Seminars in cell & developmental biology最新文献_第6页

Dynamical systems of fate and form in development 发展中的命运和形式的动力系统

IF 6.2 2区生物学

Seminars in cell & developmental biology Pub Date : 2025-08-01 Epub Date: 2025-06-03 DOI: 10.1016/j.semcdb.2025.103620

Alex M. Plum, Mattia Serra

引用次数: 0

A case study of agent-based modeling of cytoskeletal processes 基于agent的细胞骨架过程建模案例研究

IF 6.2 2区生物学

Seminars in cell & developmental biology Pub Date : 2025-08-01 Epub Date: 2025-07-02 DOI: 10.1016/j.semcdb.2025.103625

Daniel B. Cortes

{"title":"A case study of agent-based modeling of cytoskeletal processes","authors":"Daniel B. Cortes","doi":"10.1016/j.semcdb.2025.103625","DOIUrl":"10.1016/j.semcdb.2025.103625","url":null,"abstract":"<div><div>Modern cell and developmental biologists have access to a wide range of tools in microscopy, genetics, and molecular biology that enable the design of experiments that test hypotheses previously thought untestable or inaccessible. Still, even with the most recent advancements in technique and technology, some hypotheses remain just out of reach by <em>in vivo</em> and <em>in vitro</em> experimentation alone. Mathematical modeling is a long-standing method for the exploration of the physical sciences, chemistry and physics, and has provided significant insights into biological processes across all scales of life, from the modeling of population dynamics to the modeling of protein folding and molecular interactions. In this review, I highlight a specific subset of mathematical models – agent-based models, which explicitly simulate individual proteins or protein complexes and their physical interactions with each other within a simulated cellular environment. This review provides two specific case studies, from my own research efforts, which provide direct examples of how a cell biologist can develop mathematical models that complement their research efforts and help drive the generation of new ideas, or test hypotheses that cannot easily be tested through biological methods alone.</div></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"172 ","pages":"Article 103625"},"PeriodicalIF":6.2,"publicationDate":"2025-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144522330","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Ploidy in cardiovascular development and regeneration 心血管发育和再生的倍性

IF 6.2 2区生物学

Seminars in cell & developmental biology Pub Date : 2025-08-01 Epub Date: 2025-05-20 DOI: 10.1016/j.semcdb.2025.103618

Tian Lan , Sabrina Kaminsky , Chi-Chung Wu

{"title":"Ploidy in cardiovascular development and regeneration","authors":"Tian Lan , Sabrina Kaminsky , Chi-Chung Wu","doi":"10.1016/j.semcdb.2025.103618","DOIUrl":"10.1016/j.semcdb.2025.103618","url":null,"abstract":"<div><div>Somatic polyploidy, a non-inheritable form of genome multiplication, plays cell-type specific and context-dependent roles in organ development and regeneration. In the mammalian heart, embryonic cardiomyocytes are primarily diploid, which lose their ability to complete cell division and become polyploid as they mature. Unlike lower vertebrates like zebrafish, polyploid cardiomyocytes are commonly found across mammals, including humans. Intriguingly, the degree, timing, and modes of cardiomyocyte polyploidization vary greatly between species. In addition to the association with cardiomyocyte development and maturation, recent studies have established polyploidy as a barrier against cardiomyocyte proliferation and heart regeneration following cardiac injury. Hence, a thorough understanding of how and why cardiomyocyte become polyploid will provide insights into heart development and may help develop therapeutic strategies for heart regeneration. Here, we review the dynamics of cardiomyocyte polyploidization across species and how cardiomyocyte-intrinsic, -extrinsic, and environmental factors regulate this process as well as the impact of cardiomyocyte polyploidization on heart development and regeneration.</div></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"172 ","pages":"Article 103618"},"PeriodicalIF":6.2,"publicationDate":"2025-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144099845","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Agent-based modeling of complex molecular mechanisms 基于agent的复杂分子机制建模

IF 6.2 2区生物学

Seminars in cell & developmental biology Pub Date : 2025-08-01 Epub Date: 2025-06-17 DOI: 10.1016/j.semcdb.2025.103626

