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Structural basis of DNA targeting by a transposon-encoded CRISPR-Cas system 期刊论文
NATURE, 2020, 577 (7789) : 271-+
作者:  Halpin-Healy, Tyler S.;  Klompe, Sanne E.;  Sternberg, Samuel H.;  Fernandez, Israel S.
收藏  |  浏览/下载:5/0  |  提交时间:2020/07/03

Bacteria use adaptive immune systems encoded by CRISPR and Cas genes to maintain genomic integrity when challenged by pathogens and mobile genetic elements(1-3). Type I CRISPR-Cas systems typically target foreign DNA for degradation via joint action of the ribonucleoprotein complex Cascade and the helicase-nuclease Cas3(4,5), but nuclease-deficient type I systems lacking Cas3 have been repurposed for RNA-guided transposition by bacterial Tn7-like transposons(6,7). How CRISPR- and transposon-associated machineries collaborate during DNA targeting and insertion remains unknown. Here we describe structures of a TniQ-Cascade complex encoded by the Vibrio cholerae Tn6677 transposon using cryo-electron microscopy, revealing the mechanistic basis of this functional coupling. The cryo-electron microscopy maps enabled de novo modelling and refinement of the transposition protein TniQ, which binds to the Cascade complex as a dimer in a head-to-tail configuration, at the interface formed by Cas6 and Cas7 near the 3'  end of the CRISPR RNA (crRNA). The natural Cas8-Cas5 fusion protein binds the 5'  crRNA handle and contacts the TniQ dimer via a flexible insertion domain. A target DNA-bound structure reveals critical interactions necessary for protospacer-adjacent motif recognition and R-loop formation. This work lays the foundation for a structural understanding of how DNA targeting by TniQ-Cascade leads to downstream recruitment of additional transposase proteins, and will guide protein engineering efforts to leverage this system for programmable DNA insertions in genome-engineering applications.


  
Generalising indirect defence and resistance of plants 期刊论文
ECOLOGY LETTERS, 2020, 23 (7) : 1137-1152
作者:  Pearse, Ian S.;  LoPresti, Eric;  Schaeffer, Robert N.;  Wetzel, William C.;  Mooney, Kailen A.;  Ali, Jared G.;  Ode, Paul J.;  Eubanks, Micky D.;  Bronstein, Judith L.;  Weber, Marjorie G.
收藏  |  浏览/下载:12/0  |  提交时间:2020/05/13
herbivory  indirect defense  plant-insect interactions  protective mutualism  tritrophic interactions  trophic cascade  
Intraspecific difference among herbivore lineages and their host-plant specialization drive the strength of trophic cascades 期刊论文
ECOLOGY LETTERS, 2020, 23 (8) : 1242-1251
作者:  Sentis, Arnaud;  Bertram, Raphael;  Dardenne, Nathalie;  Simon, Jean-Christophe;  Magro, Alexandra;  Pujol, Benoit;  Danchin, Etienne;  Hemptinne, Jean-Louis
收藏  |  浏览/下载:31/0  |  提交时间:2020/05/13
Evo-to-eco  genetic variation  herbivory  host-plant adaptation  indirect effects  tri-trophic interactions  
The effects of livestock grazing on biodiversity are multi-trophic: a meta-analysis 期刊论文
ECOLOGY LETTERS, 2020, 23 (8) : 1298-1309
作者:  Filazzola, Alessandro;  Brown, Charlotte;  Dettlaff, Margarete A.;  Batbaatar, Amgaa;  Grenke, Jessica;  Bao, Tan;  Peetoom Heida, Isaac;  Cahill, James F., Jr.
收藏  |  浏览/下载:9/0  |  提交时间:2020/05/13
Conservation  disturbance  exclosure  domestic grazers  global  graze  herbivory  trophic cascade  
Enemies with benefits: integrating positive and negative interactions among terrestrial carnivores 期刊论文
ECOLOGY LETTERS, 2020, 23 (5) : 902-918
作者:  Prugh, Laura R.;  Sivy, Kelly J.
收藏  |  浏览/下载:7/0  |  提交时间:2020/07/02
Carcass  carrion  cascade  fatal attraction  interspecific killing  intraguild predation  mesocarnivore  mesopredator  meta-analysis  scavenging  
RGF1 controls root meristem size through ROS signalling 期刊论文
NATURE, 2020, 577 (7788) : 85-+
作者:  Yamada, Masashi;  Han, Xinwei;  Benfey, Philip N.
收藏  |  浏览/下载:11/0  |  提交时间:2020/07/03

The stem cell niche and the size of the root meristem in plants are maintained by intercellular interactions and signalling networks involving a peptide hormone, root meristem growth factor 1 (RGF1)(1). Understanding how RGF1 regulates the development of the root meristem is essential for understanding stem cell function. Although five receptors for RGF1 have been identified(2-4), the downstream signalling mechanism remains unknown. Here we report a series of signalling events that follow RGF1 activity. We find that the RGF1-receptor pathway controls the distribution of reactive oxygen species (ROS) along the developmental zones of the Arabidopsis root. We identify a previously uncharacterized transcription factor, RGF1-INDUCIBLE TRANSCRIPTION FACTOR 1 (RITF1), that has a central role in mediating RGF1 signalling. Manipulating RITF1 expression leads to the redistribution of ROS along the root developmental zones. Changes in ROS distribution in turn enhance the stability of the PLETHORA2 protein, a master regulator of root stem cells. Our results thus clearly depict a signalling cascade that is initiated by RGF1, linking this peptide to mechanisms that regulate ROS.


