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Starships: a new frontier for fungal biology 星际飞船：真菌生物学的新领域
IF 11.4 2区 生物学
Trends in Genetics Pub Date : 2024-09-18 DOI: 10.1016/j.tig.2024.08.006
Andrew Urquhart, Aaron A. Vogan, Emile Gluck-Thaler
{"title":"Starships: a new frontier for fungal biology","authors":"Andrew Urquhart, Aaron A. Vogan, Emile Gluck-Thaler","doi":"10.1016/j.tig.2024.08.006","DOIUrl":"https://doi.org/10.1016/j.tig.2024.08.006","url":null,"abstract":"<p>Transposable elements (TEs) are semiautonomous genetic entities that proliferate in genomes. We recently discovered the <em>Starships</em>, a previously hidden superfamily of giant TEs found in a diverse subphylum of filamentous fungi, the <em>Pezizomycotina</em>. <em>Starships</em> are unlike other eukaryotic TEs because they have evolved mechanisms for both mobilizing entire genes, including those encoding conditionally beneficial phenotypes, and for horizontally transferring between individuals. We argue that <em>Starships</em> have unrivaled capacity to engage their fungal hosts as genetic parasites and mutualists, revealing unexplored terrain for investigating the ecoevolutionary dynamics of TE-eukaryote interactions. We build on existing models of fungal genome evolution by conceptualizing <em>Starships</em> as a distinct genomic compartment whose dynamics profoundly shape fungal biology.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":"26 1","pages":""},"PeriodicalIF":11.4,"publicationDate":"2024-09-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142263519","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
On correlative and causal links of replicative epimutations 关于复制外显子的相关性和因果联系
IF 11.4 2区 生物学
Trends in Genetics Pub Date : 2024-09-16 DOI: 10.1016/j.tig.2024.08.008
Wanding Zhou, Yitzhak Reizel
{"title":"On correlative and causal links of replicative epimutations","authors":"Wanding Zhou, Yitzhak Reizel","doi":"10.1016/j.tig.2024.08.008","DOIUrl":"https://doi.org/10.1016/j.tig.2024.08.008","url":null,"abstract":"<p>The mitotic inheritability of DNA methylation as an epigenetic marker in higher-order eukaryotes has been established for &gt;40 years. The DNA methylome and mitotic division interplay is now considered bidirectional and highly intertwined. Various epigenetic writers, erasers, and modulators shape the perceived replicative methylation dynamics. This Review surveys the principles and complexity of mitotic transmission of DNA methylation, emphasizing the awareness of mitotic aging in analyzing DNA methylation dynamics in development and disease. We reviewed how DNA methylation changes alter mitotic proliferation capacity, implicating age-related diseases like cancer. We link replicative epimutation to stem cell dysfunction, inflammatory response, cancer risks, and epigenetic clocks, discussing the causative role of DNA methylation in health and disease.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":"4 1","pages":""},"PeriodicalIF":11.4,"publicationDate":"2024-09-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142269324","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
Evolving a favorable distribution for mutation effects 逐渐形成有利于突变效应的分布
IF 11.4 2区 生物学
Trends in Genetics Pub Date : 2024-09-14 DOI: 10.1016/j.tig.2024.07.009
David G. King
{"title":"Evolving a favorable distribution for mutation effects","authors":"David G. King","doi":"10.1016/j.tig.2024.07.009","DOIUrl":"https://doi.org/10.1016/j.tig.2024.07.009","url":null,"abstract":"<p>Tandem-repeat DNA sequences appear to be singularly capable of yielding abundant repeat-number mutations with a potentially advantageous distribution of fitness effects. Although knowing the rates and relative proportions of deleterious, neutral and beneficial mutations is fundamental for understanding evolvability, analysis of adaptation routinely overlooks small-effect mutations arising in tandem repeats.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":"22 1","pages":""},"PeriodicalIF":11.4,"publicationDate":"2024-09-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142269242","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
