The endoplasmic reticulum(ER),which is composed of a continuous network of tubules and sheets,forms the most widely distributed membrane system in eukaryotic cells.As a result,it engages a variety of organelles by est...The endoplasmic reticulum(ER),which is composed of a continuous network of tubules and sheets,forms the most widely distributed membrane system in eukaryotic cells.As a result,it engages a variety of organelles by establishing membrane contact sites(MCSs).These contacts regulate organelle positioning and remodeling,including fusion and fission,facilitate precise lipid exchange,and couple vital signaling events.Here,we systematically review recent advances and converging themes on ER-involved organellar contact.The molecular basis,cellular influence,and potential physiological functions for ER/nuclear envelope contacts with mitochondria,Golgi,endosomes,lysosomes,lipid droplets,autophagosomes,and plasma membrane are summarized.展开更多
In multicellular and even single-celled organisms,individual components are interconnected at multiscale levels to produce enormously complex biological networks that help these systems maintain homeostasis for develo...In multicellular and even single-celled organisms,individual components are interconnected at multiscale levels to produce enormously complex biological networks that help these systems maintain homeostasis for development and environmental adaptation.Systems biology studies initially adopted network analysis to explore how relationships between individual components give rise to complex biological processes.Network analysis has been applied to dissect the complex connectivity of mammalian brains across different scales in time and space in The Human Brain Project.In plant science,network analysis has similarly been applied to study the connectivity of plant components at the molecular,subcellular,cellular,organic,and organism levels.Analysis of these multiscale networks contributes to our understanding of how genotype determines phenotype.In this review,we summarized the theoretical framework of plant multiscale networks and introduced studies investigating plant networks by various experimental and computational modalities.We next discussed the currently available analytic methodologies and multi-level imaging techniques used to map multiscale networks in plants.Finally,we highlighted some of the technical challenges and key questions remaining to be addressed in this emerging field.展开更多
Cells utilize calcium ions(Ca^2+)to signal almost all aspects of cellular life,ranging from cell proliferation to cell death,in a spatially and temporally regulated manner.A key aspect of this regulation is the compar...Cells utilize calcium ions(Ca^2+)to signal almost all aspects of cellular life,ranging from cell proliferation to cell death,in a spatially and temporally regulated manner.A key aspect of this regulation is the compartmen-talization of Ca^2+in various cytoplasmic organelles that act as intracellular Ca^2+stores.Whereas Ca^2+release from the large-volume Ca^2+stores,such as the endoplasmic reticulum(ER)and Golgi apparatus,are preferred for signal transduction,Ca^2+release from the small-volume individual vesicular stores that are dispersed throughout the cell,such as lysosomes,may be more useful in local regulation,such as membrane fusion and individualized vesicular movements.Conceivably,these two types of Ca^2+stores may be established,maintained or refilled via distinct mechanisms.ER stores are refilled through sustained Ca^2+influx at ER-plasma membrane(PM)membrane contact sites(MCSs).In this review,we discuss the release and refilling mechanisms of intracellular small vesicular Ca^2+stores,with a special focus on lysosomes.Recent imaging studies of Ca2+release and organelle MCSs suggest that Ca^2+exchange may occur between two types of stores,such that the small stores acquire Ca^2+from the large stores via ER-vesicle MCSs.Hence vesicular stores like lysosomes may be viewed as secondary Ca^2+stores in the cell.展开更多
Protein–protein interaction(PPI)networks are key to nearly all aspects of cellular activity.Therefore,the identification of PPIs is important for understanding a specific biological process in an organism.Compared wi...Protein–protein interaction(PPI)networks are key to nearly all aspects of cellular activity.Therefore,the identification of PPIs is important for understanding a specific biological process in an organism.Compared with conventional methods for probing PPIs,the recently described proximity labeling(PL)approach combined with mass spectrometry(MS)-based quantitative proteomics hasemerged as apowerful approach for characterizing PPIs.However,the application of PL in planta remains in its infancy.Here,we summarize recent progress in PL and its potential utilization in plant biology.We specifically summarize advances in PL,including the development and comparison of different PL enzymes and the application of PL for deciphering various molecular interactions in different organisms with an emphasis on plant systems.展开更多
基金supported by the National Natural Science Foundation of China(92254305)supported by the National Natural Science Foundation of China(92254305,91854204,32130026)+20 种基金supported by National Natural Science Foundation of China(92254302,32225013,32130023)supported by the National Natural Science Foundation of China(91954201,31971289)supported by grants from the National Natural Science Foundation of China(91954207)supported by the National Natural Science Foundation of China(32170753)supported by the National Natural Science Foundation of China(32170692,92154001)supported by grants from the National Natural Science Foundation of China(92254303,32170701)supported by grants from the National Natural Science Foundation of China(32101000,32271273)the Strategic Priority Research Program(XDB39000000)Project for Young Scientists in Basic Research(YSBR-075)of the Chinese Academy of Sciencesthe National Key Research and Development Program of China(2021YFA1300800)National Key Research and Development Program of China(2021YFA0804802,2019YFA0508602)Beijing Natural Science Foundation(JQ20028)New Cornerstone Science Foundation(Xplorer Prize)the Strategic Priority Research Program of the Chinese Academy of Sciences(XDB37020304)the Strategic Priority Research Program of the Chinese Academy of Sciences(XDB37040402)the Strategic Priority Research Program of the Chinese Academy of Sciences(XDA24030205)the National Key Research and Development Program of China(2021YFA1300301)the National Key Research and Development Program of China(2018YFA0506902)the Fundamental Research Funds for the Central Universities(63213104,63223043)the Talent Training Project at Nankai University(035-BB042112)supported by the Beijing Municipal Science&Technology Commission(5202022)。
文摘The endoplasmic reticulum(ER),which is composed of a continuous network of tubules and sheets,forms the most widely distributed membrane system in eukaryotic cells.As a result,it engages a variety of organelles by establishing membrane contact sites(MCSs).These contacts regulate organelle positioning and remodeling,including fusion and fission,facilitate precise lipid exchange,and couple vital signaling events.Here,we systematically review recent advances and converging themes on ER-involved organellar contact.The molecular basis,cellular influence,and potential physiological functions for ER/nuclear envelope contacts with mitochondria,Golgi,endosomes,lysosomes,lipid droplets,autophagosomes,and plasma membrane are summarized.
