Current Opinion in Systems Biology最新文献_第3页

Neural signaling in neuropathic pain: A computational modeling perspective 神经病理性疼痛中的神经信号传导：计算建模视角

IF 3.7

Current Opinion in Systems Biology Pub Date : 2024-02-08 DOI: 10.1016/j.coisb.2024.100509

Xinyue Ma , Anmar Khadra

{"title":"Neural signaling in neuropathic pain: A computational modeling perspective","authors":"Xinyue Ma , Anmar Khadra","doi":"10.1016/j.coisb.2024.100509","DOIUrl":"10.1016/j.coisb.2024.100509","url":null,"abstract":"<div><p>Neuropathic pain is a complex condition with a huge unmet medical need. Owing to our incomplete understanding of its perplexing pathology, current therapeutic strategies for treating neuropathic pain remain limited in their efficacy. Computational modeling has emerged as a promising methodology in unraveling the intricate neural mechanisms contributing to neuropathic pain. This review serves as a bridge that links traditional experimental research in neuropathic pain to computational neuroscience. We aim to fill in the gap of knowledge between these two fields by introducing the methodology of computational modeling as well as the neurophysiological background for neuropathic pain. We provide examples of recent advances in using computational modeling at the molecular, cellular, and neural network levels to harness the understanding of pain-associated neural signaling. This integration of computational modeling has yielded crucial insights into neuropathic pain pathophysiology, with great potential to inform novel pharmacological and neurostimulation-based treatments for the disease.</p></div>","PeriodicalId":37400,"journal":{"name":"Current Opinion in Systems Biology","volume":"37 ","pages":"Article 100509"},"PeriodicalIF":3.7,"publicationDate":"2024-02-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2452310024000052/pdfft?md5=d4c0bbd6bb1f98e6ca3144aab1540c86&pid=1-s2.0-S2452310024000052-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139887002","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Coupling between the cell cycle and the circadian clock: Lessons from computational modelling and consequences for cancer chronotherapy 细胞周期与昼夜节律时钟之间的耦合：计算建模的启示及对癌症时间疗法的影响

IF 3.7

Current Opinion in Systems Biology Pub Date : 2024-02-01 DOI: 10.1016/j.coisb.2024.100507

Didier Gonze

引用次数: 0

Biodegradation of polystyrene and systems biology-based approaches to the development of new biocatalysts for plastic degradation 聚苯乙烯的生物降解和基于系统生物学的塑料降解新生物催化剂开发方法

IF 3.7

Current Opinion in Systems Biology Pub Date : 2024-01-12 DOI: 10.1016/j.coisb.2024.100505

Ye-Bin Kim , Seongmin Kim , Chungoo Park , Soo-Jin Yeom

{"title":"Biodegradation of polystyrene and systems biology-based approaches to the development of new biocatalysts for plastic degradation","authors":"Ye-Bin Kim , Seongmin Kim , Chungoo Park , Soo-Jin Yeom","doi":"10.1016/j.coisb.2024.100505","DOIUrl":"10.1016/j.coisb.2024.100505","url":null,"abstract":"<div><p>Plastic waste has become one of the most pressing environmental issues with rapidly increased their production that also has a severe impact on individual species and ecosystem functioning.</p><p>With recycling technologies in place, the waste plastic will become a valuable resource and hence less material will be lost to the environment. In the pursuit of a sustainable approach to the treatment of plastic waste, biological processes<span> have emerged as an eco-friendly method with significant potential. In this review, we summarize previous research on the biodegradation of polystyrene (PS) as major plastics, including a review of the analytical methods used to investigate the plastic biodegradation, the isolation of PS-degrading microbes from various environment, and the identification of potential enzymes<span> for PS biodegradation. Based on this, we propose a potential PS biodegradation pathway, even though the specific biochemical mechanisms<span> associated with certain enzymes have not yet been fully identified. Finally, we discuss how PS-biodegrading enzymes can be identified using a systems biology-based screening approach that combines culture-based genomic and culture-independent metagenomic methods. This strategy can be applied to searching biodegrading enzymes for other plastics.</span></span></span></p></div>","PeriodicalId":37400,"journal":{"name":"Current Opinion in Systems Biology","volume":"37 ","pages":"Article 100505"},"PeriodicalIF":3.7,"publicationDate":"2024-01-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139538705","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Capped or uncapped? Techniques to assess the quality of mRNA molecules 有封顶还是无封顶？评估 mRNA 分子质量的技术

