eLife最新文献

筛选
英文 中文
Discovery of a heparan sulfate binding domain in monkeypox virus H3 as an anti-poxviral drug target combining AI and MD simulations. 结合AI和MD模拟发现猴痘病毒H3硫酸肝素结合域作为抗痘病毒药物靶点。
IF 6.4 1区 生物学
eLife Pub Date : 2025-01-16 DOI: 10.7554/eLife.100545
Bin Zheng, Meimei Duan, Yifen Huang, Shangchen Wang, Jun Qiu, Zhuojian Lu, Lichao Liu, Guojin Tang, Lin Cheng, Peng Zheng
{"title":"Discovery of a heparan sulfate binding domain in monkeypox virus H3 as an anti-poxviral drug target combining AI and MD simulations.","authors":"Bin Zheng, Meimei Duan, Yifen Huang, Shangchen Wang, Jun Qiu, Zhuojian Lu, Lichao Liu, Guojin Tang, Lin Cheng, Peng Zheng","doi":"10.7554/eLife.100545","DOIUrl":"https://doi.org/10.7554/eLife.100545","url":null,"abstract":"<p><p>Viral adhesion to host cells is a critical step in infection for many viruses, including monkeypox virus (MPXV). In MPXV, the H3 protein mediates viral adhesion through its interaction with heparan sulfate (HS), yet the structural details of this interaction have remained elusive. Using AI-based structural prediction tools and molecular dynamics (MD) simulations, we identified a novel, positively charged α-helical domain in H3 that is essential for HS binding. This conserved domain, found across <i>orthopoxviruses</i>, was experimentally validated and shown to be critical for viral adhesion, making it an ideal target for antiviral drug development. Targeting this domain, we designed a protein inhibitor, which disrupted the H3-HS interaction, inhibited viral infection in vitro and viral replication in vivo, offering a promising antiviral candidate. Our findings reveal a novel therapeutic target of MPXV, demonstrating the potential of combination of AI-driven methods and MD simulations to accelerate antiviral drug discovery.</p>","PeriodicalId":11640,"journal":{"name":"eLife","volume":"13 ","pages":""},"PeriodicalIF":6.4,"publicationDate":"2025-01-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11737874/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143002303","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Encoding of cerebellar dentate neuron activity during visual attention in rhesus macaques. 猕猴视觉注意过程中小脑齿状神经元活动的编码。
IF 6.4 1区 生物学
eLife Pub Date : 2025-01-16 DOI: 10.7554/eLife.99696
Nico A Flierman, Sue Ann Koay, Willem S van Hoogstraten, Tom J H Ruigrok, Pieter Roelfsema, Aleksandra Badura, Chris I De Zeeuw
{"title":"Encoding of cerebellar dentate neuron activity during visual attention in rhesus macaques.","authors":"Nico A Flierman, Sue Ann Koay, Willem S van Hoogstraten, Tom J H Ruigrok, Pieter Roelfsema, Aleksandra Badura, Chris I De Zeeuw","doi":"10.7554/eLife.99696","DOIUrl":"https://doi.org/10.7554/eLife.99696","url":null,"abstract":"<p><p>The role of cerebellum in controlling eye movements is well established, but its contribution to more complex forms of visual behavior has remained elusive. To study cerebellar activity during visual attention we recorded extracellular activity of dentate nucleus (DN) neurons in two non-human primates (NHPs). NHPs were trained to read the direction indicated by a peripheral visual stimulus while maintaining fixation at the center, and report the direction of the cue by performing a saccadic eye movement into the same direction following a delay. We found that single-unit DN neurons modulated spiking activity over the entire time course of the task, and that their activity often bridged temporally separated intra-trial events, yet in a heterogeneous manner. To better understand the heterogeneous relationship between task structure, behavioral performance, and neural dynamics, we constructed a behavioral, an encoding, and a decoding model. Both NHPs showed different behavioral strategies, which influenced the performance. Activity of the DN neurons reflected the unique strategies, with the direction of the visual stimulus frequently being encoded long before an upcoming saccade. Moreover, the latency of the ramping activity of DN neurons following presentation of the visual stimulus was shorter in the better performing NHP. Labeling with the retrograde tracer Cholera Toxin B in the recording location in the DN indicated that these neurons predominantly receive inputs from Purkinje cells in the D1 and D2 zones of the lateral cerebellum as well as neurons of the principal olive and medial pons, all regions known to connect with neurons in the prefrontal cortex contributing to planning of saccades. Together, our results highlight that DN neurons can dynamically modulate their activity during a visual attention task, comprising not only sensorimotor but also cognitive attentional components.</p>","PeriodicalId":11640,"journal":{"name":"eLife","volume":"13 ","pages":""},"PeriodicalIF":6.4,"publicationDate":"2025-01-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11737872/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143002310","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Serum metabolome indicators of early childhood development in the Brazilian National Survey on Child Nutrition (ENANI-2019). 巴西国家儿童营养调查(ENANI-2019)中儿童早期发育的血清代谢组指标。
