{"title":"利用粗粒度分子动力学模拟了解洞穴孔对氧的 \"缓冲作用\"。","authors":"Samaneh Davoudi, An Ghysels","doi":"10.1007/978-3-031-67458-7_45","DOIUrl":null,"url":null,"abstract":"<p><p>The \"oxygen paradox\" embodies the delicate interplay between two opposing biological processes involving oxygen (O<sub>2</sub>). O<sub>2</sub> is indispensable for aerobic metabolism, fuelling oxidative phosphorylation in mitochondria. However, excess O<sub>2</sub> can generate reactive species that harm cells. Thus, maintaining O<sub>2</sub> balance is paramount, requiring the prioritisation of its benefits while minimising potential harm. Previous research hypothesised that caveolae, specialised cholesterol-rich membrane structures with a curved morphology, regulate cellular O<sub>2</sub> levels. Their role in absorbing and controlling O<sub>2</sub> release to mitochondria remains unclear. To address this gap, we aim to explore how the structural features of caveolae, particularly membrane curvature, influence local O<sub>2</sub> levels. Using coarse-grained (CG) molecular dynamics simulations, we simulate a caveola-like curved membrane and select a CG bead as the O<sub>2</sub> model. Comparing a flat bilayer and a liposome of 10 nm diameter, composed of 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (POPC), allows us to study changes in the O<sub>2</sub> free energy profile. Our findings reveal that curvature has a contrasting effect on the free energy of the outer and inner layers. These findings show the membrane curvature's impact on O<sub>2</sub> partitioning in the membrane and O<sub>2</sub> permeation barriers, paving the way towards our understanding of the role of caveolae curvature in O<sub>2</sub> homeostasis.</p>","PeriodicalId":7270,"journal":{"name":"Advances in experimental medicine and biology","volume":"1463 ","pages":"271-275"},"PeriodicalIF":0.0000,"publicationDate":"2024-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Understanding Oxygen \\\"Buffering\\\" by Caveolae Using Coarse-Grained Molecular Dynamics Simulations.\",\"authors\":\"Samaneh Davoudi, An Ghysels\",\"doi\":\"10.1007/978-3-031-67458-7_45\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><p>The \\\"oxygen paradox\\\" embodies the delicate interplay between two opposing biological processes involving oxygen (O<sub>2</sub>). O<sub>2</sub> is indispensable for aerobic metabolism, fuelling oxidative phosphorylation in mitochondria. However, excess O<sub>2</sub> can generate reactive species that harm cells. Thus, maintaining O<sub>2</sub> balance is paramount, requiring the prioritisation of its benefits while minimising potential harm. Previous research hypothesised that caveolae, specialised cholesterol-rich membrane structures with a curved morphology, regulate cellular O<sub>2</sub> levels. Their role in absorbing and controlling O<sub>2</sub> release to mitochondria remains unclear. To address this gap, we aim to explore how the structural features of caveolae, particularly membrane curvature, influence local O<sub>2</sub> levels. Using coarse-grained (CG) molecular dynamics simulations, we simulate a caveola-like curved membrane and select a CG bead as the O<sub>2</sub> model. Comparing a flat bilayer and a liposome of 10 nm diameter, composed of 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (POPC), allows us to study changes in the O<sub>2</sub> free energy profile. Our findings reveal that curvature has a contrasting effect on the free energy of the outer and inner layers. These findings show the membrane curvature's impact on O<sub>2</sub> partitioning in the membrane and O<sub>2</sub> permeation barriers, paving the way towards our understanding of the role of caveolae curvature in O<sub>2</sub> homeostasis.</p>\",\"PeriodicalId\":7270,\"journal\":{\"name\":\"Advances in experimental medicine and biology\",\"volume\":\"1463 \",\"pages\":\"271-275\"},\"PeriodicalIF\":0.0000,\"publicationDate\":\"2024-01-01\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Advances in experimental medicine and biology\",\"FirstCategoryId\":\"3\",\"ListUrlMain\":\"https://doi.org/10.1007/978-3-031-67458-7_45\",\"RegionNum\":4,\"RegionCategory\":\"医学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q2\",\"JCRName\":\"Biochemistry, Genetics and Molecular Biology\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Advances in experimental medicine and biology","FirstCategoryId":"3","ListUrlMain":"https://doi.org/10.1007/978-3-031-67458-7_45","RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q2","JCRName":"Biochemistry, Genetics and Molecular Biology","Score":null,"Total":0}
Understanding Oxygen "Buffering" by Caveolae Using Coarse-Grained Molecular Dynamics Simulations.
The "oxygen paradox" embodies the delicate interplay between two opposing biological processes involving oxygen (O2). O2 is indispensable for aerobic metabolism, fuelling oxidative phosphorylation in mitochondria. However, excess O2 can generate reactive species that harm cells. Thus, maintaining O2 balance is paramount, requiring the prioritisation of its benefits while minimising potential harm. Previous research hypothesised that caveolae, specialised cholesterol-rich membrane structures with a curved morphology, regulate cellular O2 levels. Their role in absorbing and controlling O2 release to mitochondria remains unclear. To address this gap, we aim to explore how the structural features of caveolae, particularly membrane curvature, influence local O2 levels. Using coarse-grained (CG) molecular dynamics simulations, we simulate a caveola-like curved membrane and select a CG bead as the O2 model. Comparing a flat bilayer and a liposome of 10 nm diameter, composed of 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (POPC), allows us to study changes in the O2 free energy profile. Our findings reveal that curvature has a contrasting effect on the free energy of the outer and inner layers. These findings show the membrane curvature's impact on O2 partitioning in the membrane and O2 permeation barriers, paving the way towards our understanding of the role of caveolae curvature in O2 homeostasis.
期刊介绍:
Advances in Experimental Medicine and Biology provides a platform for scientific contributions in the main disciplines of the biomedicine and the life sciences. This series publishes thematic volumes on contemporary research in the areas of microbiology, immunology, neurosciences, biochemistry, biomedical engineering, genetics, physiology, and cancer research. Covering emerging topics and techniques in basic and clinical science, it brings together clinicians and researchers from various fields.