Seminars in cell & developmental biology最新文献

{"title":"Zebrafish tailfin as an in vivo model for capturing tissue-scale cell dynamics.","authors":"Yue Rong Tan, Hsiao-Yuh Roan, Chen-Hui Chen","doi":"10.1016/j.semcdb.2024.12.005","DOIUrl":"10.1016/j.semcdb.2024.12.005","url":null,"abstract":"<p><p>The intricate control of collective cell dynamics is crucial for enabling organismic development and tissue regeneration. Despite the availability of various in vitro and in vivo models, studies on tissue-scale cell dynamics and associated emergent properties in living systems remain methodically challenging. Here, we describe key advantages of using the adult zebrafish tailfin (caudal fin) as a robust in vivo model for dissecting millimeter-scale collective cell dynamics during regeneration and wound healing in a complex tissue. For researchers considering this model system, we briefly introduce the tailfin anatomy, as well as available transgenic reporter tools and live-imaging setups that may be utilized to study epidermal cell behaviors. To highlight the unique strengths of the zebrafish tailfin model, we present an example project that was made possible by techniques for tracking cell dynamics at a millimeter scale with single-cell resolution in live animals. Finally, we discuss the research directions at the interface of collective cell dynamics and regenerative biology that most excite us and can be examined using the tailfin model.</p>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"166 ","pages":"29-35"},"PeriodicalIF":6.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142897122","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":"Recent advancement in the spatial immuno-oncology.","authors":"Alex To, Zou Yu, Ryohichi Sugimura","doi":"10.1016/j.semcdb.2024.12.003","DOIUrl":"10.1016/j.semcdb.2024.12.003","url":null,"abstract":"<p><p>Recent advancements in spatial transcriptomics and spatial proteomics enabled the high-throughput profiling of single or multi-cell types and cell states with spatial information. They transformed our understanding of the higher-order architectures and paired cell-cell interactions within a tumor microenvironment (TME). Within less than a decade, this rapidly emerging field has discovered much crucial fundamental knowledge and significantly improved clinical diagnosis in the field of immuno-oncology. This review summarizes the conceptual frameworks to understand spatial omics data and highlights the updated knowledge of spatial immuno-oncology.</p>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"166 ","pages":"22-28"},"PeriodicalIF":6.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142872922","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 sperm movement in mammalian reproductive tracts.","authors":"Tsuyoshi Hirashima, Sound W P, Taichi Noda","doi":"10.1016/j.semcdb.2024.12.002","DOIUrl":"10.1016/j.semcdb.2024.12.002","url":null,"abstract":"<p><p>Mammalian sperm cells travel from their origin in the male reproductive tract to fertilization in the female tract through a complex process driven by coordinated mechanical and biochemical mechanisms. Recent experimental and theoretical advances have illuminated the collective behaviors of sperm both in vivo and in vitro. However, our understanding of the underlying mechano-chemical processes remains incomplete. This review integrates current insights into sperm group movement, examining both immotile and motile states, which are essential for passive transport and active swimming through the reproductive tracts. We provide an overview of the current understanding of collective sperm movement, focusing on the experimental and theoretical mechanisms behind these behaviors. We also explore how sperm motility is regulated through the coordination of mechanical and chemical processes. Emerging evidence highlights the mechanosensitive properties of a sperm flagellum, suggesting that mechanical stimuli regulate flagellar beating at both individual and collective levels. This self-regulatory, mechano-chemical system reflects a broader principle observed in multicellular systems, offering a system-level insight into the regulation of motility and collective dynamics in biological systems.</p>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"166 ","pages":"13-21"},"PeriodicalIF":6.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142829809","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 mechanics of small migrating cell groups.","authors":"Wenzheng Shi, Selena Gupta, Calina Copos, Alex Mogilner","doi":"10.1016/j.semcdb.2024.12.001","DOIUrl":"10.1016/j.semcdb.2024.12.001","url":null,"abstract":"<p><p>Migration of adhesive cell groups is a fundamental part of wound healing, development and carcinogenesis. Intense research has been conducted on mechanisms of collective migration of adhesive groups of cells. Here we focus on mechanical and mechanistic lessons from small migrating cell groups. We review forces and locomotory dynamics of two- and three-cell clusters, rotation of cell doublets, self-organization of one-dimensional cell trains, nascent efforts to understand three-dimensional collective migration and border cell clusters in Drosophila embryo.</p>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"166 ","pages":"1-12"},"PeriodicalIF":6.