IF 3.7

Current Opinion in Systems Biology Pub Date : 2024-01-04 DOI: 10.1016/j.coisb.2023.100503

Ying Tu, Akashaditya Das, Chileab Redwood-Sawyerr, Karen M. Polizzi

引用次数: 0

Synthetic interventions in epigenome: Unraveling chromatin's potential for therapeutic applications 表观基因组的合成干预：揭示染色质的治疗应用潜力

IF 3.7

Current Opinion in Systems Biology Pub Date : 2024-01-03 DOI: 10.1016/j.coisb.2023.100504

Junyoung Kim , Jonghyun Kim , Minhee Park

引用次数: 0

Microbial cell factories for bio-based isoprenoid production to replace fossil resources 用于生产生物基异戊二烯以替代化石资源的微生物细胞工厂

IF 3.7

Current Opinion in Systems Biology Pub Date : 2024-01-03 DOI: 10.1016/j.coisb.2023.100502

Min-Kyoung Kang , Sang-Hwal Yoon , Moonhyuk Kwon , Seon-Won Kim

{"title":"Microbial cell factories for bio-based isoprenoid production to replace fossil resources","authors":"Min-Kyoung Kang , Sang-Hwal Yoon , Moonhyuk Kwon , Seon-Won Kim","doi":"10.1016/j.coisb.2023.100502","DOIUrl":"10.1016/j.coisb.2023.100502","url":null,"abstract":"<div><p>Concerns about environmental issues and limited fossil resources have increased interest and efforts in developing sustainable production of bio-based chemicals and fuels using microorganisms. Advanced metabolic engineering has developed microbial cell factories (MCFs) with the support of synthetic biology and systems biology. Isoprenoids are one of the largest classes of natural products and possess many practical industrial applications. However, it is challenging to meet the market demand for isoprenoids because of the current inefficient and unsustainable strategies for isoprenoid production such as chemical synthesis and plant extraction. Therefore, many efforts have been made to build isoprenoid-producing MCFs by applying metabolic engineering strategies, biological devices, and machinery from synthetic biology and systems biology. This review introduces recent studies of strain engineering and applications of biological tools and systems for developing isoprenoid MCFs. In addition, we also reviewed the isoprenoid fermentation strategies that lead to the best performance of isoprenoid-producing MCFs.</p></div>","PeriodicalId":37400,"journal":{"name":"Current Opinion in Systems Biology","volume":"37 ","pages":"Article 100502"},"PeriodicalIF":3.7,"publicationDate":"2024-01-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139392603","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

From sequence to function and back – High-throughput sequence-function mapping in synthetic biology 从序列到功能再到序列--合成生物学中的高通量序列功能图谱

IF 3.7

Current Opinion in Systems Biology Pub Date : 2023-12-13 DOI: 10.1016/j.coisb.2023.100499

Simon Höllerer , Charlotte Desczyk , Ricardo Farrera Muro , Markus Jeschek

{"title":"From sequence to function and back – High-throughput sequence-function mapping in synthetic biology","authors":"Simon Höllerer , Charlotte Desczyk , Ricardo Farrera Muro , Markus Jeschek","doi":"10.1016/j.coisb.2023.100499","DOIUrl":"10.1016/j.coisb.2023.100499","url":null,"abstract":"<div><p>How does genetic sequence give rise to biological function? Answering this question is key to our understanding of life and the construction of synthetic biosystems that fight disease, resource scarcity and climate change. Unfortunately, the virtually infinite number of possible sequences and limitations in their functional characterization limit our current understanding of sequence-function relationships. To overcome this dilemma, several high-throughput methods to experimentally link sequences to corresponding functional properties have been developed recently. While all of these share the goal to collect sequence-function data at large scale, they differ significantly in their technical approach, functional readout and application scope. Herein, we highlight recent developments in the aspiring field of high-throughput sequence-function mapping providing a critical assessment of their potential in synthetic biology.</p></div>","PeriodicalId":37400,"journal":{"name":"Current Opinion in Systems Biology","volume":"37 ","pages":"Article 100499"},"PeriodicalIF":3.7,"publicationDate":"2023-12-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2452310023000562/pdfft?md5=50626ad0a0f676b1eece24dd590e5aca&pid=1-s2.0-S2452310023000562-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138993247","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Accelerate acetogenic bioproduction: Acetogens as sustainable producers of biocommodities 加速醋酸生物生产：作为可持续生物商品生产者的产酸菌

