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161.
Senear DF Tretyachenko-Ladokhina V Opel ML Aeling KA Hatfield GW Franklin LM Darlington RC Alexander Ross JB 《Nucleic acids research》2007,35(6):1761-1772
E. coli Integration host factor (IHF) condenses the bacterial nucleoid by wrapping DNA. Previously, we showed that DNA flexibility compensates for structural characteristics of the four consensus recognition elements associated with specific binding (Aeling et al., J. Biol. Chem. 281, 39236–39248, 2006). If elements are missing, high-affinity binding occurs only if DNA deformation energy is low. In contrast, if all elements are present, net binding energy is unaffected by deformation energy. We tested two hypotheses for this observation: in complexes containing all elements, (1) stiff DNA sequences are less bent upon binding IHF than flexible ones; or (2) DNA sequences with differing flexibility have interactions with IHF that compensate for unfavorable deformation energy. Time-resolved Förster resonance energy transfer (FRET) shows that global topologies are indistinguishable for three complexes with oligonucleotides of different flexibility. However, pressure perturbation shows that the volume change upon binding is smaller with increasing flexibility. We interpret these results in the context of Record and coworker's model for IHF binding (J. Mol. Biol. 310, 379–401, 2001). We propose that the volume changes reflect differences in hydration that arise from structural variation at IHF–DNA interfaces while the resulting energetic compensation maintains the same net binding energy. 相似文献
162.
The complete genome sequence of Roseobacter denitrificans reveals a mixotrophic rather than photosynthetic metabolism 下载免费PDF全文
163.
164.
Sorption of Co, Cu, Ni and Zn from industrial effluents by the submerged aquatic macrophyte Myriophyllum spicatum L. 总被引:1,自引:0,他引:1
E. Lesage C. Mundia D.P.L. Rousseau A.M.K. Van de Moortel G. Du Laing E. Meers F.M.G. Tack N. De Pauw M.G. Verloo 《Ecological Engineering》2007,30(4):320-325
The submerged aquatic plant Myriophyllum spicatum L. (Eurasian water milfoil) has been suggested as an efficient plant species for the treatment of metal-contaminated industrial wastewater. The process of metal removal by plants involves a combination of rapid sorption on the surface and slow accumulation and translocation in the biomass. This study focussed on the sorption/desorption characteristics of the surface of M. spicatum for Co, Cu, Ni and Zn. Batch sorption tests with mixed metal solutions covering a range of 0, 1, 5, 10, 50 and 100 mg l−1 of each metal, were performed. For Co, Ni and Zn, the sorption process was well described by the Langmuir model, whereas sorption of Cu was better described by the Freundlich model. The biomass showed the highest affinity for Cu and Zn. Langmuir sorption maxima of Co, Ni and Zn were 2.3, 3.0 and 6.8 mg g−1 DM, respectively. At the highest initial concentration of 100 mg l−1, a maximum of 29 mg g−1 DM of Cu was sorbed onto the surface of the biomass. Desorption by 0.1 M HCl did not fully recover the metals sorbed onto the surface and there was evidence of leaching from within the biomass. Recovery of heavy metals and regeneration of the biomass by washing with 0.1 M HCl was therefore not suggested as a viable strategy. 相似文献
165.
Zanin Fabiana Couto Freitas Natália Chagas Pinto Renan Terassi Máximo Wesley Pires Flausino Diniz Leandro Eugenio Cardamone Paiva Luciano Vilela 《Molecular biology reports》2022,49(3):1973-1984
Molecular Biology Reports - Small auxin-up RNA (SAUR) genes form a wide family supposedly involved in different physiological and developmental processes in plants such as leaf senescence, auxin... 相似文献
166.
Liselotte?Wesley?AndersenEmail author Verena?Harms Romolo?Caniglia Sylwia?D.?Czarnomska Elena?Fabbri Bogumi?a?J?drzejewska Gesa?Kluth Aksel?Bo?Madsen Carsten?Nowak Cino?Pertoldi Ettore?Randi Ilka?Reinhardt Astrid?Vik?Stronen 《Acta theriologica》2015,60(2):163-168
Several mammal species have recolonized their historical ranges across Europe during the last decades. In November 2012, a wolf-looking canid was found dead in Thy National Park (56° 56′ N, 8° 25′ E) in Jutland, Denmark. DNA from this individual and nine German wolves were genotyped using a genome-wide panel of 22,163 canine single nucleotide polymorphism (SNP) markers and compared to existing profiles based on the same marker panel obtained from northeastern Polish (n?=?13) wolves, domestic dogs (n?=?13) and known wolf-dog hybrids (n?=?4). The Thy canid was confirmed to be a wolf from the German-western Polish population, approximately 800 km to the southeast. Access to the German reference database on DNA profiles based on 13 autosomal microsatellites of German wolves made it possible to pinpoint the exact pack origin of the Thy wolf in Saxony, Germany. This was the first documented observation of a wolf in Denmark in 200 years and another example of long-distance dispersal of a carnivore. 相似文献
167.
