Novel pyrazolopyrimidines as highly potent B-Raf inhibitors

A novel series of pyrazolo[1,5-a]pyrimidines bearing a 3-hydroxyphenyl group at C(3) and substituted tropanes at C(7) have been identified as potent B-Raf inhibitors. Exploration of alternative functional groups as a replacement for the C(3) phenol demonstrated indazole to be an effective isostere. Several compounds possessing substituted indazole residues, such as 4e, 4p, and 4r, potently inhibited cell proliferation at submicromolar concentrations in the A375 and WM266 cell lines, and the latter two compounds also exhibited good therapeutic indices in cells.     

The N-terminal PIN domain of the exosome subunit Rrp44 harbors endonuclease activity and tethers Rrp44 to the yeast core exosome

Nuclear and cytoplasmic forms of the yeast exosome share 10 components, of which only Rrp44/Dis3 is believed to possess 3′ exonuclease activity. We report that expression only of Rrp44 lacking 3′-exonuclease activity (Rrp44-exo) supports growth in S288c-related strains (BY4741). In BY4741, rrp44-exo was synthetic-lethal with loss of the cytoplasmic 5′-exonuclease Xrn1, indicating block of mRNA turnover, but not with loss of the nuclear 3′-exonuclease Rrp6. The RNA processing phenotype of rrp44-exo was milder than that seen on Rrp44 depletion, indicating that Rrp44-exo retains important functions. Recombinant Rrp44 was shown to possess manganese-dependent endonuclease activity in vitro that was abolished by four point mutations in the putative metal binding residues of its N-terminal PIN domain. Rrp44 lacking both exonuclease and endonuclease activity failed to support growth in strains depleted of endogenous Rrp44. Strains expressing Rrp44-exo and Rrp44-endo–exo exhibited different RNA processing patterns in vivo suggesting Rrp44-dependent endonucleolytic cleavages in the 5′-ETS and ITS2 regions of the pre-rRNA. Finally, the N-terminal PIN domain was shown to be necessary and sufficient for association with the core exosome, indicating its dual function as a nuclease and structural element.     

Inhibition of serine/threonine phosphatase enhances arachidonic acid-induced [Ca2+]i via protein kinase A

Arachidonic acid (AA) regulates intracellular calcium concentration ([Ca2+]i) in a variety of cell types including salivary cells. In the present study, the effects of serine/threonine phosphatases on AA-induced Ca(2+) signaling in mouse parotid acini were determined. Mice were euthanized with CO2. Treatment of acini with the serine/threonine phosphatase inhibitor calyculin A blocked both thapsigargin- and carbachol-induced Ca2+ entry but resulted in an enhancement of AA-induced Ca2+ release and entry. Effects were mimicked by the protein phosphatase-1 (PP1) inhibitor tautomycin but were inhibited by the PP2A inhibitor okadaic acid. The protein kinase A (PKA) inhibitor PKI(14-22) significantly attenuated AA-induced enhancement of Ca2+ release and entry in the presence of calyculin A, whereas it had no effect on calyculin A-induced inhibition of thapsigargin-induced Ca2+ responses. The ryanodine receptor (RyR) inhibitor, tetracaine, and StHt-31, a peptide known to competitively inhibit type II PKA regulatory subunit binding to PKA-anchoring protein (AKAP), abolished calyculin A enhancement of AA-induced Ca2+ release and entry. StHt-31 also abolished forskolin potentiation of 4-chloro-3-ethylphenol (4-CEP) and AA on Ca2+ release but had no effect on 8-(4-methoxyphenylthio)-2'-O-methyladenosine-3',5'-cAMP potentiation of 4-CEP responses. Results suggest that inhibition of PP1 results in an enhancement of AA-induced [Ca2+]i via PKA, AKAP, and RyRs.     

The Association of the Arabidopsis Actin-Related Protein2/3 Complex with Cell Membranes Is Linked to Its Assembly Status But Not Its Activation

