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1.
Past studies have suggested that a key feature of the mechanism of heparin allosteric activation of the anticoagulant serpin, antithrombin, is the release of the reactive center loop P14 residue from a native state stabilizing interaction with the hydrophobic core. However, more recent studies have indicated that this structural change plays a secondary role in the activation mechanism. To clarify this role, we expressed and characterized 15 antithrombin P14 variants. The variants exhibited basal reactivities with factors Xa and IXa, heparin affinities and thermal stabilities that were dramatically altered from wild type, consistent with the P14 mutations perturbing native state stability and shifting an allosteric equilibrium between native and activated states. Rapid kinetic studies confirmed that limiting rate constants for heparin allosteric activation of the mutants were altered in conjunction with the observed shifts of the allosteric equilibrium. However, correlations of the P14 mutations'' effects on parameters reflecting the allosteric activation state of the serpin were inconsistent with a two-state model of allosteric activation and suggested multiple activated states. Together, these findings support a minimal three-state model of allosteric activation in which the P14 mutations perturb equilibria involving distinct native, intermediate, and fully activated states wherein the P14 residue retains an interaction with the hydrophobic core in the intermediate state but is released from the core in the fully activated state, and the bulk of allosteric activation has occurred in the intermediate.  相似文献   
2.
Leaf shrinkage with dehydration has attracted attention for over 100 years, especially as it becomes visibly extreme during drought. However, little has been known of its correlation with physiology. Computer simulations of the leaf hydraulic system showed that a reduction of hydraulic conductance of the mesophyll pathways outside the xylem would cause a strong decline of leaf hydraulic conductance (Kleaf). For 14 diverse species, we tested the hypothesis that shrinkage during dehydration (i.e. in whole leaf, cell and airspace thickness, and leaf area) is associated with reduction in Kleaf at declining leaf water potential (Ψleaf). We tested hypotheses for the linkage of leaf shrinkage with structural and physiological water relations parameters, including modulus of elasticity, osmotic pressure at full turgor, turgor loss point (TLP), and cuticular conductance. Species originating from moist habitats showed substantial shrinkage during dehydration before reaching TLP, in contrast with species originating from dry habitats. Across species, the decline of Kleaf with mild dehydration (i.e. the initial slope of the Kleaf versus Ψleaf curve) correlated with the decline of leaf thickness (the slope of the leaf thickness versus Ψleaf curve), as expected based on predictions from computer simulations. Leaf thickness shrinkage before TLP correlated across species with lower modulus of elasticity and with less negative osmotic pressure at full turgor, as did leaf area shrinkage between full turgor and oven desiccation. These findings point to a role for leaf shrinkage in hydraulic decline during mild dehydration, with potential impacts on drought adaptation for cells and leaves, influencing plant ecological distributions.As leaves open their stomata to capture CO2 for photosynthesis, water is lost to transpiration, which needs to be replaced by flow through the hydraulic system. The leaf hydraulic system has two components, which act essentially in series: the pathways for water movement through the xylem from the petiole to leaf minor veins, and those through the living bundle sheath and mesophyll cells to the sites of evaporation (Tyree and Zimmermann, 2002; Sack et al., 2004; Sack and Holbrook, 2006). The decline in leaf hydraulic conductance (Kleaf) with dehydration may thus depend on both components. The importance of the xylem component is well established. Vein xylem embolism and cell collapse have been observed in dehydrating leaves (Salleo et al., 2001; Cochard et al., 2004a; Johnson et al., 2009), and computer modeling and experimental work showed that species with high major vein length per leaf area (VLA; i.e. for the first three vein-branching orders) were more resistant to hydraulic decline, providing more pathways around embolisms (Scoffoni et al., 2011). However, the physical impacts of dehydration on the extraxylem pathways have not been studied, even though in turgid leaves these pathways account for 26% to 88% of leaf hydraulic resistance (i.e. of 1/Kleaf), depending on species (Sack et al., 2003a; Cochard et al., 2004b). The aim of this study was to determine whether leaf shrinkage during dehydration relates to the decline of Kleaf as well as the structural determinants of leaf shrinkage.The shrinkage of leaves with dehydration has drawn attention for over 100 years. Leaves shrink in their area (Bogue, 1892; Gardner and Ehlig, 1965; Jones, 1973; Tang and Boyer, 2007; Blonder et al., 2012) and, considered in relative terms, even more strongly in their thickness (Fig. 1; Meidner, 1952; Gardner and Ehlig, 1965; Downey and Miller, 1971; Syvertsen and Levy, 1982; Saini and Rathore, 1983; Burquez, 1987; McBurney, 1992; Sancho-Knapik et al., 2010, 2011). Leaves fluctuate in thickness daily and seasonally according to transpiration (Kadoya et al., 1975; Tyree and Cameron, 1977; Fensom and Donald, 1982; Rozema et al., 1987; Ogaya and Peñuelas, 2006; Seelig et al., 2012). Indeed, the relation of leaf thickness to water status is so tight that using leaf thickness to guide irrigation has led to water