Evolution of different oligorneric glycyl-tRNA synthetases

There are two oligomeric types of glycyl-tRNA synthetases (GlyRSs) in genome, the alpha(2)beta(2) tetramer and alpha(2) dimer. Here, we showed that the anticodon-binding domains (ABDs) of dimeric and tetrameric GlyRSs are non-homologous, although their catalytic central domains (CCDs) are homologous. The dimeric GlyRS_ABD is fused to the C-terminal of CCD in alpha-subunit, but the tetrameric GlyRS_ABD is to the C-terminal in beta-subunit during evolution. Generally, one species only contains one oligomeric type of GlyRS, but the both oligomeric GlyRSs with the multiple homologous domains can be observed in Magnetospirillum magnetotacticum genome, nevertheless, these homologous domains are probably from different genomes. (C) 2005 Federation of European Biochemical Societies. Published by Elsevier B.V. All rights reserved.

The Genomes of Oryza sativa: A history of duplications

We report improved whole-genome shotgun sequences for the genomes of indica and japonica rice, both with multimegabase contiguity, or almost 1,000-fold improvement over the drafts of 2002. Tested against a nonredundant collection of 19,079 full-length cDNAs, 97.7% of the genes are aligned, without fragmentation, to the mapped superscaffolds of one or the other genome. We introduce a gene identification procedure for plants that does not rely on similarity to known genes to remove erroneous predictions resulting from transposable elements. Using the available EST data to adjust for residual errors in the predictions, the estimated gene count is at least 38,000 - 40,000. Only 2% - 3% of the genes are unique to any one subspecies, comparable to the amount of sequence that might still be missing. Despite this lack of variation in gene content, there is enormous variation in the intergenic regions. At least a quarter of the two sequences could not be aligned, and where they could be aligned, single nucleotide polymorphism ( SNP) rates varied from as little as 3.0 SNP/kb in the coding regions to 27.6 SNP/kb in the transposable elements. A more inclusive new approach for analyzing duplication history is introduced here. It reveals an ancient whole-genome duplication, a recent segmental duplication on Chromosomes 11 and 12, and massive ongoing individual gene duplications. We find 18 distinct pairs of duplicated segments that cover 65.7% of the genome; 17 of these pairs date back to a common time before the divergence of the grasses. More important, ongoing individual gene duplications provide a never-ending source of raw material for gene genesis and are major contributors to the differences between members of the grass family.

Data fusion approaches and applications for construction engineering

Data fusion can be defined as the process of combining data or information for estimating the state of an entity. Data fusion is a multidisciplinary field that has several benefits, such as enhancing the confidence, improving reliability, and reducing ambiguity of measurements for estimating the state of entities in engineering systems. It can also enhance completeness of fused data that may be required for estimating the state of engineering systems. Data fusion has been applied to different fields, such as robotics, automation, and intelligent systems. This paper reviews some examples of recent applications of data fusion in civil engineering and presents some of the potential benefits of using data fusion in civil engineering.

五步蛇蛇毒磷脂酶A_(2)的纯化及部分性质

从五步蛇蛇毒中纯化一种均一的酸性磷脂酶A_(2)。SDS-PAGE测得分子量为15.8KD, 按氨基酸残基计算其分子量为14.352KD, IEF-PAGE测得等电点为5.32。氨基酸组分分析表明磷脂酶A_(2)分子由128个氨基酸残基组成, 富含Asp和Glu, 不含中性糖。PLA_(2)酶活性 的最适温度为45℃, 最适pH为8.5左右, 没有抗胰蛋白酶的活性, 具有一定的热稳定性。K~(+)、Ca~(++)和Na~(+)离子激活, 而Ca~(++)、Sn~(++)、Cu~(++)、Li~(++)、Hg~(++)、Zn~(++)、Fe~(++)和Co~(++)离子可抑制或完全丧失酶活力。图5表2参 10

Breaking of symmetry in microfluidic propulsion driven by artificial cilia.

In this Brief Report we investigate biomimetic fluid propulsion due to an array of periodically beating artificial cilia. A generic model system is defined in which the effects of inertial fluid forces and the spatial, temporal, and orientational asymmetries of the ciliary motion can be individually controlled. We demonstrate that the so-far unexplored orientational asymmetry plays an important role in generating flow and that the flow increases sharply with Reynolds number and eventually becomes unidirectional. We introduce the concept of configurational symmetry that unifies the spatial, temporal, and orientational symmetries. The breaking of configurational symmetry leads to fluid propulsion in microfluidic channels.