In growing plant cells, the combined activities of the cytoskeleton, endomembrane, and cell wall biosynthetic systems organize the cytoplasm and define the architecture and growth properties of the cell. These biosynthetic machineries efficiently synthesize, deliver, and recycle the raw materials that support cell expansion. The precise roles of the actin cytoskeleton in these processes are unclear. Certainly, bundles of actin filaments position organelles and are a substrate for long-distance intracellular transport, but the functional linkages between dynamic actin filament arrays and the cell growth machinery are poorly understood. The Arabidopsis (Arabidopsis thaliana) “distorted group” mutants have defined protein complexes that appear to generate and convert small GTPase signals into an Actin-Related Protein2/3 (ARP2/3)-dependent actin filament nucleation response. However, direct biochemical knowledge about Arabidopsis ARP2/3 and its cellular distribution is lacking. In this paper, we provide biochemical evidence for a plant ARP2/3. The plant complex utilizes a conserved assembly mechanism. ARPC4 is the most critical core subunit that controls the assembly and steady-state levels of the complex. ARP2/3 in other systems is believed to be mostly a soluble complex that is locally recruited and activated. Unexpectedly, we find that Arabidopsis ARP2/3 interacts strongly with cell membranes. Membrane binding is linked to complex assembly status and not to the extent to which it is activated. Mutant analyses implicate ARP2 as an important subunit for membrane association.In plant cells, the actin cytoskeleton forms an intricate network of polymers that organizes the cytoplasm and defines the long-distance intracellular trafficking patterns of the cell. The actin network is critical not only for tip-growing cells (for review, see Cole and Fowler, 2006; Lovy-Wheeler et al., 2007) but also during the coordinated cell expansion that occurs in cells that utilize a diffuse growth mechanism (for review, see Wasteneys and Galway, 2003; Smith and Oppenheimer, 2005). For example, the polarized diffuse growth of leaf trichomes is highly sensitized to actin cytoskeleton disruption (Mathur et al., 1999; Szymanski et al., 1999), and a recent analysis of Arabidopsis (Arabidopsis thaliana) ACTIN mutants revealed widespread cell swelling and isotropic expansion in numerous cell types in the root and shoot (Kandasamy et al., 2009). The actin network is dynamic. The array reorganizes during cell morphogenesis (Braun et al., 1999; Szymanski et al., 1999) and in response to endogenous (Lemichez et al., 2001) and external (Hardham et al., 2007) cues. A major research goal is to better understand not only how plant cells convert G-actin subunits to particular actin filament arrays but also how the actin network interacts with the cellular growth machinery during cell expansion.This is a difficult problem to solve, because in expanding vacuolated cells the actin array adopts numerous configurations and consists of dense meshworks of cortical actin filaments and bundles (Baluska et al., 2000), thick actin bundles that penetrate the central vacuole (Higaki et al., 2006), and meshworks of filaments and bundles that surround the nucleus and chloroplasts (Kandasamy and Meagher, 1999; Collings et al., 2000). The spatial relationships between these actin networks and localized cell expansion are not obvious. Certainly, the plasma membrane-cell wall interface is a critical location for the regulated delivery and fusion of vesicles containing cell wall polysaccharides. Frequent reports of localized domains of enriched cortical actin signal at regions of presumed localized cell expansion have led to the widely held view that the cortical actin array creates local tracks for vesicle-mediated secretion (for review, see Smith and Oppenheimer, 2005; Hussey et al., 2006). In one study, the dynamics of actin filaments were analyzed in living hypocotyl epidermal cells that utilize a diffuse growth mechanism (Staiger et al., 2009). In this case, individual actin filaments are very unstable and randomly oriented; therefore, the precise relationships between cortical F-actin, vesicle delivery, and cell shape change remain obscure. The best known function for the actin cytoskeleton is that of a track for myosin-dependent vesicle and organelle trafficking (Shimmen, 2007). The actin bundle network mediates the transport of cargo between endomembrane compartments (Geldner et al., 2001; Kim et al., 2005) and the long-distance actomyosin transport of a variety of organelles, including the Golgi (Nebenfuhr et al., 1999; Peremyslov et al., 2008; Prokhnevsky et al., 2008). Generation of distributed (Gutierrez et al., 2009; Timmers et al., 2009) and localized (Wightman and Turner, 2008) actin bundle networks appears to define early steps in the trafficking of Golgi-localized cellulose synthase complexes to the sites of primary and secondary wall synthesis, respectively.Plant cells employ diverse collections of G-actin-binding proteins, actin filament nucleators, and actin-bundling and cross-linking proteins to generate and remodel the F-actin network (for review, see Staiger and Blanchoin, 2006). One actin filament nucleator, termed the Actin-Related Protein2/3 (ARP2/3) complex, controls numerous aspects of plant morphogenesis and development. The vertebrate complex consists of the actin-related proteins ARP2 and ARP3 and five other unrelated proteins termed ARPC1 to ARPC5, in order of decreasing mass. ARP2/3 in isolation is inactive, but in the presence of proteins termed nucleation-promoting factors such as WAVE/SCAR (for WASP family Verprolin homologous/Suppressor of cAMP Repressor), ARP2/3 is converted into