Reduced drug accumulation and multidrug resistance in human breast cancer cells without associated P-glycoprotein or MRP overexpression

MCF-7 human breast cancer cells selected in Adriamycin in the presence of verapamil developed a multidrug resistant phenotype, which was characterized by as much as 100,000-fold resistance to mitoxantrone, 667-fold resistance to daunorubicin, and 600-fold resistance to doxorubicin. Immunoblot and PCR analyses demonstrated no increase in MDR-1 or MRP expression in resistant cells, relative to parental cells. This phenotype is similar to one previously described in mitoxantrone-selected cells. The cells, designated MCF-7 AdVp, displayed a slower growth rate without alteration in topoisomerase II alpha level or activity. Increased efflux and reduced accumulation of daunomycin and rhodamine were observed when compared to parental cells. Depletion of ATP resulted in complete abrogation of efflux of both daunomycin and rhodamine. No apparent alterations in subcellular daunorubicin distribution were observed by confocal microscopy. No differences were noted in intracellular pH. Molecular cloning studies using DNA differential display identified increased expression of the alpha subunit of the amiloride-sensitive sodium channel in resistant cells. Quantitative PCR studies demonstrated an eightfold overexpression of the alpha subunit of the Na+ channel in the resistant subline. This channel may be linked to the mechanism of drug resistance in the AdVp cells. The results presented here support the hypothesis that a novel energy-dependent protein is responsible for the efflux in the AdVp cells. Further identification awaits molecular cloning studies.     

Legacy code and parallel computing: updating and parallelizing a numerical model

In this paper, we present several important details in the process of legacy code parallelization, mostly related to the problem of maintaining numerical output of a legacy code while obtaining a balanced workload for parallel processing. Since we maintained the non-uniform mesh imposed by the original finite element code, we have to develop a specially designed data distribution among processors so that data restrictions are met in the finite element method. In particular, we introduce a data distribution method that is initially used in shared memory parallel processing and obtain better performance than the previous parallel program version. Besides, this method can be extended to other parallel platforms such as distributed memory parallel computers. We present results including several problems related to performance profiling on different (development and production) parallel platforms. The use of new and old parallel computing architectures leads to different behavior of the same code, which in all cases provides better performance in multiprocessor hardware.

     

Mathematics awaits: commentary on “Genetic Programming and Emergence” by Wolfgang Banzhaf

Banzhaf provides a portal to the subject of emergence, noting contentious concepts while not getting sucked into fruitless debate. Banzhaf refutes arguments against downward causation much as Samuel Johnson kicks a stone to ref ute Berkeley—by pointing to concrete examples in genetic programming, such as the growth of repetitive patterns within programs. Repetitive patterns are theoretically predicted to emerge from the evolution of evolvability and robustness under subtree exchange. Selection and genetic operators are co-equal creators of these emergent phenomena. GP systems entirely formal, and thus their emergent phenomena are essentially mathematical. The emergence of Lagrangian distributions for tree shapes under subtree exchange, for example, gives a glimpse of the possibilities for mathematical understanding of emergence in GP. The mathematics underlying emergence in genetic programming should be pursued with vigor.     

Extracellular Cysteines Are Critical to Form Functional Cx46 Hemichannels

Connexin (Cxs) hemichannels participate in several physiological and pathological processes, but the molecular mechanisms that control their gating remain elusive. We aimed at determining the role of extracellular cysteines (Cys) in the gating and function of Cx46 hemichannels. We studied Cx46 and mutated all of its extracellular Cys to alanine (Ala) (one at a time) and studied the effects of the Cys mutations on Cx46 expression, localization, and hemichannel activity. Wild-type Cx46 and Cys mutants were expressed at comparable levels, with similar cellular localization. However, functional experiments showed that hemichannels formed by the Cys mutants did not open either in response to membrane depolarization or removal of extracellular divalent cations. Molecular-dynamics simulations showed that Cys mutants may show a possible alteration in the electrostatic potential of the hemichannel pore and an altered disposition of important residues that could contribute to the selectivity and voltage dependency in the hemichannels. Replacement of extracellular Cys resulted in “permanently closed hemichannels”, which is congruent with the inhibition of the Cx46 hemichannel by lipid peroxides, through the oxidation of extracellular Cys. These results point to the modification of extracellular Cys as potential targets for the treatment of Cx46-hemichannel associated pathologies, such as cataracts and cancer, and may shed light into the gating mechanisms of other Cx hemichannels.     

Probing the axioms of evolutionary algorithm design: Commentary on “On the mapping of genotype to phenotype in evolutionary algorithms” by Peter A. Whigham,Grant Dick,and James Maclaurin

Properties such as continuity, locality, and modularity may seem necessary when designing representations and variation operators for evolutionary algorithms, but a closer look at what happens when evolutionary algorithms perform well reveals counterexamples to such schemes. Moreover, these variational properties can themselves evolve in sufficiently complex open-ended systems. These properties of evolutionary algorithms remain very much open questions.     

Characterization of a novel bisacridone and comparison with PSC 833 as a potent and poorly reversible modulator of P-glycoprotein

Novel compounds, composed of two acridone moieties connected by a propyl or butyl spacer, were synthesized and tested as potential modulators of P-glycoprotein (P-gp)-mediated multidrug resistance. The propyl derivative 1,3-bis(9-oxoacridin-10-yl)-propane (PBA) was extremely potent and, at a concentration of 1 microM, increased steady state accumulation of vinblastine (VLB) approximately 9-fold in the multidrug-resistant cell line KB8-5. In contrast to the readily reversible effects of VRP and cyclosporin A on VLB uptake and similar to the effects of the cyclosporin analog PSC 833, this modulation by PBA was not fully reversed 6-8 hr after transfer of cells to PBA-free medium. Continuous exposure to 3 microM PBA was nontoxic and could completely reverse VLB resistance in KB8-5 cells. Consistent with its effects on VLB transport, the drug resistance-modulating effect of PSC 833 was significantly more persistent than that of VRP. However, the effect of PBA was, like that of VRP, rapidly reversed once the modulator was removed from the extracellular environment. PBA was able to compete with radiolabeled azidopine for binding to P-gp and to stimulate P-gp ATPase activity. However, both the steady state accumulation of PBA and the rate of efflux of PBA were similar in drug-sensitive KB3-1 and drug-resistant KB8-5 cells, suggesting that this compound is not efficiently transported by P-gp. These results indicate that PBA represents a new class of potent and poorly reversible synthetic modulators of P-gp-mediated VLB transport.