首页 > 最新文献

Engineering in Life Sciences最新文献

英文 中文
Foam Formation in Shake Flasks and Its Consequences 摇瓶中的泡沫形成及其后果。
IF 3 4区 生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2025-10-22 DOI: 10.1002/elsc.70057
David Vonester, Kyra Hoffmann, Thomas Palmen, Lena Regestein, Ulrike Richter, Anna-Lena Altenhoff, Maximilian Hoffmann, Yulia Radeva, Jochen Büchs, Jørgen Barsett Magnus

Foam formation in stirred tank fermentation processes is a well-studied phenomenon. However, foaming in shake flask cultivations is rarely considered. Non-baffled shake flasks, in particular, are generally considered to prevent foaming problems. However, under certain process conditions, foaming in non-baffled shake flasks can occur. In this study, phenomena of foam formation in shake flasks, their impact on the maximum oxygen transfer capacity (OTRmax), and experimental reproducibility are investigated. It is shown that foaming events in shake flasks can increase the OTRmax by up to threefold. This enhanced OTRmax alters process conditions and, thereby, affects the reproducibility of experiments. Foaming in shake flasks can be induced by elements such as conventional baffles or sensor spots that are used for online measurement. Moreover, a connection between the out-of-phase phenomenon and foam formation was discovered in non-baffled shake flasks. This is especially important when cultivating microorganisms at elevated viscosities. Hence, foaming in shake flasks should be considered as significantly altering process conditions, compared to non-foaming cultures. Ensuring in-phase cultivation conditions and unhindered liquid flow in shake flasks may help to avoid foaming.

Practical application: This work provides insights into foam formation in non-baffled shake flasks and its resulting implications. Foaming can increase the maximum oxygen transfer capacity and, thus, affect process conditions. The reproducibility can be severely reduced, and a comparison between foaming and non-foaming cultivations is only possible to a limited extent. Foaming can be induced by baffles or internals, such as small sensor spots, used for online monitoring. Additionally, foaming can be caused by the out-of-phase phenomenon. This is of particular importance when cultivating microorganisms at elevated viscosities. This paper is intended to raise awareness of the topic of foam formation in the shake flask and help to correctly interpret this phenomenon.

在搅拌槽发酵过程中,泡沫的形成是一个被广泛研究的现象。然而,在摇瓶培养泡沫很少被考虑。特别是无挡板的摇瓶,通常被认为可以防止起泡问题。然而,在某些工艺条件下,在无挡板摇瓶中可能会发生泡沫。本文研究了摇瓶中泡沫的形成现象、对最大氧传递能力(OTRmax)的影响以及实验的可重复性。结果表明,振荡烧瓶中的起泡事件可使OTRmax提高三倍。这种增强的OTRmax改变了工艺条件,从而影响了实验的可重复性。振动烧瓶中的泡沫可以由用于在线测量的传统挡板或传感器点等元件引起。此外,在无挡板摇瓶中发现了非相现象与泡沫形成之间的联系。这在培养高粘度微生物时尤为重要。因此,与非起泡培养相比,在摇瓶中起泡应被视为显著改变工艺条件。确保同相培养条件和在摇瓶中不受阻碍的液体流动可能有助于避免起泡。实际应用:这项工作提供了非挡板摇瓶泡沫形成的见解及其由此产生的影响。发泡可以增加最大氧传递能力,从而影响工艺条件。可重复性严重降低,起泡和非起泡栽培之间的比较只能在有限的程度上进行。泡沫可以由挡板或内部装置引起,例如用于在线监测的小传感器点。另外,非相现象也会引起泡沫。当在高粘度条件下培养微生物时,这一点尤为重要。本文旨在提高人们对摇瓶中泡沫形成的认识,并有助于正确解释这一现象。
{"title":"Foam Formation in Shake Flasks and Its Consequences","authors":"David Vonester,&nbsp;Kyra Hoffmann,&nbsp;Thomas Palmen,&nbsp;Lena Regestein,&nbsp;Ulrike Richter,&nbsp;Anna-Lena Altenhoff,&nbsp;Maximilian Hoffmann,&nbsp;Yulia Radeva,&nbsp;Jochen Büchs,&nbsp;Jørgen Barsett Magnus","doi":"10.1002/elsc.70057","DOIUrl":"10.1002/elsc.70057","url":null,"abstract":"<p>Foam formation in stirred tank fermentation processes is a well-studied phenomenon. However, foaming in shake flask cultivations is rarely considered. Non-baffled shake flasks, in particular, are generally considered to prevent foaming problems. However, under certain process conditions, foaming in non-baffled shake flasks can occur. In this study, phenomena of foam formation in shake flasks, their impact on the maximum oxygen transfer capacity (OTR<sub>max</sub>), and experimental reproducibility are investigated. It is shown that foaming events in shake flasks can increase the OTR<sub>max</sub> by up to threefold. This enhanced OTR<sub>max</sub> alters process conditions and, thereby, affects the reproducibility of experiments. Foaming in shake flasks can be induced by elements such as conventional baffles or sensor spots that are used for online measurement. Moreover, a connection between the out-of-phase phenomenon and foam formation was discovered in non-baffled shake flasks. This is especially important when cultivating microorganisms at elevated viscosities. Hence, foaming in shake flasks should be considered as significantly altering process conditions, compared to non-foaming cultures. Ensuring in-phase cultivation conditions and unhindered liquid flow in shake flasks may help to avoid foaming.</p><p><i>Practical application:</i> This work provides insights into foam formation in non-baffled shake flasks and its resulting implications. Foaming can increase the maximum oxygen transfer capacity and, thus, affect process conditions. The reproducibility can be severely reduced, and a comparison between foaming and non-foaming cultivations is only possible to a limited extent. Foaming can be induced by baffles or internals, such as small sensor spots, used for online monitoring. Additionally, foaming can be caused by the out-of-phase phenomenon. This is of particular importance when cultivating microorganisms at elevated viscosities. This paper is intended to raise awareness of the topic of foam formation in the shake flask and help to correctly interpret this phenomenon.</p>","PeriodicalId":11678,"journal":{"name":"Engineering in Life Sciences","volume":"25 10","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-10-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12541551/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145354080","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
Serum-Free Japanese Encephalitis Virus Production in a Single-Use Fixed-Bed Bioreactor 一次性固定床生物反应器中无血清乙型脑炎病毒的生产。
IF 3 4区 生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2025-10-22 DOI: 10.1002/elsc.70052
Marco Kress, Robert Schlegl, Alois Jungbauer

Fixed-bed bioreactors for anchorage-dependent cells are an obvious choice for development because of their large-scale capabilities, allowing manufacturing with reduced cost and footprint. In this study, a serum-free production process for Japanese encephalitis virus (JEV) in a single-use fixed-bed bioreactor was developed and compared to conventional roller bottle production as a productivity benchmark. After optimization of serum-free cell culture conditions, an initial media screening in roller bottles showed a strong impact of growth and production media on virus yields. Selected optimized medium combinations were assessed in roller bottles and the fixed-bed bioreactor. Both systems proved to be excellent production systems for JEV, but media choice was key to achieve the highest titers. In particular, DMEM with its enriched glucose content beneficially affected viral yields, enabling potential large-scale manufacturing using the fixed-bed reactor with serum-containing or serum-free media.

Practical application: Data presented in this work show feasible ways of serum-free virus production with Vero cells, a common cell substrate in vaccine development. The fixed-bed bioreactor process described here could facilitate manufacturing activities to reduce cost and footprint while simultaneously achieving higher process control compared to conventional manufacturing systems like roller bottles. With a much better upscale potential (up to 500 m2) the fixed-bed bioreactor showed comparable or better yields to roller bottles depending on media used, even with serum-free media. This research article further emphasizes the need to optimize cell culture media or media combinations for each virus individually to achieve the highest titers. As shown, performing a simple media screening experiment to optimize yields early in process development could lead to better productivity, with a high business impact in later development stages.