  
Molecular basis of beta-arrestin coupling to formoterol-bound beta(1)-adrenoceptor 期刊论文
NATURE, 2020
作者:  Pulliainen, Jouni;  Luojus, Kari;  Derksen, Chris;  Mudryk, Lawrence;  Lemmetyinen, Juha;  Salminen, Miia;  Ikonen, Jaakko;  Takala, Matias;  Cohen, Juval;  Smolander, Tuomo;  Norberg, Johannes
收藏  |  浏览/下载:29/0  |  提交时间:2020/07/03

The beta(1)-adrenoceptor (beta(1)AR) is a G-protein-coupled receptor (GPCR) that couples(1)to the heterotrimeric G protein G(s). G-protein-mediated signalling is terminated by phosphorylation of the C terminus of the receptor by GPCR kinases (GRKs) and by coupling of beta-arrestin 1 (beta arr1, also known as arrestin 2), which displaces G(s)and induces signalling through the MAP kinase pathway(2). The ability of synthetic agonists to induce signalling preferentially through either G proteins or arrestins-known as biased agonism(3)-is important in drug development, because the therapeutic effect may arise from only one signalling cascade, whereas the other pathway may mediate undesirable side effects(4). To understand the molecular basis for arrestin coupling, here we determined the cryo-electron microscopy structure of the beta(1)AR-beta arr1 complex in lipid nanodiscs bound to the biased agonist formoterol(5), and the crystal structure of formoterol-bound beta(1)AR coupled to the G-protein-mimetic nanobody(6)Nb80. beta arr1 couples to beta(1)AR in a manner distinct to that(7)of G(s)coupling to beta(2)AR-the finger loop of beta arr1 occupies a narrower cleft on the intracellular surface, and is closer to transmembrane helix H7 of the receptor when compared with the C-terminal alpha 5 helix of G(s). The conformation of the finger loop in beta arr1 is different from that adopted by the finger loop of visual arrestin when it couples to rhodopsin(8). beta(1)AR coupled to beta arr1 shows considerable differences in structure compared with beta(1)AR coupled to Nb80, including an inward movement of extracellular loop 3 and the cytoplasmic ends of H5 and H6. We observe weakened interactions between formoterol and two serine residues in H5 at the orthosteric binding site of beta(1)AR, and find that formoterol has a lower affinity for the beta(1)AR-beta arr1 complex than for the beta(1)AR-G(s)complex. The structural differences between these complexes of beta(1)AR provide a foundation for the design of small molecules that could bias signalling in the beta-adrenoceptors.


A cryo-electron microscopy structure of the beta 1-adrenoceptor coupled to beta-arrestin 1 and activated by the biased agonist formoterol, as well as the crystal structure of a related formoterol-bound adrenoreceptor, provide insights into biased signalling in these systems.


  
Adjusting the lens of invasion biology to focus on the impacts of climate-driven range shifts 期刊论文
NATURE CLIMATE CHANGE, 2020, 10 (5) : 398-405
作者:  Wallingford, Piper D.;  Morelli, Toni Lyn;  Allen, Jenica M.;  Beaury, Evelyn M.;  Blumenthal, Dana M.;  Bradley, Bethany A.;  Dukes, Jeffrey S.;  Early, Regan;  Fusco, Emily J.;  Goldberg, Deborah E.;  Ibanez, Ines;  Laginhas, Brittany B.;  Vila, Montserrat;  Sorte, Cascade J. B.
收藏  |  浏览/下载:14/0  |  提交时间:2020/05/13
IGF1R is an entry receptor for respiratory syncytial virus 期刊论文
NATURE, 2020, 583 (7817) : 615-+
作者:  Pasquina-Lemonche, L.;  Burns, J.;  Turner, R. D.;  Kumar, S.;  Tank, R.;  Mullin, N.;  Wilson, J. S.;  Chakrabarti, B.;  Bullough, P. A.;  Foster, S. J.;  Hobbs, J. K.
收藏  |  浏览/下载:21/0  |  提交时间:2020/07/03

Respiratory syncytial virus enters cells by binding to cell-surface IGFR1, which activates PKC zeta and induces trafficking of the NCL coreceptor to the RSV particles at the cell surface.


Pneumonia resulting from infection is one of the leading causes of death worldwide. Pulmonary infection by the respiratory syncytial virus (RSV) is a large burden on human health, for which there are few therapeutic options(1). RSV targets ciliated epithelial cells in the airways, but how viruses such as RSV interact with receptors on these cells is not understood. Nucleolin is an entry coreceptor for RSV2 and also mediates the cellular entry of influenza, the parainfluenza virus, some enteroviruses and the bacterium that causes tularaemia(3,4). Here we show a mechanism of RSV entry into cells in which outside-in signalling, involving binding of the prefusion RSV-F glycoprotein with the insulin-like growth factor-1 receptor, triggers the activation of protein kinase C zeta (PKC zeta). This cellular signalling cascade recruits nucleolin from the nuclei of cells to the plasma membrane, where it also binds to RSV-F on virions. We find that inhibiting PKC zeta activation prevents the trafficking of nucleolin to RSV particles on airway organoid cultures, and reduces viral replication and pathology in RSV-infected mice. These findings reveal a mechanism of virus entry in which receptor engagement and signal transduction bring the coreceptor to viral particles at the cell surface, and could form the basis of new therapeutics to treat RSV infection.


  
Hydraulic Potential Energy Model for Hydropower Operation in Mixed Reservoir Systems 期刊论文
WATER RESOURCES RESEARCH, 2020, 56 (4)
作者:  Wan, Wenhua;  Wang, Hao;  Zhao, Jianshi
收藏  |  浏览/下载:7/0  |  提交时间:2020/07/02
Hydraulic potential energy  forecast-informed operation  energy transformation formula  relative marginal energy principle  two-stage hydraulic potential energy model