an efficient actin filament-nucleating machine (for review, see Higgs and Pollard, 2001; Welch and Mullins, 2002). In mammalian cells, ARP2/3 activities are linked to membrane dynamics. Keratocytes that crawl persistently on a solid substrate appear to use ARP2/3-generated dendritic actin filament networks at the leading edge to either drive or consolidate plasma membrane protrusion (Pollard and Borisy, 2003; Ji et al., 2008). In many vertebrate cell types, ARP2/3 has a strong punctate intracellular localization (Welch et al., 1997; Strasser et al., 2004), which could reflect hypothesized activities at the Golgi (Stamnes, 2002) or late endosomal (Fucini et al., 2002; Holtta-Vuori et al., 2005) compartment.Genetic studies in plants reveal nonessential but widespread functions for ARP2/3. In the moss Physcomitrella patens, the ARPC4 and ARPC1 subunit genes are critical during tip growth of protonemal filaments (Harries et al., 2005; Perroud and Quatrano, 2006). In Arabidopsis, loss of either ARP2/3 subunit gene or mutations in WAVE complex genes that positively regulate ARP2/3 cause complicated syndromes, including the loss of polarized diffuse growth throughout the shoot epidermis, defective cell-cell adhesion, and decreased hypocotyl elongation (for review, see Szymanski, 2005). Altered responses to exogenous Suc (Li et al., 2004; Zhang et al., 2008) and reduced root elongation (Dyachok et al., 2008) are also reported for wave and arp2/3 strains. In higher plants, the involvement of ARP2/3 in tip growth and root hair development is more subtle. In Lotus japonicus, mutation of NAP1 and PIR1, known positive regulators of ARP2/3 (Basu et al., 2004; Deeks et al., 2004; El-Assal et al., 2004a), causes incompletely penetrant root hair phenotypes, but in the presence of symbiotic bacteria, the mutants have defective infection threads and reduced root nodule formation. Arabidopsis arp2/3 mutants do not have obvious tip growth defects in pollen tubes or root hairs, but in the presence of GFP:TALIN (Mathur et al., 2003b) and in double mutant combinations with the actin-binding protein CAP1 (Deeks et al., 2007), the effects of ARP2/3 on root hair growth are unmasked.In Arabidopsis, the genetics of the positive regulation of ARP2/3 are well characterized and appear to occur solely through another heteromeric complex termed WAVE (Eden et al., 2002; for review, see Szymanski, 2005). The putative WAVE/SCAR complex contains five subunits, one of which is the ARP2/3 activator SCAR. Plant SCARs contain conserved N-terminal and C-terminal domains that mediate interactions with other WAVE complex proteins and ARP2/3 activation, respectively (Frank et al., 2004; Basu et al., 2005). In nonplant systems, the regulatory relationships between WAVE and ARP2/3 appear to vary between cell types and species (for review, see Bompard and Caron, 2004; Stradal and Scita, 2006). However, in Arabidopsis, double mutant analyses indicate that WAVE is the sole pathway for ARP2/3 activation and that all subunits positively regulate ARP2/3 (Deeks et al., 2004; Basu et al., 2005; Djakovic et al., 2006). SCAR quadruple mutants are indistinguishable from arp2/3 null plants (Zhang et al., 2008). In moss, BRICK1 and ARP2/3 mutants have similar phenotypes, suggesting conserved regulatory relationships between WAVE and ARP2/3 in the plant kingdom (Harries et al., 2005; Perroud and Quatrano, 2006, 2008).Despite extensive molecular genetic knowledge about the ARP2/3 pathway and the strong actin cytoskeleton and growth phenotypes of arp2/3 plants, there are few direct data on the existence of the plant complex and its cellular function. There are reports of ARP2/3 localization based on the behavior of individual subunits (Le et al., 2003). In some cases, the results are weakened by the unknown specificity of heterologous ARP2/3 antibodies (Van Gestel et al., 2003; Fiserova et al., 2006). A specific antibody was raised against Silvetia ARP2 (Hable and Kropf, 2005). In developing zygotes, rhizhoid emergence is an early and actin-dependent developmental event, and at this stage a broad subcortical cone of ARP2 signal extends from the nuclear envelope toward the rhizhoid apex (Hable and Kropf, 2005). Double labeling experiments detected considerable overlap between ARP2 and actin, but surprisingly, there was a broad cortical domain of putative organelle-associated distal ARP2 that did not overlap with actin. In tip-growing P. patens chloronema cells, ARPC4 also appears to be membrane associated and localizes to a broad subcortical apical zone (Perroud and Quatrano, 2006). For these localization and genetic studies that rely on individual ARP2/3 subunits, it is important to prove that a plant ARP2/3 complex exists to test for an association of the complex with endomembrane compartments.In this paper, we provide several lines of evidence for an evolutionarily conserved pathway for ARP2/3 complex assembly in plant cells. These studies are based in part on genetic and biochemical analyses of the putative ARP2/3 subunit gene ARPC4. We found that disruption of the ARPC4 gene caused catastrophic disassembly of the complex and an array of phenotypes that were indistinguishable from known arp2/3 mutants. Chromatography experiments clearly revealed that functional hemagglutinin (HA)-tagged ARPC4 and endogenous ARP3 subunits assemble fully into ARP2/3 complexes. Surprisingly, much of the cellular pool of the plant ARP2/3 complex is membrane associated. An analysis of an extensive collection of wave and arp2/3 mutants allowed us to conclude that the normal association with membranes depended on the presence of ARP2 and the assembly status of the complex but not on the existence of an active pool of ARP2/3 in the cell.     