用于锚定依赖细胞的固定床生物反应器是开发的明显选择,因为它们具有大规模的能力,可以降低制造成本和占地面积。在这项研究中,开发了一种在一次性固定床生物反应器中无血清生产日本脑炎病毒(JEV)的工艺,并将其与传统的滚瓶生产方法进行了比较,作为生产率基准。在优化无血清细胞培养条件后,在滚筒瓶中进行初始培养基筛选,发现生长和生产培养基对病毒产量有很强的影响。在滚动瓶和固定床生物反应器中对选定的优化培养基组合进行了评估。这两种系统都被证明是极好的乙脑病毒生产系统,但培养基的选择是获得最高滴度的关键。特别是,葡萄糖含量丰富的DMEM有利于影响病毒产量,这使得使用含血清或无血清培养基的固定床反应器进行大规模生产成为可能。实际应用:本工作中提供的数据显示了用Vero细胞(疫苗开发中常见的细胞底物)生产无血清病毒的可行方法。这里描述的固定床生物反应器工艺可以促进生产活动,降低成本和占地面积,同时与传统的制造系统(如滚筒瓶)相比,实现更高的过程控制。固定床生物反应器具有更好的高档潜力(高达500平方米),根据使用的培养基,即使是无血清培养基,也显示出与滚轮瓶相当或更好的产量。本研究进一步强调需要优化每种病毒的细胞培养基或培养基组合,以达到最高滴度。如图所示,在流程开发的早期执行简单的介质筛选实验来优化产量可能会导致更好的生产力,并在后期开发阶段产生高的业务影响。
{"title":"Serum-Free Japanese Encephalitis Virus Production in a Single-Use Fixed-Bed Bioreactor","authors":"Marco Kress,&nbsp;Robert Schlegl,&nbsp;Alois Jungbauer","doi":"10.1002/elsc.70052","DOIUrl":"10.1002/elsc.70052","url":null,"abstract":"<p>Fixed-bed bioreactors for anchorage-dependent cells are an obvious choice for development because of their large-scale capabilities, allowing manufacturing with reduced cost and footprint. In this study, a serum-free production process for Japanese encephalitis virus (JEV) in a single-use fixed-bed bioreactor was developed and compared to conventional roller bottle production as a productivity benchmark. After optimization of serum-free cell culture conditions, an initial media screening in roller bottles showed a strong impact of growth and production media on virus yields. Selected optimized medium combinations were assessed in roller bottles and the fixed-bed bioreactor. Both systems proved to be excellent production systems for JEV, but media choice was key to achieve the highest titers. In particular, DMEM with its enriched glucose content beneficially affected viral yields, enabling potential large-scale manufacturing using the fixed-bed reactor with serum-containing or serum-free media.</p><p><i>Practical application:</i> Data presented in this work show feasible ways of serum-free virus production with Vero cells, a common cell substrate in vaccine development. The fixed-bed bioreactor process described here could facilitate manufacturing activities to reduce cost and footprint while simultaneously achieving higher process control compared to conventional manufacturing systems like roller bottles. With a much better upscale potential (up to 500 m<sup>2</sup>) the fixed-bed bioreactor showed comparable or better yields to roller bottles depending on media used, even with serum-free media. This research article further emphasizes the need to optimize cell culture media or media combinations for each virus individually to achieve the highest titers. As shown, performing a simple media screening experiment to optimize yields early in process development could lead to better productivity, with a high business impact in later development stages.</p>","PeriodicalId":11678,"journal":{"name":"Engineering in Life Sciences","volume":"25 10","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-10-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12541546/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145354054","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
In Vivo Online Monitoring of Intracellular Lipid Accumulation in Ustilago maydis 麦氏黑穗菌细胞内脂质积累的体内在线监测。
IF 3 4区 生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2025-10-22 DOI: 10.1002/elsc.70053
Kira Müntjes, Lesley Plücker, Magnus Philipp, Paul Richter, Marcel Mann, Michael Feldbrügge, Kerstin Schipper
<div> <section> <p>Single cell oils produced in microorganisms constitute appealing alternatives to plant oils. Oleaginous fungi accumulate triacylglycerols in lipid droplets (LD). Their biosynthesis is typically induced under nitrogen limitation. We exploit the fungal model <i>Ustilago maydis</i> for oil production. The stain 4,4-difluoro-1,3,5,7,8-pentamethyl-4-bora-3a,4a-diaza-s-indacene (BODIPY) can be used to track LD formation during cultivation but this expensive compound is only affordable at small-scale. Therefore, mutant screening for optimization of oil production and composition would benefit from an inexpensive online monitoring system. Accordingly, we aimed at developing an intrinsic reporter that is suitable to track oil formation even in larger cultures. From three tested candidates, the potential delta(24)-sterol C-methyltransferase Erg6 turned out to be the best reporter. Fluorescence microscopy confirmed its localization at the LD membrane. After optimization, Erg6 fused to mKate2, expressed from a promoter derived from glycolipid biosynthesis, showed a good correlation of fluorescence with oil accumulation. Time course experiments in micro-cultivators demonstrated that the fluorescence read-out can be used to track oil formation starting at the onset of nitrogen limitation to approximate the LD amount. In essence, our study introduces a biosensor for oil monitoring that can easily be transferred to other oleaginous yeasts.</p> </section> <section> <h3> Summary</h3> <div> <ul> <li> <p>Microbial oils are promising, environmentally friendly alternatives to plant oils and have the potential of a huge market share once competitive production and isolation processes are accomplished.</p> </li> <li> <p>Online monitoring is key to efficient engineering of single cell oil producing microorganisms and bioprocess optimization in order to achieve competitive products.</p> </li> <li> <p>Here, we present an inexpensive, fluorescence-based reporter that can be used to track the approximate oil accumulation of microbial cultures in vivo. This omits the use of expensive dyes or offline methodology with a high workload.</p> </li> <li> <p>While we established the biosensor in the yeast form of the fungal microorganism <i>U. maydis</i>, the evolutionary conservation of the underlying protein Erg6 will allow for a straightforward transfer of the methodology to other oleaginous yeasts.</p> </li> <
微生物生产的单细胞油是植物油的诱人替代品。产油真菌在脂滴(LD)中积累甘油三酯。它们的生物合成通常在氮限制下诱导。利用真菌模型麦氏黑穗病菌进行采油。4,4-二氟-1,3,5,7,8-五甲基-4-硼-3a,4 -二氮-s-茚二烯(BODIPY)染色剂可用于跟踪培养过程中LD的形成,但这种昂贵的化合物只能在小规模使用时负担得起。因此,通过突变体筛选来优化石油产量和成分将受益于廉价的在线监测系统。因此,我们的目标是开发一种内在报告器,即使在较大的培养物中也适用于跟踪石油形成。从三个被测试的候选基因中,潜在的δ(24)-甾醇c -甲基转移酶Erg6被证明是最好的报告基因。荧光显微镜证实其定位于LD膜。优化后,Erg6与mKate2融合,mKate2由糖脂生物合成衍生的启动子表达,荧光与油脂积累表现出良好的相关性。在微型栽培机中进行的时间过程实验表明,荧光读数可以用来跟踪从氮限制开始的石油形成,以近似的LD量。从本质上讲,我们的研究引入了一种用于油脂监测的生物传感器,这种传感器可以很容易地转移到其他产油酵母上。摘要:微生物油是一种很有前途的、环保的植物油替代品,一旦有竞争力的生产和分离过程完成,微生物油将具有巨大的市场份额。在线监测是单细胞产油微生物高效工程和生物工艺优化的关键,从而获得具有竞争力的产品。在这里,我们提出了一种廉价的、基于荧光的报告器,可用于跟踪体内微生物培养物的近似油积累。这省去了使用昂贵的染料或离线方法与高工作量。虽然我们在真菌微生物U. maydis的酵母形式中建立了生物传感器,但潜在蛋白质Erg6的进化保守性将允许将该方法直接转移到其他产油酵母中。
{"title":"In Vivo Online Monitoring of Intracellular Lipid Accumulation in Ustilago maydis","authors":"Kira Müntjes,&nbsp;Lesley Plücker,&nbsp;Magnus Philipp,&nbsp;Paul Richter,&nbsp;Marcel Mann,&nbsp;Michael Feldbrügge,&nbsp;Kerstin Schipper","doi":"10.1002/elsc.70053","DOIUrl":"10.1002/elsc.70053","url":null,"abstract":"&lt;div&gt;\u0000 \u0000 \u0000 &lt;section&gt;\u0000 \u0000 &lt;p&gt;Single cell oils produced in microorganisms constitute appealing alternatives to plant oils. Oleaginous fungi accumulate triacylglycerols in lipid droplets (LD). Their biosynthesis is typically induced under nitrogen limitation. We exploit the fungal model &lt;i&gt;Ustilago maydis&lt;/i&gt; for oil production. The stain 4,4-difluoro-1,3,5,7,8-pentamethyl-4-bora-3a,4a-diaza-s-indacene (BODIPY) can be used to track LD formation during cultivation but this expensive compound is only affordable at small-scale. Therefore, mutant screening for optimization of oil production and composition would benefit from an inexpensive online monitoring system. Accordingly, we aimed at developing an intrinsic reporter that is suitable to track oil formation even in larger cultures. From three tested candidates, the potential delta(24)-sterol C-methyltransferase Erg6 turned out to be the best reporter. Fluorescence microscopy confirmed its localization at the LD membrane. After optimization, Erg6 fused to mKate2, expressed from a promoter derived from glycolipid biosynthesis, showed a good correlation of fluorescence with oil accumulation. Time course experiments in micro-cultivators demonstrated that the fluorescence read-out can be used to track oil formation starting at the onset of nitrogen limitation to approximate the LD amount. In essence, our study introduces a biosensor for oil monitoring that can easily be transferred to other oleaginous yeasts.&lt;/p&gt;\u0000 &lt;/section&gt;\u0000 \u0000 &lt;section&gt;\u0000 \u0000 &lt;h3&gt; Summary&lt;/h3&gt;\u0000 \u0000 &lt;div&gt;\u0000 &lt;ul&gt;\u0000 \u0000 &lt;li&gt;\u0000 &lt;p&gt;Microbial oils are promising, environmentally friendly alternatives to plant oils and have the potential of a huge market share once competitive production and isolation processes are accomplished.&lt;/p&gt;\u0000 &lt;/li&gt;\u0000 \u0000 &lt;li&gt;\u0000 &lt;p&gt;Online monitoring is key to efficient engineering of single cell oil producing microorganisms and bioprocess optimization in order to achieve competitive products.&lt;/p&gt;\u0000 &lt;/li&gt;\u0000 \u0000 &lt;li&gt;\u0000 &lt;p&gt;Here, we present an inexpensive, fluorescence-based reporter that can be used to track the approximate oil accumulation of microbial cultures in vivo. This omits the use of expensive dyes or offline methodology with a high workload.&lt;/p&gt;\u0000 &lt;/li&gt;\u0000 \u0000 &lt;li&gt;\u0000 &lt;p&gt;While we established the biosensor in the yeast form of the fungal microorganism &lt;i&gt;U. maydis&lt;/i&gt;, the evolutionary conservation of the underlying protein Erg6 will allow for a straightforward transfer of the methodology to other oleaginous yeasts.&lt;/p&gt;\u0000 &lt;/li&gt;\u0000 &lt;","PeriodicalId":11678,"journal":{"name":"Engineering in Life Sciences","volume":"25 10","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-10-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12541552/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145354062","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
Genome-Reduced Pseudomonas putida Outcompetes the Wild-Type Strain Upon Oxygen Depletion 基因组减少的恶臭假单胞菌在缺氧条件下胜过野生型菌株
IF 3 4区 生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2025-10-17 DOI: 10.1002/elsc.70046
Jesper W. Jensen, Pablo I. Nikel, John M. Woodley, Helena Junicke