IF 6.4 1区 生物学
eLife Pub Date : 2025-01-15 DOI: 10.7554/eLife.97982
Marina Padilha, Victor Nahuel Keller, Paula Normando, Raquel M Schincaglia, Nathalia C Freitas-Costa, Samary S R Freire, Felipe M Delpino, Inês R R de Castro, Elisa M A Lacerda, Dayana R Farias, Zachary Kroezen, Meera Shanmuganathan, Philip Britz-Mckibbin, Gilberto Kac
{"title":"Serum metabolome indicators of early childhood development in the Brazilian National Survey on Child Nutrition (ENANI-2019).","authors":"Marina Padilha, Victor Nahuel Keller, Paula Normando, Raquel M Schincaglia, Nathalia C Freitas-Costa, Samary S R Freire, Felipe M Delpino, Inês R R de Castro, Elisa M A Lacerda, Dayana R Farias, Zachary Kroezen, Meera Shanmuganathan, Philip Britz-Mckibbin, Gilberto Kac","doi":"10.7554/eLife.97982","DOIUrl":"https://doi.org/10.7554/eLife.97982","url":null,"abstract":"<p><p><b>Background:</b> The role of circulating metabolites on child development is understudied. We investigated associations between children's serum metabolome and early childhood development (ECD).</p><p><p><b>Methods:</b> Untargeted metabolomics was performed on serum samples of 5,004 children aged 6-59 months, a subset of participants from the Brazilian National Survey on Child Nutrition (ENANI-2019). ECD was assessed using the Survey of Well-being of Young Children's milestones questionnaire. The graded response model was used to estimate developmental age. Developmental quotient (DQ) was calculated as the developmental age divided by chronological age. Partial least square regression selected metabolites with a variable importance projection ≥ 1. The interaction between significant metabolites and the child's age was tested.</p><p><p><b>Results:</b> Twenty-eight top-ranked metabolites were included in linear regression models adjusted for the child's nutritional status, diet quality, and infant age. Cresol sulfate (β = -0.07; adjusted-p < 0.001), hippuric acid (β = -0.06; adjusted-p < 0.001), phenylacetylglutamine (β = -0.06; adjusted-p < 0.001), and trimethylamine-<i>N</i>-oxide (β = -0.05; adjusted-p = 0.002) showed inverse associations with DQ. We observed opposite directions in the association of DQ for creatinine (for children aged -1 SD: β = -0.05; p =0.01; +1 SD: β = 0.05; p =0.02) and methylhistidine (-1 SD: β = - 0.04; p =0.04; +1 SD: β = 0.04; p =0.03).</p><p><p><b>Conclusion:</b> Serum biomarkers, including dietary and microbial-derived metabolites involved in the gut-brain axis, may potentially be used to track children at risk for developmental delays.</p><p><p><b>Funding:</b> Supported by the Brazilian Ministry of Health and the Brazilian National Research Council.</p>","PeriodicalId":11640,"journal":{"name":"eLife","volume":"14 ","pages":""},"PeriodicalIF":6.4,"publicationDate":"2025-01-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142983104","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Correction: Functional and structural segregation of overlapping helices in HIV-1. 更正:HIV-1中重叠螺旋的功能和结构分离。
IF 6.4 1区 生物学
eLife Pub Date : 2025-01-15 DOI: 10.7554/eLife.105985
Maliheh Safari, Bhargavi Jayaraman, Henni Zommer, Shumin Yang, Cynthia Smith, Jason D Fernandes, Alan D Frankel
{"title":"Correction: Functional and structural segregation of overlapping helices in HIV-1.","authors":"Maliheh Safari, Bhargavi Jayaraman, Henni Zommer, Shumin Yang, Cynthia Smith, Jason D Fernandes, Alan D Frankel","doi":"10.7554/eLife.105985","DOIUrl":"10.7554/eLife.105985","url":null,"abstract":"<p><p></p>","PeriodicalId":11640,"journal":{"name":"eLife","volume":"14 ","pages":""},"PeriodicalIF":6.4,"publicationDate":"2025-01-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11735023/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142983102","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Endocytic recycling is central to circadian collagen fibrillogenesis and disrupted in fibrosis. 内吞循环是昼夜胶原纤维形成和纤维化中断的核心。
IF 6.4 1区 生物学
eLife Pub Date : 2025-01-15 DOI: 10.7554/eLife.95842
