Correlation property of length sequences based on global structure of complete genome

This paper considers three kinds of length sequences of the complete genome. Detrended fluctuation analysis, spectral analysis, and the mean distance spanned within time $L$ are used to discuss the correlation property of these sequences. The values of the exponents from these methods of these three kinds of length sequences of bacteria indicate that the long-range correlations exist in most of these sequences. The correlation have a rich variety of behaviours including the presence of anti-correlations. Further more, using the exponent $\gamma$, it is found that these correlations are all linear ($\gamma=1.0\pm 0.03$). It is also found that these sequences exhibit $1/f$ noise in some interval of frequency ($f>1$). The length of this interval of frequency depends on the length of the sequence. The shape of the periodogram in $f>1$ exhibits some periodicity. The period seems to depend on the length and the complexity of the length sequence.Comment: RevTex, 9 pages with 5 figures and 3 tables. Phys. Rev. E Jan. 1,2001 (to appear

Decoherence, einselection, and the quantum origins of the classical

Decoherence is caused by the interaction with the environment. Environment monitors certain observables of the system, destroying interference between the pointer states corresponding to their eigenvalues. This leads to environment-induced superselection or einselection, a quantum process associated with selective loss of information. Einselected pointer states are stable. They can retain correlations with the rest of the Universe in spite of the environment. Einselection enforces classicality by imposing an effective ban on the vast majority of the Hilbert space, eliminating especially the flagrantly non-local "Schr\"odinger cat" states. Classical structure of phase space emerges from the quantum Hilbert space in the appropriate macroscopic limit: Combination of einselection with dynamics leads to the idealizations of a point and of a classical trajectory. In measurements, einselection replaces quantum entanglement between the apparatus and the measured system with the classical correlation.Comment: Final version of the review, with brutally compressed figures. Apart from the changes introduced in the editorial process the text is identical with that in the Rev. Mod. Phys. July issue. Also available from http://www.vjquantuminfo.or

Measure representation and multifractal analysis of complete genomes

This paper introduces the notion of measure representation of DNA sequences. Spectral analysis and multifractal analysis are then performed on the measure representations of a large number of complete genomes. The main aim of this paper is to discuss the multifractal property of the measure representation and the classification of bacteria. From the measure representations and the values of the $D_{q}$ spectra and related $C_{q}$ curves, it is concluded that these complete genomes are not random sequences. In fact, spectral analyses performed indicate that these measure representations considered as time series, exhibit strong long-range correlation. For substrings with length K=8, the $D_{q}$ spectra of all organisms studied are multifractal-like and sufficiently smooth for the $C_{q}$ curves to be meaningful. The $C_{q}$ curves of all bacteria resemble a classical phase transition at a critical point. But the 'analogous' phase transitions of chromosomes of non-bacteria organisms are different. Apart from Chromosome 1 of {\it C. elegans}, they exhibit the shape of double-peaked specific heat function.Comment: 12 pages with 9 figures and 1 tabl

DETERMINATION OF FAULT PLANE SOLUTIONS USING WAVEFORM AMPLITUDES AND RADIATION PATTERN

In the present work a modified version of the program FPFIT (Reasenberg and Oppenheimer, 1985) is developed, in order to improve the calculation of the fault plane solutions. The method is applied on selected earthquakes from short period waveform data in the Mygdonia basin (N. Greece) as recorded by the permanent network of the Seismological Station of Aristotle University of Thessaloniki during the period 1989-1999. The proposed modification of the FPFIT program was developed in order to minimize the derivation of multiple solutions, as well as the uncertainties in the location of Ρ and Τ axis of the determined fault plane solutions. Compared to the original version of FPFIT the modified approach takes also into account the radiation pattern of SV and SH waves. For each earthquake horizontal and vertical components of each station were used and the first arrivals of Ρ and S waves were picked. Using the maximum peak-to-peak amplitude of Ρ and S waves the ratio Pmax/(S/\/2max+SE2max)1/2 was estimated, where S/Vmax and SEmax are the maximum amplitudes of the two horizontal components (N-S, E-W) for the S waves and Pmax is the maximum amplitude of the vertical one for the P- waves. This ratio for the observed data, as well as the corresponding ratio Prad/iS/Aad+SlAad)1'2 of the synthetic data was used as a weight for the determination of the observed and theoretical P-wave polarities, respectively. The method was tested using synthetic data. A significant improvement of the results was found, compared to the original version of FPFIT. In particular, an improved approximation of the input focal mechanism is found, without multiple solutions and the best-estimated Ρ and Τ axes exhibit much smaller uncertainties. The addition of noise in the synthetic data didn't significantly change the results concerning the fault plane solutions. Finally, we have applied the modified program on a real data set of earthquakes that occurred in the Mygdonia basin