The broad adoption of the obligate aerobe Pseudomonas putida in industrial-scale production requires a good understanding of the effect of changing oxygen availability due to the dissolved oxygen (DO) gradients apparent at such a scale. To that end, both wild-type P. putida KT2440 and a genome-reduced derivative (strain SEM10) were subjected to different oxygen partial pressures (pO2) in the aeration gas to evaluate the effect of low oxygen availability on growth characteristics in batch mode. Strain SEM10 consistently achieved a 12.7% higher biomass yield on glucose than the wild-type strain during non-DO limited growth, suggesting that genome reduction had no adverse effects on the overall growth properties. Furthermore, when exposed to oxygen depletion in cultivations at low pO2 (0.0525 atm), strain SEM10 kept a similar biomass yield and maximum specific growth rate. In fact, the genome-reduced strain significantly outcompeted the wild-type strain under these conditions. SEM10 achieved 23.3% and 35.5% higher biomass yields on glucose and oxygen, respectively, compared to strain KT2440 at low pO2. These findings indicate that the genome-reduced strain, SEM10, could endure oxygen depletion during growth and even outcompete the wild-type strain under these conditions, highlighting the advantages of using streamlined strains as a platform for industrial bioprocesses.

Summary

  • An energy-efficient, genome-reduced strain of the Pseudomonas putida KT2440 has the potential to increase yields and rates in biochemical production.

  • A lower energy consumption for futile processes, such as flagellar, allows allocation of this energy for product synthesis or survival. The latter being of importance when the strain is applied for the production of harsh biochemicals or intermediates.

  • These attributes are of no use unless the obligate aerobe P. putida can tolerate scarce oxygen supplies that may occur in large-scale cultivations.

  • Our findings suggest that the genome-reduced strain performs equally well under oxygen-limited and non-limited conditions and even outcompetes the wildtype under oxygen-limited conditions.

  • This highlights, for the first time, the potentia

在工业规模生产中广泛采用专性需氧菌恶臭假单胞菌,需要很好地理解由于溶解氧(DO)梯度在这种规模下明显变化的氧可用性的影响。为此,将野生型恶臭p.p . putida KT2440和一个基因组还原衍生物(菌株SEM10)置于不同的曝气氧分压(pO2)下,以批处理方式评估低氧有效性对其生长特性的影响。菌株SEM10在不受do限制的生长过程中,其葡萄糖生物量产量始终比野生型菌株高12.7%,这表明基因组减少对其整体生长特性没有不利影响。此外,在低pO2 (0.0525 atm)缺氧条件下,菌株SEM10保持了相似的生物量产量和最大比生长率。事实上,在这些条件下,基因组减少的菌株明显优于野生型菌株。在低pO2条件下,与菌株KT2440相比,SEM10在葡萄糖和氧气条件下的生物量产量分别提高了23.3%和35.5%。这些发现表明,基因组减少的菌株SEM10可以在生长过程中耐受缺氧,甚至在这些条件下胜过野生型菌株,突出了使用流线型菌株作为工业生物工艺平台的优势。一株高效、基因组减少的恶臭假单胞菌KT2440具有提高生化生产产量和速率的潜力。无用过程(如鞭毛)的较低能量消耗允许将这种能量分配给产品合成或生存。当该菌株用于生产苛刻的生物化学品或中间体时,后者是重要的。这些特性是没有用处的,除非专性需氧菌恶臭假单胞菌能够忍受在大规模栽培中可能出现的缺氧供应。我们的研究结果表明,基因组减少的菌株在限氧和非限氧条件下表现同样良好,甚至在限氧条件下优于野生型。这突出了,首次,基因组减少的恶臭假单胞菌菌株在可能发生氧气限制的过程中的潜在应用。
{"title":"Genome-Reduced Pseudomonas putida Outcompetes the Wild-Type Strain Upon Oxygen Depletion","authors":"Jesper W. Jensen,&nbsp;Pablo I. Nikel,&nbsp;John M. Woodley,&nbsp;Helena Junicke","doi":"10.1002/elsc.70046","DOIUrl":"https://doi.org/10.1002/elsc.70046","url":null,"abstract":"<div>\u0000 \u0000 \u0000 <section>\u0000 \u0000 <p>The broad adoption of the obligate aerobe <i>Pseudomonas putida</i> in industrial-scale production requires a good understanding of the effect of changing oxygen availability due to the dissolved oxygen (DO) gradients apparent at such a scale. To that end, both wild-type <i>P. putida</i> KT2440 and a genome-reduced derivative (strain SEM10) were subjected to different oxygen partial pressures (pO<sub>2</sub>) in the aeration gas to evaluate the effect of low oxygen availability on growth characteristics in batch mode. Strain SEM10 consistently achieved a 12.7% higher biomass yield on glucose than the wild-type strain during non-DO limited growth, suggesting that genome reduction had no adverse effects on the overall growth properties. Furthermore, when exposed to oxygen depletion in cultivations at low pO<sub>2</sub> (0.0525 atm), strain SEM10 kept a similar biomass yield and maximum specific growth rate. In fact, the genome-reduced strain significantly outcompeted the wild-type strain under these conditions. SEM10 achieved 23.3% and 35.5% higher biomass yields on glucose and oxygen, respectively, compared to strain KT2440 at low pO<sub>2</sub>. These findings indicate that the genome-reduced strain, SEM10, could endure oxygen depletion during growth and even outcompete the wild-type strain under these conditions, highlighting the advantages of using streamlined strains as a platform for industrial bioprocesses.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Summary</h3>\u0000 \u0000 <div>\u0000 <ul>\u0000 \u0000 <li>\u0000 <p>An energy-efficient, genome-reduced strain of the <i>Pseudomonas putida</i> KT2440 has the potential to increase yields and rates in biochemical production.</p>\u0000 </li>\u0000 \u0000 <li>\u0000 <p>A lower energy consumption for futile processes, such as flagellar, allows allocation of this energy for product synthesis or survival. The latter being of importance when the strain is applied for the production of harsh biochemicals or intermediates.</p>\u0000 </li>\u0000 \u0000 <li>\u0000 <p>These attributes are of no use unless the obligate aerobe <i>P. putida</i> can tolerate scarce oxygen supplies that may occur in large-scale cultivations.</p>\u0000 </li>\u0000 \u0000 <li>\u0000 <p>Our findings suggest that the genome-reduced strain performs equally well under oxygen-limited and non-limited conditions and even outcompetes the wildtype under oxygen-limited conditions.</p>\u0000 </li>\u0000 \u0000 <li>\u0000 <p>This highlights, for the first time, the potentia","PeriodicalId":11678,"journal":{"name":"Engineering in Life Sciences","volume":"25 10","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-10-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://analyticalsciencejournals.onlinelibrary.wiley.com/doi/epdf/10.1002/elsc.70046","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145317509","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
Comparative Study of Porcine Mesenchymal Stem Cells Behavior and Lipid Metabolism on Plant-Based Scaffolds and Two-Dimensional Systems for Cultivated Fat 猪间充质干细胞在植物支架和二维培养脂肪系统中的行为和脂质代谢的比较研究。
IF 3 4区 生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2025-10-13 DOI: 10.1002/elsc.70050
Mariia Abyzova, Lasse Schoppe, Marline Kirsch, Martin Muuß, Sina Zargarchi, Jordi Morales-Dalmau, Tuba Esatbeyoglu, Ulrich Krings, Antonina Lavrentieva