Complete genome sequence of Methanocorpusculum labreanum type strain Z

Methanocorpusculum labreanum is a methanogen belonging to the order Methanomicrobiales within the archaeal kingdom Euryarchaeota. The type strain Z was isolated from surface sediments of Tar Pit Lake in the La Brea Tar Pits in Los Angeles, California. M. labreanum is of phylogenetic interest because at the time the sequencing project began only one genome had previously been sequenced from the order Methanomicrobiales. We report here the complete genome sequence of M. labreanum type strain Z and its annotation. This is part of a 2006 Joint Genome Institute Community Sequencing Program project to sequence genomes of diverse Archaea.     

A decade of modeling Alzheimer's disease in transgenic mice

It has been over a decade since the first Alzheimer's disease (AD) transgenic mouse models were reported. These models have enabled dramatic advances in our understanding of the pathogenic mechanism in AD and of potential therapeutic approaches to tackling the inexorable clinical progression of the disease. In this article, we discuss the current status of AD mouse models and focus on recent work that has examined the development of the neuropathological lesions observed in AD (plaques and tangles). The relationship between these lesions, neurodegeneration and development of the clinical syndrome will be explored.     

CNS dendritic cells: critical participants in CNS inflammation?

Dendritic cells (DCs) are a heterogeneous population of migratory cells specialized for the uptake, processing, and presentation of antigen to T cells. They consist of a variety of mature subpopulations, classically divided into "lymphoid" and "myeloid" subsets. Although there likely exists significant plasticity and redundancy between DC subpopulations, unique differences have been noted in their abilities for T cell stimulation, tolerance induction, T helper cell polarization, cytokine secretion, and anatomic localization. Although DCs are conspicuously absent from the healthy CNS parenchyma, their presence in the vascular-rich regions of the healthy CNS has been well established and suggests they may have a role in immune surveillance. DCs do accumulate in the CNS parenchyma in a wide range of inflammatory responses including parasite, viral, or bacterial infection and CNS autoimmune disease. They also are present in CNS immune responses without overt T cell involvement, such as the inflammation accompanying CNS injury or neurodegeneration. Controversy remains on the role of CNS DCs during inflammation and whether they differentiate from CNS-resident microglia or infiltrate from a blood-borne population. This review will summarize DC subsets and function, overview the current research on DCs in the healthy and inflamed CNS, and address discrepancies between experimental studies.     

The suitability of actigraphy, diary data, and urinary melatonin profiles for quantitative assessment of sleep disturbances in schizophrenia: a case report

Sleep disruption is a commonly encountered clinical feature in schizophrenic patients, and one important concern is to determine the extent of this disruption under "real" life situations. Simultaneous wrist actigraphy, diary records, and repeated urine collection for urinary 6-sulphatoxymelatonin (aMT6s) profiles are appropriate tools to assess circadian rhythms and sleep patterns in field studies. Their suitability for long-term recordings of schizophrenic patients living in the community has not been evaluated. In this case report, we document long-term simultaneous wrist actigraphy, light detection, repeated urine collection, and diary records as a suitable combination of non-invasive techniques to quantify and assess changes in sleep-wake cycles, light exposure, and melatonin profiles in a schizophrenic patient. The actigraph was well-tolerated by the patient, and compliance to diary records and 48 h urine collection was particularly good with assistance from family members. The data obtained by these techniques are illustrated, and the results reveal remarkable abnormal patterns of rest-activity patterns, light exposure, and melatonin production. We observed various rest-activity patterns, including phase-shifts, highly delayed sleep on- and offsets, and irregular rest-activity phases. The period of the rest-activity rhythm, light-dark cycle, and melatonin rhythm was longer than 24 h. These circadian abnormalities may reinforce the altered sleep patterns and the problems of cognitive function and social engagement associated with schizophrenic.