Joan Chang, Adam Pickard, Jeremy A Herrera, Sarah O'Keefe, Richa Garva, Matthew Hartshorn, Anna Hoyle, Lewis Dingle, John Knox, Thomas A Jowitt, Madeleine Coy, Jason Wong, Adam Reid, Yinhui Lu, Cédric Zeltz, Rajamiyer V Venkateswaran, Patrick T Caswell, Stephen High, Donald Gullberg, Karl E Kadler
{"title":"Endocytic recycling is central to circadian collagen fibrillogenesis and disrupted in fibrosis.","authors":"Joan Chang, Adam Pickard, Jeremy A Herrera, Sarah O'Keefe, Richa Garva, Matthew Hartshorn, Anna Hoyle, Lewis Dingle, John Knox, Thomas A Jowitt, Madeleine Coy, Jason Wong, Adam Reid, Yinhui Lu, Cédric Zeltz, Rajamiyer V Venkateswaran, Patrick T Caswell, Stephen High, Donald Gullberg, Karl E Kadler","doi":"10.7554/eLife.95842","DOIUrl":"10.7554/eLife.95842","url":null,"abstract":"<p><p>Collagen-I fibrillogenesis is crucial to health and development, where dysregulation is a hallmark of fibroproliferative diseases. Here, we show that collagen-I fibril assembly required a functional endocytic system that recycles collagen-I to assemble new fibrils. Endogenous collagen production was not required for fibrillogenesis if exogenous collagen was available, but the circadian-regulated vacuolar protein sorting (VPS) 33b and collagen-binding integrin α11 subunit were crucial to fibrillogenesis. Cells lacking VPS33B secrete soluble collagen-I protomers but were deficient in fibril formation, thus secretion and assembly are separately controlled. Overexpression of VPS33B led to loss of fibril rhythmicity and overabundance of fibrils, which was mediated through integrin α11β1. Endocytic recycling of collagen-I was enhanced in human fibroblasts isolated from idiopathic pulmonary fibrosis, where VPS33B and integrin α11 subunit were overexpressed at the fibrogenic front; this correlation between VPS33B, integrin α11 subunit, and abnormal collagen deposition was also observed in samples from patients with chronic skin wounds. In conclusion, our study showed that circadian-regulated endocytic recycling is central to homeostatic assembly of collagen fibrils and is disrupted in diseases.</p>","PeriodicalId":11640,"journal":{"name":"eLife","volume":"13 ","pages":""},"PeriodicalIF":6.4,"publicationDate":"2025-01-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11735028/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142983098","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Leveraging mobility data to analyze persistent SARS-CoV-2 mutations and inform targeted genomic surveillance. 利用流动性数据分析持续的SARS-CoV-2突变并为有针对性的基因组监测提供信息。
IF 6.4 1区 生物学
eLife Pub Date : 2025-01-15 DOI: 10.7554/eLife.94045
Riccardo Spott, Mathias W Pletz, Carolin Fleischmann-Struzek, Aurelia Kimmig, Christiane Hadlich, Matthias Hauert, Mara Lohde, Mateusz Jundzill, Mike Marquet, Petra Dickmann, Ruben Schüchner, Martin Hölzer, Denise Kühnert, Christian Brandt
{"title":"Leveraging mobility data to analyze persistent SARS-CoV-2 mutations and inform targeted genomic surveillance.","authors":"Riccardo Spott, Mathias W Pletz, Carolin Fleischmann-Struzek, Aurelia Kimmig, Christiane Hadlich, Matthias Hauert, Mara Lohde, Mateusz Jundzill, Mike Marquet, Petra Dickmann, Ruben Schüchner, Martin Hölzer, Denise Kühnert, Christian Brandt","doi":"10.7554/eLife.94045","DOIUrl":"10.7554/eLife.94045","url":null,"abstract":"<p><p>Given the rapid cross-country spread of SARS-CoV-2 and the resulting difficulty in tracking lineage spread, we investigated the potential of combining mobile service data and fine-granular metadata (such as postal codes and genomic data) to advance integrated genomic surveillance of the pandemic in the federal state of Thuringia, Germany. We sequenced over 6500 SARS-CoV-2 Alpha genomes (B.1.1.7) across 7 months within Thuringia while collecting patients' isolation dates and postal codes. Our dataset is complemented by over 66,000 publicly available German Alpha genomes and mobile service data for Thuringia. We identified the existence and spread of nine persistent mutation variants within the Alpha lineage, seven of which formed separate phylogenetic clusters with different spreading patterns in Thuringia. The remaining two are subclusters. Mobile service data can indicate these clusters' spread and highlight a potential sampling bias, especially of low-prevalence variants. Thereby, mobile service data can be used either retrospectively to assess surveillance coverage and efficiency from already collected data or to actively guide part of a surveillance sampling process to districts where these variants are expected to emerge. The latter concept was successfully implemented as a proof-of-concept for a mobility-guided sampling strategy in response to the surveillance of Omicron sublineage BQ.1.1. The combination of mobile service data and SARS-CoV-2 surveillance by genome sequencing is a valuable tool for more targeted and responsive surveillance.