2020 Vol. 11(6)

Zing-Yang Kuo and behavior epigenesis based on animal experiments
Yanyan Qian, Wei Chen, Benyu Guo
2020, 11(6): 387-390. doi: 10.1007/s13238-018-0516-9
Seven facts and five initiatives for gut microbiome research
Danyi Li, Chunhui Gao, Faming Zhang, Ruifu Yang, Canhui Lan, Yonghui Ma, Jun Wang
2020, 11(6): 391-400. doi: 10.1007/s13238-020-00697-8
Non-enzymatic covalent modifications: a new link between metabolism and epigenetics
Qingfei Zheng, Igor Maksimovic, Akhil Upad, Yael David
2020, 11(6): 401-416. doi: 10.1007/s13238-020-00722-w
Epigenetic modifications, including those on DNA and histones, have been shown to regulate cellular metabolism by controlling expression of enzymes involved in the corresponding metabolic pathways. In turn, metabolic flux influences epigenetic regulation by affecting the biosynthetic balance of enzyme cofactors or donors for certain chromatin modifications. Recently, non-enzymatic covalent modifications (NECMs) by chemically reactive metabolites have been reported to manipulate chromatin architecture and gene transcription through multiple mechanisms. Here, we summarize these recent advances in the identification and characterization of NECMs on nucleic acids, histones, and transcription factors, providing an additional mechanistic link between metabolism and epigenetics.
Research articles
Integrative analysis of in vivo recording with single-cell RNA-seq data reveals molecular properties of light-sensitive neurons in mouse V1
Jianwei Liu, Mengdi Wang, Le Sun, Na Clara Pan, Changjiang Zhang, Junjing Zhang, Zhentao Zuo, Sheng He, Qian Wu, Xiaoqun Wang
2020, 11(6): 417-432. doi: 10.1007/s13238-020-00720-y
Vision formation is classically based on projections from retinal ganglion cells (RGC) to the lateral geniculate nucleus (LGN) and the primary visual cortex (V1). Neurons in the mouse V1 are tuned to light stimuli. Although the cellular information of the retina and the LGN has been widely studied, the transcriptome profiles of single light-stimulated neuron in V1 remain unknown. In our study, in vivo calcium imaging and whole-cell electrophysiological patch-clamp recording were utilized to identify 53 individual cells from layer 2/3 of V1 as lightsensitive (LS) or non-light-sensitive (NS) by single-cell light-evoked calcium evaluation and action potential spiking. The contents of each cell after functional tests were aspirated in vivo through a patch-clamp pipette for mRNA sequencing. Moreover, the three-dimensional (3-D) morphological characterizations of the neurons were reconstructed in a live mouse after the whole-cell recordings. Our sequencing results indicated that V1 neurons with a high expression of genes related to transmission regulation, such as Rtn4r and Rgs7, and genes involved in membrane transport, such as Na+/K+ ATPase and NMDA-type glutamatergic receptors, preferentially responded to light stimulation. Furthermore, an antagonist that blocks Rtn4r signals could inactivate the neuronal responses to light stimulation in live mice. In conclusion, our findings of the vivo-seq analysis indicate the key role of the strength of synaptic transmission possesses neurons in V1 of light sensory.
Primary cilia mediate Klf2-dependant Notch activation in regenerating heart
Xueyu Li, Qiang Lu, Yuanyuan Peng, Fang Geng, Xuelian Shao, Huili Zhou, Ying Cao, Ruilin Zhang
2020, 11(6): 433-445. doi: 10.1007/s13238-020-00695-w
Unlike adult mammalian heart, zebrafish heart has a remarkable capacity to regenerate after injury. Previous study has shown Notch signaling activation in the endocardium is essential for regeneration of the myocardium and this activation is mediated by hemodynamic alteration after injury, however, the molecular mechanism has not been fully explored. In this study we demonstrated that blood flow change could be perceived and transmitted in a primary cilia dependent manner to control the hemodynamic responsive klf2 gene expression and subsequent activation of Notch signaling in the endocardium. First we showed that both homologues of human gene KLF2 in zebrafish, klf2a and klf2b, could respond to hemodynamic alteration and both were required for Notch signaling activation and heart regeneration. Further experiments indicated that the upregulation of klf2 gene expression was mediated by endocardial primary cilia. Overall, our findings reveal a novel aspect of mechanical shear stress signal in activating Notch pathway and regulating cardiac regeneration.
Regulation of aerobic glycolysis to decelerate tumor proliferation by small molecule inhibitors targeting glucose transporters
Meng Gao, Jian Huang, Xin Jiang, Yafei Yuan, Huanhuan Pang, Shuchen Luo, Nan Wang, Chengbo Yao, Zuwan Lin, Debing Pu, Shuo Zhang, Pengcheng Sun, Zhuoyi Liu, Yu Xiao, Qian Wang, Zeping Hu, Hang Yin
2020, 11(6): 446-451. doi: 10.1007/s13238-020-00725-7
Rapid construction of a whole-genome mutant library by combining haploid stem cells and inducible self-inactivating PiggyBac transposon
Junjie Mao, Kai Xu, Jiabao Han, Guihai Feng, Ying Zhang, Wei Li
2020, 11(6): 452-457. doi: 10.1007/s13238-020-00702-0
Structures of a P4-ATPase lipid flippase in lipid bilayers
Yilin He, Jinkun Xu, Xiaofei Wu, Long Li
2020, 11(6): 458-463. doi: 10.1007/s13238-020-00712-y

Current Issue

July, 2020

Volume 11, Issue 7

Pages 465-541

About the cover

Epigenetic modifications, including those on DNA andhistones, have been shown to regulate cellular metabolismby controlling expression of enzymes involved in thecorresponding metabolic pathways. In turn, metabolic fluxinfluences epigenetic regulation by affecting the biosyntheticbalance of enzyme cofactors or donors for certainchromatin modifications. Recently, non-enzymatic covalentmodifications (NECMs) by chemically reactive metaboliteshave been reported to manipulate chromatin architectureand gene transcription through multiple mechanisms. Here,we summarize recent advances in the identification andcharacterization of NECMs on nucleic acids, histones, andtranscription factors, providing an additional mechanistic linkbetween metabolism and epigenetics.

Institute of Biophysics, Chinese Academy of Sciences, 15 Datun Road, Chaoyang Beijing 100101, China

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