Macrocyclic piperazinones as potent dual inhibitors of farnesyltransferase and geranylgeranyltransferase-I

A series of macrocyclic piperazinone compounds with dual farnesyltransferase/geranylgeranyltransferase-I inhibitory activity was prepared. These compounds were found to be potent inhibitors of protein prenylation in cell culture. A hypothesis for the binding mode of compound 3o in FPTase is proposed.     

Personalized Oncogenomics: Clinical Experience with Malignant Peritoneal Mesothelioma Using Whole Genome Sequencing

Peritoneal mesothelioma is a rare and sometimes lethal malignancy that presents a clinical challenge for both diagnosis and management. Recent studies have led to a better understanding of the molecular biology of peritoneal mesothelioma. Translation of the emerging data into better treatments and outcome is needed. From two patients with peritoneal mesothelioma, we derived whole genome sequences, RNA expression profiles, and targeted deep sequencing data. Molecular data were made available for translation into a clinical treatment plan. Treatment responses and outcomes were later examined in the context of molecular findings. Molecular studies presented here provide the first reported whole genome sequences of peritoneal mesothelioma. Mutations in known mesothelioma-related genes NF2, CDKN2A, LATS2, amongst others, were identified. Activation of MET-related signaling pathways was demonstrated in both cases. A hypermutated phenotype was observed in one case (434 vs. 18 single nucleotide variants) and was associated with a favourable outcome despite sarcomatoid histology and multifocal disease. This study represents the first report of whole genome analyses of peritoneal mesothelioma, a key step in the understanding and treatment of this disease.     

Potent inhibitors of farnesyltransferase and geranylgeranyltransferase-I

Compound 1 has been shown to be a dual prenylation inhibitor with FPTase (IC50=2 nM) and GGPTase-I (IC50=95 nM). Analogues of 1, which replaced the cyanophenyl group with various biaryls, led to the discovery of highly potent dual FPTase/GGPTase-I inhibitors. 4-trifluoromethylphenyl, trifluoropentynyl, and trifluoropentyl were identified as good p-cyano replacements.     

Simultaneous Analysis and Quality Assurance for Diffusion Tensor Imaging

Diffusion tensor imaging (DTI) enables non-invasive, cyto-architectural mapping of in vivo tissue microarchitecture through voxel-wise mathematical modeling of multiple magnetic resonance imaging (MRI) acquisitions, each differently sensitized to water diffusion. DTI computations are fundamentally estimation processes and are sensitive to noise and artifacts. Despite widespread adoption in the neuroimaging community, maintaining consistent DTI data quality remains challenging given the propensity for patient motion, artifacts associated with fast imaging techniques, and the possibility of hardware changes/failures. Furthermore, the quantity of data acquired per voxel, the non-linear estimation process, and numerous potential use cases complicate traditional visual data inspection approaches. Currently, quality inspection of DTI data has relied on visual inspection and individual processing in DTI analysis software programs (e.g. DTIPrep, DTI-studio). However, recent advances in applied statistical methods have yielded several different metrics to assess noise level, artifact propensity, quality of tensor fit, variance of estimated measures, and bias in estimated measures. To date, these metrics have been largely studied in isolation. Herein, we select complementary metrics for integration into an automatic DTI analysis and quality assurance pipeline. The pipeline completes in 24 hours, stores statistical outputs, and produces a graphical summary quality analysis (QA) report. We assess the utility of this streamlined approach for empirical quality assessment on 608 DTI datasets from pediatric neuroimaging studies. The efficiency and accuracy of quality analysis using the proposed pipeline is compared with quality analysis based on visual inspection. The unified pipeline is found to save a statistically significant amount of time (over 70%) while improving the consistency of QA between a DTI expert and a pool of research associates. Projection of QA metrics to a low dimensional manifold reveal qualitative, but clear, QA-study associations and suggest that automated outlier/anomaly detection would be feasible.     