savings of up to 45% (Seelig et al., 2012).Open in a separate windowFigure 1.Sketches of a fully turgid leaf (A) versus a strongly dehydrated leaf (B; drawings based on leaf cross sections of sunflower in Fellows and Boyer, 1978). Note the strong reduction in leaf thickness, cell thickness, and intercellular airspaces in the dehydrated leaf. Epidermal cells are shrunk in the dehydrated leaf, inducing whole-leaf area shrinkage. Note that this sketch represents shrinkage for a typical drought-sensitive species. Many species such as oaks (Quercus spp.) will experience less thickness shrinkage and an increase in intercellular airspace (see “Discussion”). [See online article for color version of this figure.]Previous studies of leaf shrinkage with progressive dehydration have tended to focus on single or few species. These studies showed that thickness declines with water status in two phases. Before the bulk leaf turgor loss point (TLP; leaf water potential [Ψleaf] at TLP) is reached, the slope of leaf thickness versus Ψleaf or relative water content (RWC) is shallower than past TLP for most species (Meidner, 1955, Kennedy and Booth, 1958, Burquez, 1987, McBurney, 1992, Sancho-Knapik et al., 2010, 2011). This is because before TLP, declining Ψleaf is strongly driven by declines in turgor pressure, which have a relatively low impact on cell and airspace volume, whereas past the TLP, declining Ψleaf depends only on solute concentration, which increases in inverse proportion as cell water volume declines while airspaces may shrink or expand (Tyree and Hammel, 1972, Sancho-Knapik et al., 2011). However, the steepness of the slope of leaf thickness versus Ψleaf before TLP seems to vary strongly across species (Meidner, 1955; Kennedy and Booth, 1958; Fellows and Boyer, 1978; Burquez, 1987; Colpitts and Coleman, 1997; Sancho-Knapik et al., 2010).A high leaf cell volume and turgor is crucial to physiological processes (Boyer, 1968; Lawlor and Cornic, 2002). Shrinkage may affect cell connectivity and water transport (Sancho-Knapik et al., 2011). However, no studies have tested for a possible relationship of leaf shrinkage with the decline of Kleaf during dehydration. Such an association would arise if, across species, shrinkage occurred simultaneously with vein xylem embolism or if tissue shrinkage led to declines in the extraxylem hydraulic conductance.To refine our hypotheses, we modified a computer model of the leaf hydraulic system (Cochard et al., 2004b; McKown et al., 2010; Scoffoni et al., 2011) to predict the impact of losses of xylem and extraxylem conductance on the response of Kleaf to dehydration. We characterized the degree of leaf shrinkage in thickness, in the thickness of cells and airspaces within the leaf, and in leaf area for 14 species diverse in phylogeny, leaf traits, and drought tolerance. We hypothesized that loss of extraxylem hydraulic conductance should have a greater impact on Kleaf at less negative water potentials when xylem tensions are too weak to trigger embolism and induce dramatic declines in Kleaf. We hypothesized that species with greater degrees of shrinkage before TLP would experience greater loss of Kleaf. Furthermore, we hypothesized that species from moist habitats would have greater degrees of shrinkage.For insight into the mechanisms and consequences of leaf shrinkage, we also investigated the relationships of 18 indices of leaf shrinkage with a wide range of aspects of leaf structure and composition, including gross morphology, leaf venation architecture, parameters of pressure-volume curves, and leaf water storage. We hypothesized that, across species, shrinkage in whole leaf, cell, and intercellular airspace thickness would be lower for species with greater allocation to structural rigidity and osmotic concentration, and thus shrinkage would be positively correlated with a lower modulus of elasticity (ε), less negative osmotic pressure at full turgor (πo), lower leaf mass per area (LMA), and lower leaf density. Additionally, we tested the longstanding hypothesis that species with higher major VLA and/or minor VLA (i.e. the fourth and higher vein-branching orders) would shrink less in area and/or thickness with dehydration (Gardner and Ehlig, 1965). Finally, we tested the ability of dehydrated leaves to recover in size with rehydration. We hypothesized that recovery would be greater for mildly than for strongly dehydrated leaves and that species with greater leaf shrinkage would be better able to recover from shrinkage.  相似文献   
3.
The PI 3-kinase (PI 3-K) signaling pathway is essential for Schwann cell myelination. Here we have characterized PI 3-K effectors activated during myelination by probing myelinating cultures and developing nerves with an antibody that recognizes phosphorylated substrates for this pathway. We identified a discrete number of phospho-proteins including the S6 ribosomal protein (S6rp), which is down-regulated at the onset of myelination, and N-myc downstream-regulated gene-1 (NDRG1), which is up-regulated strikingly with myelination. We show that type III Neuregulin1 on the axon is the primary activator of S6rp, an effector of mTORC1. In contrast, laminin-2 in the extracellular matrix (ECM), signaling through the α6β4 integrin and Sgk1 (serum and glucocorticoid-induced kinase 1), drives phosphorylation of NDRG1 in the Cajal bands of the abaxonal compartment. Unexpectedly, mice deficient in α6β4 integrin signaling or Sgk1 exhibit hypermyelination during development. These results identify functionally and spatially distinct PI 3-K pathways: an early, pro-myelinating pathway driven by axonal Neuregulin1 and a later-acting, laminin–integrin-dependent pathway that negatively regulates myelination.  相似文献   
4.
