Heterologous expression of a tannic acid-inducible laccase3 of Cryphonectria parasitica in Saccharomyces cerevisiae

<p>Abstract</p> <p>Background</p> <p>A tannic acid-inducible and mycoviral-regulated laccase3 (<it>lac</it>3) from the chestnut blight fungus <it>Cryphonectria parasitica </it>has recently been identified, but further characterization was hampered because of the precipitation of protein products by tannic acid supplementation. The present study investigated the heterologous expression of the functional laccase3 using a yeast <it>Saccharomyces cerevisiae</it>.</p> <p>Results</p> <p>Laccase activity in the culture broth of transformants measured using a laccase-specific substrate suggested that the <it>lac</it>3 gene was successfully expressed and the corresponding protein product secreted into the culture media. In addition, activity staining and Western blot analysis of a native gel revealed that the enzyme activity co-existed with the protein product specific to anti-laccase3 antibody, confirming that the cloned <it>lac</it>3 gene is responsible for the laccase activity. When transformants were grown on plates containing tannic acid-supplemented media, brown coloration was observed around transformed cells, indicating the oxidation of tannic acid. However, the enzymatic activity was measurable only in the selective ura^-media and was negligible in nonselective nutrient-rich culture conditions. This was in part because of the increased plasmid instability in the nonselective media. Moreover, the protein product of <it>lac</it>3 appears to be sensitive to the cultured nonselective nutrient-rich broth, because a rapid decline in enzymatic activity was observed when the cultured broth of ura^-media was mixed with that of nonselective nutrient-rich broth. In addition, constitutive expression of the <it>lac</it>3 gene resulted in a reduced cell number of the <it>lac</it>3 transformants compared to that of vector-only transformed control. However, the presence of recombinant vector without <it>lac</it>3 induction did not affect the growth of transformants.</p> <p>Conclusions</p> <p>The results suggest that expression of the <it>lac</it>3 gene has an inhibitory effect on the growth of transformed <it>S. cerevisiae </it>and that the controlled expression of <it>lac</it>3 is appropriate for the possible application of recombinant yeast to the treatment of phenolic compounds.</p

A Mathematical Unification of Geometric Crossovers Defined on Phenotype Space

Geometric crossover is a representation-independent definition of crossover based on the distance of the search space interpreted as a metric space. It generalizes the traditional crossover for binary strings and other important recombination operators for the most frequently used representations. Using a distance tailored to the problem at hand, the abstract definition of crossover can be used to design new problem specific crossovers that embed problem knowledge in the search. This paper is motivated by the fact that genotype-phenotype mapping can be theoretically interpreted using the concept of quotient space in mathematics. In this paper, we study a metric transformation, the quotient metric space, that gives rise to the notion of quotient geometric crossover. This turns out to be a very versatile notion. We give many example applications of the quotient geometric crossover

CSM-467: Quotient Geometric Crossovers

Geometric crossover is a representation-independent definition of crossover based on the distance of the search space interpreted as a metric space. It generalizes the traditional crossover for binary strings and other important recombination operators for the most frequently used representations. Using a distance tailored to the problem at hand, the abstract definition of crossover can be used to design new problem specific crossovers that embed problem knowledge in the search. In previous work we have started studying how metric transformations of the distance associated with geometric crossover affect the original geometric crossover. In particular, we focused on the product of metric spaces. This metric transformation gives rise to the notion of product geometric crossover that allows to build new geometric crossovers combining pre-existing geometric crossovers in a simple way. In this paper, we study another metric transformation, the quotient metric space, that gives rise to the notion of quotient geometric crossover. This turns out to be a very versatile notion. We give many examples of application of the quotient geometric crossover

Mathematical Interpretation between Genotype and Phenotype Spaces and Induced Geometric Crossovers

In this paper, we present that genotype-phenotype mapping can be theoretically interpreted using the concept of quotient space in mathematics. Quotient space can be considered as mathematically-defined phenotype space in the evolutionary computation theory. The quotient geometric crossover has the effect of reducing the search space actually searched by geometric crossover, and it introduces problem knowledge in the search by using a distance better tailored to the specific solution interpretation. Quotient geometric crossovers are directly applied to the genotype space but they have the effect of the crossovers performed on phenotype space. We give many example applications of the quotient geometric crossover

CSM-466: Geometric Crossovers for Real-code Representation

Geometric crossover is a representation-independent generalization of the class of traditional mask-based crossover for binary strings. It is based on the distance of the search space seen as a metric space. Although real-code representation allows for a very familiar notion of distance, namely the Euclidean distance, there are also other distances suiting it. Also, topological transformations of the real space give rise to further notions of distance. In this paper, we study the geometric crossovers associated with these distances in a formal and very general setting and show that many preexisting genetic operators for the real-code representation are geometric crossovers. We also propose a novel methodology to remove the inherent bias of pre-existing geometric operators by formally transforming topologies to have the same effect as gluing boundaries

Jamming transition in a highly dense granular system under vertical vibration

The dynamics of the jamming transition in a three-dimensional granular system under vertical vibration is studied using diffusing-wave spectroscopy. When the maximum acceleration of the external vibration is large, the granular system behaves like a fluid, with the dynamic correlation function G(t) relaxing rapidly. As the acceleration of vibration approaches the gravitational acceleration g, the relaxation of G(t) slows down dramatically, and eventually stops. Thus the system undergoes a phase transition and behaves like a solid. Near the transition point, we find that the structural relaxation shows a stretched exponential behavior. This behavior is analogous to the behavior of supercooled liquids close to the glass transition.Comment: 5 pages, 5 figures, accepted by Phys. Rev.

Spatial-temporal Vehicle Re-identification

Vehicle re-identification (ReID) in a large-scale camera network is important in public safety, traffic control, and security. However, due to the appearance ambiguities of vehicle, the previous appearance-based ReID methods often fail to track vehicle across multiple cameras. To overcome the challenge, we propose a spatial-temporal vehicle ReID framework that estimates reliable camera network topology based on the adaptive Parzen window method and optimally combines the appearance and spatial-temporal similarities through the fusion network. Based on the proposed methods, we performed superior performance on the public dataset (VeRi776) by 99.64% of rank-1 accuracy. The experimental results support that utilizing spatial and temporal information for ReID can leverage the accuracy of appearance-based methods and effectively deal with appearance ambiguities.Comment: 10 pages, 6 figure