IF 3.7

Current Opinion in Systems Biology Pub Date : 2023-12-12 DOI: 10.1016/j.coisb.2023.100500

Maximilian Flaiz , Diana Z. Sousa

{"title":"Accelerate acetogenic bioproduction: Acetogens as sustainable producers of biocommodities","authors":"Maximilian Flaiz , Diana Z. Sousa","doi":"10.1016/j.coisb.2023.100500","DOIUrl":"10.1016/j.coisb.2023.100500","url":null,"abstract":"<div><p>Gas fermentation using autotrophic acetogenic bacteria has been industrialized, however, its full potential remains untapped, with only native products like ethanol being produced thus far. Advancements in synthetic biology have enabled the recombinant production of diverse biocommodities to broaden their limited natural product spectrum from C1-gases. Additionally, co-culturing acetogens with other microorganisms holds the potential for expanding the product spectrum further. However, commercialization remains challenging due to complex pathway and (co)culturing optimizations. To address this, novel synthetic biology tools, including the use of high throughput biopart screenings using reporter proteins, the deployment of cell-free systems to combine best-performing enzymes, and the identification and elimination of competing pathways, can be employed. Incorporating genetically engineered strains in co-cultures improves dependencies, directs product formation, and increases resilience, enhancing bioproduction efficiency. This review emphasizes using these tools to enhance the recombinant production of biocommodities, offering promising solutions to overcome existing challenges.</p></div>","PeriodicalId":37400,"journal":{"name":"Current Opinion in Systems Biology","volume":"37 ","pages":"Article 100500"},"PeriodicalIF":3.7,"publicationDate":"2023-12-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2452310023000574/pdfft?md5=b34324e70ac5822168b823c24989c3e6&pid=1-s2.0-S2452310023000574-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139024556","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Cell-free systems and genetic biosensors for accelerating enzyme and pathway prototyping 加速酶和通路原型开发的无细胞系统和基因生物传感器

IF 3.7

Current Opinion in Systems Biology Pub Date : 2023-12-10 DOI: 10.1016/j.coisb.2023.100501

Wonhee Kim , Sohun Lee , Bong Hyun Sung , Jeong-Geol Na , Jeong Wook Lee

引用次数: 0

Designing microbial cell factories for programmable control of cellular metabolism 设计可编程控制细胞代谢的微生物细胞工厂

IF 3.7

Current Opinion in Systems Biology Pub Date : 2023-12-04 DOI: 10.1016/j.coisb.2023.100493

Soo Young Moon , So-Hee Son , Seung-Ho Baek , Ju Young Lee

{"title":"Designing microbial cell factories for programmable control of cellular metabolism","authors":"Soo Young Moon , So-Hee Son , Seung-Ho Baek , Ju Young Lee","doi":"10.1016/j.coisb.2023.100493","DOIUrl":"10.1016/j.coisb.2023.100493","url":null,"abstract":"<div><p>Synthetic biology has promoted a conceptual shift in metabolic engineering for the microbial production of industrial chemicals toward a sustainable economy. Engineering principles from synthetic biology and metabolic engineering are integrated to redesign cellular metabolism to create microbial cell factories with emerging and programmable functionalities. Combining metabolic engineering with programmed spatial control is a promising approach that enables deep rewiring of microbial cell factory metabolism for the efficient production of bio-based chemicals. In this review, we discuss metabolic compartmentalization approaches for programmable control of cellular metabolism, including intracellular or intercellular partitioning-based organization of biosynthetic pathways. We also examine the designs and applications of cellular compartments and their analogs, highlighting selected examples for creating efficient and sustainable microbial cell factories.</p></div>","PeriodicalId":37400,"journal":{"name":"Current Opinion in Systems Biology","volume":"37 ","pages":"Article 100493"},"PeriodicalIF":3.7,"publicationDate":"2023-12-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2452310023000501/pdfft?md5=4b2c73384af314ae39010dd8a4898183&pid=1-s2.0-S2452310023000501-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138609855","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0