The research field of cellular agriculture has developed rapidly in recent years. Despite many successes, there is an urgent need for innovative methods to culture adherent cells. Edible scaffolds offer a promising solution for anchorage-dependent cells from agriculturally relevant species. In this study, we present a novel approach using plant-based scaffolds for the production of cultivated fat. Our findings indicate that coating of electrospun-derived plant-based scaffolds with poly-L-lysine significantly enhances cell adhesion and proliferation, offering a more cost-effective alternative to coating with extracellular matrix (ECM) components. Furthermore, we investigated the influence of various adipogenic media formulations on the fatty acid composition of the cultivated fat. Notably, the incorporation of intralipid significantly changed the lipid profile, leading to an increased proportion of stearic acid with a simultaneous reduction in the proportions of oleic, linoleic, and alpha-linolenic acid. This modulation allows for the customization of lipid profiles to satisfy diverse user requirements. However, our analysis showed that both types of matrices and the basal media formulations exerted only moderate to negligible effects on the overall fatty acid composition of the cultivated fat.

Practical application: In this study, we evaluated the impact of cold plasma and coating treatments on plant-based scaffold materials to improve porcine mesenchymal stem cell adhesion and growth. Additionally, the influence of different basal media formulations and the addition of intralipid on the fatty acid composition of the cultivated fat accumulated in differentiated adipocytes were examined. Our results provide valuable insights into how these variables can be adjusted to influence the fatty acid profile of differentiated cells, to meet the requirements of customers with variable nutritional and functional needs. Discovered findings can be used for further development of sustainable alternatives within the food technology sector.

近年来,细胞农业的研究领域得到了迅速发展。尽管取得了许多成功,但迫切需要创新的方法来培养贴壁细胞。可食用支架为农业相关物种的锚定依赖性细胞提供了一个有前途的解决方案。在这项研究中,我们提出了一种使用植物基支架生产培养脂肪的新方法。我们的研究结果表明,用聚l -赖氨酸涂层电纺丝衍生的植物基支架可以显著增强细胞的粘附和增殖,为细胞外基质(ECM)涂层提供了一种更具成本效益的替代方案。此外,我们还研究了各种脂肪培养基配方对培养脂肪脂肪酸组成的影响。值得注意的是,脂质内的掺入显著地改变了脂质谱,导致硬脂酸的比例增加,同时减少了油酸、亚油酸和α -亚麻酸的比例。这种调制允许自定义脂质配置文件,以满足不同的用户需求。然而,我们的分析表明,这两种类型的基质和基础培养基配方对培养脂肪的整体脂肪酸组成只有中等到可忽略的影响。实际应用:在本研究中,我们评估了冷等离子体和涂层处理对植物基支架材料对猪间充质干细胞粘附和生长的影响。此外,研究了不同的基础培养基配方和脂肪内脂的添加对分化脂肪细胞中积累的培养脂肪的脂肪酸组成的影响。我们的结果为如何调整这些变量来影响分化细胞的脂肪酸谱,以满足具有可变营养和功能需求的客户的要求提供了有价值的见解。发现的结果可用于食品技术部门内可持续替代品的进一步发展。
{"title":"Comparative Study of Porcine Mesenchymal Stem Cells Behavior and Lipid Metabolism on Plant-Based Scaffolds and Two-Dimensional Systems for Cultivated Fat","authors":"Mariia Abyzova,&nbsp;Lasse Schoppe,&nbsp;Marline Kirsch,&nbsp;Martin Muuß,&nbsp;Sina Zargarchi,&nbsp;Jordi Morales-Dalmau,&nbsp;Tuba Esatbeyoglu,&nbsp;Ulrich Krings,&nbsp;Antonina Lavrentieva","doi":"10.1002/elsc.70050","DOIUrl":"10.1002/elsc.70050","url":null,"abstract":"<p>The research field of cellular agriculture has developed rapidly in recent years. Despite many successes, there is an urgent need for innovative methods to culture adherent cells. Edible scaffolds offer a promising solution for anchorage-dependent cells from agriculturally relevant species. In this study, we present a novel approach using plant-based scaffolds for the production of cultivated fat. Our findings indicate that coating of electrospun-derived plant-based scaffolds with poly-L-lysine significantly enhances cell adhesion and proliferation, offering a more cost-effective alternative to coating with extracellular matrix (ECM) components. Furthermore, we investigated the influence of various adipogenic media formulations on the fatty acid composition of the cultivated fat. Notably, the incorporation of intralipid significantly changed the lipid profile, leading to an increased proportion of stearic acid with a simultaneous reduction in the proportions of oleic, linoleic, and alpha-linolenic acid. This modulation allows for the customization of lipid profiles to satisfy diverse user requirements. However, our analysis showed that both types of matrices and the basal media formulations exerted only moderate to negligible effects on the overall fatty acid composition of the cultivated fat.</p><p><b><i>Practical application</i></b>: In this study, we evaluated the impact of cold plasma and coating treatments on plant-based scaffold materials to improve porcine mesenchymal stem cell adhesion and growth. Additionally, the influence of different basal media formulations and the addition of intralipid on the fatty acid composition of the cultivated fat accumulated in differentiated adipocytes were examined. Our results provide valuable insights into how these variables can be adjusted to influence the fatty acid profile of differentiated cells, to meet the requirements of customers with variable nutritional and functional needs. Discovered findings can be used for further development of sustainable alternatives within the food technology sector.</p>","PeriodicalId":11678,"journal":{"name":"Engineering in Life Sciences","volume":"25 10","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-10-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12518025/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145298795","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
Fractionation of Oligosaccharide Nucleoside Mixtures by Single Pass Nano-Diafiltration 单道纳米滤法分离低聚糖核苷混合物。
IF 3 4区 生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2025-10-13 DOI: 10.1002/elsc.70055
Ulrich Thiele, Tobias Kaloghlian, Jonas Wohlgemuth, Gerald Brenner-Weiß, André Tschöpe, Matthias Franzreb, Katharina Bleher

Glycans, a diverse group of complex oligosaccharides, are critical to human physiology and hold significant potential in medical applications and as food additives. However, their synthesis by glycosyltransferases produces intricate mixtures comprising saccharides, nucleosides, and reaction buffer components, posing substantial challenges for downstream processing and purification. This study aims to establish a continuous, single-pass nanofiltration process for purifying oligosaccharide-nucleoside mixtures using a novel dual-membrane module. We investigated the influence of a static mixer, along with varying flow rates for both the diafiltration and feed streams, on the recovery rate and purity of the final product. Measurements using ESI-MS assessed product recovery and purity, while buffer removal was monitored through online conductivity measurement. The results demonstrate that incorporating a static mixer nearly doubled the saccharide recovery rate, achieving product purities exceeding 99% and 95%, along with high product recovery rates. Additionally, the reaction buffer system was found to significantly impact the overall process performance. These findings suggest that our novel dual-membrane module can be effectively utilized for the purification of enzymatically synthesized glycan products.