</p>","PeriodicalId":11640,"journal":{"name":"eLife","volume":"13 ","pages":""},"PeriodicalIF":6.4,"publicationDate":"2025-01-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11735024/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142983100","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Complementary cognitive roles for D2-MSNs and D1-MSNs during interval timing. D2-MSN 和 D1-MSN 在间隔计时中的认知作用互补
IF 6.4 1区 生物学
eLife Pub Date : 2025-01-15 DOI: 10.7554/eLife.96287
Robert A Bruce, Matthew Weber, Alexandra Bova, Rachael Volkman, Casey Jacobs, Kartik Sivakumar, Hannah Stutt, Youngcho Kim, Rodica Curtu, Kumar Narayanan
{"title":"Complementary cognitive roles for D2-MSNs and D1-MSNs during interval timing.","authors":"Robert A Bruce, Matthew Weber, Alexandra Bova, Rachael Volkman, Casey Jacobs, Kartik Sivakumar, Hannah Stutt, Youngcho Kim, Rodica Curtu, Kumar Narayanan","doi":"10.7554/eLife.96287","DOIUrl":"10.7554/eLife.96287","url":null,"abstract":"<p><p>The role of striatal pathways in cognitive processing is unclear. We studied dorsomedial striatal cognitive processing during interval timing, an elementary cognitive task that requires mice to estimate intervals of several seconds and involves working memory for temporal rules as well as attention to the passage of time. We harnessed optogenetic tagging to record from striatal D2-dopamine receptor-expressing medium spiny neurons (D2-MSNs) in the indirect pathway and from D1-dopamine receptor-expressing MSNs (D1-MSNs) in the direct pathway. We found that D2-MSNs and D1-MSNs exhibited distinct dynamics over temporal intervals as quantified by principal component analyses and trial-by-trial generalized linear models. MSN recordings helped construct and constrain a four-parameter drift-diffusion computational model in which MSN ensemble activity represented the accumulation of temporal evidence. This model predicted that disrupting either D2-MSNs or D1-MSNs would increase interval timing response times and alter MSN firing. In line with this prediction, we found that optogenetic inhibition or pharmacological disruption of either D2-MSNs or D1-MSNs increased interval timing response times. Pharmacologically disrupting D2-MSNs or D1-MSNs also changed MSN dynamics and degraded trial-by-trial temporal decoding. Together, our findings demonstrate that D2-MSNs and D1-MSNs had opposing dynamics yet played complementary cognitive roles, implying that striatal direct and indirect pathways work together to shape temporal control of action. These data provide novel insight into basal ganglia cognitive operations beyond movement and have implications for human striatal diseases and therapies targeting striatal pathways.</p>","PeriodicalId":11640,"journal":{"name":"eLife","volume":"13 ","pages":""},"PeriodicalIF":6.4,"publicationDate":"2025-01-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11735027/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142983086","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Restoring bone healing potential. 恢复骨愈合潜能。
IF 6.4 1区 生物学
eLife Pub Date : 2025-01-13 DOI: 10.7554/eLife.105420
Inês Sequeira
{"title":"Restoring bone healing potential.","authors":"Inês Sequeira","doi":"10.7554/eLife.105420","DOIUrl":"10.7554/eLife.105420","url":null,"abstract":"<p><p>A combination of intermittent fasting and administering Wnt3a proteins to a bone injury can rejuvenate bone repair in aged mice.</p>","PeriodicalId":11640,"journal":{"name":"eLife","volume":"14 ","pages":""},"PeriodicalIF":6.4,"publicationDate":"2025-01-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11729341/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142970165","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
AI-driven automated discovery tools reveal diverse behavioral competencies of biological networks. 人工智能驱动的自动发现工具揭示了生物网络的多种行为能力。
IF 6.4 1区 生物学
eLife Pub Date : 2025-01-13 DOI: 10.7554/eLife.92683
Mayalen Etcheverry, Clément Moulin-Frier, Pierre-Yves Oudeyer, Michael Levin
