture + chest trauma), (3) polytrauma + systemic MSC delivery, and (4) polytrauma + local MSC delivery in hyaluronic acid-based hydrogels at the fracture site. Polytrauma induced a prolonged inflammatory response characterized by elevated interleukin 1 alpha and beta (IL-1α & β), tumor necrosis factor-alpha (TNF-α), interferon-gamma (IFN-γ), and monocyte chemoattractant protein-1 and - 5 (MCP-1 & MCP-5). Both delivery methods significantly reduced inflammation and proinflammatory cytokines, though local delivery yielded more consistent effects. IVIS imaging confirmed MSC retention at the fracture site in the local delivery group, while systemic administration of MSCs resulted in pulmonary entrapment. Although systemic MSCs failed to enhance fracture healing significantly, local MSC delivery promoted bone formation evidenced by CT and histological characterizations. These findings demonstrate that local MSC delivery in a hydrogel scaffold represents a superior strategy for improving fracture healing in polytrauma patients compared to systemic delivery.

骨折愈合并发症,包括骨不连,在多发创伤患者中很常见,部分原因是全身性炎症失调。虽然间充质干细胞(MSCs)的再生特性已被广泛研究,但其在多发创伤患者中的治疗潜力仍不确定。鉴于临床对全身和局部干细胞治疗的兴趣,了解传递途径如何影响MSCs的生物分布、炎症调节和治疗效果对于优化多发性创伤的治疗策略至关重要。因此,我们比较了多发性创伤模型中MSCs的全身性和局部性传递。我们在C57BL/6J小鼠模型中评估了四组的炎症反应和骨形成:(1)孤立骨折,(2)多发创伤(股骨骨折+胸部创伤),(3)多发创伤+系统性MSC传递,(4)多发创伤+骨折部位透明质酸基水凝胶局部MSC传递。多发创伤诱导了延长的炎症反应,其特征是白细胞介素1α和β (IL-1α和β)、肿瘤坏死因子α (TNF-α)、干扰素γ (IFN-γ)和单核细胞化学引诱蛋白1和-5 (MCP-1和MCP-5)升高。两种给药方法都能显著减少炎症和促炎细胞因子,尽管局部给药效果更一致。IVIS成像证实,局部给药组骨折部位的骨髓间充质干细胞保留,而全身给药的骨髓间充质干细胞导致肺部夹持。尽管全身间充质干细胞不能显著促进骨折愈合,但CT和组织学特征证明,局部间充质干细胞递送促进骨形成。这些发现表明,与全身递送相比,在水凝胶支架中局部递送MSC是改善多发性创伤患者骨折愈合的优越策略。
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引用次数: 0
Cinnamaldehyde/cinnamon essential oil loaded poly-L-lactic acid/ hydroxyapatite fibrous scaffolds as osteogenic differentiation enhancing system for bone tissue engineering applications. 肉桂醛/肉桂精油负载聚l -乳酸/羟基磷灰石纤维支架作为成骨分化增强系统在骨组织工程中的应用。
IF 6.5 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-09-30 DOI: 10.1186/s13036-025-00547-3
Fateme Darchin Tabrizi, Mehdi Doosti-Telgerd, Narges Forouzideh, Fatemeh Naghshnejad, Ehsan Seyedjafari, Hamid Akbari Javar, Fatemeh Saadat Mahdavi, Mina Habibizadeh, Mahdi Tavakolizadeh
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引用次数: 0
Combinatorial engineering pinpoints shikimate pathway bottlenecks in para-aminobenzoic acid production in Pseudomonas putida. 组合工程精确定位了恶臭假单胞菌对氨基苯甲酸生产中shikimate通路的瓶颈。
IF 6.5 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-09-30 DOI: 10.1186/s13036-025-00553-5
Marco A Campos-Magaña, Sara Moreno-Paz, Maria Martin-Pascual, Vitor Ap Martins Dos Santos, Luis Garcia-Morales, Maria Suarez-Diez

Combinatorial expression libraries to optimize multigene pathways can improve product titers, but the large number of potential genetic variants makes exhaustive testing impractical. Statistical Design of Experiments (DoE) offers a powerful alternative to enable efficient exploration of gene expression landscapes with a limited number of measurements. Here, we applied this approach to modulate expression levels across all genes in the shikimate and para-aminobenzoic acid (pABA) biosynthesis pathways in Pseudomonas putida. From a theoretical library of 512 strain variants, we trained a regression model using a statistically structured sample comprising 2.7% of the total library, as defined by our DoE approach, and used the model to predict new genotypes with improved pABA titers. This strategy enabled us to achieve product titers ranging from 2 to 186.2 mg/L in the initial screen and subsequently guide a second round of strain engineering, culminating in a maximum titer of 232.1 mg/L. Our analysis indicated that aroB, encoding 3-dehydroquinate synthase, is a critical bottleneck in pABA biosynthesis. This study highlights the utility of combining DoE with linear regression modeling to systematically optimize complex metabolic pathways, paving the way for more efficient microbial production.

组合表达文库优化多基因途径可以提高产品滴度,但大量潜在的遗传变异使得详尽的测试不切实际。实验统计设计(DoE)提供了一个强大的替代方案,使有限数量的测量能够有效地探索基因表达景观。在这里,我们应用这种方法来调节恶臭假单胞菌中莽草酸和对氨基苯甲酸(pABA)生物合成途径中所有基因的表达水平。从512个菌株变体的理论文库中,我们使用DoE方法定义的统计结构样本(占文库总数的2.7%)训练了一个回归模型,并使用该模型预测具有提高pABA滴度的新基因型。该策略使我们在初始筛选中获得了2至186.2 mg/L的产品滴度,并随后指导了第二轮菌株工程,最终获得了232.1 mg/L的最大滴度。我们的分析表明,编码3-脱氢喹酸合成酶的aroB是pABA生物合成的关键瓶颈。本研究强调了将DoE与线性回归建模相结合,系统优化复杂代谢途径的实用性,为更有效的微生物生产铺平了道路。
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引用次数: 0
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