Margot Riggi , Janet H. Iwasa

{"title":"Agent-based modeling of complex molecular mechanisms","authors":"Margot Riggi , Janet H. Iwasa","doi":"10.1016/j.semcdb.2025.103626","DOIUrl":"10.1016/j.semcdb.2025.103626","url":null,"abstract":"<div><div>The diverse molecular mechanisms that orchestrate cellular processes typically involve a complex network of actors and span broad ranges of spatial and temporal scales that no single experimental or computational technique can cover. While several multiscale methods are increasingly capable of connecting across scales, bridging molecular and cellular levels remains a challenge. Agent-based modeling (ABM) is a computational paradigm that models a complex system and its emergent properties from the perspective of its individual components whose behaviors are governed by a set of predefined rules. As long as these rules are biophysically accurate, the flexibility of this framework makes it uniquely positioned to fill the gap between spatially detailed and computationally efficient approaches and emerge as an effective mesoscopic modeling method that could bring valuable mechanistic insight into how complex behaviors arise in cellular environments. In this review, we summarize ABM principles and current capabilities in the realm of molecular biology and discuss potential directions for the development of additional features that would further broaden the scope of the method.</div></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"172 ","pages":"Article 103626"},"PeriodicalIF":6.2,"publicationDate":"2025-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144297587","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Cardiac trabeculation in vertebrates: Convergent evolution or evolutionary adaptations associated with heart complexity? 脊椎动物心脏小梁：趋同进化还是与心脏复杂性相关的进化适应？

IF 6.2 2区生物学

Seminars in cell & developmental biology Pub Date : 2025-08-01 Epub Date: 2025-06-05 DOI: 10.1016/j.semcdb.2025.103622

Yen T.H. Tran , Diptarka Saha , Gonzalo del Monte-Nieto

{"title":"Cardiac trabeculation in vertebrates: Convergent evolution or evolutionary adaptations associated with heart complexity?","authors":"Yen T.H. Tran , Diptarka Saha , Gonzalo del Monte-Nieto","doi":"10.1016/j.semcdb.2025.103622","DOIUrl":"10.1016/j.semcdb.2025.103622","url":null,"abstract":"<div><div>One of the most important processes during early heart development is the formation of trabecular myocardium. Cardiac trabeculation is the process by which the ventricular chambers develop a complex sponge-like myocardium essential for optimal cardiac function to provide efficient oxygenation and nourishment to the developing embryo. Indeed, its importance is highlighted by the fact that defects in trabecular formation lead to embryonic lethality and congenital heart disease. In the last decades, our understanding of cardiac trabeculation in different vertebrate models has advanced significantly. However, instead of reinforcing cardiac trabeculation as a highly evolutionarily conserved process across vertebrates, these studies have identified significant differences in the way the process occurs and how it is regulated in different vertebrate species. In this review, we assembled the current knowledge on cardiac trabeculation in different vertebrate species and examined if trabecular myocardium development can be achieved through different morphogenetic processes across vertebrates or if these differences are associated with evolutionary adaptations required to develop more complex vertebrate hearts.</div></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"172 ","pages":"Article 103622"},"PeriodicalIF":6.2,"publicationDate":"2025-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144220836","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Designing multicellular cardiac tissue engineering technologies for clinical translation 设计用于临床翻译的多细胞心脏组织工程技术

IF 6.2 2区生物学

Seminars in cell & developmental biology Pub Date : 2025-07-01 Epub Date: 2025-04-29 DOI: 10.1016/j.semcdb.2025.103612