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142795065","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":"Spatiotemporal dissection of collective cell migration and tissue morphogenesis during development by optogenetics.","authors":"Sijia Zhou, Bing Liu, Jiaying Liu, Bin Yi, Xiaobo Wang","doi":"10.1016/j.semcdb.2024.12.004","DOIUrl":"10.1016/j.semcdb.2024.12.004","url":null,"abstract":"<p><p>Collective cell migration and tissue morphogenesis play a variety of important roles in the development of many species. Tissue morphogenesis often generates mechanical forces that alter cell shapes and arrangements, resembling collective cell migration-like behaviors. Genetic methods have been widely used to study collective cell migration and its like behavior, advancing our understanding of these processes during development. However, a growing body of research shows that collective cell migration during development is not a simple behavior but is often combined with other cellular and tissue processes. In addition, different surrounding environments can also influence migrating cells, further complicating collective cell migration during development. Due to the complexity of developmental processes and tissues, traditional genetic approaches often encounter challenges and limitations. Thus, some methods with spatiotemporal control become urgent in dissecting collective cell migration and tissue morphogenesis during development. Optogenetics is a method that combines optics and genetics, providing a perfect strategy for spatiotemporally controlling corresponding protein activity in subcellular, cellular or tissue levels. In this review, we introduce the basic mechanisms underlying different optogenetic tools. Then, we demonstrate how optogenetic methods have been applied in vivo to dissect collective cell migration and tissue morphogenesis during development. Additionally, we describe some promising optogenetic approaches for advancing this field. Together, this review will guide and facilitate future studies of collective cell migration in vivo and tissue morphogenesis by optogenetics.</p>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"166 ","pages":"36-51"},"PeriodicalIF":6.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142897121","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":"Spatial omics shed light on the tumour organisation of glioblastoma.","authors":"James R Whittle, Jurgen Kriel, Oluwaseun E Fatunla, Tianyao Lu, Joel J D Moffet, Montana Spiteri, Sarah A Best, Saskia Freytag","doi":"10.1016/j.semcdb.2024.12.006","DOIUrl":"https://doi.org/10.1016/j.semcdb.2024.12.006","url":null,"abstract":"<p><p>The glioblastoma tumour microenvironment is characterised by immense heterogeneity, with malignant and non-malignant cells that interact in a complex ecosystem. Emerging evidence suggests that the tumour microenvironment is key in facilitating rapid proliferation, invasion, migration and cancer cell survival, crucial for treatment resistance. Spatial omics technologies have enabled the molecular characterisation of regions or individual cells within their spatial context, providing previously unattainable insights into the complex organisation of the glioblastoma tumour microenvironment. Understanding this organisation is crucial for the development of new therapeutics and novel diagnostic tools that guide patient care. This review explores spatial omics technologies and how they have contributed to the development of a model outlining the architecture of the glioblastoma tumour microenvironment.</p>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"167 ","pages":"1-9"},"PeriodicalIF":6.2,"publicationDate":"2025-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142954505","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":"Diverse genetic conflicts mediated by molecular mimicry and computational approaches to detect them","authors":"Shelbi L. Russell ,&nbsp;Gabriel Penunuri ,&nbsp;Christopher Condon","doi":"10.1016/j.semcdb.2024.07.001","DOIUrl":"10.1016/j.semcdb.2024.07.001","url":null,"abstract":"<div><p>In genetic conflicts between intergenomic and selfish elements, driver and killer elements achieve biased survival, replication, or transmission over sensitive and targeted elements through a wide range of molecular mechanisms, including mimicry. Driving mechanisms manifest at all organismal levels, from the biased propagation of individual genes, as demonstrated by transposable elements, to the biased transmission of genomes, as illustrated by viruses, to the biased transmission of cell lineages, as in cancer. Targeted genomes are vulnerable to molecular mimicry through the conserved motifs they use for their own signaling and regulation. Mimicking these motifs enables an intergenomic or selfish element to control core target processes, and can occur at the sequence, structure, or functional level. Molecular mimicry was first appreciated as an important phenomenon more than twenty years ago. Modern genomics technologies, databases, and machine learning approaches offer tremendous potential to study the distribution of molecular mimicry across genetic conflicts in nature. Here, we explore the theoretical expectations for molecular mimicry between conflicting genomes, the trends in molecular mimicry mechanisms across known genetic conflicts, and outline how new examples can be gleaned from population genomic datasets. We discuss how mimics involving short sequence-based motifs or gene duplications can evolve convergently from new mutations<em>.</em> Whereas, processes that involve divergent domains or fully-folded structures occur among genomes by horizontal gene transfer. These trends are largely based on a small number of organisms and should be reevaluated in a general, phylogenetically independent framework. Currently, publicly available databases can be mined for genotypes driving non-Mendelian inheritance patterns, epistatic interactions, and convergent protein structures. A subset of these conflicting elements may be molecular mimics. We propose approaches for detecting genetic conflict and molecular mimicry from these datasets.