Summary

聚糖是一组复杂的低聚糖,对人体生理至关重要,在医学应用和食品添加剂方面具有巨大的潜力。然而,通过糖基转移酶合成它们会产生复杂的混合物,包括糖、核苷和反应缓冲成分,这对下游加工和纯化提出了重大挑战。本研究旨在建立一种连续的、单道纳滤工艺,利用新型双膜模块纯化低聚糖-核苷混合物。我们研究了静态混合器对最终产品的回收率和纯度的影响,以及过滤和进料流的不同流速。使用ESI-MS评估产品回收率和纯度,同时通过在线电导率测量来监测缓冲液的去除。结果表明,采用静态混合器可使糖回收率提高近一倍,产品纯度分别超过99%和95%,产品回收率较高。此外,发现反应缓冲系统对整个过程性能有显著影响。这些结果表明,我们的新型双膜模块可以有效地用于酶合成聚糖产物的纯化。本研究报道了一种新型3d打印双膜纳滤模块在酶促反应混合物中糖的纯化中的应用。首先,对合适的纳滤膜进行了表征。通过采用静态混合器,克服了3d打印模块中单道纳米过滤后的低回收率,大大提高了产品回收率。在高容比下明显的低纯度可以追溯到缓冲系统,并通过研究不同缓冲系统对分离过程的影响,我们能够实现高产品纯度。这些结果对于设计新的酶催化合成混合物的纯化工艺具有重要意义。
{"title":"Fractionation of Oligosaccharide Nucleoside Mixtures by Single Pass Nano-Diafiltration","authors":"Ulrich Thiele,&nbsp;Tobias Kaloghlian,&nbsp;Jonas Wohlgemuth,&nbsp;Gerald Brenner-Weiß,&nbsp;André Tschöpe,&nbsp;Matthias Franzreb,&nbsp;Katharina Bleher","doi":"10.1002/elsc.70055","DOIUrl":"10.1002/elsc.70055","url":null,"abstract":"<p>Glycans, a diverse group of complex oligosaccharides, are critical to human physiology and hold significant potential in medical applications and as food additives. However, their synthesis by glycosyltransferases produces intricate mixtures comprising saccharides, nucleosides, and reaction buffer components, posing substantial challenges for downstream processing and purification. This study aims to establish a continuous, single-pass nanofiltration process for purifying oligosaccharide-nucleoside mixtures using a novel dual-membrane module. We investigated the influence of a static mixer, along with varying flow rates for both the diafiltration and feed streams, on the recovery rate and purity of the final product. Measurements using ESI-MS assessed product recovery and purity, while buffer removal was monitored through online conductivity measurement. The results demonstrate that incorporating a static mixer nearly doubled the saccharide recovery rate, achieving product purities exceeding 99% and 95%, along with high product recovery rates. Additionally, the reaction buffer system was found to significantly impact the overall process performance. These findings suggest that our novel dual-membrane module can be effectively utilized for the purification of enzymatically synthesized glycan products.</p><p><b>Summary</b>\u0000 \u0000 </p>","PeriodicalId":11678,"journal":{"name":"Engineering in Life Sciences","volume":"25 10","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-10-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12518163/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145298958","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
Downstream Workflows for Intermediate Purification of Lentiviral Vectors Using Tangential Flow Filtration and AEX Membrane Chromatography 慢病毒载体切向流过滤和AEX膜层析中间纯化的下游工作流程。
IF 3 4区 生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2025-10-13 DOI: 10.1002/elsc.70056
Sara Cardoso, Sinan Oender, Jana Engelhardt, Alexander Tappe

The growing demand for large quantities of high-purity lentiviral vectors (LVs) has driven the development of scalable, cost-effective purification strategies. Membrane chromatography is particularly well-suited for purifying large biological entities like LVs due to its low mass transfer resistance and minimal back pressure. Among these technologies, anion exchange (AEX) chromatography serves as a key unit operation during the intermediate purification stage of industrial-scale bioprocesses. Sartobind Convec D, a weak AEX membrane with reduced ligand density, lack of hydrogel grafting, and adjusted pore size distribution, was specifically designed for LVs capture. While AEX is commonly employed immediately after clarification to capture LVs, incorporating a tangential flow filtration (TFF) step beforehand can offer several advantages, including product concentration, buffer exchange, and removal of low-molecular-weight impurities. Hydrosart High-Performance TFF membranes, composed of regenerated cellulose, are characterized by high flux rates and are marketed as well-suited for viral vector purification. This study investigated the integration of these two technologies into intermediate purification workflows for LVs. Specifically, the impact of introducing a TFF step prior to AEX chromatography (TFF-AEX workflow) was compared to a process utilizing only AEX chromatography following harvest and clarification (AEX-only workflow). In the AEX-only workflow, Sartobind Convec D membranes were used directly after clarification to capture LVs. These membrane adsorbers can accommodate high flow rates, making them suitable for early downstream processing. In the TFF-AEX workflow, clarified LVs harvests were first concentrated and diafiltrated using Hydrosart TFF membranes, allowing for product enrichment, buffer conductivity adjustment, and removal of smaller contaminants prior to AEX loading. As a result, the TFF-AEX workflow demonstrated improved dynamic binding capacity and enhanced overall impurity removal compared to the AEX-only approach.

对大量高纯度慢病毒载体(lv)日益增长的需求推动了可扩展的、具有成本效益的纯化策略的发展。膜色谱法由于其低传质阻力和最小的背压,特别适合于净化像lv这样的大型生物实体。在这些技术中,阴离子交换(AEX)色谱是工业规模生物工艺中间纯化阶段的关键单元操作。Sartobind convc D是一种弱AEX膜,其配体密度降低,缺乏水凝胶接枝,孔径分布调整,专为lv捕获而设计。虽然AEX通常在澄清后立即用于捕获lv,但事先结合切向流过滤(TFF)步骤可以提供几个优点,包括产品浓度,缓冲交换和去除低分子量杂质。Hydrosart高性能TFF膜由再生纤维素组成,具有高通量率的特点,非常适合用于病毒载体纯化。本研究探讨了将这两种技术整合到lv的中间纯化工作流程中。具体来说,在AEX色谱之前引入TFF步骤(TFF-AEX工作流)的影响与收获和澄清后仅使用AEX色谱的过程(仅AEX工作流)进行了比较。在仅限aex的工作流程中,澄清后直接使用Sartobind convc D膜来捕获lv。这些膜吸附剂可以适应高流速,使其适合早期下游处理。在TFF-AEX工作流程中,首先使用Hydrosart TFF膜浓缩和滤过澄清的lv,允许产品富集,缓冲电导率调整,并在AEX加载之前去除较小的污染物。因此,与仅使用aex的方法相比,TFF-AEX工作流程显示出更好的动态结合能力和增强的整体杂质去除能力。
{"title":"Downstream Workflows for Intermediate Purification of Lentiviral Vectors Using Tangential Flow Filtration and AEX Membrane Chromatography","authors":"Sara Cardoso,&nbsp;Sinan Oender,&nbsp;Jana Engelhardt,&nbsp;Alexander Tappe","doi":"10.1002/elsc.70056","DOIUrl":"10.1002/elsc.70056","url":null,"abstract":"<p>The growing demand for large quantities of high-purity lentiviral vectors (LVs) has driven the development of scalable, cost-effective purification strategies. Membrane chromatography is particularly well-suited for purifying large biological entities like LVs due to its low mass transfer resistance and minimal back pressure. Among these technologies, anion exchange (AEX) chromatography serves as a key unit operation during the intermediate purification stage of industrial-scale bioprocesses. Sartobind Convec D, a weak AEX membrane with reduced ligand density, lack of hydrogel grafting, and adjusted pore size distribution, was specifically designed for LVs capture. While AEX is commonly employed immediately after clarification to capture LVs, incorporating a tangential flow filtration (TFF) step beforehand can offer several advantages, including product concentration, buffer exchange, and removal of low-molecular-weight impurities. Hydrosart High-Performance TFF membranes, composed of regenerated cellulose, are characterized by high flux rates and are marketed as well-suited for viral vector purification. This study investigated the integration of these two technologies into intermediate purification workflows for LVs. Specifically, the impact of introducing a TFF step prior to AEX chromatography (TFF-AEX workflow) was compared to a process utilizing only AEX chromatography following harvest and clarification (AEX-only workflow). In the AEX-only workflow, Sartobind Convec D membranes were used directly after clarification to capture LVs. These membrane adsorbers can accommodate high flow rates, making them suitable for early downstream processing. In the TFF-AEX workflow, clarified LVs harvests were first concentrated and diafiltrated using Hydrosart TFF membranes, allowing for product enrichment, buffer conductivity adjustment, and removal of smaller contaminants prior to AEX loading. As a result, the TFF-AEX workflow demonstrated improved dynamic binding capacity and enhanced overall impurity removal compared to the AEX-only approach.</p>","PeriodicalId":11678,"journal":{"name":"Engineering in Life Sciences","volume":"25 10","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-10-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12518160/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145298853","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
Hyaluronic Acid Matrices for In Situ Measurement of Protein Diffusion Coefficients 用于蛋白扩散系数原位测定的透明质酸基质
IF 3 4区 生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2025-10-07 DOI: 10.1002/elsc.70048
Antonio C. F. dos Santos, Riya Debbarma, Kayla Hinton, Mazin Hakim, Ronghua (Andy) Bei, Luis Solorio, Eduardo Ximenes, Shiven Kapur, Vince Corvari, Michael Ladisch