Andrew R. Laskary , James E. Hudson , Enzo R. Porrello

{"title":"Designing multicellular cardiac tissue engineering technologies for clinical translation","authors":"Andrew R. Laskary , James E. Hudson , Enzo R. Porrello","doi":"10.1016/j.semcdb.2025.103612","DOIUrl":"10.1016/j.semcdb.2025.103612","url":null,"abstract":"<div><div>Cardiovascular diseases remain the leading cause of death worldwide—claiming one-third of all deaths every year. Current two-dimensional <em>in vitro</em> cell culture systems and animal models cannot completely recapitulate the clinical complexity of these diseases in humans. Therefore, there is a dire need for higher fidelity biological systems capable of replicating these phenotypes to inform clinical outcomes and therapeutic development. Cardiac tissue engineering (CTE) strategies have emerged to fulfill this need by the design of <em>in vitro</em> three-dimensional myocardial tissue systems from human pluripotent stem cells. In this way, CTE systems serve as highly controllable human models for a variety of applications—including for physiological and pathological modeling, drug discovery and preclinical testing platforms, and even direct therapeutic interventions in the clinic. Although significant progress has been made in the development of these CTE technologies, critical challenges remain and necessary refinements are required to derive more advanced human heart tissue technologies. In this review, we distill three focus areas for the field to address: I) Generating cardiac muscle cell types and scalable manufacturing methods, II) Engineering tissue structure, function, and analyses, and III) Curating system design for specific application. In each of our focus areas, we emphasize the importance of designing CTE systems capable of mimicking the intricate intercellular connectivity of the human heart and discuss fundamental design considerations that subsequently arise. We conclude by highlighting cutting-edge applications that use CTE technologies for clinical modeling and the direct repair of damaged and diseased hearts.</div></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"171 ","pages":"Article 103612"},"PeriodicalIF":6.2,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143886759","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Why cellular computations challenge our design principles 为什么细胞计算挑战我们的设计原则

IF 6.2 2区生物学

Seminars in cell & developmental biology Pub Date : 2025-07-01 Epub Date: 2025-04-30 DOI: 10.1016/j.semcdb.2025.103616

Lewis Grozinger , Bruno Cuevas-Zuviría , Ángel Goñi-Moreno

{"title":"Why cellular computations challenge our design principles","authors":"Lewis Grozinger , Bruno Cuevas-Zuviría , Ángel Goñi-Moreno","doi":"10.1016/j.semcdb.2025.103616","DOIUrl":"10.1016/j.semcdb.2025.103616","url":null,"abstract":"<div><div>Biological systems inherently perform computations, inspiring synthetic biologists to engineer biological systems capable of executing predefined computational functions for diverse applications. Typically, this involves applying principles from the design of conventional silicon-based computers to create novel biological systems, such as genetic Boolean gates and circuits. However, the natural evolution of biological computation has not adhered to these principles, and this distinction warrants careful consideration. Here, we explore several concepts connecting computational theory, living cells, and computers, which may offer insights into the development of increasingly sophisticated biological computations. While conventional computers approach theoretical limits, solving nearly all problems that are computationally solvable, biological computers have the opportunity to outperform them in specific niches and problem domains. Crucially, biocomputation does not necessarily need to scale to rival or replicate the capabilities of electronic computation. Rather, efforts to re-engineer biology must recognise that life has evolved and optimised itself to solve specific problems using its own principles. Consequently, intelligently designed cellular computations will diverge from traditional computing in both implementation and application.</div></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"171 ","pages":"Article 103616"},"PeriodicalIF":6.2,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143892090","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Artery regeneration: Molecules, mechanisms and impact on organ function 动脉再生：分子、机制及对器官功能的影响

IF 6.2 2区生物学

Seminars in cell & developmental biology Pub Date : 2025-07-01 Epub Date: 2025-05-02 DOI: 10.1016/j.semcdb.2025.103611