The extended interactions and Gla domain of blood coagulation factor Xa

The serine protease factor Xa (FXa) is inhibited by ecotin with picomolar affinity. The structure of the tetrameric complex of ecotin variant M84R (M84R) with FXa has been determined to 2.8 A. Substrate directed induced fit of the binding interactions at the S2 and S4 pockets modulates the discrimination of the protease. Specifically, the Tyr at position 99 of FXa changes its conformation with respect to incoming ligand, changing the size of the S2 and S4 pockets. The role of residue 192 in substrate and inhibitor recognition is also examined. Gln 192 from FXa forms a hydrogen bond with the P2 carbonyl group of ecotin. This confirms previous biochemical and structural analyses on thrombin and activated protein C, which suggested that residue 192 may play a more general role in mediating the interactions between coagulation proteases and their inhibitors. The structure of ecotin M84R-FXa (M84R-FXa) also reveals the structure of the Gla domain in the presence of Mg(2+). The first 11 residues of the domain assume a novel conformation and likely represent an intermediate folding state of the domain.     

TOXIC EFFECTS OF OXYGEN ON CEREBRAL METABOLISM

Abstract— The effect of 100% O₂ at one atmosphere on carbohydrate metabolism in cell-free homogenates of rat brain was studied under different experimental conditions. The principal findings were the following:

• 1 Compared to 10% O₂-90% N₂, oxygen at one atmosphere inhibited metabolism of α-oxoglutarate and depressed the net synthesis of ATP. With glucose as substrate, accumulation of ATP was also markedly inhibited but substrate utilization was only slightly affected.

• 2 Glycolysis in brain was relatively resistant to oxygen toxicity, except in the presence of added Cu²⁺.

• 3 With α-oxoglutarate as the substrate, inhibition of the formation of ATP occurred earlier than inhibition of substrate utilization, indicating the particular sensitivity of oxidative phosphorylation to inactivation by oxygen in vitro.

• 4 Cu²⁺ and Fe²⁺ accentuated oxygen toxicity but appeared to act by different mechanisms. Co²⁺ exerted a protective effect.

• 5 The sulphydryl compounds, dithiothreitol and reduced glutathione, strongly diminished the toxic effect of oxygen.

     

Behavioral, Cellular, and Molecular Analysis of Memory in Aplysia II: Long-Term Facilitation

Long-term facilitation (LTF) of Aplysia tail sensory neuron–motorneuron (SN–MN) synapses provides a synaptic correlateof memory for long-term behavioral sensitization of the tail-siphonwithdrawal reflex. LTF can be induced by repeated exposuresof serotonin (5HT) in the isolated pleural-pedal ganglion preparation.In addition, we have shown previously (Sherff and Carew, 1999)that LTF can also be induced by coincident 5HT exposure comprisedof a single 25-min exposure of 5HT at the SN cell body and a5 min pulse of 5HT at the SN-MN synapses. If synaptic 5HT isapplied either 15 min before or after somatic 5HT, LTF is significantlyreduced or is not induced at all. These results show that twoanatomically remote cellular compartments can functionally interactwithin a surprisingly short time period. In this chapter, wediscuss some of the mechanistic implications of this temporalconstraint. We also find that coincident LTF and LTF inducedby repeated pulses of 5HT differ (1) in whether they induceanother temporal phase of facilitation (intermediate-term facilitation,ITF, expressed up to 1.5 hr after 5HT), and (2) in their requirementsfor protein synthesis. The results described both in this paperand in the preceding companion paper show that there are multipleforms of both ITF and LTF that differ in their induction andexpression requirements, and at least in some instances, thedifferent temporal phases of facilitation, and perhaps comparablephases of memory, can be induced independently of each other.     

Disruption of calcineurin catalytic subunit (cnaA) in Epichloë festucae induces symbiotic defects and intrahyphal hyphae formation

Calcineurin is a conserved calcium/calmodulin‐dependent protein phosphatase, consisting of a catalytic subunit A and a regulatory subunit B, which is involved in calcium‐dependent signalling and regulation of various important cellular processes. In this study, we functionally characterized the catalytic subunit A (CnaA) of the endophytic fungus Epichloë festucae which forms a symbiotic association with the grass host Lolium perenne. We deleted the CnaA‐encoding gene cnaA in E. festucae and examined its role in hyphal growth, cell wall integrity and symbiosis. This ΔcnaA strain had a severe growth defect with loss of radial growth and hyper‐branched hyphae. Transmission electron microscopy and confocal microscopy analysis of the mutant revealed cell wall defects, aberrant septation and the formation of intrahyphal hyphae, both in culture and in planta. The mutant strain also showed a reduced infection rate in planta. The fluorescence of mutant hyphae stained with WGA‐AF488 was reduced, indicating reduced chitin accessibility. Together, these results show that E. festucae CnaA is required for fungal growth, maintaining cell wall integrity and host colonization.