Genetic adaptations of marine invertebrates to hydrothermal vent habitats 海洋无脊椎动物对热液喷口生境的遗传适应性
IF 11.4 2区 生物学
Trends in Genetics Pub Date : 2024-09-13 DOI: 10.1016/j.tig.2024.08.004
Haibin Zhang, Yang Zhou, Zhuo Yang
{"title":"Genetic adaptations of marine invertebrates to hydrothermal vent habitats","authors":"Haibin Zhang, Yang Zhou, Zhuo Yang","doi":"10.1016/j.tig.2024.08.004","DOIUrl":"https://doi.org/10.1016/j.tig.2024.08.004","url":null,"abstract":"<p>Hydrothermal vents are unique habitats like an oases of life compared with typical deep-sea, soft-sediment environments. Most animals that live in these habitats are invertebrates, and they have adapted to extreme vent environments that include high temperatures, hypoxia, high sulfide, high metal concentration, and darkness. The advent of next-generation sequencing technology, especially the coming of the new era of omics, allowed more studies to focus on the molecular adaptation of these invertebrates to vent habitats. Many genes linked to hydrothermal adaptation have been studied. We summarize the findings related to these genetic adaptations and discuss which new techniques can facilitate studies in the future.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":"27 1","pages":""},"PeriodicalIF":11.4,"publicationDate":"2024-09-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142225232","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
Hypertranscription: the invisible hand in stem cell biology 超转录：干细胞生物学中的无形之手
IF 11.4 2区 生物学
Trends in Genetics Pub Date : 2024-09-12 DOI: 10.1016/j.tig.2024.08.005
Yun-Kyo Kim, Evelyne Collignon, S. Bryn Martin, Miguel Ramalho-Santos
{"title":"Hypertranscription: the invisible hand in stem cell biology","authors":"Yun-Kyo Kim, Evelyne Collignon, S. Bryn Martin, Miguel Ramalho-Santos","doi":"10.1016/j.tig.2024.08.005","DOIUrl":"https://doi.org/10.1016/j.tig.2024.08.005","url":null,"abstract":"<p>Stem cells are the fundamental drivers of growth during development and adult organ homeostasis. The properties that define stem cells – self-renewal and differentiation – are highly biosynthetically demanding. In order to fuel this demand, stem and progenitor cells engage in hypertranscription, a global amplification of the transcriptome. While standard normalization methods in transcriptomics typically mask hypertranscription, new approaches are beginning to reveal a remarkable range in global transcriptional output in stem and progenitor cells. We discuss technological advancements to probe global transcriptional shifts, review recent findings that contribute to defining hallmarks of stem cell hypertranscription, and propose future directions in this field.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":"219 1","pages":""},"PeriodicalIF":11.4,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142198811","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
Clonal ants reveal a potentially hidden meiotic feature 克隆蚂蚁揭示了一种潜在的隐性减数分裂特征
IF 11.4 2区 生物学
Trends in Genetics Pub Date : 2024-09-12 DOI: 10.1016/j.tig.2024.08.011
Hugo Darras, Qiaowei Pan
{"title":"Clonal ants reveal a potentially hidden meiotic feature","authors":"Hugo Darras, Qiaowei Pan","doi":"10.1016/j.tig.2024.08.011","DOIUrl":"https://doi.org/10.1016/j.tig.2024.08.011","url":null,"abstract":"<p>Meiosis is essential for eukaryotic reproduction and provides the basis for Mendel's segregation laws. A recent study by <span><span>Lacy <em>et al.</em></span><svg aria-label=\"Opens in new window\" focusable=\"false\" height=\"20\" viewbox=\"0 0 8 8\"><path d=\"M1.12949 2.1072V1H7V6.85795H5.89111V2.90281L0.784057 8L0 7.21635L5.11902 2.1072H1.12949Z\"></path></svg></span> identified a significant deviation from these laws in a clonal ant, hinting at a potentially overlooked meiotic feature. This discovery may have broader implications for recombination in nonclonal eukaryotes.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":"14 1","pages":""},"PeriodicalIF":11.4,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142198810","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