Swarnadip Ghosh , Bhavnesh Bishnoi , Soumyashree Das

{"title":"Artery regeneration: Molecules, mechanisms and impact on organ function","authors":"Swarnadip Ghosh , Bhavnesh Bishnoi , Soumyashree Das","doi":"10.1016/j.semcdb.2025.103611","DOIUrl":"10.1016/j.semcdb.2025.103611","url":null,"abstract":"<div><div>Replenishment of artery cells to repair or create new arteries is a promising strategy to re-vascularize ischemic tissue. However, limited understanding of cellular and molecular programs associated with artery (re-)growth impedes our efforts towards designing optimal therapeutic approaches. In this review, we summarize different cellular mechanisms that drive injury-induced artery regeneration in distinct organs and organisms. Artery formation during embryogenesis includes migration, self-amplification, and changes in cell fates. These processes are coordinated by multiple signaling pathways, like Vegf, Wnt, Notch, Cxcr4; many of which, also involved in injury-induced vascular responses. We also highlight how physiological and environmental factors determine the extent of arterial re-vascularization. Finally, we discuss different <em>in vitro</em> cellular reprogramming and tissue engineering approaches to promote artery regeneration, <em>in vivo</em>. This review provides the current understanding of endothelial cell fate reprogramming and explores avenues for regenerating arteries to restore organ function through efficient revascularization.</div></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"171 ","pages":"Article 103611"},"PeriodicalIF":6.2,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143898562","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The role of granulosa cells in oocyte development and aging: Mechanisms and therapeutic opportunities 颗粒细胞在卵母细胞发育和衰老中的作用：机制和治疗机会

IF 6.2 2区生物学

Seminars in cell & developmental biology Pub Date : 2025-07-01 Epub Date: 2025-04-28 DOI: 10.1016/j.semcdb.2025.103614

HaiYang Wang

{"title":"The role of granulosa cells in oocyte development and aging: Mechanisms and therapeutic opportunities","authors":"HaiYang Wang","doi":"10.1016/j.semcdb.2025.103614","DOIUrl":"10.1016/j.semcdb.2025.103614","url":null,"abstract":"<div><div>Granulosa cells (GCs) are essential for oocyte maturation, providing metabolic support, hormonal signaling, and structural integrity critical to successful follicular development. However, advancing age disrupts these functions, driven by factors such as increased oxidative stress, mitochondrial dysfunction, and transcriptomic and proteomic alterations. These age-related changes in GCs contribute to compromised oocyte quality, diminished follicular support, and a decline in fertility, particularly in women of advanced maternal age. This review highlights recent progress in understanding the pivotal roles of GCs in maintaining oocyte health, with a focus on the mechanisms underlying their aging-related dysfunction. Furthermore, we explore promising therapeutic strategies, including antioxidant therapies, metabolic modulators, and GC-based rejuvenation techniques, aimed at mitigating the impacts of reproductive aging. By consolidating and analyzing existing research, this review provides valuable perspectives on fertility preservation and factors shaping reproductive outcomes in women of advanced maternal age.</div></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"171 ","pages":"Article 103614"},"PeriodicalIF":6.2,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143881867","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Cardiac regeneration: Unraveling the complex network of intercellular crosstalk 心脏再生：揭示细胞间串扰的复杂网络

IF 6.2 2区生物学

Seminars in cell & developmental biology Pub Date : 2025-07-01 Epub Date: 2025-05-13 DOI: 10.1016/j.semcdb.2025.103619

Bailin Wu , Florian Constanty , Arica Beisaw

{"title":"Cardiac regeneration: Unraveling the complex network of intercellular crosstalk","authors":"Bailin Wu , Florian Constanty , Arica Beisaw","doi":"10.1016/j.semcdb.2025.103619","DOIUrl":"10.1016/j.semcdb.2025.103619","url":null,"abstract":"<div><div>The heart is composed of multiple cell types, including cardiomyocytes, endothelial/endocardial cells, fibroblasts, resident immune cells and epicardium and crosstalk between these cell types is crucial for proper cardiac function and homeostasis. In response to cardiac injury or disease, cell-cell interactions and intercellular crosstalk contribute to remodeling to compensate reduced heart function. In some vertebrates, the heart can regenerate following cardiac injury. While cardiomyocytes play a crucial role in this process, additional cell types are necessary to create a pro-regenerative microenvironment in the injured heart. Here, we review recent literature regarding the importance of cellular crosstalk in promoting cardiac regeneration and provide insight into emerging technologies to investigate cell-cell interactions <em>in vivo</em>. Lastly, we explore recent studies highlighting the importance of inter-organ communication in response to injury and promotion of cardiac regeneration. Importantly, understanding how intercellular and inter-organ crosstalk promote cardiac regeneration is essential for the development of therapeutic strategies to stimulate regeneration in the human heart.</div></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"171 ","pages":"Article 103619"},"PeriodicalIF":6.2,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143936965","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0