{"title":"Retinal photoreceptor cilia and ciliopathies: Molecular mechanisms and therapeutic strategies","authors":"Lin Li , Jun Zhou , Jie Ran","doi":"10.1016/j.semcdb.2025.103635","DOIUrl":"10.1016/j.semcdb.2025.103635","url":null,"abstract":"<div><div>Photoreceptor outer segments are specialized sensory cilia that are filled with flattened membranous discs responsible for transducing light into neural signals. These cilia maintain a dynamic system in which daily shedding of outer segments at distal tips balances continuous membrane synthesis, ensuring photoreceptor homeostasis. Mutations in ciliary genes impair the biogenesis or shedding of outer segments, leading to retinal ciliopathies. Recent studies have elucidated molecular mechanisms governing photoreceptor ciliary formation, maintenance, and renewal. In this review, we summarize current understanding of the spatiotemporal regulation of photoreceptor ciliogenesis and disc renewal, structural adaptations enabling light detection and protein trafficking, and pathogenic pathways from defective ciliary transport to photoreceptor degeneration. We further discuss emerging therapeutic strategies targeting cilia, including gene therapy and pharmacological intervention, as well as the potential application of targeted protein degradation and retinal organoid technologies, aimed at restoring ciliary function and photoreceptor viability.</div></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"174 ","pages":"Article 103635"},"PeriodicalIF":6.0,"publicationDate":"2025-07-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144722084","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}
{"title":"Special issue: “Novel functions of programmed cell death in development: Current status and future challenges”","authors":"Romain Levayer","doi":"10.1016/j.semcdb.2025.103637","DOIUrl":"10.1016/j.semcdb.2025.103637","url":null,"abstract":"","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"174 ","pages":"Article 103637"},"PeriodicalIF":6.0,"publicationDate":"2025-07-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144722083","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}
{"title":"Start early and pack light: Collaborative adventures in theory and experiment","authors":"Erin L. Barnhart , Elena F. Koslover","doi":"10.1016/j.semcdb.2025.103624","DOIUrl":"10.1016/j.semcdb.2025.103624","url":null,"abstract":"<div><div>Collaboration between experimental and theoretical work is crucial to unraveling the complexity of living systems. To be productive, such collaborations require some often-scarce resources: most importantly, the time, manpower, and perseverance to iterate through multiple model formulations and experimental measurements. We argue that much can be learned from models which are highly simplified and initially ‘wrong’ or inconsistent with observations, and that the goal of theory in biology should not be primarily to provide a fit to existent experimental data. Instead, theoretical models should shed light on the key features of the system, providing insight on the missing pieces in our conceptual pictures and suggesting new measurements which can help fill in the gaps. Here, we describe a case-study from our own collaborative experience, focused on understanding the distribution of mitochondria in dendritic arbors. This story proceeded in an iterative manner from initial observations of dendritic structure and mitochondrial dynamics, to the construction of simple models, and back to original measurements and model refinement. Along the way, we came to appreciate some general principles for productive theory — experiment collaboration, which we proceed to highlight here.</div></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"174 ","pages":"Article 103624"},"PeriodicalIF":6.2,"publicationDate":"2025-07-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144704272","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}
{"title":"C. elegans: An elegant experimental system for the study of cilia biology","authors":"Inna Nechipurenko , Piali Sengupta","doi":"10.1016/j.semcdb.2025.103636","DOIUrl":"10.1016/j.semcdb.2025.103636","url":null,"abstract":"<div><div><em>Caenorhabditis elegans</em> is a genetically tractable organism that has become one of the leading <em>in vivo</em> models for cilia research. Cilia are not required for viability in <em>C. elegans</em>, as only a subset of sensory neurons is ciliated in this organism. Yet, <em>C. elegans</em> cilia exhibit remarkable structural and functional diversity akin to their mammalian counterparts. Since the core mechanisms of cilia assembly are evolutionarily conserved, research in <em>C. elegans</em> has informed studies in other organisms on cilia biogenesis, trafficking, and functions and has provided key insights into mechanisms of cilia dysfunction in human disorders. Here, we provide a general overview of the <em>C. elegans</em> model for cilia research. Specifically, we review different cilia types and their underlying ultrastructural organization, discuss trafficking mechanisms for ciliary proteins, describe emerging functions of ciliary extracellular vesicles, and highlight a broad swathe of sophisticated tools available in <em>C. elegans</em> for studying multiple aspects of cilia biology.</div></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"174 ","pages":"Article 103636"},"PeriodicalIF":6.2,"publicationDate":"2025-07-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144704277","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}
Soutrick Das , Jurgen Riedel , Kathleen JY. Zhang , Alice Cook, Chris P. Barnes