Magnetically actuated artificial cilia: the effect of fluid inertia.

Natural cilia are hairlike microtubule-based structures that are able to move fluid on the micrometer scale using asymmetric motion. In this article, we follow a biomimetic approach to design artificial cilia lining the inner surfaces of microfluidic channels with the goal of propelling fluid. The artificial cilia consist of polymer films filled with superparamagnetic nanoparticles, which can mimic the motion of natural cilia when subjected to a rotating magnetic field. To obtain the magnetic field and associated magnetization local to the cilia, we solve the Maxwell equations, from which the magnetic body moments and forces can be deduced. To obtain the ciliary motion, we solve the dynamic equations of motion, which are then fully coupled to the Navier-Stokes equations that describe the fluid flow around the cilia, thus taking full account of fluid inertial forces. The dimensionless parameters that govern the deformation behavior of the cilia and the associated fluid flow are arrived at using the principle of virtual work. The physical response of the cilia and the fluid flow for different combinations of elastic, fluid viscous, and inertia forces are identified.

Swimming direction reversal of flagella through ciliary motion of mastigonemes.

Bio-inspired designs can provide an answer to engineering problems such as swimming strategies at the micron or nano-scale. Scientists are now designing artificial micro-swimmers that can mimic flagella-powered swimming of micro-organisms. In an application such as lab-on-a-chip in which micro-object manipulation in small flow geometries could be achieved by micro-swimmers, control of the swimming direction becomes an important aspect for retrieval and control of the micro-swimmer. A bio-inspired approach for swimming direction reversal (a flagellum bearing mastigonemes) can be used to design such a system and is being explored in the present work. We analyze the system using a computational framework in which the equations of solid mechanics and fluid dynamics are solved simultaneously. The fluid dynamics of Stokes flow is represented by a 2D Stokeslets approach while the solid mechanics behavior is realized using Euler-Bernoulli beam elements. The working principle of a flagellum bearing mastigonemes can be broken up into two parts: (1) the contribution of the base flagellum and (2) the contribution of mastigonemes, which act like cilia. These contributions are counteractive, and the net motion (velocity and direction) is a superposition of the two. In the present work, we also perform a dimensional analysis to understand the underlying physics associated with the system parameters such as the height of the mastigonemes, the number of mastigonemes, the flagellar wave length and amplitude, the flagellum length, and mastigonemes rigidity. Our results provide fundamental physical insight on the swimming of a flagellum with mastigonemes, and it provides guidelines for the design of artificial flagellar systems.

Magnetically-actuated artificial cilia for microfluidic propulsion.

In this paper we quantitatively analyse the performance of magnetically-driven artificial cilia for lab-on-a-chip applications. The artificial cilia are fabricated using thin polymer films with embedded magnetic nano-particles and their deformation is studied under different external magnetic fields and flows. A coupled magneto-mechanical solid-fluid model that accurately captures the interaction between the magnetic field, cilia and fluid is used to simulate the cilia motion. The elastic and magnetic properties of the cilia are obtained by fitting the results of the computational model to the experimental data. The performance of the artificial cilia with a non-uniform cross-section is characterised using the numerical model for two channel configurations that are of practical importance: an open-loop and a closed-loop channel. We predict that the flow and pressure head generated by the artificial cilia can be as high as 18 microlitres per minute and 3 mm of water, respectively. We also study the effect of metachronal waves on the flow generated and show that the fluid propelled increases drastically compared to synchronously beating cilia, and is unidirectional. This increase is significant even when the phase difference between adjacent cilia is small. The obtained results provide guidelines for the optimal design of magnetically-driven artificial cilia for microfluidic propulsion.

Nature-inspired microfluidic propulsion using magnetic actuation.

In this work we mimic the efficient propulsion mechanism of natural cilia by magnetically actuating thin films in a cyclic but non-reciprocating manner. By simultaneously solving the elastodynamic, magnetostatic, and fluid mechanics equations, we show that the amount of fluid propelled is proportional to the area swept by the cilia. By using the intricate interplay between film magnetization and applied field we are able to generate a pronounced asymmetry and associated flow. We delineate the functional response of the system in terms of three dimensionless parameters that capture the relative contribution of elastic, inertial, viscous, and magnetic forces.