In vitro measurement of protein diffusion within matrices that simulate the subcutaneous (SQ) environment is of interest, given that protein-based therapeutics formulated for SQ injection comprise the largest class of biologics. To mimic the in vivo transport of a biologic from the SQ injection site through the extracellular matrix (ECM), in vitro diffusion assays typically utilize hyaluronic acid (HA) matrices, as it is the principal component of ECM. However, broad utility has been hampered by inherent lot-to-lot variability in commercially sourced HA, wherein key properties that impact protein diffusion (for example, molecular weight distribution and viscosity) differ across lots, even when nominal molecular weights are identical, making it challenging to compare results across matrices prepared from different HA lots. To address this gap, we report a facile approach wherein binary HA blends generated from individual HA matrices derived from distinct HA lots are functionally equivalent with respect to protein diffusion, that is, the diffusion of a representative set of proteins matches that in a previously reported single HA lot-derived matrix that served as a representative reference. Taken altogether, our protocols enable preparing blended HA matrices with consistent diffusion properties, enabling the use of in vitro assays that leverage this capability.

Practical application: The measurement of in vitro diffusion of IgG-type proteins enables calculation of diffusion coefficients that could help to guide the formulation of protein-based therapeutics, administered by subcutaneous (SQ) injection, and used for treating a range of diseases, including cancer. The side-by-side comparison of these proteins over a period of time provides confirmation of consistency of properties when in vitro hyaluronic acid matrices, within which injected protein diffusion is measured, are also consistent. However, their broad utility has been hindered by the inherent variability of commercial sources of HA used to make-up matrices that simulate the SQ environment in a predictable manner. Our research addresses this gap by defining an approach (validated with rheological and diffusion measurements) that facilitates the preparation of blended matrices from different lots of HA. The resulting matrix properties enable reliable measurement of protein diffusion from one lot to the next.

体外测量模拟皮下(SQ)环境的基质内的蛋白质扩散是有意义的,因为为SQ注射配制的基于蛋白质的疗法包括最大类别的生物制剂。为了模拟生物从SQ注射部位通过细胞外基质(ECM)的体内运输,体外扩散试验通常使用透明质酸(HA)基质,因为它是ECM的主要成分。然而,商业采购的透明质酸固有的批次之间的可变性阻碍了其广泛的应用,其中影响蛋白质扩散的关键特性(例如分子量分布和粘度)在不同批次之间存在差异,即使标称分子量相同,这使得比较来自不同批次的透明质酸制备的基质的结果具有挑战性。为了解决这一差距,我们报告了一种简单的方法,其中由来自不同HA批次的单个HA矩阵生成的二元HA混合物在蛋白质扩散方面在功能上是等效的,也就是说,一组具有代表性的蛋白质的扩散与先前报道的单个HA批次衍生的矩阵相匹配,该矩阵作为代表性参考。总的来说,我们的协议能够制备具有一致扩散特性的混合HA基质,从而能够利用这种能力进行体外分析。实际应用:通过测量igg型蛋白的体外扩散,可以计算扩散系数,从而有助于指导以蛋白质为基础的疗法的配方,通过皮下注射给药,并用于治疗包括癌症在内的一系列疾病。这些蛋白质在一段时间内的并排比较证实了性质的一致性,而在体外透明质酸基质中,注射蛋白的扩散被测量,也是一致的。然而,它们的广泛应用受到商业HA来源的固有可变性的阻碍,这些HA来源用于以可预测的方式模拟SQ环境。我们的研究通过定义一种方法(通过流变学和扩散测量验证)来解决这一差距,该方法有助于从不同批次的HA中制备混合基质。由此产生的基质特性能够可靠地测量蛋白质从一个批次到下一个批次的扩散。
{"title":"Hyaluronic Acid Matrices for In Situ Measurement of Protein Diffusion Coefficients","authors":"Antonio C. F. dos Santos,&nbsp;Riya Debbarma,&nbsp;Kayla Hinton,&nbsp;Mazin Hakim,&nbsp;Ronghua (Andy) Bei,&nbsp;Luis Solorio,&nbsp;Eduardo Ximenes,&nbsp;Shiven Kapur,&nbsp;Vince Corvari,&nbsp;Michael Ladisch","doi":"10.1002/elsc.70048","DOIUrl":"https://doi.org/10.1002/elsc.70048","url":null,"abstract":"<p>In vitro measurement of protein diffusion within matrices that simulate the subcutaneous (SQ) environment is of interest, given that protein-based therapeutics formulated for SQ injection comprise the largest class of biologics. To mimic the in vivo transport of a biologic from the SQ injection site through the extracellular matrix (ECM), in vitro diffusion assays typically utilize hyaluronic acid (HA) matrices, as it is the principal component of ECM. However, broad utility has been hampered by inherent lot-to-lot variability in commercially sourced HA, wherein key properties that impact protein diffusion (for example, molecular weight distribution and viscosity) differ across lots, even when nominal molecular weights are identical, making it challenging to compare results across matrices prepared from different HA lots. To address this gap, we report a facile approach wherein binary HA blends generated from individual HA matrices derived from distinct HA lots are functionally equivalent with respect to protein diffusion, that is, the diffusion of a representative set of proteins matches that in a previously reported single HA lot-derived matrix that served as a representative reference. Taken altogether, our protocols enable preparing blended HA matrices with consistent diffusion properties, enabling the use of in vitro assays that leverage this capability.</p><p><i>Practical application:</i> The measurement of in vitro diffusion of IgG-type proteins enables calculation of diffusion coefficients that could help to guide the formulation of protein-based therapeutics, administered by subcutaneous (SQ) injection, and used for treating a range of diseases, including cancer. The side-by-side comparison of these proteins over a period of time provides confirmation of consistency of properties when in vitro hyaluronic acid matrices, within which injected protein diffusion is measured, are also consistent. However, their broad utility has been hindered by the inherent variability of commercial sources of HA used to make-up matrices that simulate the SQ environment in a predictable manner. Our research addresses this gap by defining an approach (validated with rheological and diffusion measurements) that facilitates the preparation of blended matrices from different lots of HA. The resulting matrix properties enable reliable measurement of protein diffusion from one lot to the next.</p>","PeriodicalId":11678,"journal":{"name":"Engineering in Life Sciences","volume":"25 10","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-10-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://analyticalsciencejournals.onlinelibrary.wiley.com/doi/epdf/10.1002/elsc.70048","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145237101","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
Enhanced Cellular Uptake of Compact Cas Proteins: A Comparative Study of Cas12f and Cas9 in Human Cells 增强致密Cas蛋白的细胞摄取:Cas12f和Cas9在人细胞中的比较研究
IF 3 4区 生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2025-09-26 DOI: 10.1002/elsc.70042
Karim E. Shalaby, Issam Hmila, S. M. Nasir Uddin, Nasser H. Zawia, Omar M. A. El-Agnaf, Mustapha Aouida

The clinical translation of CRISPR genome-editing therapies is often hindered by inefficient delivery of the CRISPR-Cas RNA-protein complex into target cells. The most widely used CRISPR-Cas9 system poses a significant challenge for efficient delivery into cells due to its large size (∼1.4 kDa). Recently reported compact Cas proteins, such as Cas12f (552 Da), Cas12k (639 Da), and Cas12m (596 Da) represent attractive alternatives as cargoes for delivery. In this brief research report, we employ efficient delivery vectors to evaluate the efficiency of cellular uptake of a compact Cas protein (Cas12f) compared to the widely used larger Cas9 in human cells. Our findings demonstrate that compact Cas proteins may facilitate more efficient cellular penetration and delivery, making them a promising alternative for the development of CRISPR-based therapies.