{"title":"Engineered implementations of spatial computation in biological systems","authors":"Soutrick Das , Jurgen Riedel , Kathleen JY. Zhang , Alice Cook, Chris P. Barnes","doi":"10.1016/j.semcdb.2025.103631","DOIUrl":"10.1016/j.semcdb.2025.103631","url":null,"abstract":"<div><div>The field of biological computation has advanced significantly by leveraging natural cellular processes for sophisticated information processing. This review explores how spatially distributed and compartmentalised frameworks for engineered biological computation move beyond traditional single-cell logic systems. By emulating natural phenomena such as morphogen gradients and cellular compartmentalisation, synthetic spatial computing systems have the potential to achieve scalability, robustness, and adaptability. By integrating spatial and adaptive computation, synthetic biology can tackle complex computational challenges that move beyond traditional computing architectures, paving the way for novel therapeutic, environmental, and diagnostic tools.</div></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"174 ","pages":"Article 103631"},"PeriodicalIF":6.2,"publicationDate":"2025-07-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144696449","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}
{"title":"Gradients, waves and nematics: quantitative perspectives on regeneration","authors":"Tristan Guyomar, Alessandro De Simone","doi":"10.1016/j.semcdb.2025.103632","DOIUrl":"10.1016/j.semcdb.2025.103632","url":null,"abstract":"<div><div>Regeneration restores a damaged body part to its original size, shape and structure. Research over the last decades identified signaling pathways, cell types and cellular processes that are key for regeneration. Moreover, mechanical cues and electric potentials are increasingly implicated in modulating regenerative processes. An intriguing open question regards how these chemical, mechanical and electric signals are dynamically organized to coordinate cell behaviors across large regenerating tissues and long regenerative timescales for proper morphogenesis. In addition, it is less explored how regeneration is stopped once tissues reach their proper final form. These questions and related models cross-talk with physical notions like information, pattern formation, self-organization, and control. An interdisciplinary approach combining methods and concepts of developmental biology and physics is offering new quantitative insights on these questions. In this approach, researchers characterize the spatial organization and temporal dynamics of chemical, mechanical and electric signal inputs and relate them to cell and tissue behaviors. Initial observations inform theory; in turn, theory guides experiments and data analysis, while state-of-the-art perturbations allow testing these models. After illustrating this approach, we provide examples of its application to animal regeneration <em>in vivo</em>. These works are extending the notion of “morphogen”, contributing to establishing the emerging field of quantitative regeneration and uncovering principles of multicellular organization.</div></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"174 ","pages":"Article 103632"},"PeriodicalIF":6.2,"publicationDate":"2025-07-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144679191","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}
{"title":"Establishment & maintenance of collective cell migration in angiogenesis: Lessons from zebrafish","authors":"Brendan Capey, Shane P. Herbert","doi":"10.1016/j.semcdb.2025.103627","DOIUrl":"10.1016/j.semcdb.2025.103627","url":null,"abstract":"<div><div>During tissue development, growth and regeneration, assembly of almost all new blood and lymphatic vessels arises via their branching from pre-existing vessels, processes termed angiogenesis and lymphangiogenesis, respectively. Furthermore, imbalances in these branching processes contribute to numerous disease states, including cancer, blindness, arthritis and ischemic disorders. At its core, new vessel branching is driven by the coordinated collective migration of specialized endothelial “tip” cells that lead sprouting vessels and “stalk” cells that trail the tip. Thus, studies defining the fundamental mechanisms directing angiogenesis and lymphangiogenesis not only have key therapeutic implications but have also defined core conserved principles dictating collective cell migration. In this review we focus on recent insights into the roles of intracellular, intercellular and cell morphology-driven positive- and negative-feedback loops in the establishment and maintenance of tip versus stalk cell identities and behaviour. Moreover, we highlight recent insights into the role of asymmetric cell divisions in self-organisation of the tip-stalk cell hierarchy during vessel assembly. Considering that many of the principles underpinning collective movement are broadly conserved between tissue systems, concepts described here likely play key roles in the control of collective cell migration in diverse tissue contexts.</div></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"173 ","pages":"Article 103627"},"PeriodicalIF":6.2,"publicationDate":"2025-07-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144631760","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}
