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FACT caught in the act of manipulating the nucleosome 期刊论文
NATURE, 2020, 577 (7790) : 426-+
作者:  Shen, Helen
收藏  |  浏览/下载:13/0  |  提交时间:2020/07/03

The organization of genomic DNA into nucleosomes profoundly affects all DNA-related processes in eukaryotes. The histone chaperone known as '  facilitates chromatin transcription'  (FACT(1)) (consisting of subunits SPT16 and SSRP1) promotes both disassembly and reassembly of nucleosomes during gene transcription, DNA replication and DNA repair(2). However, the mechanism by which FACT causes these opposing outcomes is unknown. Here we report two cryo-electron-microscopic structures of human FACT in complex with partially assembled subnucleosomes, with supporting biochemical and hydrogen-deuterium exchange data. We find that FACT is engaged in extensive interactions with nucleosomal DNA and all histone variants. The large DNA-binding surface on FACT appears to be protected by the carboxy-terminal domains of both of its subunits, and this inhibition is released by interaction with H2A-H2B, allowing FACT-H2A-H2B to dock onto a complex containing DNA and histones H3 and H4 (ref. (3)). SPT16 binds nucleosomal DNA and tethers H2A-H2B through its carboxy-terminal domain by acting as a placeholder for DNA. SSRP1 also contributes to DNA binding, and can assume two conformations, depending on whether a second H2A-H2B dimer is present. Our data suggest a compelling mechanism for how FACT maintains chromatin integrity during polymerase passage, by facilitating removal of the H2A-H2B dimer, stabilizing intermediate subnucleosomal states and promoting nucleosome reassembly. Our findings reconcile discrepancies regarding the many roles of FACT and underscore the dynamic interactions between histone chaperones and nucleosomes.


  
Probing the core of the strong nuclear interaction 期刊论文
NATURE, 2020, 578 (7796) : 540-+
作者:  Bialas, Allison R.;  Presumey, Jessy;  Das, Abhishek;  van der Poel, Cees E.;  Lapchak, Peter H.;  Mesin, Luka;  Victora, Gabriel;  Tsokos, George C.;  Mawrin, Christian;  Herbst, Ronald;  Carroll, Michael C.
收藏  |  浏览/下载:30/0  |  提交时间:2020/07/03

High-energy electron scattering that can isolate pairs of nucleons in high-momentum configurations reveals a transition to spin-independent scalar forces at small separation distances, supporting the use of point-like nucleon models to describe dense nuclear systems.


The strong nuclear interaction between nucleons (protons and neutrons) is the effective force that holds the atomic nucleus together. This force stems from fundamental interactions between quarks and gluons (the constituents of nucleons) that are described by the equations of quantum chromodynamics. However, as these equations cannot be solved directly, nuclear interactions are described using simplified models, which are well constrained at typical inter-nucleon distances(1-5) but not at shorter distances. This limits our ability to describe high-density nuclear matter such as that in the cores of neutron stars(6). Here we use high-energy electron scattering measurements that isolate nucleon pairs in short-distance, high-momentum configurations(7-9), accessing a kinematical regime that has not been previously explored by experiments, corresponding to relative momenta between the pair above 400 megaelectronvolts per c (c, speed of light in vacuum). As the relative momentum between two nucleons increases and their separation thereby decreases, we observe a transition from a spin-dependent tensor force to a predominantly spin-independent scalar force. These results demonstrate the usefulness of using such measurements to study the nuclear interaction at short distances and also support the use of point-like nucleon models with two- and three-body effective interactions to describe nuclear systems up to densities several times higher than the central density of the nucleus.


  
TGF-beta orchestrates fibrogenic and developmental EMTs via the RAS effector RREB1 期刊论文
NATURE, 2020, 577 (7791) : 566-+
作者:  Su, Jie;  Morgani, Sophie M.;  David, Charles J.;  Wang, Qiong;  Er, Ekrem Emrah;  Huang, Yun-Han;  Basnet, Harihar;  Zou, Yilong;  Shu, Weiping;  Soni, Rajesh K.;  Hendrickson, Ronald C.;  Hadjantonakis, Anna-Katerina;  Massague, Joan
收藏  |  浏览/下载:31/0  |  提交时间:2020/07/03