Composition differences between organic and conventional meat: a systematic literature review and meta-analysis

Demand for organic meat is partially driven by consumer perceptions that organic foods are more nutritious than non-organic foods. However, there have been no systematic reviews comparing specifically the nutrient content of organic and conventionally produced meat. In this study, we report results of a meta-analysis based on sixty-seven published studies comparing the composition of organic and non-organic meat products. For many nutritionally relevant compounds (e.g. minerals, antioxidants and most individual fatty acids (FA)), the evidence base was too weak for meaningful meta-analyses. However, significant differences in FA profiles were detected when data from all livestock species were pooled. Concentrations of SFA and MUFA were similar or slightly lower, respectively, in organic compared with conventional meat. Larger differences were detected for total PUFA and n-3 PUFA, which were an estimated 23 (95 % CI 11, 35) % and 47 (95 % CI 10, 84) % higher in organic meat, respectively. However, for these and many other composition parameters, for which meta-analyses found significant differences, heterogeneity was high, and this could be explained by differences between animal species/meat types. Evidence from controlled experimental studies indicates that the high grazing/forage-based diets prescribed under organic farming standards may be the main reason for differences in FA profiles. Further studies are required to enable meta-analyses for a wider range of parameters (e.g. antioxidant, vitamin and mineral concentrations) and to improve both precision and consistency of results for FA profiles for all species. Potential impacts of composition differences on human health are discussed

DETERMINATION OF FAULT PLANE SOLUTIONS USING WAVEFORM AMPLITUDES AND RADIATION PATTERN

In the present work a modified version of the program FPFIT (Reasenberg and Oppenheimer, 1985) is developed, in order to improve the calculation of the fault plane solutions. The method is applied on selected earthquakes from short period waveform data in the Mygdonia basin (N. Greece) as recorded by the permanent network of the Seismological Station of Aristotle University of Thessaloniki during the period 1989-1999. The proposed modification of the FPFIT program was developed in order to minimize the derivation of multiple solutions, as well as the uncertainties in the location of Ρ and Τ axis of the determined fault plane solutions. Compared to the original version of FPFIT the modified approach takes also into account the radiation pattern of SV and SH waves. For each earthquake horizontal and vertical components of each station were used and the first arrivals of Ρ and S waves were picked. Using the maximum peak-to-peak amplitude of Ρ and S waves the ratio Pmax/(S/\/2max+SE2max)1/2 was estimated, where S/Vmax and SEmax are the maximum amplitudes of the two horizontal components (N-S, E-W) for the S waves and Pmax is the maximum amplitude of the vertical one for the P- waves. This ratio for the observed data, as well as the corresponding ratio Prad/iS/Aad+SlAad)1'2 of the synthetic data was used as a weight for the determination of the observed and theoretical P-wave polarities, respectively. The method was tested using synthetic data. A significant improvement of the results was found, compared to the original version of FPFIT. In particular, an improved approximation of the input focal mechanism is found, without multiple solutions and the best-estimated Ρ and Τ axes exhibit much smaller uncertainties. The addition of noise in the synthetic data didn't significantly change the results concerning the fault plane solutions. Finally, we have applied the modified program on a real data set of earthquakes that occurred in the Mygdonia basin

Copper/Zinc Superoxide Dismutase from the Crocodile Icefish Chionodraco hamatus: Antioxidant Defense at Constant Sub-Zero Temperature

In the present study, we describe the purification and molecular characterization of Cu,Zn superoxide dismutase (SOD) from Chionodraco hamatus, an Antarctic teleost widely distributed in many areas of the Ross Sea that plays a pivotal role in the Antarctic food chain. The primary sequence was obtained using biochemical and molecular biology approaches and compared with Cu,Zn SODs from other organisms. Multiple sequence alignment using the amino acid sequence revealed that Cu,Zn SOD showed considerable sequence similarity with its orthologues from various vertebrate species, but also some specific substitutions directly linked to cold adaptation. Phylogenetic analyses presented the monophyletic status of Antartic Teleostei among the Perciformes, confirming the erratic differentiation of these proteins and concurring with the theory of the "unclock-like" behavior of Cu,Zn SOD evolution. Expression of C. hamatus Cu,Zn SOD at both the mRNA and protein levels were analyzed in various tissues, highlighting the regulation of gene expression related to environmental stress conditions and also animal physiology. The data presented are the first on the antioxidant enzymes of a fish belonging to the Channichthyidae family and represent an important starting point in understanding the antioxidant systems of these organisms that are subject to constant risk of oxidative stress