{"title":"Ovulation: A cellular symphony in three movements","authors":"Christopher Thomas","doi":"10.1016/j.semcdb.2025.103634","DOIUrl":"10.1016/j.semcdb.2025.103634","url":null,"abstract":"<div><div>Ovulation is a complex and tightly regulated process essential for mammalian reproduction. It involves the coordinated, tissue-scale remodelling of the ovulatory follicle, culminating in the release of a fertilisation-competent egg. Ovulation is triggered by external hormonal cues: rising levels of follicle-stimulating hormone (FSH), followed by a surge in luteinising hormone (LH) from the anterior pituitary. These cues initiate a cascade of downstream events driven by follicle-derived signals, including epidermal growth factor (EGF) and progesterone, which propagate the ovulatory response. Recent advances using ex vivo follicle culture and live imaging in mouse follicles have revealed ovulation as a stepwise, self-contained programme characterised by dynamic spatial and temporal coordination. Notably, the oocyte remains largely stationary during most of ovulation, only moving toward the rupture site minutes before its release. This finding emphasises that ovulation is not defined by egg release alone, but by a prolonged and tightly regulated sequence of cellular and tissue-level events. This review presents ovulation through a temporal framework, metaphorically structured as a symphony performed by the four major follicular cell types. Beginning with an FSH-driven prelude, the symphony progresses through three movements: LH-induced initiation and meiotic resumption; progesterone-driven late events; and finally, follicle rupture and oocyte release. Together, this framework offers a new lens to understand ovulation as a developmental performance marking the transition from reproductive readiness to potential fertilisation and new life.</div></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"174 ","pages":"Article 103634"},"PeriodicalIF":6.2,"publicationDate":"2025-07-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144604219","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}
{"title":"Coping with uncertainty: Challenges for robust pattern formation in dynamical tissues","authors":"Tony Yu-Chen Tsai , Diana Pinheiro","doi":"10.1016/j.semcdb.2025.103629","DOIUrl":"10.1016/j.semcdb.2025.103629","url":null,"abstract":"<div><div>An outstanding question in biology is how tissue patterning emerges during development. The concept of positional information, which posits that gradients of morphogens instruct cell fate in a concentration-dependent manner, has been an influential framework to understand pattern formation. Recent studies, however, highlight that developing tissues are highly dynamic, with cellular movements, arising from local mechanical fluctuations or global morphogenetic forces, that often coincide with morphogen signaling and cell fate specification. This calls for a more dynamic understanding of pattern formation by explicitly investigating the interplay between signaling, cell fate and morphogenesis. In this review, we first discuss emerging evidence on the role of cellular movements in modulating signaling dosage and cell fate acquisition. We then examine the biophysical strategies employed by developing tissues to achieve robust patterning despite ongoing cellular dynamics and large-scale morphogenesis. While cellular movements may intuitively be viewed as disruptive to patterning programs, recent evidence suggests that when coupled with cell fate, they can act as a critical mechanism for generating and stabilizing precise tissue patterns during development.</div></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"173 ","pages":"Article 103629"},"PeriodicalIF":6.2,"publicationDate":"2025-07-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144572624","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}
{"title":"Collective cell migration across scales: A systems perspective","authors":"Zimeng Wu , Mie Wong","doi":"10.1016/j.semcdb.2025.103628","DOIUrl":"10.1016/j.semcdb.2025.103628","url":null,"abstract":"<div><div>Collective cell migration is a key tissue shaping process fundamental to development, wound healing and cancer invasion. The sensing, integration, transduction and propagation of guidance signals and the resulting generation of collective cell responses during collective cell migration can occur at several different length scales from molecular to cellular to supracellular. Furthermore, we have become aware that the cell-environment relationship during migration is bi-directional, where cells not only receive guidance cues from the environment, but also dynamically remodel the environment via their migratory behaviours. Such complex interplay of internal (i.e. intracellular) and external (i.e. cell-cell and cell-environment) interactions makes predicting the emergent output behaviours of cell groups challenging. Here, we propose a framework that combines interdisciplinary experimental and theoretical approaches to bridge the gap between molecular-level mechanisms and tissue-level phenomena during collective cell migration in complex environments. We will review recent works on both <em>in vitro</em> and <em>in vivo</em> migratory models that successfully employ some of these approaches to identify general principles explaining the input-output relationships of robustly tuneable migratory systems. By integrating <em>in vitro</em> with <em>in vivo</em> observations, we will develop more comprehensive models of how collective cell migration is orchestrated in living organisms, which will also pave the way for more effective applications in tissue engineering and disease therapeutics in the future.</div></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"173 ","pages":"Article 103628"},"PeriodicalIF":6.2,"publicationDate":"2025-07-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144572605","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}