</p></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"165 ","pages":"Pages 1-12"},"PeriodicalIF":6.2,"publicationDate":"2024-07-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S1084952124000557/pdfft?md5=d2592468bfb577ff0aef406716dc2946&pid=1-s2.0-S1084952124000557-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141856430","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"From the cauldron of conflict: Endogenous gene regulation by piRNA and other modes of adaptation enabled by selfish transposable elements","authors":"Justin P. Blumenstiel","doi":"10.1016/j.semcdb.2024.05.001","DOIUrl":"10.1016/j.semcdb.2024.05.001","url":null,"abstract":"<div><p>Transposable elements (TEs) provide a prime example of genetic conflict because they can proliferate in genomes and populations even if they harm the host. However, numerous studies have shown that TEs, though typically harmful, can also provide fuel for adaptation. This is because they code functional sequences that can be useful for the host in which they reside. In this review, I summarize the \"how\" and \"why\" of adaptation enabled by the genetic conflict between TEs and hosts. In addition, focusing on mechanisms of TE control by small piwi-interacting RNAs (piRNAs), I highlight an indirect form of adaptation enabled by conflict. In this case, mechanisms of host defense that regulate TEs have been redeployed for endogenous gene regulation. I propose that the genetic conflict released by meiosis in early eukaryotes may have been important because, among other reasons, it spurred evolutionary innovation on multiple interwoven trajectories - on the part of hosts and also embedded genetic parasites. This form of evolution may function as a complexity generating engine that was a critical player in eukaryotic evolution.</p></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"164 ","pages":"Pages 1-12"},"PeriodicalIF":7.3,"publicationDate":"2024-05-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141186135","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":"WHO elements – A new category of selfish genetic elements at the borderline between homing elements and transposable elements","authors":"Matthieu Osborne,&nbsp;Athaliah Fubara,&nbsp;Eoin Ó Cinnéide,&nbsp;Aisling Y. Coughlan,&nbsp;Kenneth H. Wolfe","doi":"10.1016/j.semcdb.2024.04.001","DOIUrl":"10.1016/j.semcdb.2024.04.001","url":null,"abstract":"<div><p>Homing genetic elements are a form of selfish DNA that inserts into a specific target site in the genome and spreads through the population by a process of biased inheritance. Two well-known types of homing element, called inteins and homing introns, were discovered decades ago. In this review we describe WHO elements, a newly discovered type of homing element that constitutes a distinct third category but is rare, having been found only in a few yeast species so far. WHO elements are inferred to spread using the same molecular homing mechanism as inteins and introns: they encode a site-specific endonuclease that cleaves the genome at the target site, making a DNA break that is subsequently repaired by copying the element. For most WHO elements, the target site is in the glycolytic gene <em>FBA1</em>. WHO elements differ from inteins and homing introns in two fundamental ways: they do not interrupt their host gene (<em>FBA1</em>), and they occur in clusters. The clusters were formed by successive integrations of different WHO elements into the <em>FBA1</em> locus, the result of an ‘arms race’ between the endonuclease and its target site. We also describe one family of WHO elements (WHO10) that is no longer specifically associated with the <em>FBA1</em> locus and instead appears to have become transposable, inserting at random genomic sites in <em>Torulaspora globosa</em> with up to 26 copies per strain. The WHO family of elements is therefore at the borderline between homing genetic elements and transposable elements.</p></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"163 ","pages":"Pages 2-13"},"PeriodicalIF":7.3,"publicationDate":"2024-04-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S1084952124000326/pdfft?md5=ca5197c79a4967a06b53c679ce8a49e9&pid=1-s2.0-S1084952124000326-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140774912","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Out with the old, in with the new: Meiotic driving of sex chromosome evolution","authors":"Callie M. Swanepoel,&nbsp;Jacob L. Mueller","doi":"10.1016/j.semcdb.2024.04.004","DOIUrl":"10.1016/j.semcdb.2024.04.004","url":null,"abstract":"<div><p>Chromosomal regions with meiotic drivers exhibit biased transmission (&gt; 50 %) over their competing homologous chromosomal region. These regions often have two prominent genetic features: suppressed meiotic crossing over and rapidly evolving multicopy gene families. Heteromorphic sex chromosomes (e.g., XY) often share these two genetic features with chromosomal regions exhibiting meiotic drive. Here, we discuss parallels between meiotic drive and sex chromosome evolution, how the divergence of heteromorphic sex chromosomes can be influenced by meiotic drive, experimental approaches to study meiotic drive on sex chromosomes, and meiotic drive in traditional and non-traditional model organisms with high-quality genome assemblies. The newly available diversity of high-quality sex chromosome sequences allows us to revisit conventional models of sex chromosome evolution through the lens of meiotic drive.</p></div>","PeriodicalId":21735,"journal":{"name":"Seminars in cell & developmental biology","volume":"163 ","pages":"Pages 14-21"},"PeriodicalIF":7.3,"publicationDate":"2024-04-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140759524","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}