Epithelial-to-mesenchymal transitions (EMTs) are phenotypic plasticity processes that confer migratory and invasive properties to epithelial cells during development, wound-healing, fibrosis and cancer(1-4). EMTs are driven by SNAIL, ZEB and TWIST transcription factors(5,6) together with microRNAs that balance this regulatory network(7,8). Transforming growth factor beta (TGF-beta) is a potent inducer of developmental and fibrogenic EMTs4,9,10. Aberrant TGF-beta signalling and EMT are implicated in the pathogenesis of renal fibrosis, alcoholic liver disease, non-alcoholic steatohepatitis, pulmonary fibrosis and cancer(4,11). TGF-beta depends on RAS and mitogen-activated protein kinase (MAPK) pathway inputs for the induction of EMTs12-19. Here we show how these signals coordinately trigger EMTs and integrate them with broader pathophysiological processes. We identify RAS-responsive element binding protein 1 (RREB1), a RAS transcriptional effector(20,21), as a key partner of TGF-beta-activated SMAD transcription factors in EMT. MAPK-activated RREB1 recruits TGF-beta-activated SMAD factors to SNAIL. Context-dependent chromatin accessibility dictates the ability of RREB1 and SMAD to activate additional genes that determine the nature of the resulting EMT. In carcinoma cells, TGF-beta-SMAD and RREB1 directly drive expression of SNAIL and fibrogenic factors stimulating myofibroblasts, promoting intratumoral fibrosis and supporting tumour growth. In mouse epiblast progenitors, Nodal-SMAD and RREB1 combine to induce expression of SNAIL and mesendoderm-differentiation genes that drive gastrulation. Thus, RREB1 provides a molecular link between RAS and TGF-beta pathways for coordinated induction of developmental and fibrogenic EMTs. These insights increase our understanding of the regulation of epithelial plasticity and its pathophysiological consequences in development, fibrosis and cancer.


RAS and TGF-beta pathways regulate distinct modes of epithelial-to-mesenchymal transition via RAS-responsive element binding protein 1.


  
Urban green infrastructure and ecosystem services in sub-Saharan Africa 期刊论文
LANDSCAPE AND URBAN PLANNING, 2018, 180: 249-261
作者:  du Toit, Marie J.;  Cilliers, Sarel S.;  Dallimer, Martin;  Goddard, Mark;  Guenat, Solene;  Cornelius, Susanna F.
收藏  |  浏览/下载:10/0  |  提交时间:2019/04/09
Green space  Challenges  Provisioning  Regulating  Supporting  Cultural  
Radiochemically-Supported Microbial Communities: A Potential Mechanism for Biocolloid Production of Importance to Actinide Transport 科技报告
来源:US Department of Energy (DOE). 出版年: 2014
作者:  Moser, Duane P;  Hamilton-Brehm, Scott D;  Fisher, Jenny C;  Bruckner, James C;  Kruger, Brittany;  Sackett, Joshua;  Russell, Charles E;  Onstott, Tullis C;  Czerwinski, Ken
收藏  |  浏览/下载:42/0  |  提交时间:2019/04/05
Due to the legacy of Cold War nuclear weapons testing  the Nevada National Security Site (NNSS  formerly known as the Nevada Test Site (NTS)) contains millions of Curies of radioactive contamination. Presented here is a summary of the results of the first comprehensive study of subsurface microbial communities of radioactive and nonradioactive aquifers at this site. To achieve the objectives of this project  cooperative actions between the Desert Research Institute (DRI)  the Nevada Field Office of the National Nuclear Security Administration (NNSA)  the Underground Test Area Activity (UGTA)  and contractors such as Navarro-Interra (NI)  were required. Ultimately  fluids from 17 boreholes and two water-filled tunnels were sampled (sometimes on multiple occasions and from multiple depths) from the NNSS  the adjacent Nevada Test and Training Range (NTTR)  and a reference hole in the Amargosa Valley near Death Valley. The sites sampled ranged from highly-radioactive nuclear device test cavities to uncontaminated perched and regional aquifers. Specific areas sampled included recharge  intermediate  and discharge zones of a 100  000-km2 internally-draining province  known as the Death Valley Regional Flow System (DVRFS)  which encompasses the entirety of the NNSS/NTTR and surrounding areas. Specific geological features sampled included: West Pahute and Ranier Mesas (recharge zone)  Yucca and Frenchman Flats (transitional zone)  and the Western edge of the Amargosa Valley near Death Valley (discharge zone). The original overarching question underlying the proposal supporting this work was stated as: Can radiochemically-produced substrates support indigenous microbial communities and subsequently stimulate biocolloid formation that can affect radionuclides in NNSS subsurface nuclear test/detonation sites? Radioactive and non-radioactive groundwater samples were thus characterized for physical parameters  aqueous geochemistry  and microbial communities using both DNA- and cultivation-based tools in an effort to understand the drivers of microbial community structure (including radioactivity) and microbial interactions with select radionuclides and other factors across the range of habitats surveyed.