5.
The activity of membrane proteins such as Na,K-ATPase depends strongly on the surrounding lipid environment. Interactions can be annular, depending on the physical properties of the membrane, or specific with lipids bound in pockets between transmembrane domains. This paper describes three specific lipid-protein interactions using purified recombinant Na,K-ATPase. (a) Thermal stability of the Na,K-ATPase depends crucially on a specific interaction with 18:0/18:1 phosphatidylserine (1-stearoyl-2-oleoyl-sn-glycero-3-phospho-l-serine; SOPS) and cholesterol, which strongly amplifies stabilization. We show here that cholesterol associates with SOPS, FXYD1, and the α subunit between trans-membrane segments αTM8 and -10 to stabilize the protein. (b) Polyunsaturated neutral lipids stimulate Na,K-ATPase turnover by >60%. A screen of the lipid specificity showed that 18:0/20:4 and 18:0/22:6 phosphatidylethanolamine (PE) are the optimal phospholipids for this effect. (c) Saturated phosphatidylcholine and sphingomyelin, but not saturated phosphatidylserine or PE, inhibit Na,K-ATPase activity by 70–80%. This effect depends strongly on the presence of cholesterol. Analysis of the Na,K-ATPase activity and E1-E2 conformational transitions reveals the kinetic mechanisms of these effects. Both stimulatory and inhibitory lipids poise the conformational equilibrium toward E2, but their detailed mechanisms of action are different. PE accelerates the rate of E1 → E2P but does not affect E2(2K)ATP → E13NaATP, whereas sphingomyelin inhibits the rate of E2(2K)ATP → E13NaATP, with very little effect on E1 → E2P. We discuss these lipid effects in relation to recent crystal structures of Na,K-ATPase and propose that there are three separate sites for the specific lipid interactions, with potential physiological roles to regulate activity and stability of the pump.  相似文献   
6.
A monoclonal antibody solution displays an increase in low shear rate viscosity upon aggregation after prolonged incubation at 40°C. The morphology and interactions leading to the formation of the aggregates responsible for this non-Newtonian character are resolved using small-angle neutron scattering. Our data show a weak repulsive barrier before proteins aggregate reversibly, unless a favorable contact with high binding energy occurs. Two types of aggregates were identified after incubation at 40°C: oligomers with radius of gyration ∼10 nm and fractal submicrometer particles formed by a slow reaction-limited aggregation process, consistent with monomers colliding many times before finding a favorable strong interaction site. Before incubation, these antibody solutions are Newtonian liquids with no increase in low shear rate viscosity and no upturn in scattering at low wavevector, whereas aggregated solutions under the same conditions have both of these features. These results demonstrate that fractal submicrometer particles are responsible for the increase in low shear rate viscosity and low wavevector upturn in scattered intensity of aggregated antibody solutions; both are removed from aggregated samples by filtering.  相似文献   
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8.
We here use our site-specific base analog mapping approach to study the interactions and binding equilibria of cooperatively-bound clusters of the single-stranded DNA binding protein (gp32) of the T4 DNA replication complex with longer ssDNA (and dsDNA) lattices. We show that in cooperatively bound clusters the binding free energy appears to be equi-partitioned between the gp32 monomers of the cluster, so that all bind to the ssDNA lattice with comparable affinity, but also that the outer domains of the gp32 monomers at the ends of the cluster can fluctuate on and off the lattice and that the clusters of gp32 monomers can slide along the ssDNA. We also show that at very low binding densities gp32 monomers bind to the ssDNA lattice at random, but that cooperatively bound gp32 clusters bind preferentially at the 5′-end of the ssDNA lattice. We use these results and the gp32 monomer-binding results of the companion paper to propose a detailed model for how gp32 might bind to and interact with ssDNA lattices in its various binding modes, and also consider how these clusters might interact with other components of the T4 DNA replication complex.  相似文献   
9.
10.
Estuaries are among the most productive ecosystems in the world and provide important rearing environments for a variety of fish species. Though generally considered important transitional habitats for smolting salmon, little is known about the role that estuaries serve for rearing and the environmental conditions important for salmon. We illustrate how juvenile coho salmon Oncorhynchus kisutch use a glacial river-fed estuary based on examination of spatial and seasonal variability in patterns of abundance, fish size, age structure, condition, and local habitat use. Fish abundance was greater in deeper channels with cooler and less variable temperatures, and these habitats were consistently occupied throughout the season. Variability in channel depth and water temperature was negatively associated with fish abundance. Fish size was negatively related to site distance from the upper extent of the tidal influence, while fish condition did not relate to channel location within the estuary ecotone. Our work demonstrates the potential this glacially-fed estuary serves as both transitional and rearing habitat for juvenile coho salmon during smolt emigration to the ocean, and patterns of fish distribution within the estuary correspond to environmental conditions.  相似文献   
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