Han Han Nicole Monroe J?rg Votteler Binita Shakya Wesley I. Sundquist Christopher P. Hill 《The Journal of biological chemistry》2015,290(21):13490-13499
The endosomal sorting complexes required for transport (ESCRT) pathway drives reverse topology membrane fission events within multiple cellular pathways, including cytokinesis, multivesicular body biogenesis, repair of the plasma membrane, nuclear membrane vesicle formation, and HIV budding. The AAA ATPase Vps4 is recruited to membrane necks shortly before fission, where it catalyzes disassembly of the ESCRT-III lattice. The N-terminal Vps4 microtubule-interacting and trafficking (MIT) domains initially bind the C-terminal MIT-interacting motifs (MIMs) of ESCRT-III subunits, but it is unclear how the enzyme then remodels these substrates in response to ATP hydrolysis. Here, we report quantitative binding studies that demonstrate that residues from helix 5 of the Vps2p subunit of ESCRT-III bind to the central pore of an asymmetric Vps4p hexamer in a manner that is dependent upon the presence of flexible nucleotide analogs that can mimic multiple states in the ATP hydrolysis cycle. We also find that substrate engagement is autoinhibited by the Vps4p MIT domain and that this inhibition is relieved by binding of either Type 1 or Type 2 MIM elements, which bind the Vps4p MIT domain through different interfaces. These observations support the model that Vps4 substrates are initially recruited by an MIM-MIT interaction that activates the Vps4 central pore to engage substrates and generate force, thereby triggering ESCRT-III disassembly. 相似文献
168.
Seong Min Lee Erin M. Riley Mark B. Meyer Nancy A. Benkusky Lori A. Plum Hector F. DeLuca J. Wesley Pike 《The Journal of biological chemistry》2015,290(29):18199-18215
1,25-Dihydroxyvitamin D3 (1,25(OH)2D3) plays an integral role in calcium homeostasis in higher organisms through its actions in the intestine, kidney, and skeleton. Interestingly, although several intestinal genes are known to play a contributory role in calcium homeostasis, the entire caste of key components remains to be identified. To examine this issue, Cyp27b1 null mice on either a normal or a high calcium/phosphate-containing rescue diet were treated with vehicle or 1,25(OH)2D3 and evaluated 6 h later. RNA samples from the duodena were then subjected to RNA sequence analysis, and the data were analyzed bioinformatically. 1,25(OH)2D3 altered expression of large collections of genes in animals under either dietary condition. 45 genes were found common to both 1,25(OH)2D3-treated groups and were composed of genes previously linked to intestinal calcium uptake, including S100g, Trpv6, Atp2b1, and Cldn2 as well as others. An additional distinct network of 56 genes was regulated exclusively by diet. We then conducted a ChIP sequence analysis of binding sites for the vitamin D receptor (VDR) across the proximal intestine in vitamin D-sufficient normal mice treated with vehicle or 1,25(OH)2D3. The residual VDR cistrome was composed of 4617 sites, which was increased almost 4-fold following hormone treatment. Interestingly, the majority of the genes regulated by 1,25(OH)2D3 in each diet group as well as those found in common in both groups contained frequent VDR sites that likely regulated their expression. This study revealed a global network of genes in the intestine that both represent direct targets of vitamin D action in mice and are involved in calcium absorption. 相似文献
169.
Comert Kural Ahmet Ata Akatay Rapha?l Gaudin Bi-Chang Chen Wesley R. Legant Eric Betzig Tom Kirchhausen 《Molecular biology of the cell》2015,26(11):2044-2053
Clathrin/AP2-coated vesicles are the principal endocytic carriers originating at the plasma membrane. In the experiments reported here, we used spinning-disk confocal and lattice light-sheet microscopy to study the assembly dynamics of coated pits on the dorsal and ventral membranes of migrating U373 glioblastoma cells stably expressing AP2 tagged with enhanced green fluorescence (AP2-EGFP) and on lateral protrusions from immobile SUM159 breast carcinoma cells, gene-edited to express AP2-EGFP. On U373 cells, coated pits initiated on the dorsal membrane at the front of the lamellipodium and at the approximate boundary between the lamellipodium and lamella and continued to grow as they were swept back toward the cell body; coated pits were absent from the corresponding ventral membrane. We observed a similar dorsal/ventral asymmetry on membrane protrusions from SUM159 cells. Stationary coated pits formed and budded on the remainder of the dorsal and ventral surfaces of both types of cells. These observations support a previously proposed model that invokes net membrane deposition at the leading edge due to an imbalance between the endocytic and exocytic membrane flow at the front of a migrating cell. 相似文献
170.
Dendrites and axons show precise targeting and spacing patterns for proper reception and transmission of information in the nervous system. Self-avoidance promotes complete territory coverage and nonoverlapping spacing between processes from the same cell [1, 2]. Neurons that lack Drosophila Down syndrome cell adhesion molecule 1 (Dscam1) show aberrant overlap, fasciculation, and accumulation of dendrites and axons, demonstrating a role in self-recognition and repulsion leading to self-avoidance [3-11]. Fasciculation and accumulation of processes suggested that Dscam1 might promote process spacing by counterbalancing developmental signals that otherwise promote self-association [9, 12]. Here we show that Dscam1 functions to counter Drosophila sensory neuron dendritic targeting signals provided by secreted Netrin-B and Frazzled, a netrin receptor. Loss of Dscam1 function resulted in aberrant dendrite accumulation at a Netrin-B-expressing target, whereas concomitant loss of Frazzled prevented accumulation and caused severe deficits in dendritic territory coverage. Netrin misexpression was sufficient to induce ectopic dendritic targeting in a Frazzled-dependent manner, whereas Dscam1 was required to prevent ectopic accumulation, consistent with separable roles for these receptors. Our results suggest that Dscam1-mediated self-avoidance counters extrinsic signals that are required for normal dendritic patterning, but whose action would otherwise favor neurite accumulation. Counterbalancing roles for Dscam1 may be deployed in diverse contexts during neural circuit formation. 相似文献