Practical Application:

Our study demonstrates that compact Cas proteins significantly enhance cellular uptake compared to larger Cas proteins. This improved uptake efficiency suggests that compact Cas proteins could be more effective for clinical application, where size constraints and delivery efficiency are critical challenges. Combined with the optimization and refinement of the editing efficiencies of compact Cas systems, our study provokes further exploration of compact Cas proteins in various therapeutic contexts to advance the development of more efficient CRISPR-based therapies.

CRISPR基因组编辑疗法的临床翻译常常受到CRISPR- cas rna -蛋白复合物进入靶细胞的低效递送的阻碍。使用最广泛的CRISPR-Cas9系统由于其大尺寸(约1.4 kDa),对有效递送到细胞中提出了重大挑战。最近报道的紧凑型Cas蛋白,如Cas12f (552 Da)、Cas12k (639 Da)和Cas12m (596 Da)代表了有吸引力的替代产品。在这篇简短的研究报告中,我们使用高效的递送载体来评估细胞摄取紧凑的Cas12f蛋白(Cas12f)的效率,并将其与广泛使用的人类细胞中较大的Cas9蛋白进行比较。我们的研究结果表明,紧凑的Cas蛋白可能促进更有效的细胞渗透和传递,使其成为开发基于crispr的疗法的有希望的替代方案。实际应用:我们的研究表明,与较大的Cas蛋白相比,紧凑的Cas蛋白显著提高细胞摄取。这种改进的摄取效率表明,紧凑的Cas蛋白在临床应用中可能更有效,在临床应用中,尺寸限制和递送效率是关键的挑战。结合紧凑Cas系统编辑效率的优化和改进,我们的研究激发了在各种治疗背景下进一步探索紧凑Cas蛋白,以推进更有效的基于crispr的疗法的开发。
{"title":"Enhanced Cellular Uptake of Compact Cas Proteins: A Comparative Study of Cas12f and Cas9 in Human Cells","authors":"Karim E. Shalaby,&nbsp;Issam Hmila,&nbsp;S. M. Nasir Uddin,&nbsp;Nasser H. Zawia,&nbsp;Omar M. A. El-Agnaf,&nbsp;Mustapha Aouida","doi":"10.1002/elsc.70042","DOIUrl":"https://doi.org/10.1002/elsc.70042","url":null,"abstract":"<p>The clinical translation of CRISPR genome-editing therapies is often hindered by inefficient delivery of the CRISPR-Cas RNA-protein complex into target cells. The most widely used CRISPR-Cas9 system poses a significant challenge for efficient delivery into cells due to its large size (∼1.4 kDa). Recently reported compact Cas proteins, such as Cas12f (552 Da), Cas12k (639 Da), and Cas12m (596 Da) represent attractive alternatives as cargoes for delivery. In this brief research report, we employ efficient delivery vectors to evaluate the efficiency of cellular uptake of a compact Cas protein (Cas12f) compared to the widely used larger Cas9 in human cells. Our findings demonstrate that compact Cas proteins may facilitate more efficient cellular penetration and delivery, making them a promising alternative for the development of CRISPR-based therapies.</p><p>Practical Application:</p><p>Our study demonstrates that compact Cas proteins significantly enhance cellular uptake compared to larger Cas proteins. This improved uptake efficiency suggests that compact Cas proteins could be more effective for clinical application, where size constraints and delivery efficiency are critical challenges. Combined with the optimization and refinement of the editing efficiencies of compact Cas systems, our study provokes further exploration of compact Cas proteins in various therapeutic contexts to advance the development of more efficient CRISPR-based therapies.</p>","PeriodicalId":11678,"journal":{"name":"Engineering in Life Sciences","volume":"25 9","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-09-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://analyticalsciencejournals.onlinelibrary.wiley.com/doi/epdf/10.1002/elsc.70042","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145146452","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
Enhancing the Diffusion Channels of Silica-Alginate Capsules for Microbial Encapsulation 增强海藻酸硅微胶囊微生物包封的扩散通道
IF 3 4区 生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Pub Date : 2025-09-25 DOI: 10.1002/elsc.70002
Bilyamin Abdulmumin, Ismaila Mudi, Abdulalim Ibrahim, Abdulwasiu Abdurrahman, Helen Onyeaka
<p>Silica-alginate capsule (G-0) has recently been used in fermentation processes to encapsulate microbial cells for several benefits, including facilitating continuous flow processes and simplifying cell recovery and reuse. However, these conventional silica-coated alginate capsules suffer from poor diffusion channels, which are critical for efficiently transporting substrates and products. This study aimed to develop a novel method for producing silica-coated alginate capsules with improved diffusion channels (G-3). The Ca-alginate capsule was fabricated via a simple dripping method, where a solution of calcium chloride (CaCl<sub>2</sub>) and carboxymethylcellulose (CMC) was dripped into an alginate solution. For the traditional silica coating (G-0), the alginate capsule was mixed with a silica source (hydrolyzed 3-aminopropyl triethoxysilane) under specific conditions. In the modified method, glucose was introduced as a pore-forming agent (PFA), with varying amounts (0.75, 1.5, and 3 g) resulting in capsules labeled G-0.75, G-1.5, and G-3, respectively. The diffusion coefficient for G-3 was found to be the highest, for example, at 313.15 K, it was calculated as <span></span><math> <semantics> <mrow> <mspace></mspace> <mrow> <mo>(</mo> <mrow> <mn>7.77</mn> <mo>±</mo> <mn>0.57</mn> </mrow> <mo>)</mo> </mrow> <mo>×</mo> <msup> <mn>10</mn> <mrow> <mo>−</mo> <mn>3</mn> </mrow> </msup> <mspace></mspace> <mi>m</mi> <msup> <mi>m</mi> <mn>2</mn> </msup> <mo>/</mo> <mi>min</mi> </mrow> <annotation>$ ( {7.77 pm 0.57} ) times {{10}^{ - 3}} {mathrm{m}}{{{mathrm{m}}}^2}/{mathrm{min}}$</annotation> </semantics></math> compared to <span></span><math> <semantics> <mrow> <mrow> <mo>(</mo> <mrow> <mn>3.04</mn> <mo>±</mo> <mn>0.09</mn> </mrow> <mo>)</mo> </mrow> <mo>×</mo> <msup> <mn>10</mn> <mrow> <mo>−</mo> <mn>3</mn> </mrow> </msup>