Achieve your research goals: a project management toolkit for graduate studies 实现研究目标：研究生项目管理工具包
IF 11.4 2区 生物学
Trends in Genetics Pub Date : 2024-09-12 DOI: 10.1016/j.tig.2024.08.003
Sheetal Modi
{"title":"Achieve your research goals: a project management toolkit for graduate studies","authors":"Sheetal Modi","doi":"10.1016/j.tig.2024.08.003","DOIUrl":"https://doi.org/10.1016/j.tig.2024.08.003","url":null,"abstract":"<p>How we work affects what we achieve. In this piece, we provide a project management toolkit for students to apply to their research, offering a structure to set goals, manage risks, prioritize work, and make effective decisions. With good planning, students can improve outcomes and make their journey more rewarding.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":"1 1","pages":""},"PeriodicalIF":11.4,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142198813","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
Subscription and Copyright Information 订阅和版权信息
IF 11.4 2区 生物学
Trends in Genetics Pub Date : 2024-09-09 DOI: 10.1016/s0168-9525(24)00191-4
{"title":"Subscription and Copyright Information","authors":"","doi":"10.1016/s0168-9525(24)00191-4","DOIUrl":"https://doi.org/10.1016/s0168-9525(24)00191-4","url":null,"abstract":"No Abstract","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":"8 1","pages":""},"PeriodicalIF":11.4,"publicationDate":"2024-09-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142225233","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
Advisory Board and Contents 咨询委员会和内容
IF 11.4 2区 生物学
Trends in Genetics Pub Date : 2024-09-09 DOI: 10.1016/s0168-9525(24)00188-4
{"title":"Advisory Board and Contents","authors":"","doi":"10.1016/s0168-9525(24)00188-4","DOIUrl":"https://doi.org/10.1016/s0168-9525(24)00188-4","url":null,"abstract":"No Abstract","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":"98 1","pages":""},"PeriodicalIF":11.4,"publicationDate":"2024-09-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142198812","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
Extracellular vesicles as modifiers of epigenomic profiles. 细胞外囊泡是表观基因组图谱的调节剂。
IF 13.6 2区 生物学
Trends in Genetics Pub Date : 2024-09-01 Epub Date: 2024-06-05 DOI: 10.1016/j.tig.2024.05.005
Haifeng Zhou, Sheng Hu, Wei Yan
{"title":"Extracellular vesicles as modifiers of epigenomic profiles.","authors":"Haifeng Zhou, Sheng Hu, Wei Yan","doi":"10.1016/j.tig.2024.05.005","DOIUrl":"10.1016/j.tig.2024.05.005","url":null,"abstract":"<p><p>Extracellular vesicles (EVs), emerging as novel mediators between intercellular communication, encapsulate distinct bioactive cargoes to modulate multiple biological events, such as epigenetic remodeling. In essence, EVs and epigenomic profiles are tightly linked and reciprocally regulated. Epigenetic factors, including histone and DNA modifications, noncoding RNAs, and protein post-translational modifications (PTMs) dynamically regulate EV biogenesis to contribute to EV heterogeneity. Alternatively, EVs actively modify DNA, RNA, and histone profiles in recipient cells by delivering RNA and protein cargoes for downstream epigenetic enzyme regulation. Moreover, EVs display great potential as diagnostic markers and drug-delivery vehicles for therapeutic applications. The combination of parental cell epigenomic modification with single EV characterization would be a promising strategy for EV engineering to enhance the epidrug loading efficacy and accuracy.</p>","PeriodicalId":54413,"journal":{"name":"Trends in Genetics","volume":" ","pages":"797-809"},"PeriodicalIF":13.6,"publicationDate":"2024-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141285409","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
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