High Quality Image Interpolation via Local Autoregressive and Nonlocal 3-D Sparse Regularization

In this paper, we propose a novel image interpolation algorithm, which is formulated via combining both the local autoregressive (AR) model and the nonlocal adaptive 3-D sparse model as regularized constraints under the regularization framework. Estimating the high-resolution image by the local AR regularization is different from these conventional AR models, which weighted calculates the interpolation coefficients without considering the rough structural similarity between the low-resolution (LR) and high-resolution (HR) images. Then the nonlocal adaptive 3-D sparse model is formulated to regularize the interpolated HR image, which provides a way to modify these pixels with the problem of numerical stability caused by AR model. In addition, a new Split-Bregman based iterative algorithm is developed to solve the above optimization problem iteratively. Experiment results demonstrate that the proposed algorithm achieves significant performance improvements over the traditional algorithms in terms of both objective quality and visual perceptionComment: 4 pages, 5 figures, 2 tables, to be published at IEEE Visual Communications and Image Processing (VCIP) 201

The evolution of cardiolipin biosynthesis and maturation pathways and its implications for the evolution of eukaryotes

<p>Abstract</p> <p>Background</p> <p>Cardiolipin (CL) is an important component in mitochondrial inner and bacterial membranes. Its appearance in these two biomembranes has been considered as evidence of the endosymbiotic origin of mitochondria. But CL was reported to be synthesized through two distinct enzymes--CLS_cap and CLS_pld in eukaryotes and bacteria. Therefore, how the CL biosynthesis pathway evolved is an interesting question.</p> <p>Results</p> <p>Phylogenetic distribution investigation of CL synthase (CLS) showed: most bacteria have CLS_pld pathway, but in partial bacteria including proteobacteria and actinobacteria CLS_cap pathway has already appeared; in eukaryotes, Supergroup Opisthokonta and Archaeplastida, and Subgroup Stramenopiles, which all contain multicellular organisms, possess CLS_cap pathway, while Supergroup Amoebozoa and Excavata and Subgroup Alveolata, which all consist exclusively of unicellular eukaryotes, bear CLS_pld pathway; amitochondriate protists in any supergroups have neither. Phylogenetic analysis indicated the CLS_cap in eukaryotes have the closest relationship with those of alpha proteobacteria, while the CLS_pld in eukaryotes share a common ancestor but have no close correlation with those of any particular bacteria.</p> <p>Conclusions</p> <p>The first eukaryote common ancestor (FECA) inherited the CLS_pld from its bacterial ancestor (e. g. the bacterial partner according to any of the hypotheses about eukaryote evolution); later, when the FECA evolved into the last eukaryote common ancestor (LECA), the endosymbiotic mitochondria (alpha proteobacteria) brought in CLS_cap, and then in some LECA individuals the CLS_cap substituted the CLS_pld, and these LECAs would evolve into the protist lineages from which multicellular eukaryotes could arise, while in the other LECAs the CLS_pld was retained and the CLS_cap was lost, and these LECAs would evolve into the protist lineages possessing CLS_pld. Besides, our work indicated CL maturation pathway arose after the emergence of eukaryotes probably through mechanisms such as duplication of other genes, and gene duplication and loss occurred frequently at different lineage levels, increasing the pathway diversity probably to fit the complicated cellular process in various cells. Our work also implies the classification putting Stramenopiles and Alveolata together to form Chromalveolata may be unreasonable; the absence of CL synthesis and maturation pathways in amitochondriate protists is most probably due to secondary loss.</p

The evolution of YidC/Oxa/Alb3 family in the three domains of life: a phylogenomic analysis

<p>Abstract</p> <p>Background</p> <p>YidC/Oxa/Alb3 family includes a group of conserved translocases that are essential for protein insertion into inner membranes of bacteria and mitochondria, and thylakoid membranes of chloroplasts. Because mitochondria and chloroplasts are of bacterial origin, Oxa and Alb3, like many other mitochondrial/chloroplastic proteins, are hypothetically derived from the pre-existing protein (YidC) of bacterial endosymbionts. Here, we test this hypothesis and investigate the evolutionary history of the whole YidC/Oxa/Alb3 family in the three domains of life.</p> <p>Results</p> <p>Our comprehensive analyses of the phylogenetic distribution and phylogeny of the YidC/Oxa/Alb3 family lead to the following findings: 1) In archaea, YidC homologs are only sporadically distributed in Euryarchaeota; 2) Most bacteria contain only one YidC gene copy; some species in a few taxa (<it>Bacillus</it>, Lactobacillales, Actinobacteria and Clostridia) have two gene copies; 3) Eukaryotic Oxa and Alb3 have two separate prokaryotic origins, but they might not arise directly from the YidC of proteobacteria and cyanobacteria through the endosymbiosis origins of mitochondrium and chloroplast, respectively; 4) An ancient duplication occurred on both Oxa and Alb3 immediately after their origins, and thus most eukaryotes generally bear two Oxa and two Alb3. However, secondary loss, duplication or acquisition of new domain also occurred on the two genes in some lineages, especially in protists, resulting in a rich diversity or adaptive differentiation of the two translocases in these lineages.</p> <p>Conclusion</p> <p>YidC is distributed in bacteria and some Euryarchaeota. Although mitochondrial Oxa and chloroplastic Alb3 are derived from the prokaryotic YidC, their origin might be not related to the endosymbiosis events of the two organelles. In some eukaryotic lineages, especially in protists, Oxa and Alb3 have diverse evolutionary histories. Finally, a model for the evolutionary history of the entire YidC/Oxa/Alb3 family in the three domains of life is proposed.</p

New application of decomposition of U(1) gauge potential:Aharonov-Bohm effect and Anderson-Higgs mechanism

In this paper we study the Aharonov-Bohm (A-B) effect and Anderson-Higgs mechanism in Ginzburg-Landau model of superconductors from the perspective of the decomposition of U(1) gauge potential. By the Helmholtz theorem, we derive exactly the expression of the transverse gauge potential $\vec{A}_\perp$ in A-B experiment, which is gauge-invariant and physical. For the case of a bulk superconductor, we find that the gradient of the total phase field $\theta$ provides the longitudinal component ${\vec A}_{\parallel}$, which reflects the Anderson-Higgs mechanism. For the case of a superconductor ring, the gradient of the longitudinal phase field $\theta_1$ provides the longitudinal component ${\vec A}_{\parallel}$, while the transverse phase field $\theta_2$ produces new physical effects such as the flux quantization inside a superconducting ring.Comment: 6 pages, no figures, final version to appear in Modern Physics Letters