基金supported by the National Natural Science Foundation of China(31570246 and 32170279)the Fundamental Research Funds for the Central Universities(2572019CT03)。
基金supported by the National Natural Science Foundation of China(31530084,32000558,32000483,and31800504)the Programme of Introducing Talents of Discipline to Universities(111 project,B13007)the China Postdoctoral Science Foundation Grant(2019M660494)。
文摘In multicellular and even single-celled organisms,individual components are interconnected at multiscale levels to produce enormously complex biological networks that help these systems maintain homeostasis for development and environmental adaptation.Systems biology studies initially adopted network analysis to explore how relationships between individual components give rise to complex biological processes.Network analysis has been applied to dissect the complex connectivity of mammalian brains across different scales in time and space in The Human Brain Project.In plant science,network analysis has similarly been applied to study the connectivity of plant components at the molecular,subcellular,cellular,organic,and organism levels.Analysis of these multiscale networks contributes to our understanding of how genotype determines phenotype.In this review,we summarized the theoretical framework of plant multiscale networks and introduced studies investigating plant networks by various experimental and computational modalities.We next discussed the currently available analytic methodologies and multi-level imaging techniques used to map multiscale networks in plants.Finally,we highlighted some of the technical challenges and key questions remaining to be addressed in this emerging field.
文摘Cells utilize calcium ions(Ca^2+)to signal almost all aspects of cellular life,ranging from cell proliferation to cell death,in a spatially and temporally regulated manner.A key aspect of this regulation is the compartmen-talization of Ca^2+in various cytoplasmic organelles that act as intracellular Ca^2+stores.Whereas Ca^2+release from the large-volume Ca^2+stores,such as the endoplasmic reticulum(ER)and Golgi apparatus,are preferred for signal transduction,Ca^2+release from the small-volume individual vesicular stores that are dispersed throughout the cell,such as lysosomes,may be more useful in local regulation,such as membrane fusion and individualized vesicular movements.Conceivably,these two types of Ca^2+stores may be established,maintained or refilled via distinct mechanisms.ER stores are refilled through sustained Ca^2+influx at ER-plasma membrane(PM)membrane contact sites(MCSs).In this review,we discuss the release and refilling mechanisms of intracellular small vesicular Ca^2+stores,with a special focus on lysosomes.Recent imaging studies of Ca2+release and organelle MCSs suggest that Ca^2+exchange may occur between two types of stores,such that the small stores acquire Ca^2+from the large stores via ER-vesicle MCSs.Hence vesicular stores like lysosomes may be viewed as secondary Ca^2+stores in the cell.
基金supported by grants from the National Natural Science Foundation of China(31872637 to Y.Z.and 31830106 to D.L.)NSF-IOS-1354434+1 种基金NSF-IOS-1339185NIH-GM132582 to S.P.D.-K.
文摘Protein–protein interaction(PPI)networks are key to nearly all aspects of cellular activity.Therefore,the identification of PPIs is important for understanding a specific biological process in an organism.Compared with conventional methods for probing PPIs,the recently described proximity labeling(PL)approach combined with mass spectrometry(MS)-based quantitative proteomics hasemerged as apowerful approach for characterizing PPIs.However,the application of PL in planta remains in its infancy.Here,we summarize recent progress in PL and its potential utilization in plant biology.We specifically summarize advances in PL,including the development and comparison of different PL enzymes and the application of PL for deciphering various molecular interactions in different organisms with an emphasis on plant systems.