{"title":"AI-driven automated discovery tools reveal diverse behavioral competencies of biological networks.","authors":"Mayalen Etcheverry, Clément Moulin-Frier, Pierre-Yves Oudeyer, Michael Levin","doi":"10.7554/eLife.92683","DOIUrl":"10.7554/eLife.92683","url":null,"abstract":"<p><p>Many applications in biomedicine and synthetic bioengineering rely on understanding, mapping, predicting, and controlling the complex behavior of chemical and genetic networks. The emerging field of diverse intelligence investigates the problem-solving capacities of unconventional agents. However, few quantitative tools exist for exploring the competencies of non-conventional systems. Here, we view gene regulatory networks (GRNs) as agents navigating a problem space and develop automated tools to map the robust goal states GRNs can reach despite perturbations. Our contributions include: (1) Adapting curiosity-driven exploration algorithms from AI to discover the range of reachable goal states of GRNs, and (2) Proposing empirical tests inspired by behaviorist approaches to assess their navigation competencies. Our data shows that models inferred from biological data can reach a wide spectrum of steady states, exhibiting various competencies in physiological network dynamics without requiring structural changes in network properties or connectivity. We also explore the applicability of these 'behavioral catalogs' for comparing evolved competencies across biological networks, for designing drug interventions in biomedical contexts and synthetic gene networks for bioengineering. These tools and the emphasis on behavior-shaping open new paths for efficiently exploring the complex behavior of biological networks. For the interactive version of this paper, please visit https://developmentalsystems.org/curious-exploration-of-grn-competencies.</p>","PeriodicalId":11640,"journal":{"name":"eLife","volume":"13 ","pages":""},"PeriodicalIF":6.4,"publicationDate":"2025-01-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11729405/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142970210","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Robust single-nucleus RNA sequencing reveals depot-specific cell population dynamics in adipose tissue remodeling during obesity. 强大的单核RNA测序揭示了肥胖期间脂肪组织重塑中的仓库特异性细胞群体动态。
IF 6.4 1区 生物学
eLife Pub Date : 2025-01-13 DOI: 10.7554/eLife.97981
Jisun So, Olivia Strobel, Jamie Wann, Kyungchan Kim, Avishek Paul, Dominic J Acri, Luke C Dabin, Jungsu Kim, Gang Peng, Hyun Cheol Roh
{"title":"Robust single-nucleus RNA sequencing reveals depot-specific cell population dynamics in adipose tissue remodeling during obesity.","authors":"Jisun So, Olivia Strobel, Jamie Wann, Kyungchan Kim, Avishek Paul, Dominic J Acri, Luke C Dabin, Jungsu Kim, Gang Peng, Hyun Cheol Roh","doi":"10.7554/eLife.97981","DOIUrl":"10.7554/eLife.97981","url":null,"abstract":"<p><p>Single-nucleus RNA sequencing (snRNA-seq), an alternative to single-cell RNA sequencing (scRNA-seq), encounters technical challenges in obtaining high-quality nuclei and RNA, persistently hindering its applications. Here, we present a robust technique for isolating nuclei across various tissue types, remarkably enhancing snRNA-seq data quality. Employing this approach, we comprehensively characterize the depot-dependent cellular dynamics of various cell types underlying mouse adipose tissue remodeling during obesity. By integrating bulk nuclear RNA-seq from adipocyte nuclei of different sizes, we identify distinct adipocyte subpopulations categorized by size and functionality. These subpopulations follow two divergent trajectories, adaptive and pathological, with their prevalence varying by depot. Specifically, we identify a key molecular feature of dysfunctional hypertrophic adipocytes, a global shutdown in gene expression, along with elevated stress and inflammatory responses. Furthermore, our differential gene expression analysis reveals distinct contributions of adipocyte subpopulations to the overall pathophysiology of adipose tissue. Our study establishes a robust snRNA-seq method, providing novel insights into the biological processes involved in adipose tissue remodeling during obesity, with broader applicability across diverse biological systems.</p>","PeriodicalId":11640,"journal":{"name":"eLife","volume":"13 ","pages":""},"PeriodicalIF":6.4,"publicationDate":"2025-01-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11729396/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142970163","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
0
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
请完成安全验证×
相关产品
×
本文献相关产品
联系我们:info@booksci.cn Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术官方微信