海藻酸硅胶囊(G-0)最近被用于发酵过程中封装微生物细胞的几个好处,包括促进连续流动过程和简化细胞回收和再利用。然而,这些传统的硅涂层海藻酸盐胶囊的扩散通道很差,这对于有效运输底物和产物至关重要。本研究旨在开发一种具有改进扩散通道(G-3)的硅包被海藻酸盐胶囊的新方法。将氯化钙(CaCl2)和羧甲基纤维素(CMC)溶液滴入海藻酸盐溶液中,通过简单的滴法制备海藻酸钙胶囊。对于传统的二氧化硅涂层(G-0),海藻酸盐胶囊在特定条件下与二氧化硅源(水解3-氨基丙基三乙氧基硅烷)混合。在改进的方法中,葡萄糖作为成孔剂(PFA)引入,不同量(0.75,1.5和3g)的胶囊分别标记为g -0.75, g -1.5和g -3。G-3的扩散系数最高,例如在313.15 K时;计算结果为(7.77±0.57)× 10−3M M 2 / min $ ({7.77 pm 0.57}) 倍{{10}^{- 3}} {mathrm{M}}}}^2}/{mathrm{min}}$相比(3.04±0.57)0.09) × 10−3 m m 2 / min $({3.04 pm0.09}) * {{10} ^ {- 3}} { mathrm {m}} {{{ mathrm {m}}} ^ 2} / { mathrm{分钟 }}$ g 0。这一发现强调了PFA在增强膜孔隙率和扩散率方面的有效性,这对于微生物细胞固定化是有希望的,其中传质是一个重要的问题。
{"title":"Enhancing the Diffusion Channels of Silica-Alginate Capsules for Microbial Encapsulation","authors":"Bilyamin Abdulmumin,&nbsp;Ismaila Mudi,&nbsp;Abdulalim Ibrahim,&nbsp;Abdulwasiu Abdurrahman,&nbsp;Helen Onyeaka","doi":"10.1002/elsc.70002","DOIUrl":"https://doi.org/10.1002/elsc.70002","url":null,"abstract":"&lt;p&gt;Silica-alginate capsule (G-0) has recently been used in fermentation processes to encapsulate microbial cells for several benefits, including facilitating continuous flow processes and simplifying cell recovery and reuse. However, these conventional silica-coated alginate capsules suffer from poor diffusion channels, which are critical for efficiently transporting substrates and products. This study aimed to develop a novel method for producing silica-coated alginate capsules with improved diffusion channels (G-3). The Ca-alginate capsule was fabricated via a simple dripping method, where a solution of calcium chloride (CaCl&lt;sub&gt;2&lt;/sub&gt;) and carboxymethylcellulose (CMC) was dripped into an alginate solution. For the traditional silica coating (G-0), the alginate capsule was mixed with a silica source (hydrolyzed 3-aminopropyl triethoxysilane) under specific conditions. In the modified method, glucose was introduced as a pore-forming agent (PFA), with varying amounts (0.75, 1.5, and 3 g) resulting in capsules labeled G-0.75, G-1.5, and G-3, respectively. The diffusion coefficient for G-3 was found to be the highest, for example, at 313.15 K, it was calculated as &lt;span&gt;&lt;/span&gt;&lt;math&gt;\u0000 &lt;semantics&gt;\u0000 &lt;mrow&gt;\u0000 &lt;mspace&gt;&lt;/mspace&gt;\u0000 &lt;mrow&gt;\u0000 &lt;mo&gt;(&lt;/mo&gt;\u0000 &lt;mrow&gt;\u0000 &lt;mn&gt;7.77&lt;/mn&gt;\u0000 &lt;mo&gt;±&lt;/mo&gt;\u0000 &lt;mn&gt;0.57&lt;/mn&gt;\u0000 &lt;/mrow&gt;\u0000 &lt;mo&gt;)&lt;/mo&gt;\u0000 &lt;/mrow&gt;\u0000 &lt;mo&gt;×&lt;/mo&gt;\u0000 &lt;msup&gt;\u0000 &lt;mn&gt;10&lt;/mn&gt;\u0000 &lt;mrow&gt;\u0000 &lt;mo&gt;−&lt;/mo&gt;\u0000 &lt;mn&gt;3&lt;/mn&gt;\u0000 &lt;/mrow&gt;\u0000 &lt;/msup&gt;\u0000 &lt;mspace&gt;&lt;/mspace&gt;\u0000 &lt;mi&gt;m&lt;/mi&gt;\u0000 &lt;msup&gt;\u0000 &lt;mi&gt;m&lt;/mi&gt;\u0000 &lt;mn&gt;2&lt;/mn&gt;\u0000 &lt;/msup&gt;\u0000 &lt;mo&gt;/&lt;/mo&gt;\u0000 &lt;mi&gt;min&lt;/mi&gt;\u0000 &lt;/mrow&gt;\u0000 &lt;annotation&gt;$ ( {7.77 pm 0.57} ) times {{10}^{ - 3}} {mathrm{m}}{{{mathrm{m}}}^2}/{mathrm{min}}$&lt;/annotation&gt;\u0000 &lt;/semantics&gt;&lt;/math&gt; compared to &lt;span&gt;&lt;/span&gt;&lt;math&gt;\u0000 &lt;semantics&gt;\u0000 &lt;mrow&gt;\u0000 &lt;mrow&gt;\u0000 &lt;mo&gt;(&lt;/mo&gt;\u0000 &lt;mrow&gt;\u0000 &lt;mn&gt;3.04&lt;/mn&gt;\u0000 &lt;mo&gt;±&lt;/mo&gt;\u0000 &lt;mn&gt;0.09&lt;/mn&gt;\u0000 &lt;/mrow&gt;\u0000 &lt;mo&gt;)&lt;/mo&gt;\u0000 &lt;/mrow&gt;\u0000 &lt;mo&gt;×&lt;/mo&gt;\u0000 &lt;msup&gt;\u0000 &lt;mn&gt;10&lt;/mn&gt;\u0000 &lt;mrow&gt;\u0000 &lt;mo&gt;−&lt;/mo&gt;\u0000 &lt;mn&gt;3&lt;/mn&gt;\u0000 &lt;/mrow&gt;\u0000 &lt;/msup&gt;\u0000 ","PeriodicalId":11678,"journal":{"name":"Engineering in Life Sciences","volume":"25 9","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://analyticalsciencejournals.onlinelibrary.wiley.com/doi/epdf/10.1002/elsc.70002","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145146330","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
期刊
Engineering in Life Sciences
全部 Acc. Chem. Res. ACS Applied Bio Materials ACS Appl. Electron. Mater. ACS Appl. Energy Mater. ACS Appl. Mater. Interfaces ACS Appl. Nano Mater. ACS Appl. Polym. Mater. ACS BIOMATER-SCI ENG ACS Catal. ACS Cent. Sci. ACS Chem. Biol. ACS Chemical Health & Safety ACS Chem. Neurosci. ACS Comb. Sci. ACS Earth Space Chem. ACS Energy Lett. ACS Infect. Dis. ACS Macro Lett. ACS Mater. Lett. ACS Med. Chem. Lett. ACS Nano ACS Omega ACS Photonics ACS Sens. ACS Sustainable Chem. Eng. ACS Synth. Biol. Anal. Chem. BIOCHEMISTRY-US Bioconjugate Chem. BIOMACROMOLECULES Chem. Res. Toxicol. Chem. Rev. Chem. Mater. CRYST GROWTH DES ENERG FUEL Environ. Sci. Technol. Environ. Sci. Technol. Lett. Eur. J. Inorg. Chem. IND ENG CHEM RES Inorg. Chem. J. Agric. Food. Chem. J. Chem. Eng. Data J. Chem. Educ. J. Chem. Inf. Model. J. Chem. Theory Comput. J. Med. Chem. J. Nat. Prod. J PROTEOME RES J. Am. Chem. Soc. LANGMUIR MACROMOLECULES Mol. Pharmaceutics Nano Lett. Org. Lett. ORG PROCESS RES DEV ORGANOMETALLICS J. Org. Chem. J. Phys. Chem. J. Phys. Chem. A J. Phys. Chem. B J. Phys. Chem. C J. Phys. Chem. Lett. Analyst Anal. Methods Biomater. Sci. Catal. Sci. Technol. Chem. Commun. Chem. Soc. Rev. CHEM EDUC RES PRACT CRYSTENGCOMM Dalton Trans. Energy Environ. Sci. ENVIRON SCI-NANO ENVIRON SCI-PROC IMP ENVIRON SCI-WAT RES Faraday Discuss. Food Funct. Green Chem. Inorg. Chem. Front. Integr. Biol. J. Anal. At. Spectrom. J. Mater. Chem. A J. Mater. Chem. B J. Mater. Chem. C Lab Chip Mater. Chem. Front. Mater. Horiz. MEDCHEMCOMM Metallomics Mol. Biosyst. Mol. Syst. Des. Eng. Nanoscale Nanoscale Horiz. Nat. Prod. Rep. New J. Chem. Org. Biomol. Chem. Org. Chem. Front. PHOTOCH PHOTOBIO SCI PCCP Polym. Chem.
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
0
微信
客服QQ
Book学术公众号 扫码关注我们
反馈
×
意见反馈
请填写您的意见或建议
请填写您的手机或邮箱
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
Book学术官方微信
Book学术文献互助
Book学术文献互助群
群 号:604180095
Book学术
文献互助 智能选刊 最新文献 互助须知 联系我们:info@booksci.cn
Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。
Copyright © 2023 Book学术 All rights reserved.
ghs 京公网安备 11010802042870号 京ICP备2023020795号-1